-- MycoBase SQLite Schema
CREATE TABLE sys_users (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    username TEXT NOT NULL,
    email TEXT NOT NULL,
    display_name TEXT NOT NULL,
    password_hash TEXT,
    orcid TEXT,
    primary_institution_id INTEGER,
    is_active INTEGER NOT NULL DEFAULT 1,
    is_curator INTEGER NOT NULL DEFAULT 0,
    last_login_at TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    FOREIGN KEY (primary_institution_id) REFERENCES people_institutions (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (username),
    UNIQUE (email),
    UNIQUE (uuid)
);
CREATE INDEX ix_sys_users_is_active ON sys_users (is_active);
CREATE INDEX ix_sys_users_is_curator ON sys_users (is_curator);

CREATE TABLE sys_roles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_sys_roles_is_active ON sys_roles (is_active);
CREATE INDEX ix_sys_roles_label ON sys_roles (label);

CREATE TABLE sys_user_roles (
    user_id INTEGER NOT NULL,
    role_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (user_id, role_id),
    FOREIGN KEY (user_id) REFERENCES sys_users (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (role_id) REFERENCES sys_roles (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_sys_user_roles_role_id ON sys_user_roles (role_id);

CREATE TABLE sys_permissions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_sys_permissions_is_active ON sys_permissions (is_active);
CREATE INDEX ix_sys_permissions_label ON sys_permissions (label);

CREATE TABLE sys_role_permissions (
    role_id INTEGER NOT NULL,
    permission_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (role_id, permission_id),
    FOREIGN KEY (role_id) REFERENCES sys_roles (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (permission_id) REFERENCES sys_permissions (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_sys_role_permissions_permission_id ON sys_role_permissions (permission_id);

CREATE TABLE sys_api_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    user_id INTEGER NOT NULL,
    key_hash TEXT NOT NULL,
    key_prefix TEXT NOT NULL,
    scopes TEXT,
    expires_at TEXT,
    last_used_at TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    FOREIGN KEY (user_id) REFERENCES sys_users (id) ON DELETE CASCADE ON UPDATE CASCADE,
    UNIQUE (key_hash)
);
CREATE INDEX ix_sys_api_keys_user_id ON sys_api_keys (user_id);
CREATE INDEX ix_sys_api_keys_key_prefix ON sys_api_keys (key_prefix);

CREATE TABLE sys_settings (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    scope TEXT NOT NULL,
    scope_id INTEGER,
    setting_key TEXT NOT NULL,
    setting_value TEXT,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    UNIQUE (scope, scope_id, setting_key)
);

CREATE TABLE sys_audit_log (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    user_id INTEGER,
    action TEXT NOT NULL,
    target_type TEXT,
    target_id INTEGER,
    ip_address TEXT,
    user_agent TEXT,
    payload TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    FOREIGN KEY (user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_sys_audit_log_user_id ON sys_audit_log (user_id);
CREATE INDEX ix_sys_audit_log_action ON sys_audit_log (action);
CREATE INDEX ix_sys_audit_log_target_type_target_id ON sys_audit_log (target_type, target_id);
CREATE INDEX ix_sys_audit_log_created_at ON sys_audit_log (created_at);

CREATE TABLE sys_jobs (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    job_type TEXT NOT NULL,
    status TEXT NOT NULL DEFAULT 'queued' CHECK (status IN ('queued','running','succeeded','failed','cancelled')),
    submitted_by_user_id INTEGER,
    submitted_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    started_at TEXT,
    finished_at TEXT,
    error_message TEXT,
    input_payload TEXT,
    result_payload TEXT,
    FOREIGN KEY (submitted_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_sys_jobs_status ON sys_jobs (status);
CREATE INDEX ix_sys_jobs_job_type ON sys_jobs (job_type);
CREATE INDEX ix_sys_jobs_submitted_at ON sys_jobs (submitted_at);

CREATE TABLE geo_continents (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_geo_continents_is_active ON geo_continents (is_active);
CREATE INDEX ix_geo_continents_label ON geo_continents (label);

CREATE TABLE geo_countries (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    iso_alpha2 TEXT NOT NULL,
    iso_alpha3 TEXT NOT NULL,
    iso_numeric INTEGER NOT NULL,
    name TEXT NOT NULL,
    official_name TEXT,
    continent_id INTEGER NOT NULL,
    capital TEXT,
    area_km2 REAL,
    centroid_lat REAL,
    centroid_lon REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (continent_id) REFERENCES geo_continents (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (iso_alpha2),
    UNIQUE (iso_alpha3),
    UNIQUE (iso_numeric)
);
CREATE INDEX ix_geo_countries_name ON geo_countries (name);

CREATE TABLE geo_subdivisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    country_id INTEGER NOT NULL,
    parent_subdivision_id INTEGER,
    level INTEGER NOT NULL,
    iso_3166_2 TEXT,
    name TEXT NOT NULL,
    local_name TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (parent_subdivision_id) REFERENCES geo_subdivisions (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_geo_subdivisions_country_id ON geo_subdivisions (country_id);
CREATE INDEX ix_geo_subdivisions_parent_subdivision_id ON geo_subdivisions (parent_subdivision_id);
CREATE INDEX ix_geo_subdivisions_level ON geo_subdivisions (level);

CREATE TABLE geo_biomes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    typical_temperature_c REAL,
    typical_precipitation_mm REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_geo_biomes_is_active ON geo_biomes (is_active);
CREATE INDEX ix_geo_biomes_label ON geo_biomes (label);

CREATE TABLE geo_ecoregions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    biome_id INTEGER NOT NULL,
    realm_code TEXT,
    name TEXT NOT NULL,
    wwf_eco_code TEXT,
    description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (biome_id) REFERENCES geo_biomes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (wwf_eco_code)
);
CREATE INDEX ix_geo_ecoregions_realm_code ON geo_ecoregions (realm_code);

CREATE TABLE geo_climate_zones (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_geo_climate_zones_is_active ON geo_climate_zones (is_active);
CREATE INDEX ix_geo_climate_zones_label ON geo_climate_zones (label);

CREATE TABLE geo_soil_orders (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_geo_soil_orders_is_active ON geo_soil_orders (is_active);
CREATE INDEX ix_geo_soil_orders_label ON geo_soil_orders (label);

CREATE TABLE geo_vegetation_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_geo_vegetation_types_is_active ON geo_vegetation_types (is_active);
CREATE INDEX ix_geo_vegetation_types_label ON geo_vegetation_types (label);

CREATE TABLE geo_localities (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    name TEXT NOT NULL,
    country_id INTEGER NOT NULL,
    subdivision_id INTEGER,
    ecoregion_id INTEGER,
    decimal_latitude REAL,
    decimal_longitude REAL,
    coordinate_uncertainty_m REAL,
    elevation_m REAL,
    depth_m REAL,
    georeference_method TEXT,
    georeference_source TEXT,
    georeferenced_by_user_id INTEGER,
    georeferenced_at TEXT,
    is_type_locality INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (subdivision_id) REFERENCES geo_subdivisions (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (ecoregion_id) REFERENCES geo_ecoregions (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (georeferenced_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_geo_localities_country_id ON geo_localities (country_id);
CREATE INDEX ix_geo_localities_ecoregion_id ON geo_localities (ecoregion_id);
CREATE INDEX ix_geo_localities_decimal_latitude_decimal_longitude ON geo_localities (decimal_latitude, decimal_longitude);

CREATE TABLE geo_locality_aliases (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    locality_id INTEGER NOT NULL,
    alias TEXT NOT NULL,
    language_code TEXT,
    source TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (locality_id) REFERENCES geo_localities (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_geo_locality_aliases_locality_id ON geo_locality_aliases (locality_id);
CREATE INDEX ix_geo_locality_aliases_alias ON geo_locality_aliases (alias);

CREATE TABLE people_persons (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    family_name TEXT NOT NULL,
    given_names TEXT,
    standard_form TEXT,
    orcid TEXT,
    birth_year INTEGER,
    death_year INTEGER,
    nationality_country_id INTEGER,
    biography TEXT,
    is_collector INTEGER NOT NULL DEFAULT 0,
    is_taxonomist INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (nationality_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (orcid)
);
CREATE INDEX ix_people_persons_family_name ON people_persons (family_name);
CREATE INDEX ix_people_persons_standard_form ON people_persons (standard_form);

CREATE TABLE people_institutions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    name TEXT NOT NULL,
    acronym TEXT,
    ror_id TEXT,
    country_id INTEGER,
    website_url TEXT,
    address TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (ror_id)
);
CREATE INDEX ix_people_institutions_acronym ON people_institutions (acronym);

CREATE TABLE people_herbaria (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    institution_id INTEGER NOT NULL,
    ih_code TEXT NOT NULL,
    name TEXT NOT NULL,
    specimen_count_estimate INTEGER,
    focus_taxa TEXT,
    contact_user_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (institution_id) REFERENCES people_institutions (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (contact_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (ih_code)
);

CREATE TABLE people_affiliations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    person_id INTEGER NOT NULL,
    institution_id INTEGER NOT NULL,
    position_title TEXT,
    start_date TEXT,
    end_date TEXT,
    is_primary INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (person_id) REFERENCES people_persons (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (institution_id) REFERENCES people_institutions (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_people_affiliations_person_id ON people_affiliations (person_id);
CREATE INDEX ix_people_affiliations_institution_id ON people_affiliations (institution_id);

CREATE TABLE people_role_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_people_role_types_is_active ON people_role_types (is_active);
CREATE INDEX ix_people_role_types_label ON people_role_types (label);

CREATE TABLE lit_publication_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_lit_publication_types_is_active ON lit_publication_types (is_active);
CREATE INDEX ix_lit_publication_types_label ON lit_publication_types (label);

CREATE TABLE lit_journals (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    title TEXT NOT NULL,
    abbreviation TEXT,
    issn_print TEXT,
    issn_online TEXT,
    publisher TEXT,
    country_id INTEGER,
    first_year INTEGER,
    last_year INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (issn_print),
    UNIQUE (issn_online)
);
CREATE INDEX ix_lit_journals_title ON lit_journals (title);
CREATE INDEX ix_lit_journals_abbreviation ON lit_journals (abbreviation);

CREATE TABLE lit_publications (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    publication_type_id INTEGER NOT NULL,
    title TEXT NOT NULL,
    year INTEGER,
    journal_id INTEGER,
    volume TEXT,
    issue TEXT,
    page_start TEXT,
    page_end TEXT,
    doi TEXT,
    isbn TEXT,
    url TEXT,
    abstract TEXT,
    language_code TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_type_id) REFERENCES lit_publication_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (journal_id) REFERENCES lit_journals (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (doi)
);
CREATE INDEX ix_lit_publications_year ON lit_publications (year);
CREATE INDEX ix_lit_publications_journal_id ON lit_publications (journal_id);

CREATE TABLE lit_authorships (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    person_id INTEGER NOT NULL,
    author_position INTEGER NOT NULL,
    is_corresponding INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (person_id) REFERENCES people_persons (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (publication_id, author_position)
);
CREATE INDEX ix_lit_authorships_person_id ON lit_authorships (person_id);

CREATE TABLE lit_keywords (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    term TEXT NOT NULL,
    vocabulary TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (term, vocabulary)
);

CREATE TABLE lit_publication_keywords (
    publication_id INTEGER NOT NULL,
    keyword_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (publication_id, keyword_id),
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (keyword_id) REFERENCES lit_keywords (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_lit_publication_keywords_keyword_id ON lit_publication_keywords (keyword_id);

CREATE TABLE tax_nomenclatural_codes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_tax_nomenclatural_codes_is_active ON tax_nomenclatural_codes (is_active);
CREATE INDEX ix_tax_nomenclatural_codes_label ON tax_nomenclatural_codes (label);

CREATE TABLE tax_taxonomic_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_tax_taxonomic_status_is_active ON tax_taxonomic_status (is_active);
CREATE INDEX ix_tax_taxonomic_status_label ON tax_taxonomic_status (label);

CREATE TABLE tax_type_designation_kinds (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_tax_type_designation_kinds_is_active ON tax_type_designation_kinds (is_active);
CREATE INDEX ix_tax_type_designation_kinds_label ON tax_type_designation_kinds (label);

CREATE TABLE tax_kingdoms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_kingdoms (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_kingdoms_scientific_name ON tax_kingdoms (scientific_name);
CREATE INDEX ix_tax_kingdoms_status_id ON tax_kingdoms (status_id);

CREATE TABLE tax_subkingdoms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_kingdom_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_subkingdoms (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_kingdom_id) REFERENCES tax_kingdoms (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_subkingdoms_scientific_name ON tax_subkingdoms (scientific_name);
CREATE INDEX ix_tax_subkingdoms_status_id ON tax_subkingdoms (status_id);

CREATE TABLE tax_phyla (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_subkingdom_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_phyla (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_subkingdom_id) REFERENCES tax_subkingdoms (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_phyla_scientific_name ON tax_phyla (scientific_name);
CREATE INDEX ix_tax_phyla_status_id ON tax_phyla (status_id);

CREATE TABLE tax_subphyla (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_phylum_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_subphyla (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_phylum_id) REFERENCES tax_phyla (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_subphyla_scientific_name ON tax_subphyla (scientific_name);
CREATE INDEX ix_tax_subphyla_status_id ON tax_subphyla (status_id);

CREATE TABLE tax_classes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_subphylum_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_classes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_subphylum_id) REFERENCES tax_subphyla (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_classes_scientific_name ON tax_classes (scientific_name);
CREATE INDEX ix_tax_classes_status_id ON tax_classes (status_id);

CREATE TABLE tax_subclasses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_class_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_subclasses (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_class_id) REFERENCES tax_classes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_subclasses_scientific_name ON tax_subclasses (scientific_name);
CREATE INDEX ix_tax_subclasses_status_id ON tax_subclasses (status_id);

CREATE TABLE tax_orders (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_subclass_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_orders (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_subclass_id) REFERENCES tax_subclasses (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_orders_scientific_name ON tax_orders (scientific_name);
CREATE INDEX ix_tax_orders_status_id ON tax_orders (status_id);

CREATE TABLE tax_suborders (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_order_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_suborders (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_order_id) REFERENCES tax_orders (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_suborders_scientific_name ON tax_suborders (scientific_name);
CREATE INDEX ix_tax_suborders_status_id ON tax_suborders (status_id);

CREATE TABLE tax_families (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_suborder_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_suborder_id) REFERENCES tax_suborders (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_families_scientific_name ON tax_families (scientific_name);
CREATE INDEX ix_tax_families_status_id ON tax_families (status_id);

CREATE TABLE tax_subfamilies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_family_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_subfamilies (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_subfamilies_scientific_name ON tax_subfamilies (scientific_name);
CREATE INDEX ix_tax_subfamilies_status_id ON tax_subfamilies (status_id);

CREATE TABLE tax_tribes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_subfamily_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_tribes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_subfamily_id) REFERENCES tax_subfamilies (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_tribes_scientific_name ON tax_tribes (scientific_name);
CREATE INDEX ix_tax_tribes_status_id ON tax_tribes (status_id);

CREATE TABLE tax_genera (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_tribe_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_tribe_id) REFERENCES tax_tribes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_genera_scientific_name ON tax_genera (scientific_name);
CREATE INDEX ix_tax_genera_status_id ON tax_genera (status_id);

CREATE TABLE tax_subgenera (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_genus_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_subgenera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_subgenera_scientific_name ON tax_subgenera (scientific_name);
CREATE INDEX ix_tax_subgenera_status_id ON tax_subgenera (status_id);

CREATE TABLE tax_sections (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_subgenus_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_sections (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_subgenus_id) REFERENCES tax_subgenera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_sections_scientific_name ON tax_sections (scientific_name);
CREATE INDEX ix_tax_sections_status_id ON tax_sections (status_id);

CREATE TABLE tax_species (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_section_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_section_id) REFERENCES tax_sections (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_species_scientific_name ON tax_species (scientific_name);
CREATE INDEX ix_tax_species_status_id ON tax_species (status_id);

CREATE TABLE tax_subspecies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_species_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_subspecies (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_subspecies_scientific_name ON tax_subspecies (scientific_name);
CREATE INDEX ix_tax_subspecies_status_id ON tax_subspecies (status_id);

CREATE TABLE tax_varieties (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_subspecies_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_varieties (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_subspecies_id) REFERENCES tax_subspecies (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_varieties_scientific_name ON tax_varieties (scientific_name);
CREATE INDEX ix_tax_varieties_status_id ON tax_varieties (status_id);

CREATE TABLE tax_forms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    scientific_name TEXT NOT NULL,
    authority TEXT,
    year_published INTEGER,
    protologue_publication_id INTEGER,
    nomenclatural_code_id INTEGER,
    status_id INTEGER NOT NULL,
    accepted_id INTEGER,
    parent_variety_id INTEGER,
    ipni_id TEXT,
    mycobank_number INTEGER,
    index_fungorum_id INTEGER,
    etymology TEXT,
    description_morphology TEXT,
    type_locality_id INTEGER,
    is_type_genus INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (protologue_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (nomenclatural_code_id) REFERENCES tax_nomenclatural_codes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (status_id) REFERENCES tax_taxonomic_status (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (accepted_id) REFERENCES tax_forms (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (parent_variety_id) REFERENCES tax_varieties (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (scientific_name, authority)
);
CREATE INDEX ix_tax_forms_scientific_name ON tax_forms (scientific_name);
CREATE INDEX ix_tax_forms_status_id ON tax_forms (status_id);

CREATE TABLE tax_synonymies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    synonym_rank TEXT NOT NULL,
    synonym_id INTEGER NOT NULL,
    accepted_rank TEXT NOT NULL,
    accepted_id INTEGER NOT NULL,
    synonymy_kind TEXT NOT NULL CHECK (synonymy_kind IN ('homotypic','heterotypic','nomen_dubium','replaced')),
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_synonymies_synonym_rank_synonym_id ON tax_synonymies (synonym_rank, synonym_id);
CREATE INDEX ix_tax_synonymies_accepted_rank_accepted_id ON tax_synonymies (accepted_rank, accepted_id);

CREATE TABLE tax_common_names (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    name TEXT NOT NULL,
    language_code TEXT NOT NULL,
    region_country_id INTEGER,
    source_publication_id INTEGER,
    is_preferred INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (source_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_common_names_species_id ON tax_common_names (species_id);
CREATE INDEX ix_tax_common_names_language_code ON tax_common_names (language_code);

CREATE TABLE tax_type_designations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    taxon_rank TEXT NOT NULL,
    taxon_id INTEGER NOT NULL,
    type_kind_id INTEGER NOT NULL,
    specimen_id INTEGER,
    designation_publication_id INTEGER,
    designated_by_person_id INTEGER,
    designated_year INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (type_kind_id) REFERENCES tax_type_designation_kinds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designated_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_type_designations_taxon_rank_taxon_id ON tax_type_designations (taxon_rank, taxon_id);
CREATE INDEX ix_tax_type_designations_specimen_id ON tax_type_designations (specimen_id);

CREATE TABLE tax_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    scope_summary TEXT,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    affected_species_id INTEGER,
    revision_year INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE spc_preservation_methods (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_spc_preservation_methods_is_active ON spc_preservation_methods (is_active);
CREATE INDEX ix_spc_preservation_methods_label ON spc_preservation_methods (label);

CREATE TABLE spc_collection_methods (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_spc_collection_methods_is_active ON spc_collection_methods (is_active);
CREATE INDEX ix_spc_collection_methods_label ON spc_collection_methods (label);

CREATE TABLE spc_growth_substrates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_spc_growth_substrates_is_active ON spc_growth_substrates (is_active);
CREATE INDEX ix_spc_growth_substrates_label ON spc_growth_substrates (label);

CREATE TABLE spc_collection_events (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    event_date TEXT,
    event_time_start TEXT,
    event_time_end TEXT,
    locality_id INTEGER NOT NULL,
    collection_method_id INTEGER,
    expedition_id INTEGER,
    habitat_summary TEXT,
    weather_summary TEXT,
    temperature_c REAL,
    humidity_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (locality_id) REFERENCES geo_localities (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (collection_method_id) REFERENCES spc_collection_methods (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (expedition_id) REFERENCES field_expeditions (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_collection_events_event_date ON spc_collection_events (event_date);
CREATE INDEX ix_spc_collection_events_locality_id ON spc_collection_events (locality_id);

CREATE TABLE spc_collection_event_collectors (
    event_id INTEGER NOT NULL,
    person_id INTEGER NOT NULL,
    role_id INTEGER,
    position_in_team INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    PRIMARY KEY (event_id, person_id),
    FOREIGN KEY (event_id) REFERENCES spc_collection_events (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (person_id) REFERENCES people_persons (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (role_id) REFERENCES people_role_types (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_collection_event_collectors_person_id ON spc_collection_event_collectors (person_id);

CREATE TABLE spc_specimens (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    catalog_number TEXT NOT NULL,
    herbarium_id INTEGER NOT NULL,
    collection_event_id INTEGER,
    collector_number TEXT,
    primary_collector_person_id INTEGER,
    preservation_method_id INTEGER,
    growth_substrate_id INTEGER,
    substrate_detail TEXT,
    identified_species_id INTEGER,
    identified_at_rank TEXT,
    identification_confidence TEXT DEFAULT 'verified' CHECK (identification_confidence IN ('uncertain','tentative','verified','expert')),
    identified_by_person_id INTEGER,
    identified_at TEXT,
    is_type_specimen INTEGER NOT NULL DEFAULT 0,
    storage_location TEXT,
    condition_score INTEGER CHECK (condition_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (herbarium_id) REFERENCES people_herbaria (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (collection_event_id) REFERENCES spc_collection_events (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (primary_collector_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preservation_method_id) REFERENCES spc_preservation_methods (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (growth_substrate_id) REFERENCES spc_growth_substrates (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (identified_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (identified_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (herbarium_id, catalog_number),
    UNIQUE (uuid)
);
CREATE INDEX ix_spc_specimens_catalog_number ON spc_specimens (catalog_number);
CREATE INDEX ix_spc_specimens_identified_species_id ON spc_specimens (identified_species_id);
CREATE INDEX ix_spc_specimens_herbarium_id ON spc_specimens (herbarium_id);
CREATE INDEX ix_spc_specimens_is_type_specimen ON spc_specimens (is_type_specimen);

CREATE TABLE spc_identification_history (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    identified_to_rank TEXT NOT NULL,
    identification_text TEXT,
    identified_by_person_id INTEGER,
    identified_at TEXT,
    source_publication_id INTEGER,
    is_current INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (identified_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (source_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_identification_history_specimen_id_is_current ON spc_identification_history (specimen_id, is_current);
CREATE INDEX ix_spc_identification_history_identified_at ON spc_identification_history (identified_at);

CREATE TABLE spc_specimen_duplicates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    primary_specimen_id INTEGER NOT NULL,
    duplicate_specimen_id INTEGER NOT NULL,
    relation_type TEXT NOT NULL DEFAULT 'duplicate',
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (primary_specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (duplicate_specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (primary_specimen_id, duplicate_specimen_id)
);

CREATE TABLE spc_loans (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    loan_number TEXT NOT NULL,
    from_herbarium_id INTEGER NOT NULL,
    to_institution_id INTEGER NOT NULL,
    requested_by_user_id INTEGER,
    loan_purpose TEXT,
    requested_date TEXT,
    shipped_date TEXT,
    expected_return_date TEXT,
    returned_date TEXT,
    status TEXT NOT NULL DEFAULT 'requested' CHECK (status IN ('requested','shipped','overdue','returned','cancelled')),
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (from_herbarium_id) REFERENCES people_herbaria (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (to_institution_id) REFERENCES people_institutions (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (requested_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (loan_number)
);
CREATE INDEX ix_spc_loans_status ON spc_loans (status);

CREATE TABLE spc_loan_specimens (
    loan_id INTEGER NOT NULL,
    specimen_id INTEGER NOT NULL,
    returned_date TEXT,
    condition_on_return TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (loan_id, specimen_id),
    FOREIGN KEY (loan_id) REFERENCES spc_loans (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_loan_specimens_specimen_id ON spc_loan_specimens (specimen_id);

CREATE TABLE spc_specimen_publications (
    specimen_id INTEGER NOT NULL,
    publication_id INTEGER NOT NULL,
    citation_context TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    PRIMARY KEY (specimen_id, publication_id),
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE CASCADE ON UPDATE CASCADE
);

CREATE TABLE spc_specimen_images (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    file_uri TEXT NOT NULL,
    image_kind TEXT NOT NULL,
    photographer_person_id INTEGER,
    captured_at TEXT,
    width_px INTEGER,
    height_px INTEGER,
    file_size_bytes INTEGER,
    license TEXT,
    caption TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (photographer_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_specimen_images_specimen_id ON spc_specimen_images (specimen_id);
CREATE INDEX ix_spc_specimen_images_image_kind ON spc_specimen_images (image_kind);

CREATE TABLE mor_color_standards (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_color_standards_is_active ON mor_color_standards (is_active);
CREATE INDEX ix_mor_color_standards_label ON mor_color_standards (label);

CREATE TABLE mor_color_chips (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    standard_id INTEGER NOT NULL,
    chip_code TEXT NOT NULL,
    chip_name TEXT,
    rgb_hex TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (standard_id) REFERENCES mor_color_standards (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (standard_id, chip_code)
);

CREATE TABLE mor_chemical_reagents (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_chemical_reagents_is_active ON mor_chemical_reagents (is_active);
CREATE INDEX ix_mor_chemical_reagents_label ON mor_chemical_reagents (label);

CREATE TABLE mor_spore_measurements (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    length_min_um REAL,
    length_max_um REAL,
    length_mean_um REAL,
    width_min_um REAL,
    width_max_um REAL,
    width_mean_um REAL,
    q_min REAL,
    q_max REAL,
    q_mean REAL,
    sample_size_n INTEGER,
    measured_in_reagent_id INTEGER,
    measured_at TEXT,
    measured_by_person_id INTEGER,
    publication_id INTEGER,
    excludes_apiculus INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (measured_in_reagent_id) REFERENCES mor_chemical_reagents (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (measured_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_spore_measurements_specimen_id ON mor_spore_measurements (specimen_id);
CREATE INDEX ix_mor_spore_measurements_species_id ON mor_spore_measurements (species_id);

CREATE TABLE mor_states_pileus_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_pileus_shape_is_active ON mor_states_pileus_shape (is_active);
CREATE INDEX ix_mor_states_pileus_shape_label ON mor_states_pileus_shape (label);

CREATE TABLE mor_obs_pileus_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_pileus_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_pileus_shape_specimen_id ON mor_obs_pileus_shape (specimen_id);
CREATE INDEX ix_mor_obs_pileus_shape_species_id ON mor_obs_pileus_shape (species_id);

CREATE TABLE mor_states_pileus_surface (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_pileus_surface_is_active ON mor_states_pileus_surface (is_active);
CREATE INDEX ix_mor_states_pileus_surface_label ON mor_states_pileus_surface (label);

CREATE TABLE mor_obs_pileus_surface (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_pileus_surface (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_pileus_surface_specimen_id ON mor_obs_pileus_surface (specimen_id);
CREATE INDEX ix_mor_obs_pileus_surface_species_id ON mor_obs_pileus_surface (species_id);

CREATE TABLE mor_states_pileus_margin (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_pileus_margin_is_active ON mor_states_pileus_margin (is_active);
CREATE INDEX ix_mor_states_pileus_margin_label ON mor_states_pileus_margin (label);

CREATE TABLE mor_obs_pileus_margin (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_pileus_margin (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_pileus_margin_specimen_id ON mor_obs_pileus_margin (specimen_id);
CREATE INDEX ix_mor_obs_pileus_margin_species_id ON mor_obs_pileus_margin (species_id);

CREATE TABLE mor_states_pileus_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_pileus_color_is_active ON mor_states_pileus_color (is_active);
CREATE INDEX ix_mor_states_pileus_color_label ON mor_states_pileus_color (label);

CREATE TABLE mor_obs_pileus_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_pileus_color (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_pileus_color_specimen_id ON mor_obs_pileus_color (specimen_id);
CREATE INDEX ix_mor_obs_pileus_color_species_id ON mor_obs_pileus_color (species_id);

CREATE TABLE mor_states_hymenophore_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_hymenophore_type_is_active ON mor_states_hymenophore_type (is_active);
CREATE INDEX ix_mor_states_hymenophore_type_label ON mor_states_hymenophore_type (label);

CREATE TABLE mor_obs_hymenophore_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_hymenophore_type (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_hymenophore_type_specimen_id ON mor_obs_hymenophore_type (specimen_id);
CREATE INDEX ix_mor_obs_hymenophore_type_species_id ON mor_obs_hymenophore_type (species_id);

CREATE TABLE mor_states_lamella_attachment (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_lamella_attachment_is_active ON mor_states_lamella_attachment (is_active);
CREATE INDEX ix_mor_states_lamella_attachment_label ON mor_states_lamella_attachment (label);

CREATE TABLE mor_obs_lamella_attachment (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_lamella_attachment (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_lamella_attachment_specimen_id ON mor_obs_lamella_attachment (specimen_id);
CREATE INDEX ix_mor_obs_lamella_attachment_species_id ON mor_obs_lamella_attachment (species_id);

CREATE TABLE mor_states_lamella_spacing (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_lamella_spacing_is_active ON mor_states_lamella_spacing (is_active);
CREATE INDEX ix_mor_states_lamella_spacing_label ON mor_states_lamella_spacing (label);

CREATE TABLE mor_obs_lamella_spacing (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_lamella_spacing (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_lamella_spacing_specimen_id ON mor_obs_lamella_spacing (specimen_id);
CREATE INDEX ix_mor_obs_lamella_spacing_species_id ON mor_obs_lamella_spacing (species_id);

CREATE TABLE mor_states_lamella_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_lamella_color_is_active ON mor_states_lamella_color (is_active);
CREATE INDEX ix_mor_states_lamella_color_label ON mor_states_lamella_color (label);

CREATE TABLE mor_obs_lamella_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_lamella_color (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_lamella_color_specimen_id ON mor_obs_lamella_color (specimen_id);
CREATE INDEX ix_mor_obs_lamella_color_species_id ON mor_obs_lamella_color (species_id);

CREATE TABLE mor_states_pore_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_pore_shape_is_active ON mor_states_pore_shape (is_active);
CREATE INDEX ix_mor_states_pore_shape_label ON mor_states_pore_shape (label);

CREATE TABLE mor_obs_pore_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_pore_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_pore_shape_specimen_id ON mor_obs_pore_shape (specimen_id);
CREATE INDEX ix_mor_obs_pore_shape_species_id ON mor_obs_pore_shape (species_id);

CREATE TABLE mor_obs_pore_density_per_mm (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    value_min REAL,
    value_max REAL,
    value_mean REAL,
    value_unit TEXT,
    sample_size_n INTEGER,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_pore_density_per_mm_specimen_id ON mor_obs_pore_density_per_mm (specimen_id);
CREATE INDEX ix_mor_obs_pore_density_per_mm_species_id ON mor_obs_pore_density_per_mm (species_id);

CREATE TABLE mor_obs_tubes_length (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    value_min REAL,
    value_max REAL,
    value_mean REAL,
    value_unit TEXT,
    sample_size_n INTEGER,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_tubes_length_specimen_id ON mor_obs_tubes_length (specimen_id);
CREATE INDEX ix_mor_obs_tubes_length_species_id ON mor_obs_tubes_length (species_id);

CREATE TABLE mor_states_teeth_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_teeth_shape_is_active ON mor_states_teeth_shape (is_active);
CREATE INDEX ix_mor_states_teeth_shape_label ON mor_states_teeth_shape (label);

CREATE TABLE mor_obs_teeth_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_teeth_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_teeth_shape_specimen_id ON mor_obs_teeth_shape (specimen_id);
CREATE INDEX ix_mor_obs_teeth_shape_species_id ON mor_obs_teeth_shape (species_id);

CREATE TABLE mor_states_stipe_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_stipe_shape_is_active ON mor_states_stipe_shape (is_active);
CREATE INDEX ix_mor_states_stipe_shape_label ON mor_states_stipe_shape (label);

CREATE TABLE mor_obs_stipe_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_stipe_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_stipe_shape_specimen_id ON mor_obs_stipe_shape (specimen_id);
CREATE INDEX ix_mor_obs_stipe_shape_species_id ON mor_obs_stipe_shape (species_id);

CREATE TABLE mor_states_stipe_surface (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_stipe_surface_is_active ON mor_states_stipe_surface (is_active);
CREATE INDEX ix_mor_states_stipe_surface_label ON mor_states_stipe_surface (label);

CREATE TABLE mor_obs_stipe_surface (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_stipe_surface (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_stipe_surface_specimen_id ON mor_obs_stipe_surface (specimen_id);
CREATE INDEX ix_mor_obs_stipe_surface_species_id ON mor_obs_stipe_surface (species_id);

CREATE TABLE mor_states_stipe_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_stipe_color_is_active ON mor_states_stipe_color (is_active);
CREATE INDEX ix_mor_states_stipe_color_label ON mor_states_stipe_color (label);

CREATE TABLE mor_obs_stipe_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_stipe_color (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_stipe_color_specimen_id ON mor_obs_stipe_color (specimen_id);
CREATE INDEX ix_mor_obs_stipe_color_species_id ON mor_obs_stipe_color (species_id);

CREATE TABLE mor_states_stipe_base_form (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_stipe_base_form_is_active ON mor_states_stipe_base_form (is_active);
CREATE INDEX ix_mor_states_stipe_base_form_label ON mor_states_stipe_base_form (label);

CREATE TABLE mor_obs_stipe_base_form (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_stipe_base_form (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_stipe_base_form_specimen_id ON mor_obs_stipe_base_form (specimen_id);
CREATE INDEX ix_mor_obs_stipe_base_form_species_id ON mor_obs_stipe_base_form (species_id);

CREATE TABLE mor_states_annulus_form (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_annulus_form_is_active ON mor_states_annulus_form (is_active);
CREATE INDEX ix_mor_states_annulus_form_label ON mor_states_annulus_form (label);

CREATE TABLE mor_obs_annulus_form (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_annulus_form (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_annulus_form_specimen_id ON mor_obs_annulus_form (specimen_id);
CREATE INDEX ix_mor_obs_annulus_form_species_id ON mor_obs_annulus_form (species_id);

CREATE TABLE mor_states_volva_form (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_volva_form_is_active ON mor_states_volva_form (is_active);
CREATE INDEX ix_mor_states_volva_form_label ON mor_states_volva_form (label);

CREATE TABLE mor_obs_volva_form (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_volva_form (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_volva_form_specimen_id ON mor_obs_volva_form (specimen_id);
CREATE INDEX ix_mor_obs_volva_form_species_id ON mor_obs_volva_form (species_id);

CREATE TABLE mor_states_flesh_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_flesh_color_is_active ON mor_states_flesh_color (is_active);
CREATE INDEX ix_mor_states_flesh_color_label ON mor_states_flesh_color (label);

CREATE TABLE mor_obs_flesh_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_flesh_color (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_flesh_color_specimen_id ON mor_obs_flesh_color (specimen_id);
CREATE INDEX ix_mor_obs_flesh_color_species_id ON mor_obs_flesh_color (species_id);

CREATE TABLE mor_states_flesh_color_change (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_flesh_color_change_is_active ON mor_states_flesh_color_change (is_active);
CREATE INDEX ix_mor_states_flesh_color_change_label ON mor_states_flesh_color_change (label);

CREATE TABLE mor_obs_flesh_color_change (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_flesh_color_change (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_flesh_color_change_specimen_id ON mor_obs_flesh_color_change (specimen_id);
CREATE INDEX ix_mor_obs_flesh_color_change_species_id ON mor_obs_flesh_color_change (species_id);

CREATE TABLE mor_states_smell_character (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_smell_character_is_active ON mor_states_smell_character (is_active);
CREATE INDEX ix_mor_states_smell_character_label ON mor_states_smell_character (label);

CREATE TABLE mor_obs_smell_character (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_smell_character (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_smell_character_specimen_id ON mor_obs_smell_character (specimen_id);
CREATE INDEX ix_mor_obs_smell_character_species_id ON mor_obs_smell_character (species_id);

CREATE TABLE mor_states_taste_character (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_taste_character_is_active ON mor_states_taste_character (is_active);
CREATE INDEX ix_mor_states_taste_character_label ON mor_states_taste_character (label);

CREATE TABLE mor_obs_taste_character (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_taste_character (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_taste_character_specimen_id ON mor_obs_taste_character (specimen_id);
CREATE INDEX ix_mor_obs_taste_character_species_id ON mor_obs_taste_character (species_id);

CREATE TABLE mor_states_latex_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_latex_color_is_active ON mor_states_latex_color (is_active);
CREATE INDEX ix_mor_states_latex_color_label ON mor_states_latex_color (label);

CREATE TABLE mor_obs_latex_color (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_latex_color (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_latex_color_specimen_id ON mor_obs_latex_color (specimen_id);
CREATE INDEX ix_mor_obs_latex_color_species_id ON mor_obs_latex_color (species_id);

CREATE TABLE mor_states_latex_color_change (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_latex_color_change_is_active ON mor_states_latex_color_change (is_active);
CREATE INDEX ix_mor_states_latex_color_change_label ON mor_states_latex_color_change (label);

CREATE TABLE mor_obs_latex_color_change (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_latex_color_change (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_latex_color_change_specimen_id ON mor_obs_latex_color_change (specimen_id);
CREATE INDEX ix_mor_obs_latex_color_change_species_id ON mor_obs_latex_color_change (species_id);

CREATE TABLE mor_states_spore_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_spore_shape_is_active ON mor_states_spore_shape (is_active);
CREATE INDEX ix_mor_states_spore_shape_label ON mor_states_spore_shape (label);

CREATE TABLE mor_obs_spore_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_spore_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_spore_shape_specimen_id ON mor_obs_spore_shape (specimen_id);
CREATE INDEX ix_mor_obs_spore_shape_species_id ON mor_obs_spore_shape (species_id);

CREATE TABLE mor_states_spore_ornamentation (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_spore_ornamentation_is_active ON mor_states_spore_ornamentation (is_active);
CREATE INDEX ix_mor_states_spore_ornamentation_label ON mor_states_spore_ornamentation (label);

CREATE TABLE mor_obs_spore_ornamentation (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_spore_ornamentation (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_spore_ornamentation_specimen_id ON mor_obs_spore_ornamentation (specimen_id);
CREATE INDEX ix_mor_obs_spore_ornamentation_species_id ON mor_obs_spore_ornamentation (species_id);

CREATE TABLE mor_states_spore_color_in_mass (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_spore_color_in_mass_is_active ON mor_states_spore_color_in_mass (is_active);
CREATE INDEX ix_mor_states_spore_color_in_mass_label ON mor_states_spore_color_in_mass (label);

CREATE TABLE mor_obs_spore_color_in_mass (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_spore_color_in_mass (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_spore_color_in_mass_specimen_id ON mor_obs_spore_color_in_mass (specimen_id);
CREATE INDEX ix_mor_obs_spore_color_in_mass_species_id ON mor_obs_spore_color_in_mass (species_id);

CREATE TABLE mor_states_spore_color_in_koh (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_spore_color_in_koh_is_active ON mor_states_spore_color_in_koh (is_active);
CREATE INDEX ix_mor_states_spore_color_in_koh_label ON mor_states_spore_color_in_koh (label);

CREATE TABLE mor_obs_spore_color_in_koh (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_spore_color_in_koh (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_spore_color_in_koh_specimen_id ON mor_obs_spore_color_in_koh (specimen_id);
CREATE INDEX ix_mor_obs_spore_color_in_koh_species_id ON mor_obs_spore_color_in_koh (species_id);

CREATE TABLE mor_states_spore_dextrinoid_reaction (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_spore_dextrinoid_reaction_is_active ON mor_states_spore_dextrinoid_reaction (is_active);
CREATE INDEX ix_mor_states_spore_dextrinoid_reaction_label ON mor_states_spore_dextrinoid_reaction (label);

CREATE TABLE mor_obs_spore_dextrinoid_reaction (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_spore_dextrinoid_reaction (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_spore_dextrinoid_reaction_specimen_id ON mor_obs_spore_dextrinoid_reaction (specimen_id);
CREATE INDEX ix_mor_obs_spore_dextrinoid_reaction_species_id ON mor_obs_spore_dextrinoid_reaction (species_id);

CREATE TABLE mor_states_spore_germ_pore_present (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_spore_germ_pore_present_is_active ON mor_states_spore_germ_pore_present (is_active);
CREATE INDEX ix_mor_states_spore_germ_pore_present_label ON mor_states_spore_germ_pore_present (label);

CREATE TABLE mor_obs_spore_germ_pore_present (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_spore_germ_pore_present (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_spore_germ_pore_present_specimen_id ON mor_obs_spore_germ_pore_present (specimen_id);
CREATE INDEX ix_mor_obs_spore_germ_pore_present_species_id ON mor_obs_spore_germ_pore_present (species_id);

CREATE TABLE mor_states_basidium_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_basidium_shape_is_active ON mor_states_basidium_shape (is_active);
CREATE INDEX ix_mor_states_basidium_shape_label ON mor_states_basidium_shape (label);

CREATE TABLE mor_obs_basidium_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_basidium_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_basidium_shape_specimen_id ON mor_obs_basidium_shape (specimen_id);
CREATE INDEX ix_mor_obs_basidium_shape_species_id ON mor_obs_basidium_shape (species_id);

CREATE TABLE mor_obs_basidium_n_spores (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    value_min REAL,
    value_max REAL,
    value_mean REAL,
    value_unit TEXT,
    sample_size_n INTEGER,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_basidium_n_spores_specimen_id ON mor_obs_basidium_n_spores (specimen_id);
CREATE INDEX ix_mor_obs_basidium_n_spores_species_id ON mor_obs_basidium_n_spores (species_id);

CREATE TABLE mor_states_ascus_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_ascus_type_is_active ON mor_states_ascus_type (is_active);
CREATE INDEX ix_mor_states_ascus_type_label ON mor_states_ascus_type (label);

CREATE TABLE mor_obs_ascus_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_ascus_type (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_ascus_type_specimen_id ON mor_obs_ascus_type (specimen_id);
CREATE INDEX ix_mor_obs_ascus_type_species_id ON mor_obs_ascus_type (species_id);

CREATE TABLE mor_states_ascus_apical_apparatus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_ascus_apical_apparatus_is_active ON mor_states_ascus_apical_apparatus (is_active);
CREATE INDEX ix_mor_states_ascus_apical_apparatus_label ON mor_states_ascus_apical_apparatus (label);

CREATE TABLE mor_obs_ascus_apical_apparatus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_ascus_apical_apparatus (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_ascus_apical_apparatus_specimen_id ON mor_obs_ascus_apical_apparatus (specimen_id);
CREATE INDEX ix_mor_obs_ascus_apical_apparatus_species_id ON mor_obs_ascus_apical_apparatus (species_id);

CREATE TABLE mor_states_paraphysis_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_paraphysis_shape_is_active ON mor_states_paraphysis_shape (is_active);
CREATE INDEX ix_mor_states_paraphysis_shape_label ON mor_states_paraphysis_shape (label);

CREATE TABLE mor_obs_paraphysis_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_paraphysis_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_paraphysis_shape_specimen_id ON mor_obs_paraphysis_shape (specimen_id);
CREATE INDEX ix_mor_obs_paraphysis_shape_species_id ON mor_obs_paraphysis_shape (species_id);

CREATE TABLE mor_states_cystidium_location (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_cystidium_location_is_active ON mor_states_cystidium_location (is_active);
CREATE INDEX ix_mor_states_cystidium_location_label ON mor_states_cystidium_location (label);

CREATE TABLE mor_obs_cystidium_location (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_cystidium_location (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_cystidium_location_specimen_id ON mor_obs_cystidium_location (specimen_id);
CREATE INDEX ix_mor_obs_cystidium_location_species_id ON mor_obs_cystidium_location (species_id);

CREATE TABLE mor_states_cystidium_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_cystidium_shape_is_active ON mor_states_cystidium_shape (is_active);
CREATE INDEX ix_mor_states_cystidium_shape_label ON mor_states_cystidium_shape (label);

CREATE TABLE mor_obs_cystidium_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_cystidium_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_cystidium_shape_specimen_id ON mor_obs_cystidium_shape (specimen_id);
CREATE INDEX ix_mor_obs_cystidium_shape_species_id ON mor_obs_cystidium_shape (species_id);

CREATE TABLE mor_states_hyphal_system (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_hyphal_system_is_active ON mor_states_hyphal_system (is_active);
CREATE INDEX ix_mor_states_hyphal_system_label ON mor_states_hyphal_system (label);

CREATE TABLE mor_obs_hyphal_system (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_hyphal_system (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_hyphal_system_specimen_id ON mor_obs_hyphal_system (specimen_id);
CREATE INDEX ix_mor_obs_hyphal_system_species_id ON mor_obs_hyphal_system (species_id);

CREATE TABLE mor_states_hyphal_clamp_connections (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_hyphal_clamp_connections_is_active ON mor_states_hyphal_clamp_connections (is_active);
CREATE INDEX ix_mor_states_hyphal_clamp_connections_label ON mor_states_hyphal_clamp_connections (label);

CREATE TABLE mor_obs_hyphal_clamp_connections (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_hyphal_clamp_connections (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_hyphal_clamp_connections_specimen_id ON mor_obs_hyphal_clamp_connections (specimen_id);
CREATE INDEX ix_mor_obs_hyphal_clamp_connections_species_id ON mor_obs_hyphal_clamp_connections (species_id);

CREATE TABLE mor_states_hyphal_inflation (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_hyphal_inflation_is_active ON mor_states_hyphal_inflation (is_active);
CREATE INDEX ix_mor_states_hyphal_inflation_label ON mor_states_hyphal_inflation (label);

CREATE TABLE mor_obs_hyphal_inflation (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_hyphal_inflation (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_hyphal_inflation_specimen_id ON mor_obs_hyphal_inflation (specimen_id);
CREATE INDEX ix_mor_obs_hyphal_inflation_species_id ON mor_obs_hyphal_inflation (species_id);

CREATE TABLE mor_states_subhymenium_structure (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_subhymenium_structure_is_active ON mor_states_subhymenium_structure (is_active);
CREATE INDEX ix_mor_states_subhymenium_structure_label ON mor_states_subhymenium_structure (label);

CREATE TABLE mor_obs_subhymenium_structure (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_subhymenium_structure (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_subhymenium_structure_specimen_id ON mor_obs_subhymenium_structure (specimen_id);
CREATE INDEX ix_mor_obs_subhymenium_structure_species_id ON mor_obs_subhymenium_structure (species_id);

CREATE TABLE mor_states_trama_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_trama_type_is_active ON mor_states_trama_type (is_active);
CREATE INDEX ix_mor_states_trama_type_label ON mor_states_trama_type (label);

CREATE TABLE mor_obs_trama_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_trama_type (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_trama_type_specimen_id ON mor_obs_trama_type (specimen_id);
CREATE INDEX ix_mor_obs_trama_type_species_id ON mor_obs_trama_type (species_id);

CREATE TABLE mor_states_pileipellis_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_pileipellis_type_is_active ON mor_states_pileipellis_type (is_active);
CREATE INDEX ix_mor_states_pileipellis_type_label ON mor_states_pileipellis_type (label);

CREATE TABLE mor_obs_pileipellis_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_pileipellis_type (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_pileipellis_type_specimen_id ON mor_obs_pileipellis_type (specimen_id);
CREATE INDEX ix_mor_obs_pileipellis_type_species_id ON mor_obs_pileipellis_type (species_id);

CREATE TABLE mor_states_rhizomorph_anatomy (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_rhizomorph_anatomy_is_active ON mor_states_rhizomorph_anatomy (is_active);
CREATE INDEX ix_mor_states_rhizomorph_anatomy_label ON mor_states_rhizomorph_anatomy (label);

CREATE TABLE mor_obs_rhizomorph_anatomy (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_rhizomorph_anatomy (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_rhizomorph_anatomy_specimen_id ON mor_obs_rhizomorph_anatomy (specimen_id);
CREATE INDEX ix_mor_obs_rhizomorph_anatomy_species_id ON mor_obs_rhizomorph_anatomy (species_id);

CREATE TABLE mor_states_conidium_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_conidium_shape_is_active ON mor_states_conidium_shape (is_active);
CREATE INDEX ix_mor_states_conidium_shape_label ON mor_states_conidium_shape (label);

CREATE TABLE mor_obs_conidium_shape (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_conidium_shape (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_conidium_shape_specimen_id ON mor_obs_conidium_shape (specimen_id);
CREATE INDEX ix_mor_obs_conidium_shape_species_id ON mor_obs_conidium_shape (species_id);

CREATE TABLE mor_states_conidiogenous_cell_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_mor_states_conidiogenous_cell_type_is_active ON mor_states_conidiogenous_cell_type (is_active);
CREATE INDEX ix_mor_states_conidiogenous_cell_type_label ON mor_states_conidiogenous_cell_type (label);

CREATE TABLE mor_obs_conidiogenous_cell_type (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    observed_by_person_id INTEGER,
    observed_at TEXT,
    publication_id INTEGER,
    state_id INTEGER,
    state_modifier TEXT,
    free_text_description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observed_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (state_id) REFERENCES mor_states_conidiogenous_cell_type (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_obs_conidiogenous_cell_type_specimen_id ON mor_obs_conidiogenous_cell_type (specimen_id);
CREATE INDEX ix_mor_obs_conidiogenous_cell_type_species_id ON mor_obs_conidiogenous_cell_type (species_id);

CREATE TABLE mor_chemical_reactions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    anatomical_part TEXT NOT NULL,
    reagent_id INTEGER NOT NULL,
    reaction_color_chip_id INTEGER,
    reaction_text TEXT,
    reaction_kind TEXT,
    observed_at TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (reagent_id) REFERENCES mor_chemical_reagents (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (reaction_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_mor_chemical_reactions_specimen_id ON mor_chemical_reactions (specimen_id);
CREATE INDEX ix_mor_chemical_reactions_reagent_id ON mor_chemical_reactions (reagent_id);

CREATE TABLE eco_habitat_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_eco_habitat_types_is_active ON eco_habitat_types (is_active);
CREATE INDEX ix_eco_habitat_types_label ON eco_habitat_types (label);

CREATE TABLE eco_substrate_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_eco_substrate_types_is_active ON eco_substrate_types (is_active);
CREATE INDEX ix_eco_substrate_types_label ON eco_substrate_types (label);

CREATE TABLE eco_phenology_seasons (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_eco_phenology_seasons_is_active ON eco_phenology_seasons (is_active);
CREATE INDEX ix_eco_phenology_seasons_label ON eco_phenology_seasons (label);

CREATE TABLE eco_species_habitat_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    habitat_type_id INTEGER NOT NULL,
    frequency TEXT,
    evidence_publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (habitat_type_id) REFERENCES eco_habitat_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, habitat_type_id)
);

CREATE TABLE eco_species_substrate_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_type_id INTEGER NOT NULL,
    association_strength TEXT,
    evidence_publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (substrate_type_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, substrate_type_id)
);

CREATE TABLE eco_mycorrhiza_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_eco_mycorrhiza_types_is_active ON eco_mycorrhiza_types (is_active);
CREATE INDEX ix_eco_mycorrhiza_types_label ON eco_mycorrhiza_types (label);

CREATE TABLE eco_plant_partners (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    plant_family TEXT NOT NULL,
    plant_genus TEXT,
    plant_species TEXT,
    plant_common_name TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (plant_family, plant_genus, plant_species)
);
CREATE INDEX ix_eco_plant_partners_plant_family ON eco_plant_partners (plant_family);
CREATE INDEX ix_eco_plant_partners_plant_genus ON eco_plant_partners (plant_genus);

CREATE TABLE eco_mycorrhiza_ectomycorrhizal (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    fungal_species_id INTEGER NOT NULL,
    plant_partner_id INTEGER NOT NULL,
    evidence_specimen_id INTEGER,
    evidence_publication_id INTEGER,
    first_reported_year INTEGER,
    association_specificity TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (fungal_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (plant_partner_id) REFERENCES eco_plant_partners (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (fungal_species_id, plant_partner_id)
);
CREATE INDEX ix_eco_mycorrhiza_ectomycorrhizal_fungal_species_id ON eco_mycorrhiza_ectomycorrhizal (fungal_species_id);
CREATE INDEX ix_eco_mycorrhiza_ectomycorrhizal_plant_partner_id ON eco_mycorrhiza_ectomycorrhizal (plant_partner_id);

CREATE TABLE eco_mycorrhiza_arbuscular (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    fungal_species_id INTEGER NOT NULL,
    plant_partner_id INTEGER NOT NULL,
    evidence_specimen_id INTEGER,
    evidence_publication_id INTEGER,
    first_reported_year INTEGER,
    association_specificity TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (fungal_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (plant_partner_id) REFERENCES eco_plant_partners (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (fungal_species_id, plant_partner_id)
);
CREATE INDEX ix_eco_mycorrhiza_arbuscular_fungal_species_id ON eco_mycorrhiza_arbuscular (fungal_species_id);
CREATE INDEX ix_eco_mycorrhiza_arbuscular_plant_partner_id ON eco_mycorrhiza_arbuscular (plant_partner_id);

CREATE TABLE eco_mycorrhiza_ericoid (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    fungal_species_id INTEGER NOT NULL,
    plant_partner_id INTEGER NOT NULL,
    evidence_specimen_id INTEGER,
    evidence_publication_id INTEGER,
    first_reported_year INTEGER,
    association_specificity TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (fungal_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (plant_partner_id) REFERENCES eco_plant_partners (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (fungal_species_id, plant_partner_id)
);
CREATE INDEX ix_eco_mycorrhiza_ericoid_fungal_species_id ON eco_mycorrhiza_ericoid (fungal_species_id);
CREATE INDEX ix_eco_mycorrhiza_ericoid_plant_partner_id ON eco_mycorrhiza_ericoid (plant_partner_id);

CREATE TABLE eco_mycorrhiza_orchid (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    fungal_species_id INTEGER NOT NULL,
    plant_partner_id INTEGER NOT NULL,
    evidence_specimen_id INTEGER,
    evidence_publication_id INTEGER,
    first_reported_year INTEGER,
    association_specificity TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (fungal_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (plant_partner_id) REFERENCES eco_plant_partners (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (fungal_species_id, plant_partner_id)
);
CREATE INDEX ix_eco_mycorrhiza_orchid_fungal_species_id ON eco_mycorrhiza_orchid (fungal_species_id);
CREATE INDEX ix_eco_mycorrhiza_orchid_plant_partner_id ON eco_mycorrhiza_orchid (plant_partner_id);

CREATE TABLE eco_mycorrhiza_monotropoid (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    fungal_species_id INTEGER NOT NULL,
    plant_partner_id INTEGER NOT NULL,
    evidence_specimen_id INTEGER,
    evidence_publication_id INTEGER,
    first_reported_year INTEGER,
    association_specificity TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (fungal_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (plant_partner_id) REFERENCES eco_plant_partners (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (fungal_species_id, plant_partner_id)
);
CREATE INDEX ix_eco_mycorrhiza_monotropoid_fungal_species_id ON eco_mycorrhiza_monotropoid (fungal_species_id);
CREATE INDEX ix_eco_mycorrhiza_monotropoid_plant_partner_id ON eco_mycorrhiza_monotropoid (plant_partner_id);

CREATE TABLE eco_mycorrhiza_arbutoid (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    fungal_species_id INTEGER NOT NULL,
    plant_partner_id INTEGER NOT NULL,
    evidence_specimen_id INTEGER,
    evidence_publication_id INTEGER,
    first_reported_year INTEGER,
    association_specificity TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (fungal_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (plant_partner_id) REFERENCES eco_plant_partners (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (fungal_species_id, plant_partner_id)
);
CREATE INDEX ix_eco_mycorrhiza_arbutoid_fungal_species_id ON eco_mycorrhiza_arbutoid (fungal_species_id);
CREATE INDEX ix_eco_mycorrhiza_arbutoid_plant_partner_id ON eco_mycorrhiza_arbutoid (plant_partner_id);

CREATE TABLE eco_mycorrhiza_ectendomycorrhizal (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    fungal_species_id INTEGER NOT NULL,
    plant_partner_id INTEGER NOT NULL,
    evidence_specimen_id INTEGER,
    evidence_publication_id INTEGER,
    first_reported_year INTEGER,
    association_specificity TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (fungal_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (plant_partner_id) REFERENCES eco_plant_partners (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (fungal_species_id, plant_partner_id)
);
CREATE INDEX ix_eco_mycorrhiza_ectendomycorrhizal_fungal_species_id ON eco_mycorrhiza_ectendomycorrhizal (fungal_species_id);
CREATE INDEX ix_eco_mycorrhiza_ectendomycorrhizal_plant_partner_id ON eco_mycorrhiza_ectendomycorrhizal (plant_partner_id);

CREATE TABLE eco_phenology_observations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    locality_id INTEGER,
    observation_year INTEGER,
    first_fruit_doy INTEGER CHECK (first_fruit_doy BETWEEN 1 AND 366),
    peak_fruit_doy INTEGER CHECK (peak_fruit_doy BETWEEN 1 AND 366),
    last_fruit_doy INTEGER CHECK (last_fruit_doy BETWEEN 1 AND 366),
    season_id INTEGER,
    data_source TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (season_id) REFERENCES eco_phenology_seasons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_eco_phenology_observations_species_id ON eco_phenology_observations (species_id);
CREATE INDEX ix_eco_phenology_observations_observation_year ON eco_phenology_observations (observation_year);

CREATE TABLE eco_iucn_assessments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    assessment_year INTEGER NOT NULL,
    category TEXT NOT NULL CHECK (category IN ('LC','NT','VU','EN','CR','EW','EX','DD','NE')),
    criteria TEXT,
    rationale TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, assessment_year)
);
CREATE INDEX ix_eco_iucn_assessments_category ON eco_iucn_assessments (category);
CREATE INDEX ix_eco_iucn_assessments_assessment_year ON eco_iucn_assessments (assessment_year);

CREATE TABLE gen_sequencing_platforms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_gen_sequencing_platforms_is_active ON gen_sequencing_platforms (is_active);
CREATE INDEX ix_gen_sequencing_platforms_label ON gen_sequencing_platforms (label);

CREATE TABLE gen_library_kit_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_gen_library_kit_types_is_active ON gen_library_kit_types (is_active);
CREATE INDEX ix_gen_library_kit_types_label ON gen_library_kit_types (label);

CREATE TABLE gen_assembly_software (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_gen_assembly_software_is_active ON gen_assembly_software (is_active);
CREATE INDEX ix_gen_assembly_software_label ON gen_assembly_software (label);

CREATE TABLE gen_alignment_software (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_gen_alignment_software_is_active ON gen_alignment_software (is_active);
CREATE INDEX ix_gen_alignment_software_label ON gen_alignment_software (label);

CREATE TABLE gen_dna_extracts (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    specimen_id INTEGER NOT NULL,
    extract_code TEXT NOT NULL,
    extracted_at TEXT,
    extracted_by_person_id INTEGER,
    extraction_kit TEXT,
    concentration_ng_per_ul REAL,
    a260_a280_ratio REAL,
    a260_a230_ratio REAL,
    storage_location TEXT,
    is_depleted INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (extracted_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (extract_code)
);
CREATE INDEX ix_gen_dna_extracts_specimen_id ON gen_dna_extracts (specimen_id);

CREATE TABLE gen_libraries (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    dna_extract_id INTEGER NOT NULL,
    library_code TEXT NOT NULL,
    kit_type_id INTEGER,
    insert_size_mean_bp INTEGER,
    library_concentration_nm REAL,
    prepared_at TEXT,
    prepared_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (dna_extract_id) REFERENCES gen_dna_extracts (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (kit_type_id) REFERENCES gen_library_kit_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (prepared_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (library_code)
);

CREATE TABLE gen_sequencing_runs (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    run_code TEXT NOT NULL,
    platform_id INTEGER NOT NULL,
    instrument_serial TEXT,
    run_started_at TEXT,
    run_finished_at TEXT,
    flow_cell_id TEXT,
    read_length_cycles INTEGER,
    operator_user_id INTEGER,
    output_yield_gb REAL,
    q30_percent REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (platform_id) REFERENCES gen_sequencing_platforms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (operator_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (run_code)
);

CREATE TABLE gen_run_libraries (
    run_id INTEGER NOT NULL,
    library_id INTEGER NOT NULL,
    barcode_index TEXT,
    read_count INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (run_id, library_id),
    FOREIGN KEY (run_id) REFERENCES gen_sequencing_runs (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (library_id) REFERENCES gen_libraries (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_run_libraries_library_id ON gen_run_libraries (library_id);

CREATE TABLE gen_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    specimen_id INTEGER,
    dna_extract_id INTEGER,
    library_id INTEGER,
    locus TEXT,
    genbank_accession TEXT,
    sequence_md5 TEXT NOT NULL,
    length_bp INTEGER NOT NULL,
    gc_content_pct REAL,
    sequence_text TEXT NOT NULL,
    sequence_quality_text TEXT,
    submitted_to_genbank_at TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dna_extract_id) REFERENCES gen_dna_extracts (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (library_id) REFERENCES gen_libraries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (genbank_accession),
    UNIQUE (sequence_md5, locus)
);
CREATE INDEX ix_gen_sequences_locus ON gen_sequences (locus);
CREATE INDEX ix_gen_sequences_specimen_id ON gen_sequences (specimen_id);
CREATE INDEX ix_gen_sequences_genbank_accession ON gen_sequences (genbank_accession);

CREATE TABLE gen_assemblies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    specimen_id INTEGER,
    strain_code TEXT,
    assembly_code TEXT NOT NULL,
    assembly_software_id INTEGER,
    assembly_software_version TEXT,
    genome_size_bp INTEGER,
    contig_n50_bp INTEGER,
    scaffold_count INTEGER,
    busco_complete_pct REAL,
    ncbi_assembly_accession TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (assembly_software_id) REFERENCES gen_assembly_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (assembly_code),
    UNIQUE (ncbi_assembly_accession)
);

CREATE TABLE gen_genes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    gene_symbol TEXT,
    locus_tag TEXT,
    scaffold_name TEXT,
    start_bp INTEGER,
    end_bp INTEGER,
    strand TEXT CHECK (strand IN ('+','-')),
    product_description TEXT,
    ec_number TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_genes_assembly_id ON gen_genes (assembly_id);
CREATE INDEX ix_gen_genes_locus_tag ON gen_genes (locus_tag);
CREATE INDEX ix_gen_genes_gene_symbol ON gen_genes (gene_symbol);

CREATE TABLE gen_proteins (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    gene_id INTEGER NOT NULL,
    uniprot_accession TEXT,
    length_aa INTEGER,
    molecular_weight_da REAL,
    isoelectric_point REAL,
    amino_acid_sequence TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (gene_id) REFERENCES gen_genes (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (uniprot_accession)
);

CREATE TABLE gen_orthogroups (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    orthogroup_code TEXT NOT NULL,
    inferred_by_software TEXT,
    species_count INTEGER,
    gene_count INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (orthogroup_code)
);

CREATE TABLE gen_orthogroup_members (
    orthogroup_id INTEGER NOT NULL,
    protein_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (orthogroup_id, protein_id),
    FOREIGN KEY (orthogroup_id) REFERENCES gen_orthogroups (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (protein_id) REFERENCES gen_proteins (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_orthogroup_members_protein_id ON gen_orthogroup_members (protein_id);

CREATE TABLE gen_variants (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    scaffold_name TEXT NOT NULL,
    position_bp INTEGER NOT NULL,
    ref_allele TEXT NOT NULL,
    alt_allele TEXT NOT NULL,
    variant_type TEXT NOT NULL CHECK (variant_type IN ('SNP','INS','DEL','MNP','SV')),
    quality_score REAL,
    annotation_impact TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_variants_assembly_id_scaffold_name_position_bp ON gen_variants (assembly_id, scaffold_name, position_bp);
CREATE INDEX ix_gen_variants_variant_type ON gen_variants (variant_type);

CREATE TABLE gen_marker_its_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_its_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_its_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_its_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_its_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_its_alignment_members_marker_sequence_id ON gen_marker_its_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_its_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_its_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_lsu_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_lsu_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_lsu_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_lsu_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_lsu_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_lsu_alignment_members_marker_sequence_id ON gen_marker_lsu_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_lsu_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_lsu_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_ssu_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_ssu_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_ssu_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_ssu_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_ssu_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_ssu_alignment_members_marker_sequence_id ON gen_marker_ssu_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_ssu_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_ssu_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_rpb1_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_rpb1_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_rpb1_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_rpb1_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_rpb1_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_rpb1_alignment_members_marker_sequence_id ON gen_marker_rpb1_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_rpb1_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_rpb1_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_rpb2_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_rpb2_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_rpb2_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_rpb2_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_rpb2_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_rpb2_alignment_members_marker_sequence_id ON gen_marker_rpb2_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_rpb2_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_rpb2_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_ef1a_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_ef1a_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_ef1a_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_ef1a_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_ef1a_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_ef1a_alignment_members_marker_sequence_id ON gen_marker_ef1a_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_ef1a_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_ef1a_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_tub2_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_tub2_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_tub2_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_tub2_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_tub2_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_tub2_alignment_members_marker_sequence_id ON gen_marker_tub2_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_tub2_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_tub2_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_mcm7_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_mcm7_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_mcm7_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_mcm7_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_mcm7_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_mcm7_alignment_members_marker_sequence_id ON gen_marker_mcm7_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_mcm7_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_mcm7_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_act_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_act_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_act_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_act_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_act_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_act_alignment_members_marker_sequence_id ON gen_marker_act_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_act_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_act_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_cal_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_cal_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_cal_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_cal_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_cal_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_cal_alignment_members_marker_sequence_id ON gen_marker_cal_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_cal_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_cal_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_gpd_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_gpd_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_gpd_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_gpd_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_gpd_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_gpd_alignment_members_marker_sequence_id ON gen_marker_gpd_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_gpd_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_gpd_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_atp6_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_atp6_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_atp6_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_atp6_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_atp6_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_atp6_alignment_members_marker_sequence_id ON gen_marker_atp6_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_atp6_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_atp6_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_cox1_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_cox1_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_cox1_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_cox1_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_cox1_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_cox1_alignment_members_marker_sequence_id ON gen_marker_cox1_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_cox1_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_cox1_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_cox3_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_cox3_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_cox3_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_cox3_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_cox3_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_cox3_alignment_members_marker_sequence_id ON gen_marker_cox3_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_cox3_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_cox3_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE gen_marker_nadh_sequences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    sequence_id INTEGER NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    trimmed_length_bp INTEGER,
    aligned_length_bp INTEGER,
    is_reference INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (sequence_id) REFERENCES gen_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE gen_marker_nadh_alignments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    alignment_code TEXT NOT NULL,
    software_id INTEGER,
    software_version TEXT,
    n_sequences INTEGER,
    alignment_length_bp INTEGER,
    trimmed_with TEXT,
    created_by_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES gen_alignment_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (alignment_code)
);

CREATE TABLE gen_marker_nadh_alignment_members (
    alignment_id INTEGER NOT NULL,
    marker_sequence_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (alignment_id, marker_sequence_id),
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_nadh_alignments (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (marker_sequence_id) REFERENCES gen_marker_nadh_sequences (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_marker_nadh_alignment_members_marker_sequence_id ON gen_marker_nadh_alignment_members (marker_sequence_id);

CREATE TABLE gen_marker_nadh_consensus (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    alignment_id INTEGER,
    consensus_length_bp INTEGER,
    consensus_sequence TEXT NOT NULL,
    ambiguity_threshold_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (alignment_id) REFERENCES gen_marker_nadh_alignments (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, alignment_id)
);

CREATE TABLE bio_compound_classes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_bio_compound_classes_is_active ON bio_compound_classes (is_active);
CREATE INDEX ix_bio_compound_classes_label ON bio_compound_classes (label);

CREATE TABLE bio_compounds (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_class_id INTEGER,
    preferred_name TEXT NOT NULL,
    iupac_name TEXT,
    inchi TEXT,
    inchi_key TEXT,
    smiles TEXT,
    cas_number TEXT,
    molecular_formula TEXT,
    monoisotopic_mass_da REAL,
    logp REAL,
    is_secondary_metabolite INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_class_id) REFERENCES bio_compound_classes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (inchi_key),
    UNIQUE (cas_number)
);
CREATE INDEX ix_bio_compounds_preferred_name ON bio_compounds (preferred_name);
CREATE INDEX ix_bio_compounds_compound_class_id ON bio_compounds (compound_class_id);

CREATE TABLE bio_compound_synonyms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    synonym TEXT NOT NULL,
    is_preferred INTEGER NOT NULL DEFAULT 0,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_bio_compound_synonyms_compound_id ON bio_compound_synonyms (compound_id);
CREATE INDEX ix_bio_compound_synonyms_synonym ON bio_compound_synonyms (synonym);

CREATE TABLE bio_species_compound_occurrences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    specimen_id INTEGER,
    concentration_mg_per_g REAL,
    detection_method TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_bio_species_compound_occurrences_species_id ON bio_species_compound_occurrences (species_id);
CREATE INDEX ix_bio_species_compound_occurrences_compound_id ON bio_species_compound_occurrences (compound_id);

CREATE TABLE bio_biosynthetic_gene_clusters (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    scaffold_name TEXT,
    start_bp INTEGER,
    end_bp INTEGER,
    cluster_type TEXT,
    predicted_product_compound_id INTEGER,
    antismash_version TEXT,
    similarity_to_known_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (predicted_product_compound_id) REFERENCES bio_compounds (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_bio_biosynthetic_gene_clusters_assembly_id ON bio_biosynthetic_gene_clusters (assembly_id);
CREATE INDEX ix_bio_biosynthetic_gene_clusters_cluster_type ON bio_biosynthetic_gene_clusters (cluster_type);

CREATE TABLE bio_enzymes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    ec_number TEXT NOT NULL,
    recommended_name TEXT NOT NULL,
    reaction_summary TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (ec_number)
);

CREATE TABLE bio_protein_enzymes (
    protein_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    PRIMARY KEY (protein_id, enzyme_id),
    FOREIGN KEY (protein_id) REFERENCES gen_proteins (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_bio_protein_enzymes_enzyme_id ON bio_protein_enzymes (enzyme_id);

CREATE TABLE bio_toxin_amatoxins (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_toxin_phallotoxins (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_toxin_orellanines (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_toxin_gyromitrins (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_toxin_muscarines (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_toxin_ibotenic_acids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_toxin_psilocybins (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_toxin_coprines (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    ld50_mg_per_kg_mouse REAL,
    primary_target_organ TEXT,
    symptom_onset_hours_min REAL,
    symptom_onset_hours_max REAL,
    antidote_summary TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_pigments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    absorption_max_nm REAL,
    color_label TEXT,
    known_function TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE bio_antimicrobial_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    compound_id INTEGER NOT NULL,
    target_organism TEXT NOT NULL,
    assay_type TEXT,
    value REAL,
    value_unit TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_bio_antimicrobial_assays_compound_id ON bio_antimicrobial_assays (compound_id);
CREATE INDEX ix_bio_antimicrobial_assays_target_organism ON bio_antimicrobial_assays (target_organism);

CREATE TABLE phy_software (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_phy_software_is_active ON phy_software (is_active);
CREATE INDEX ix_phy_software_label ON phy_software (label);

CREATE TABLE phy_substitution_models (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_phy_substitution_models_is_active ON phy_substitution_models (is_active);
CREATE INDEX ix_phy_substitution_models_label ON phy_substitution_models (label);

CREATE TABLE phy_trees (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    tree_code TEXT NOT NULL,
    scope_summary TEXT,
    focal_rank TEXT,
    focal_taxon_id INTEGER,
    software_id INTEGER,
    model_id INTEGER,
    n_tips INTEGER,
    inference_method TEXT CHECK (inference_method IN ('ML','BAYESIAN','MP','NJ','UPGMA','SPLITS')),
    bootstrap_replicates INTEGER,
    created_by_person_id INTEGER,
    publication_id INTEGER,
    newick_file_uri TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (software_id) REFERENCES phy_software (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (model_id) REFERENCES phy_substitution_models (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (tree_code)
);

CREATE TABLE phy_tree_inputs (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    alignment_table TEXT NOT NULL,
    alignment_id INTEGER NOT NULL,
    partition_label TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_phy_tree_inputs_tree_id ON phy_tree_inputs (tree_id);
CREATE INDEX ix_phy_tree_inputs_alignment_table_alignment_id ON phy_tree_inputs (alignment_table, alignment_id);

CREATE TABLE phy_tree_tips (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    tip_label TEXT NOT NULL,
    species_id INTEGER,
    specimen_id INTEGER,
    branch_length REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_phy_tree_tips_tree_id ON phy_tree_tips (tree_id);
CREATE INDEX ix_phy_tree_tips_species_id ON phy_tree_tips (species_id);

CREATE TABLE phy_node_supports (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    node_label TEXT,
    support_type TEXT NOT NULL CHECK (support_type IN ('BS','UFBS','aLRT','PP','TBE','SH-aLRT')),
    support_value REAL NOT NULL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_phy_node_supports_tree_id ON phy_node_supports (tree_id);

CREATE TABLE phy_divergence_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    clade_label TEXT NOT NULL,
    estimated_age_mya REAL,
    hpd_lower_mya REAL,
    hpd_upper_mya REAL,
    calibration_basis TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE cul_media_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_cul_media_types_is_active ON cul_media_types (is_active);
CREATE INDEX ix_cul_media_types_label ON cul_media_types (label);

CREATE TABLE cul_media_recipes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    media_type_id INTEGER NOT NULL,
    name TEXT NOT NULL,
    ph_target REAL,
    agar_pct REAL,
    recipe_text TEXT NOT NULL,
    source_publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (media_type_id) REFERENCES cul_media_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (source_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE cul_strains (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    strain_code TEXT NOT NULL,
    species_id INTEGER,
    source_specimen_id INTEGER,
    isolation_method TEXT,
    isolated_at TEXT,
    isolated_by_person_id INTEGER,
    holding_collection_id INTEGER,
    public_accession TEXT,
    is_living INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (source_specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (isolated_by_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (holding_collection_id) REFERENCES people_institutions (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (strain_code),
    UNIQUE (public_accession)
);
CREATE INDEX ix_cul_strains_species_id ON cul_strains (species_id);
CREATE INDEX ix_cul_strains_public_accession ON cul_strains (public_accession);

CREATE TABLE cul_growth_experiments (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    strain_id INTEGER NOT NULL,
    media_recipe_id INTEGER NOT NULL,
    temperature_c REAL,
    photoperiod_hours_light REAL,
    relative_humidity_pct REAL,
    inoculation_at TEXT,
    scored_at TEXT,
    colony_diameter_mm REAL,
    growth_rate_mm_per_day REAL,
    colony_morphology_text TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (media_recipe_id) REFERENCES cul_media_recipes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_cul_growth_experiments_strain_id ON cul_growth_experiments (strain_id);

CREATE TABLE cul_fruiting_protocols (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_recipe TEXT NOT NULL,
    spawn_run_temperature_c REAL,
    pinning_humidity_pct REAL,
    fruiting_temperature_c REAL,
    co2_ppm_target INTEGER,
    first_flush_days INTEGER,
    biological_efficiency_pct REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE cul_strain_storage_events (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    strain_id INTEGER NOT NULL,
    storage_method TEXT NOT NULL,
    stored_at TEXT NOT NULL,
    revived_at TEXT,
    viability_after_revival TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE pat_host_organism_kingdoms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_pat_host_organism_kingdoms_is_active ON pat_host_organism_kingdoms (is_active);
CREATE INDEX ix_pat_host_organism_kingdoms_label ON pat_host_organism_kingdoms (label);

CREATE TABLE pat_host_organisms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    host_kingdom_id INTEGER NOT NULL,
    host_family TEXT,
    host_genus TEXT,
    host_species TEXT,
    common_name TEXT,
    economic_importance_note TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (host_kingdom_id) REFERENCES pat_host_organism_kingdoms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_pat_host_organisms_host_family ON pat_host_organisms (host_family);
CREATE INDEX ix_pat_host_organisms_host_genus ON pat_host_organisms (host_genus);

CREATE TABLE pat_diseases (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_pat_diseases_is_active ON pat_diseases (is_active);
CREATE INDEX ix_pat_diseases_label ON pat_diseases (label);

CREATE TABLE pat_disease_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER NOT NULL,
    infection_mode TEXT,
    first_reported_year INTEGER,
    primary_evidence_publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (primary_evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (species_id, host_id, disease_id)
);

CREATE TABLE pat_clinical_isolates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    strain_id INTEGER,
    species_id INTEGER,
    patient_age_years INTEGER,
    patient_sex TEXT CHECK (patient_sex IN ('M','F','O','U')),
    isolation_body_site TEXT,
    clinical_outcome TEXT,
    hospital_country_id INTEGER,
    isolated_at TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (hospital_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_pat_clinical_isolates_species_id ON pat_clinical_isolates (species_id);

CREATE TABLE pat_antifungal_susceptibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    isolate_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    mic_value REAL,
    mic_unit TEXT,
    susceptibility_call TEXT CHECK (susceptibility_call IN ('S','I','R','SDD')),
    method TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (isolate_id) REFERENCES pat_clinical_isolates (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_pat_antifungal_susceptibility_isolate_id ON pat_antifungal_susceptibility (isolate_id);

CREATE TABLE lic_growth_forms (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_lic_growth_forms_is_active ON lic_growth_forms (is_active);
CREATE INDEX ix_lic_growth_forms_label ON lic_growth_forms (label);

CREATE TABLE lic_photobiont_groups (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_lic_photobiont_groups_is_active ON lic_photobiont_groups (is_active);
CREATE INDEX ix_lic_photobiont_groups_label ON lic_photobiont_groups (label);

CREATE TABLE lic_lichens (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    mycobiont_species_id INTEGER NOT NULL,
    primary_photobiont_id INTEGER,
    growth_form_id INTEGER,
    upper_cortex_pigment TEXT,
    medulla_compounds_summary TEXT,
    specific_conductance_response TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (mycobiont_species_id) REFERENCES tax_species (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (primary_photobiont_id) REFERENCES lic_photobiont_groups (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (growth_form_id) REFERENCES lic_growth_forms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (mycobiont_species_id)
);

CREATE TABLE lic_secondary_substances (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    lichen_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    anatomical_layer TEXT,
    detection_method TEXT,
    publication_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (lichen_id) REFERENCES lic_lichens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE lic_spot_tests (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    anatomical_layer TEXT NOT NULL,
    reagent_id INTEGER NOT NULL,
    reaction_color TEXT,
    reaction_kind TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (reagent_id) REFERENCES mor_chemical_reagents (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);

CREATE TABLE field_expeditions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    name TEXT NOT NULL,
    acronym TEXT,
    country_id INTEGER,
    start_date TEXT,
    end_date TEXT,
    lead_person_id INTEGER,
    funding_source TEXT,
    description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (lead_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_field_expeditions_country_id ON field_expeditions (country_id);
CREATE INDEX ix_field_expeditions_start_date ON field_expeditions (start_date);

CREATE TABLE field_plots (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    expedition_id INTEGER NOT NULL,
    plot_code TEXT NOT NULL,
    locality_id INTEGER,
    area_m2 REAL,
    vegetation_type_id INTEGER,
    soil_order_id INTEGER,
    established_date TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (expedition_id) REFERENCES field_expeditions (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (locality_id) REFERENCES geo_localities (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (vegetation_type_id) REFERENCES geo_vegetation_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (soil_order_id) REFERENCES geo_soil_orders (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (expedition_id, plot_code)
);
CREATE INDEX ix_field_plots_expedition_id ON field_plots (expedition_id);

CREATE TABLE field_transects (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    plot_id INTEGER NOT NULL,
    transect_code TEXT NOT NULL,
    length_m REAL,
    bearing_deg REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (plot_id) REFERENCES field_plots (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (plot_id, transect_code)
);

CREATE TABLE field_weather_logs (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    plot_id INTEGER NOT NULL,
    logged_at TEXT NOT NULL,
    temperature_c REAL,
    relative_humidity_pct REAL,
    rainfall_mm REAL,
    wind_speed_ms REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (plot_id) REFERENCES field_plots (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_field_weather_logs_plot_id_logged_at ON field_weather_logs (plot_id, logged_at);

CREATE TABLE field_observations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    plot_id INTEGER NOT NULL,
    observed_at TEXT NOT NULL,
    species_id INTEGER,
    count_individuals INTEGER,
    biomass_g REAL,
    specimen_id INTEGER,
    observer_person_id INTEGER,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (plot_id) REFERENCES field_plots (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (observer_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_field_observations_plot_id ON field_observations (plot_id);
CREATE INDEX ix_field_observations_species_id ON field_observations (species_id);
CREATE INDEX ix_field_observations_observed_at ON field_observations (observed_at);

CREATE TABLE cur_quality_flag_types (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_cur_quality_flag_types_is_active ON cur_quality_flag_types (is_active);
CREATE INDEX ix_cur_quality_flag_types_label ON cur_quality_flag_types (label);

CREATE TABLE cur_quality_flags (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    flag_type_id INTEGER NOT NULL,
    target_table TEXT NOT NULL,
    target_id INTEGER NOT NULL,
    severity TEXT NOT NULL DEFAULT 'warning' CHECK (severity IN ('info','warning','error')),
    opened_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    opened_by_user_id INTEGER,
    resolved_at TEXT,
    resolved_by_user_id INTEGER,
    resolution_note TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (flag_type_id) REFERENCES cur_quality_flag_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (opened_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (resolved_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_cur_quality_flags_target_table_target_id ON cur_quality_flags (target_table, target_id);
CREATE INDEX ix_cur_quality_flags_severity ON cur_quality_flags (severity);

CREATE TABLE cur_workflow_states (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    entity_table TEXT NOT NULL,
    entity_id INTEGER NOT NULL,
    state TEXT NOT NULL,
    entered_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    entered_by_user_id INTEGER,
    note TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (entered_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_cur_workflow_states_entity_table_entity_id ON cur_workflow_states (entity_table, entity_id);
CREATE INDEX ix_cur_workflow_states_state ON cur_workflow_states (state);

CREATE TABLE cur_data_sources (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_code TEXT NOT NULL,
    source_name TEXT NOT NULL,
    source_url TEXT,
    license TEXT,
    last_synced_at TEXT,
    description TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (source_code)
);

CREATE TABLE cur_provenance (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    entity_table TEXT NOT NULL,
    entity_id INTEGER NOT NULL,
    source_id INTEGER NOT NULL,
    external_id TEXT,
    imported_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (source_id) REFERENCES cur_data_sources (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_cur_provenance_entity_table_entity_id ON cur_provenance (entity_table, entity_id);
CREATE INDEX ix_cur_provenance_source_id ON cur_provenance (source_id);

CREATE TABLE img_image_kinds (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_img_image_kinds_is_active ON img_image_kinds (is_active);
CREATE INDEX ix_img_image_kinds_label ON img_image_kinds (label);

CREATE TABLE img_licenses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    code TEXT NOT NULL,
    label TEXT NOT NULL,
    description TEXT,
    display_order INTEGER NOT NULL DEFAULT 0,
    is_active INTEGER NOT NULL DEFAULT 1,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (code)
);
CREATE INDEX ix_img_licenses_is_active ON img_licenses (is_active);
CREATE INDEX ix_img_licenses_label ON img_licenses (label);

CREATE TABLE img_images (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    uuid TEXT NOT NULL DEFAULT (lower(hex(randomblob(4))) || '-' || lower(hex(randomblob(2))) || '-4' || substr(lower(hex(randomblob(2))),2) || '-' || substr('89ab',abs(random()) % 4 + 1, 1) || substr(lower(hex(randomblob(2))),2) || '-' || lower(hex(randomblob(6)))),
    file_uri TEXT NOT NULL,
    kind_id INTEGER NOT NULL,
    license_id INTEGER,
    photographer_person_id INTEGER,
    captured_at TEXT,
    width_px INTEGER,
    height_px INTEGER,
    file_size_bytes INTEGER,
    md5_checksum TEXT,
    caption TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (kind_id) REFERENCES img_image_kinds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (license_id) REFERENCES img_licenses (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (photographer_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    UNIQUE (uuid)
);
CREATE INDEX ix_img_images_kind_id ON img_images (kind_id);
CREATE INDEX ix_img_images_captured_at ON img_images (captured_at);

CREATE TABLE img_image_links (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    image_id INTEGER NOT NULL,
    entity_table TEXT NOT NULL,
    entity_id INTEGER NOT NULL,
    link_role TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (image_id) REFERENCES img_images (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_img_image_links_image_id ON img_image_links (image_id);
CREATE INDEX ix_img_image_links_entity_table_entity_id ON img_image_links (entity_table, entity_id);

CREATE TABLE img_image_annotations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    image_id INTEGER NOT NULL,
    annotator_person_id INTEGER,
    annotation_kind TEXT NOT NULL,
    geometry_json TEXT,
    label_text TEXT,
    confidence REAL,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (image_id) REFERENCES img_images (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (annotator_person_id) REFERENCES people_persons (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_img_image_annotations_image_id ON img_image_annotations (image_id);

CREATE TABLE ord_agaricales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_morphology_specimen_id ON ord_agaricales_morphology (specimen_id);
CREATE INDEX ix_ord_agaricales_morphology_species_id ON ord_agaricales_morphology (species_id);

CREATE TABLE ord_agaricales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_ecology_species_id ON ord_agaricales_ecology (species_id);
CREATE INDEX ix_ord_agaricales_ecology_dominant_habitat_id ON ord_agaricales_ecology (dominant_habitat_id);

CREATE TABLE ord_agaricales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_phenology_species_id ON ord_agaricales_phenology (species_id);
CREATE INDEX ix_ord_agaricales_phenology_region_country_id ON ord_agaricales_phenology (region_country_id);

CREATE TABLE ord_agaricales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_host_associations_species_id ON ord_agaricales_host_associations (species_id);
CREATE INDEX ix_ord_agaricales_host_associations_host_id ON ord_agaricales_host_associations (host_id);

CREATE TABLE ord_agaricales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_substrate_preferences_species_id ON ord_agaricales_substrate_preferences (species_id);
CREATE INDEX ix_ord_agaricales_substrate_preferences_substrate_id ON ord_agaricales_substrate_preferences (substrate_id);

CREATE TABLE ord_agaricales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_geographic_distribution_species_id ON ord_agaricales_geographic_distribution (species_id);
CREATE INDEX ix_ord_agaricales_geographic_distribution_country_id ON ord_agaricales_geographic_distribution (country_id);

CREATE TABLE ord_agaricales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_phylogeny_tree_id ON ord_agaricales_phylogeny (tree_id);
CREATE INDEX ix_ord_agaricales_phylogeny_focal_genus_id ON ord_agaricales_phylogeny (focal_genus_id);

CREATE TABLE ord_agaricales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_genomics_assembly_id ON ord_agaricales_genomics (assembly_id);
CREATE INDEX ix_ord_agaricales_genomics_species_id ON ord_agaricales_genomics (species_id);

CREATE TABLE ord_agaricales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_biochemistry_species_id ON ord_agaricales_biochemistry (species_id);
CREATE INDEX ix_ord_agaricales_biochemistry_compound_id ON ord_agaricales_biochemistry (compound_id);

CREATE TABLE ord_agaricales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_cultivation_notes_species_id ON ord_agaricales_cultivation_notes (species_id);
CREATE INDEX ix_ord_agaricales_cultivation_notes_strain_id ON ord_agaricales_cultivation_notes (strain_id);

CREATE TABLE ord_agaricales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_pathogenicity_species_id ON ord_agaricales_pathogenicity (species_id);
CREATE INDEX ix_ord_agaricales_pathogenicity_host_id ON ord_agaricales_pathogenicity (host_id);

CREATE TABLE ord_agaricales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_edibility_species_id ON ord_agaricales_edibility (species_id);
CREATE INDEX ix_ord_agaricales_edibility_regional_tradition_country_id ON ord_agaricales_edibility (regional_tradition_country_id);

CREATE TABLE ord_agaricales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_medicinal_uses_species_id ON ord_agaricales_medicinal_uses (species_id);
CREATE INDEX ix_ord_agaricales_medicinal_uses_publication_id ON ord_agaricales_medicinal_uses (publication_id);

CREATE TABLE ord_agaricales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_taxonomic_revisions_publication_id ON ord_agaricales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_agaricales_taxonomic_revisions_affected_family_id ON ord_agaricales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_agaricales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_conservation_status_species_id ON ord_agaricales_conservation_status (species_id);
CREATE INDEX ix_ord_agaricales_conservation_status_country_id ON ord_agaricales_conservation_status (country_id);

CREATE TABLE ord_agaricales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_diagnostic_keys_publication_id ON ord_agaricales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_agaricales_diagnostic_keys_region_country_id ON ord_agaricales_diagnostic_keys (region_country_id);

CREATE TABLE ord_agaricales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_type_species_register_focal_genus_id ON ord_agaricales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_agaricales_type_species_register_type_species_id ON ord_agaricales_type_species_register (type_species_id);

CREATE TABLE ord_agaricales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_distribution_grids_species_id ON ord_agaricales_distribution_grids (species_id);
CREATE INDEX ix_ord_agaricales_distribution_grids_country_id ON ord_agaricales_distribution_grids (country_id);

CREATE TABLE ord_agaricales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_microclimate_studies_species_id ON ord_agaricales_microclimate_studies (species_id);
CREATE INDEX ix_ord_agaricales_microclimate_studies_publication_id ON ord_agaricales_microclimate_studies (publication_id);

CREATE TABLE ord_agaricales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_dna_barcoding_status_species_id ON ord_agaricales_dna_barcoding_status (species_id);

CREATE TABLE ord_agaricales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_spore_print_data_species_id ON ord_agaricales_spore_print_data (species_id);
CREATE INDEX ix_ord_agaricales_spore_print_data_specimen_id ON ord_agaricales_spore_print_data (specimen_id);

CREATE TABLE ord_agaricales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_mating_systems_species_id ON ord_agaricales_mating_systems (species_id);
CREATE INDEX ix_ord_agaricales_mating_systems_publication_id ON ord_agaricales_mating_systems (publication_id);

CREATE TABLE ord_agaricales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_nutrient_uptake_studies_species_id ON ord_agaricales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_agaricales_nutrient_uptake_studies_strain_id ON ord_agaricales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_agaricales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_range_maps_species_id ON ord_agaricales_range_maps (species_id);
CREATE INDEX ix_ord_agaricales_range_maps_publication_id ON ord_agaricales_range_maps (publication_id);

CREATE TABLE ord_agaricales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_abundance_estimates_species_id ON ord_agaricales_abundance_estimates (species_id);
CREATE INDEX ix_ord_agaricales_abundance_estimates_country_id ON ord_agaricales_abundance_estimates (country_id);

CREATE TABLE ord_agaricales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_toxin_profiles_species_id ON ord_agaricales_toxin_profiles (species_id);
CREATE INDEX ix_ord_agaricales_toxin_profiles_compound_id ON ord_agaricales_toxin_profiles (compound_id);

CREATE TABLE ord_agaricales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_enzyme_activity_assays_species_id ON ord_agaricales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_agaricales_enzyme_activity_assays_enzyme_id ON ord_agaricales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_agaricales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_biocontrol_evaluations_species_id ON ord_agaricales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_agaricales_biocontrol_evaluations_publication_id ON ord_agaricales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_agaricales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_agaricales_regional_checklists_species_id ON ord_agaricales_regional_checklists (species_id);
CREATE INDEX ix_ord_agaricales_regional_checklists_country_id ON ord_agaricales_regional_checklists (country_id);

CREATE TABLE ord_boletales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_morphology_specimen_id ON ord_boletales_morphology (specimen_id);
CREATE INDEX ix_ord_boletales_morphology_species_id ON ord_boletales_morphology (species_id);

CREATE TABLE ord_boletales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_ecology_species_id ON ord_boletales_ecology (species_id);
CREATE INDEX ix_ord_boletales_ecology_dominant_habitat_id ON ord_boletales_ecology (dominant_habitat_id);

CREATE TABLE ord_boletales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_phenology_species_id ON ord_boletales_phenology (species_id);
CREATE INDEX ix_ord_boletales_phenology_region_country_id ON ord_boletales_phenology (region_country_id);

CREATE TABLE ord_boletales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_host_associations_species_id ON ord_boletales_host_associations (species_id);
CREATE INDEX ix_ord_boletales_host_associations_host_id ON ord_boletales_host_associations (host_id);

CREATE TABLE ord_boletales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_substrate_preferences_species_id ON ord_boletales_substrate_preferences (species_id);
CREATE INDEX ix_ord_boletales_substrate_preferences_substrate_id ON ord_boletales_substrate_preferences (substrate_id);

CREATE TABLE ord_boletales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_geographic_distribution_species_id ON ord_boletales_geographic_distribution (species_id);
CREATE INDEX ix_ord_boletales_geographic_distribution_country_id ON ord_boletales_geographic_distribution (country_id);

CREATE TABLE ord_boletales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_phylogeny_tree_id ON ord_boletales_phylogeny (tree_id);
CREATE INDEX ix_ord_boletales_phylogeny_focal_genus_id ON ord_boletales_phylogeny (focal_genus_id);

CREATE TABLE ord_boletales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_genomics_assembly_id ON ord_boletales_genomics (assembly_id);
CREATE INDEX ix_ord_boletales_genomics_species_id ON ord_boletales_genomics (species_id);

CREATE TABLE ord_boletales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_biochemistry_species_id ON ord_boletales_biochemistry (species_id);
CREATE INDEX ix_ord_boletales_biochemistry_compound_id ON ord_boletales_biochemistry (compound_id);

CREATE TABLE ord_boletales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_cultivation_notes_species_id ON ord_boletales_cultivation_notes (species_id);
CREATE INDEX ix_ord_boletales_cultivation_notes_strain_id ON ord_boletales_cultivation_notes (strain_id);

CREATE TABLE ord_boletales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_pathogenicity_species_id ON ord_boletales_pathogenicity (species_id);
CREATE INDEX ix_ord_boletales_pathogenicity_host_id ON ord_boletales_pathogenicity (host_id);

CREATE TABLE ord_boletales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_edibility_species_id ON ord_boletales_edibility (species_id);
CREATE INDEX ix_ord_boletales_edibility_regional_tradition_country_id ON ord_boletales_edibility (regional_tradition_country_id);

CREATE TABLE ord_boletales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_medicinal_uses_species_id ON ord_boletales_medicinal_uses (species_id);
CREATE INDEX ix_ord_boletales_medicinal_uses_publication_id ON ord_boletales_medicinal_uses (publication_id);

CREATE TABLE ord_boletales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_taxonomic_revisions_publication_id ON ord_boletales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_boletales_taxonomic_revisions_affected_family_id ON ord_boletales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_boletales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_conservation_status_species_id ON ord_boletales_conservation_status (species_id);
CREATE INDEX ix_ord_boletales_conservation_status_country_id ON ord_boletales_conservation_status (country_id);

CREATE TABLE ord_boletales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_diagnostic_keys_publication_id ON ord_boletales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_boletales_diagnostic_keys_region_country_id ON ord_boletales_diagnostic_keys (region_country_id);

CREATE TABLE ord_boletales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_type_species_register_focal_genus_id ON ord_boletales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_boletales_type_species_register_type_species_id ON ord_boletales_type_species_register (type_species_id);

CREATE TABLE ord_boletales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_distribution_grids_species_id ON ord_boletales_distribution_grids (species_id);
CREATE INDEX ix_ord_boletales_distribution_grids_country_id ON ord_boletales_distribution_grids (country_id);

CREATE TABLE ord_boletales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_microclimate_studies_species_id ON ord_boletales_microclimate_studies (species_id);
CREATE INDEX ix_ord_boletales_microclimate_studies_publication_id ON ord_boletales_microclimate_studies (publication_id);

CREATE TABLE ord_boletales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_dna_barcoding_status_species_id ON ord_boletales_dna_barcoding_status (species_id);

CREATE TABLE ord_boletales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_spore_print_data_species_id ON ord_boletales_spore_print_data (species_id);
CREATE INDEX ix_ord_boletales_spore_print_data_specimen_id ON ord_boletales_spore_print_data (specimen_id);

CREATE TABLE ord_boletales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_mating_systems_species_id ON ord_boletales_mating_systems (species_id);
CREATE INDEX ix_ord_boletales_mating_systems_publication_id ON ord_boletales_mating_systems (publication_id);

CREATE TABLE ord_boletales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_nutrient_uptake_studies_species_id ON ord_boletales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_boletales_nutrient_uptake_studies_strain_id ON ord_boletales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_boletales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_range_maps_species_id ON ord_boletales_range_maps (species_id);
CREATE INDEX ix_ord_boletales_range_maps_publication_id ON ord_boletales_range_maps (publication_id);

CREATE TABLE ord_boletales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_abundance_estimates_species_id ON ord_boletales_abundance_estimates (species_id);
CREATE INDEX ix_ord_boletales_abundance_estimates_country_id ON ord_boletales_abundance_estimates (country_id);

CREATE TABLE ord_boletales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_toxin_profiles_species_id ON ord_boletales_toxin_profiles (species_id);
CREATE INDEX ix_ord_boletales_toxin_profiles_compound_id ON ord_boletales_toxin_profiles (compound_id);

CREATE TABLE ord_boletales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_enzyme_activity_assays_species_id ON ord_boletales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_boletales_enzyme_activity_assays_enzyme_id ON ord_boletales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_boletales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_biocontrol_evaluations_species_id ON ord_boletales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_boletales_biocontrol_evaluations_publication_id ON ord_boletales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_boletales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_boletales_regional_checklists_species_id ON ord_boletales_regional_checklists (species_id);
CREATE INDEX ix_ord_boletales_regional_checklists_country_id ON ord_boletales_regional_checklists (country_id);

CREATE TABLE ord_russulales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_morphology_specimen_id ON ord_russulales_morphology (specimen_id);
CREATE INDEX ix_ord_russulales_morphology_species_id ON ord_russulales_morphology (species_id);

CREATE TABLE ord_russulales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_ecology_species_id ON ord_russulales_ecology (species_id);
CREATE INDEX ix_ord_russulales_ecology_dominant_habitat_id ON ord_russulales_ecology (dominant_habitat_id);

CREATE TABLE ord_russulales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_phenology_species_id ON ord_russulales_phenology (species_id);
CREATE INDEX ix_ord_russulales_phenology_region_country_id ON ord_russulales_phenology (region_country_id);

CREATE TABLE ord_russulales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_host_associations_species_id ON ord_russulales_host_associations (species_id);
CREATE INDEX ix_ord_russulales_host_associations_host_id ON ord_russulales_host_associations (host_id);

CREATE TABLE ord_russulales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_substrate_preferences_species_id ON ord_russulales_substrate_preferences (species_id);
CREATE INDEX ix_ord_russulales_substrate_preferences_substrate_id ON ord_russulales_substrate_preferences (substrate_id);

CREATE TABLE ord_russulales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_geographic_distribution_species_id ON ord_russulales_geographic_distribution (species_id);
CREATE INDEX ix_ord_russulales_geographic_distribution_country_id ON ord_russulales_geographic_distribution (country_id);

CREATE TABLE ord_russulales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_phylogeny_tree_id ON ord_russulales_phylogeny (tree_id);
CREATE INDEX ix_ord_russulales_phylogeny_focal_genus_id ON ord_russulales_phylogeny (focal_genus_id);

CREATE TABLE ord_russulales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_genomics_assembly_id ON ord_russulales_genomics (assembly_id);
CREATE INDEX ix_ord_russulales_genomics_species_id ON ord_russulales_genomics (species_id);

CREATE TABLE ord_russulales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_biochemistry_species_id ON ord_russulales_biochemistry (species_id);
CREATE INDEX ix_ord_russulales_biochemistry_compound_id ON ord_russulales_biochemistry (compound_id);

CREATE TABLE ord_russulales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_cultivation_notes_species_id ON ord_russulales_cultivation_notes (species_id);
CREATE INDEX ix_ord_russulales_cultivation_notes_strain_id ON ord_russulales_cultivation_notes (strain_id);

CREATE TABLE ord_russulales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_pathogenicity_species_id ON ord_russulales_pathogenicity (species_id);
CREATE INDEX ix_ord_russulales_pathogenicity_host_id ON ord_russulales_pathogenicity (host_id);

CREATE TABLE ord_russulales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_edibility_species_id ON ord_russulales_edibility (species_id);
CREATE INDEX ix_ord_russulales_edibility_regional_tradition_country_id ON ord_russulales_edibility (regional_tradition_country_id);

CREATE TABLE ord_russulales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_medicinal_uses_species_id ON ord_russulales_medicinal_uses (species_id);
CREATE INDEX ix_ord_russulales_medicinal_uses_publication_id ON ord_russulales_medicinal_uses (publication_id);

CREATE TABLE ord_russulales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_taxonomic_revisions_publication_id ON ord_russulales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_russulales_taxonomic_revisions_affected_family_id ON ord_russulales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_russulales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_conservation_status_species_id ON ord_russulales_conservation_status (species_id);
CREATE INDEX ix_ord_russulales_conservation_status_country_id ON ord_russulales_conservation_status (country_id);

CREATE TABLE ord_russulales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_diagnostic_keys_publication_id ON ord_russulales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_russulales_diagnostic_keys_region_country_id ON ord_russulales_diagnostic_keys (region_country_id);

CREATE TABLE ord_russulales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_type_species_register_focal_genus_id ON ord_russulales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_russulales_type_species_register_type_species_id ON ord_russulales_type_species_register (type_species_id);

CREATE TABLE ord_russulales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_distribution_grids_species_id ON ord_russulales_distribution_grids (species_id);
CREATE INDEX ix_ord_russulales_distribution_grids_country_id ON ord_russulales_distribution_grids (country_id);

CREATE TABLE ord_russulales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_microclimate_studies_species_id ON ord_russulales_microclimate_studies (species_id);
CREATE INDEX ix_ord_russulales_microclimate_studies_publication_id ON ord_russulales_microclimate_studies (publication_id);

CREATE TABLE ord_russulales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_dna_barcoding_status_species_id ON ord_russulales_dna_barcoding_status (species_id);

CREATE TABLE ord_russulales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_spore_print_data_species_id ON ord_russulales_spore_print_data (species_id);
CREATE INDEX ix_ord_russulales_spore_print_data_specimen_id ON ord_russulales_spore_print_data (specimen_id);

CREATE TABLE ord_russulales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_mating_systems_species_id ON ord_russulales_mating_systems (species_id);
CREATE INDEX ix_ord_russulales_mating_systems_publication_id ON ord_russulales_mating_systems (publication_id);

CREATE TABLE ord_russulales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_nutrient_uptake_studies_species_id ON ord_russulales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_russulales_nutrient_uptake_studies_strain_id ON ord_russulales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_russulales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_range_maps_species_id ON ord_russulales_range_maps (species_id);
CREATE INDEX ix_ord_russulales_range_maps_publication_id ON ord_russulales_range_maps (publication_id);

CREATE TABLE ord_russulales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_abundance_estimates_species_id ON ord_russulales_abundance_estimates (species_id);
CREATE INDEX ix_ord_russulales_abundance_estimates_country_id ON ord_russulales_abundance_estimates (country_id);

CREATE TABLE ord_russulales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_toxin_profiles_species_id ON ord_russulales_toxin_profiles (species_id);
CREATE INDEX ix_ord_russulales_toxin_profiles_compound_id ON ord_russulales_toxin_profiles (compound_id);

CREATE TABLE ord_russulales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_enzyme_activity_assays_species_id ON ord_russulales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_russulales_enzyme_activity_assays_enzyme_id ON ord_russulales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_russulales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_biocontrol_evaluations_species_id ON ord_russulales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_russulales_biocontrol_evaluations_publication_id ON ord_russulales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_russulales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_russulales_regional_checklists_species_id ON ord_russulales_regional_checklists (species_id);
CREATE INDEX ix_ord_russulales_regional_checklists_country_id ON ord_russulales_regional_checklists (country_id);

CREATE TABLE ord_polyporales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_morphology_specimen_id ON ord_polyporales_morphology (specimen_id);
CREATE INDEX ix_ord_polyporales_morphology_species_id ON ord_polyporales_morphology (species_id);

CREATE TABLE ord_polyporales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_ecology_species_id ON ord_polyporales_ecology (species_id);
CREATE INDEX ix_ord_polyporales_ecology_dominant_habitat_id ON ord_polyporales_ecology (dominant_habitat_id);

CREATE TABLE ord_polyporales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_phenology_species_id ON ord_polyporales_phenology (species_id);
CREATE INDEX ix_ord_polyporales_phenology_region_country_id ON ord_polyporales_phenology (region_country_id);

CREATE TABLE ord_polyporales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_host_associations_species_id ON ord_polyporales_host_associations (species_id);
CREATE INDEX ix_ord_polyporales_host_associations_host_id ON ord_polyporales_host_associations (host_id);

CREATE TABLE ord_polyporales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_substrate_preferences_species_id ON ord_polyporales_substrate_preferences (species_id);
CREATE INDEX ix_ord_polyporales_substrate_preferences_substrate_id ON ord_polyporales_substrate_preferences (substrate_id);

CREATE TABLE ord_polyporales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_geographic_distribution_species_id ON ord_polyporales_geographic_distribution (species_id);
CREATE INDEX ix_ord_polyporales_geographic_distribution_country_id ON ord_polyporales_geographic_distribution (country_id);

CREATE TABLE ord_polyporales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_phylogeny_tree_id ON ord_polyporales_phylogeny (tree_id);
CREATE INDEX ix_ord_polyporales_phylogeny_focal_genus_id ON ord_polyporales_phylogeny (focal_genus_id);

CREATE TABLE ord_polyporales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_genomics_assembly_id ON ord_polyporales_genomics (assembly_id);
CREATE INDEX ix_ord_polyporales_genomics_species_id ON ord_polyporales_genomics (species_id);

CREATE TABLE ord_polyporales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_biochemistry_species_id ON ord_polyporales_biochemistry (species_id);
CREATE INDEX ix_ord_polyporales_biochemistry_compound_id ON ord_polyporales_biochemistry (compound_id);

CREATE TABLE ord_polyporales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_cultivation_notes_species_id ON ord_polyporales_cultivation_notes (species_id);
CREATE INDEX ix_ord_polyporales_cultivation_notes_strain_id ON ord_polyporales_cultivation_notes (strain_id);

CREATE TABLE ord_polyporales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_pathogenicity_species_id ON ord_polyporales_pathogenicity (species_id);
CREATE INDEX ix_ord_polyporales_pathogenicity_host_id ON ord_polyporales_pathogenicity (host_id);

CREATE TABLE ord_polyporales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_edibility_species_id ON ord_polyporales_edibility (species_id);
CREATE INDEX ix_ord_polyporales_edibility_regional_tradition_country_id ON ord_polyporales_edibility (regional_tradition_country_id);

CREATE TABLE ord_polyporales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_medicinal_uses_species_id ON ord_polyporales_medicinal_uses (species_id);
CREATE INDEX ix_ord_polyporales_medicinal_uses_publication_id ON ord_polyporales_medicinal_uses (publication_id);

CREATE TABLE ord_polyporales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_taxonomic_revisions_publication_id ON ord_polyporales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_polyporales_taxonomic_revisions_affected_family_id ON ord_polyporales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_polyporales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_conservation_status_species_id ON ord_polyporales_conservation_status (species_id);
CREATE INDEX ix_ord_polyporales_conservation_status_country_id ON ord_polyporales_conservation_status (country_id);

CREATE TABLE ord_polyporales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_diagnostic_keys_publication_id ON ord_polyporales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_polyporales_diagnostic_keys_region_country_id ON ord_polyporales_diagnostic_keys (region_country_id);

CREATE TABLE ord_polyporales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_type_species_register_focal_genus_id ON ord_polyporales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_polyporales_type_species_register_type_species_id ON ord_polyporales_type_species_register (type_species_id);

CREATE TABLE ord_polyporales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_distribution_grids_species_id ON ord_polyporales_distribution_grids (species_id);
CREATE INDEX ix_ord_polyporales_distribution_grids_country_id ON ord_polyporales_distribution_grids (country_id);

CREATE TABLE ord_polyporales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_microclimate_studies_species_id ON ord_polyporales_microclimate_studies (species_id);
CREATE INDEX ix_ord_polyporales_microclimate_studies_publication_id ON ord_polyporales_microclimate_studies (publication_id);

CREATE TABLE ord_polyporales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_dna_barcoding_status_species_id ON ord_polyporales_dna_barcoding_status (species_id);

CREATE TABLE ord_polyporales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_spore_print_data_species_id ON ord_polyporales_spore_print_data (species_id);
CREATE INDEX ix_ord_polyporales_spore_print_data_specimen_id ON ord_polyporales_spore_print_data (specimen_id);

CREATE TABLE ord_polyporales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_mating_systems_species_id ON ord_polyporales_mating_systems (species_id);
CREATE INDEX ix_ord_polyporales_mating_systems_publication_id ON ord_polyporales_mating_systems (publication_id);

CREATE TABLE ord_polyporales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_nutrient_uptake_studies_species_id ON ord_polyporales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_polyporales_nutrient_uptake_studies_strain_id ON ord_polyporales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_polyporales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_range_maps_species_id ON ord_polyporales_range_maps (species_id);
CREATE INDEX ix_ord_polyporales_range_maps_publication_id ON ord_polyporales_range_maps (publication_id);

CREATE TABLE ord_polyporales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_abundance_estimates_species_id ON ord_polyporales_abundance_estimates (species_id);
CREATE INDEX ix_ord_polyporales_abundance_estimates_country_id ON ord_polyporales_abundance_estimates (country_id);

CREATE TABLE ord_polyporales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_toxin_profiles_species_id ON ord_polyporales_toxin_profiles (species_id);
CREATE INDEX ix_ord_polyporales_toxin_profiles_compound_id ON ord_polyporales_toxin_profiles (compound_id);

CREATE TABLE ord_polyporales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_enzyme_activity_assays_species_id ON ord_polyporales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_polyporales_enzyme_activity_assays_enzyme_id ON ord_polyporales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_polyporales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_biocontrol_evaluations_species_id ON ord_polyporales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_polyporales_biocontrol_evaluations_publication_id ON ord_polyporales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_polyporales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_polyporales_regional_checklists_species_id ON ord_polyporales_regional_checklists (species_id);
CREATE INDEX ix_ord_polyporales_regional_checklists_country_id ON ord_polyporales_regional_checklists (country_id);

CREATE TABLE ord_thelephorales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_morphology_specimen_id ON ord_thelephorales_morphology (specimen_id);
CREATE INDEX ix_ord_thelephorales_morphology_species_id ON ord_thelephorales_morphology (species_id);

CREATE TABLE ord_thelephorales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_ecology_species_id ON ord_thelephorales_ecology (species_id);
CREATE INDEX ix_ord_thelephorales_ecology_dominant_habitat_id ON ord_thelephorales_ecology (dominant_habitat_id);

CREATE TABLE ord_thelephorales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_phenology_species_id ON ord_thelephorales_phenology (species_id);
CREATE INDEX ix_ord_thelephorales_phenology_region_country_id ON ord_thelephorales_phenology (region_country_id);

CREATE TABLE ord_thelephorales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_host_associations_species_id ON ord_thelephorales_host_associations (species_id);
CREATE INDEX ix_ord_thelephorales_host_associations_host_id ON ord_thelephorales_host_associations (host_id);

CREATE TABLE ord_thelephorales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_substrate_preferences_species_id ON ord_thelephorales_substrate_preferences (species_id);
CREATE INDEX ix_ord_thelephorales_substrate_preferences_substrate_id ON ord_thelephorales_substrate_preferences (substrate_id);

CREATE TABLE ord_thelephorales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_geographic_distribution_species_id ON ord_thelephorales_geographic_distribution (species_id);
CREATE INDEX ix_ord_thelephorales_geographic_distribution_country_id ON ord_thelephorales_geographic_distribution (country_id);

CREATE TABLE ord_thelephorales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_phylogeny_tree_id ON ord_thelephorales_phylogeny (tree_id);
CREATE INDEX ix_ord_thelephorales_phylogeny_focal_genus_id ON ord_thelephorales_phylogeny (focal_genus_id);

CREATE TABLE ord_thelephorales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_genomics_assembly_id ON ord_thelephorales_genomics (assembly_id);
CREATE INDEX ix_ord_thelephorales_genomics_species_id ON ord_thelephorales_genomics (species_id);

CREATE TABLE ord_thelephorales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_biochemistry_species_id ON ord_thelephorales_biochemistry (species_id);
CREATE INDEX ix_ord_thelephorales_biochemistry_compound_id ON ord_thelephorales_biochemistry (compound_id);

CREATE TABLE ord_thelephorales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_cultivation_notes_species_id ON ord_thelephorales_cultivation_notes (species_id);
CREATE INDEX ix_ord_thelephorales_cultivation_notes_strain_id ON ord_thelephorales_cultivation_notes (strain_id);

CREATE TABLE ord_thelephorales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_pathogenicity_species_id ON ord_thelephorales_pathogenicity (species_id);
CREATE INDEX ix_ord_thelephorales_pathogenicity_host_id ON ord_thelephorales_pathogenicity (host_id);

CREATE TABLE ord_thelephorales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_edibility_species_id ON ord_thelephorales_edibility (species_id);
CREATE INDEX ix_ord_thelephorales_edibility_regional_tradition_country_id ON ord_thelephorales_edibility (regional_tradition_country_id);

CREATE TABLE ord_thelephorales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_medicinal_uses_species_id ON ord_thelephorales_medicinal_uses (species_id);
CREATE INDEX ix_ord_thelephorales_medicinal_uses_publication_id ON ord_thelephorales_medicinal_uses (publication_id);

CREATE TABLE ord_thelephorales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_taxonomic_revisions_publication_id ON ord_thelephorales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_thelephorales_taxonomic_revisions_affected_family_id ON ord_thelephorales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_thelephorales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_conservation_status_species_id ON ord_thelephorales_conservation_status (species_id);
CREATE INDEX ix_ord_thelephorales_conservation_status_country_id ON ord_thelephorales_conservation_status (country_id);

CREATE TABLE ord_thelephorales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_diagnostic_keys_publication_id ON ord_thelephorales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_thelephorales_diagnostic_keys_region_country_id ON ord_thelephorales_diagnostic_keys (region_country_id);

CREATE TABLE ord_thelephorales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_type_species_register_focal_genus_id ON ord_thelephorales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_thelephorales_type_species_register_type_species_id ON ord_thelephorales_type_species_register (type_species_id);

CREATE TABLE ord_thelephorales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_distribution_grids_species_id ON ord_thelephorales_distribution_grids (species_id);
CREATE INDEX ix_ord_thelephorales_distribution_grids_country_id ON ord_thelephorales_distribution_grids (country_id);

CREATE TABLE ord_thelephorales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_microclimate_studies_species_id ON ord_thelephorales_microclimate_studies (species_id);
CREATE INDEX ix_ord_thelephorales_microclimate_studies_publication_id ON ord_thelephorales_microclimate_studies (publication_id);

CREATE TABLE ord_thelephorales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_dna_barcoding_status_species_id ON ord_thelephorales_dna_barcoding_status (species_id);

CREATE TABLE ord_thelephorales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_spore_print_data_species_id ON ord_thelephorales_spore_print_data (species_id);
CREATE INDEX ix_ord_thelephorales_spore_print_data_specimen_id ON ord_thelephorales_spore_print_data (specimen_id);

CREATE TABLE ord_thelephorales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_mating_systems_species_id ON ord_thelephorales_mating_systems (species_id);
CREATE INDEX ix_ord_thelephorales_mating_systems_publication_id ON ord_thelephorales_mating_systems (publication_id);

CREATE TABLE ord_thelephorales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_nutrient_uptake_studies_species_id ON ord_thelephorales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_thelephorales_nutrient_uptake_studies_strain_id ON ord_thelephorales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_thelephorales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_range_maps_species_id ON ord_thelephorales_range_maps (species_id);
CREATE INDEX ix_ord_thelephorales_range_maps_publication_id ON ord_thelephorales_range_maps (publication_id);

CREATE TABLE ord_thelephorales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_abundance_estimates_species_id ON ord_thelephorales_abundance_estimates (species_id);
CREATE INDEX ix_ord_thelephorales_abundance_estimates_country_id ON ord_thelephorales_abundance_estimates (country_id);

CREATE TABLE ord_thelephorales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_toxin_profiles_species_id ON ord_thelephorales_toxin_profiles (species_id);
CREATE INDEX ix_ord_thelephorales_toxin_profiles_compound_id ON ord_thelephorales_toxin_profiles (compound_id);

CREATE TABLE ord_thelephorales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_enzyme_activity_assays_species_id ON ord_thelephorales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_thelephorales_enzyme_activity_assays_enzyme_id ON ord_thelephorales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_thelephorales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_biocontrol_evaluations_species_id ON ord_thelephorales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_thelephorales_biocontrol_evaluations_publication_id ON ord_thelephorales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_thelephorales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_thelephorales_regional_checklists_species_id ON ord_thelephorales_regional_checklists (species_id);
CREATE INDEX ix_ord_thelephorales_regional_checklists_country_id ON ord_thelephorales_regional_checklists (country_id);

CREATE TABLE ord_cantharellales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_morphology_specimen_id ON ord_cantharellales_morphology (specimen_id);
CREATE INDEX ix_ord_cantharellales_morphology_species_id ON ord_cantharellales_morphology (species_id);

CREATE TABLE ord_cantharellales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_ecology_species_id ON ord_cantharellales_ecology (species_id);
CREATE INDEX ix_ord_cantharellales_ecology_dominant_habitat_id ON ord_cantharellales_ecology (dominant_habitat_id);

CREATE TABLE ord_cantharellales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_phenology_species_id ON ord_cantharellales_phenology (species_id);
CREATE INDEX ix_ord_cantharellales_phenology_region_country_id ON ord_cantharellales_phenology (region_country_id);

CREATE TABLE ord_cantharellales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_host_associations_species_id ON ord_cantharellales_host_associations (species_id);
CREATE INDEX ix_ord_cantharellales_host_associations_host_id ON ord_cantharellales_host_associations (host_id);

CREATE TABLE ord_cantharellales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_substrate_preferences_species_id ON ord_cantharellales_substrate_preferences (species_id);
CREATE INDEX ix_ord_cantharellales_substrate_preferences_substrate_id ON ord_cantharellales_substrate_preferences (substrate_id);

CREATE TABLE ord_cantharellales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_geographic_distribution_species_id ON ord_cantharellales_geographic_distribution (species_id);
CREATE INDEX ix_ord_cantharellales_geographic_distribution_country_id ON ord_cantharellales_geographic_distribution (country_id);

CREATE TABLE ord_cantharellales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_phylogeny_tree_id ON ord_cantharellales_phylogeny (tree_id);
CREATE INDEX ix_ord_cantharellales_phylogeny_focal_genus_id ON ord_cantharellales_phylogeny (focal_genus_id);

CREATE TABLE ord_cantharellales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_genomics_assembly_id ON ord_cantharellales_genomics (assembly_id);
CREATE INDEX ix_ord_cantharellales_genomics_species_id ON ord_cantharellales_genomics (species_id);

CREATE TABLE ord_cantharellales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_biochemistry_species_id ON ord_cantharellales_biochemistry (species_id);
CREATE INDEX ix_ord_cantharellales_biochemistry_compound_id ON ord_cantharellales_biochemistry (compound_id);

CREATE TABLE ord_cantharellales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_cultivation_notes_species_id ON ord_cantharellales_cultivation_notes (species_id);
CREATE INDEX ix_ord_cantharellales_cultivation_notes_strain_id ON ord_cantharellales_cultivation_notes (strain_id);

CREATE TABLE ord_cantharellales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_pathogenicity_species_id ON ord_cantharellales_pathogenicity (species_id);
CREATE INDEX ix_ord_cantharellales_pathogenicity_host_id ON ord_cantharellales_pathogenicity (host_id);

CREATE TABLE ord_cantharellales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_edibility_species_id ON ord_cantharellales_edibility (species_id);
CREATE INDEX ix_ord_cantharellales_edibility_1 ON ord_cantharellales_edibility (regional_tradition_country_id);

CREATE TABLE ord_cantharellales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_medicinal_uses_species_id ON ord_cantharellales_medicinal_uses (species_id);
CREATE INDEX ix_ord_cantharellales_medicinal_uses_publication_id ON ord_cantharellales_medicinal_uses (publication_id);

CREATE TABLE ord_cantharellales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_taxonomic_revisions_publication_id ON ord_cantharellales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_cantharellales_taxonomic_revisions_affected_family_id ON ord_cantharellales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_cantharellales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_conservation_status_species_id ON ord_cantharellales_conservation_status (species_id);
CREATE INDEX ix_ord_cantharellales_conservation_status_country_id ON ord_cantharellales_conservation_status (country_id);

CREATE TABLE ord_cantharellales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_diagnostic_keys_publication_id ON ord_cantharellales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_cantharellales_diagnostic_keys_region_country_id ON ord_cantharellales_diagnostic_keys (region_country_id);

CREATE TABLE ord_cantharellales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_type_species_register_focal_genus_id ON ord_cantharellales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_cantharellales_type_species_register_type_species_id ON ord_cantharellales_type_species_register (type_species_id);

CREATE TABLE ord_cantharellales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_distribution_grids_species_id ON ord_cantharellales_distribution_grids (species_id);
CREATE INDEX ix_ord_cantharellales_distribution_grids_country_id ON ord_cantharellales_distribution_grids (country_id);

CREATE TABLE ord_cantharellales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_microclimate_studies_species_id ON ord_cantharellales_microclimate_studies (species_id);
CREATE INDEX ix_ord_cantharellales_microclimate_studies_publication_id ON ord_cantharellales_microclimate_studies (publication_id);

CREATE TABLE ord_cantharellales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_dna_barcoding_status_species_id ON ord_cantharellales_dna_barcoding_status (species_id);

CREATE TABLE ord_cantharellales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_spore_print_data_species_id ON ord_cantharellales_spore_print_data (species_id);
CREATE INDEX ix_ord_cantharellales_spore_print_data_specimen_id ON ord_cantharellales_spore_print_data (specimen_id);

CREATE TABLE ord_cantharellales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_mating_systems_species_id ON ord_cantharellales_mating_systems (species_id);
CREATE INDEX ix_ord_cantharellales_mating_systems_publication_id ON ord_cantharellales_mating_systems (publication_id);

CREATE TABLE ord_cantharellales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_nutrient_uptake_studies_species_id ON ord_cantharellales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_cantharellales_nutrient_uptake_studies_strain_id ON ord_cantharellales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_cantharellales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_range_maps_species_id ON ord_cantharellales_range_maps (species_id);
CREATE INDEX ix_ord_cantharellales_range_maps_publication_id ON ord_cantharellales_range_maps (publication_id);

CREATE TABLE ord_cantharellales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_abundance_estimates_species_id ON ord_cantharellales_abundance_estimates (species_id);
CREATE INDEX ix_ord_cantharellales_abundance_estimates_country_id ON ord_cantharellales_abundance_estimates (country_id);

CREATE TABLE ord_cantharellales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_toxin_profiles_species_id ON ord_cantharellales_toxin_profiles (species_id);
CREATE INDEX ix_ord_cantharellales_toxin_profiles_compound_id ON ord_cantharellales_toxin_profiles (compound_id);

CREATE TABLE ord_cantharellales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_enzyme_activity_assays_species_id ON ord_cantharellales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_cantharellales_enzyme_activity_assays_enzyme_id ON ord_cantharellales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_cantharellales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_biocontrol_evaluations_species_id ON ord_cantharellales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_cantharellales_biocontrol_evaluations_publication_id ON ord_cantharellales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_cantharellales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_cantharellales_regional_checklists_species_id ON ord_cantharellales_regional_checklists (species_id);
CREATE INDEX ix_ord_cantharellales_regional_checklists_country_id ON ord_cantharellales_regional_checklists (country_id);

CREATE TABLE ord_hymenochaetales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_morphology_specimen_id ON ord_hymenochaetales_morphology (specimen_id);
CREATE INDEX ix_ord_hymenochaetales_morphology_species_id ON ord_hymenochaetales_morphology (species_id);

CREATE TABLE ord_hymenochaetales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_ecology_species_id ON ord_hymenochaetales_ecology (species_id);
CREATE INDEX ix_ord_hymenochaetales_ecology_dominant_habitat_id ON ord_hymenochaetales_ecology (dominant_habitat_id);

CREATE TABLE ord_hymenochaetales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_phenology_species_id ON ord_hymenochaetales_phenology (species_id);
CREATE INDEX ix_ord_hymenochaetales_phenology_region_country_id ON ord_hymenochaetales_phenology (region_country_id);

CREATE TABLE ord_hymenochaetales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_host_associations_species_id ON ord_hymenochaetales_host_associations (species_id);
CREATE INDEX ix_ord_hymenochaetales_host_associations_host_id ON ord_hymenochaetales_host_associations (host_id);

CREATE TABLE ord_hymenochaetales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_substrate_preferences_species_id ON ord_hymenochaetales_substrate_preferences (species_id);
CREATE INDEX ix_ord_hymenochaetales_substrate_preferences_substrate_id ON ord_hymenochaetales_substrate_preferences (substrate_id);

CREATE TABLE ord_hymenochaetales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_geographic_distribution_species_id ON ord_hymenochaetales_geographic_distribution (species_id);
CREATE INDEX ix_ord_hymenochaetales_geographic_distribution_country_id ON ord_hymenochaetales_geographic_distribution (country_id);

CREATE TABLE ord_hymenochaetales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_phylogeny_tree_id ON ord_hymenochaetales_phylogeny (tree_id);
CREATE INDEX ix_ord_hymenochaetales_phylogeny_focal_genus_id ON ord_hymenochaetales_phylogeny (focal_genus_id);

CREATE TABLE ord_hymenochaetales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_genomics_assembly_id ON ord_hymenochaetales_genomics (assembly_id);
CREATE INDEX ix_ord_hymenochaetales_genomics_species_id ON ord_hymenochaetales_genomics (species_id);

CREATE TABLE ord_hymenochaetales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_biochemistry_species_id ON ord_hymenochaetales_biochemistry (species_id);
CREATE INDEX ix_ord_hymenochaetales_biochemistry_compound_id ON ord_hymenochaetales_biochemistry (compound_id);

CREATE TABLE ord_hymenochaetales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_cultivation_notes_species_id ON ord_hymenochaetales_cultivation_notes (species_id);
CREATE INDEX ix_ord_hymenochaetales_cultivation_notes_strain_id ON ord_hymenochaetales_cultivation_notes (strain_id);

CREATE TABLE ord_hymenochaetales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_pathogenicity_species_id ON ord_hymenochaetales_pathogenicity (species_id);
CREATE INDEX ix_ord_hymenochaetales_pathogenicity_host_id ON ord_hymenochaetales_pathogenicity (host_id);

CREATE TABLE ord_hymenochaetales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_edibility_species_id ON ord_hymenochaetales_edibility (species_id);
CREATE INDEX ix_ord_hymenochaetales_edibility_1 ON ord_hymenochaetales_edibility (regional_tradition_country_id);

CREATE TABLE ord_hymenochaetales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_medicinal_uses_species_id ON ord_hymenochaetales_medicinal_uses (species_id);
CREATE INDEX ix_ord_hymenochaetales_medicinal_uses_publication_id ON ord_hymenochaetales_medicinal_uses (publication_id);

CREATE TABLE ord_hymenochaetales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_taxonomic_revisions_publication_id ON ord_hymenochaetales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_hymenochaetales_taxonomic_revisions_1 ON ord_hymenochaetales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_hymenochaetales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_conservation_status_species_id ON ord_hymenochaetales_conservation_status (species_id);
CREATE INDEX ix_ord_hymenochaetales_conservation_status_country_id ON ord_hymenochaetales_conservation_status (country_id);

CREATE TABLE ord_hymenochaetales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_diagnostic_keys_publication_id ON ord_hymenochaetales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_hymenochaetales_diagnostic_keys_region_country_id ON ord_hymenochaetales_diagnostic_keys (region_country_id);

CREATE TABLE ord_hymenochaetales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_type_species_register_focal_genus_id ON ord_hymenochaetales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_hymenochaetales_type_species_register_type_species_id ON ord_hymenochaetales_type_species_register (type_species_id);

CREATE TABLE ord_hymenochaetales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_distribution_grids_species_id ON ord_hymenochaetales_distribution_grids (species_id);
CREATE INDEX ix_ord_hymenochaetales_distribution_grids_country_id ON ord_hymenochaetales_distribution_grids (country_id);

CREATE TABLE ord_hymenochaetales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_microclimate_studies_species_id ON ord_hymenochaetales_microclimate_studies (species_id);
CREATE INDEX ix_ord_hymenochaetales_microclimate_studies_publication_id ON ord_hymenochaetales_microclimate_studies (publication_id);

CREATE TABLE ord_hymenochaetales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_dna_barcoding_status_species_id ON ord_hymenochaetales_dna_barcoding_status (species_id);

CREATE TABLE ord_hymenochaetales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_spore_print_data_species_id ON ord_hymenochaetales_spore_print_data (species_id);
CREATE INDEX ix_ord_hymenochaetales_spore_print_data_specimen_id ON ord_hymenochaetales_spore_print_data (specimen_id);

CREATE TABLE ord_hymenochaetales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_mating_systems_species_id ON ord_hymenochaetales_mating_systems (species_id);
CREATE INDEX ix_ord_hymenochaetales_mating_systems_publication_id ON ord_hymenochaetales_mating_systems (publication_id);

CREATE TABLE ord_hymenochaetales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_nutrient_uptake_studies_species_id ON ord_hymenochaetales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_hymenochaetales_nutrient_uptake_studies_strain_id ON ord_hymenochaetales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_hymenochaetales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_range_maps_species_id ON ord_hymenochaetales_range_maps (species_id);
CREATE INDEX ix_ord_hymenochaetales_range_maps_publication_id ON ord_hymenochaetales_range_maps (publication_id);

CREATE TABLE ord_hymenochaetales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_abundance_estimates_species_id ON ord_hymenochaetales_abundance_estimates (species_id);
CREATE INDEX ix_ord_hymenochaetales_abundance_estimates_country_id ON ord_hymenochaetales_abundance_estimates (country_id);

CREATE TABLE ord_hymenochaetales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_toxin_profiles_species_id ON ord_hymenochaetales_toxin_profiles (species_id);
CREATE INDEX ix_ord_hymenochaetales_toxin_profiles_compound_id ON ord_hymenochaetales_toxin_profiles (compound_id);

CREATE TABLE ord_hymenochaetales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_enzyme_activity_assays_species_id ON ord_hymenochaetales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_hymenochaetales_enzyme_activity_assays_enzyme_id ON ord_hymenochaetales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_hymenochaetales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_biocontrol_evaluations_species_id ON ord_hymenochaetales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_hymenochaetales_biocontrol_evaluations_publication_id ON ord_hymenochaetales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_hymenochaetales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hymenochaetales_regional_checklists_species_id ON ord_hymenochaetales_regional_checklists (species_id);
CREATE INDEX ix_ord_hymenochaetales_regional_checklists_country_id ON ord_hymenochaetales_regional_checklists (country_id);

CREATE TABLE ord_auriculariales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_morphology_specimen_id ON ord_auriculariales_morphology (specimen_id);
CREATE INDEX ix_ord_auriculariales_morphology_species_id ON ord_auriculariales_morphology (species_id);

CREATE TABLE ord_auriculariales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_ecology_species_id ON ord_auriculariales_ecology (species_id);
CREATE INDEX ix_ord_auriculariales_ecology_dominant_habitat_id ON ord_auriculariales_ecology (dominant_habitat_id);

CREATE TABLE ord_auriculariales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_phenology_species_id ON ord_auriculariales_phenology (species_id);
CREATE INDEX ix_ord_auriculariales_phenology_region_country_id ON ord_auriculariales_phenology (region_country_id);

CREATE TABLE ord_auriculariales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_host_associations_species_id ON ord_auriculariales_host_associations (species_id);
CREATE INDEX ix_ord_auriculariales_host_associations_host_id ON ord_auriculariales_host_associations (host_id);

CREATE TABLE ord_auriculariales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_substrate_preferences_species_id ON ord_auriculariales_substrate_preferences (species_id);
CREATE INDEX ix_ord_auriculariales_substrate_preferences_substrate_id ON ord_auriculariales_substrate_preferences (substrate_id);

CREATE TABLE ord_auriculariales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_geographic_distribution_species_id ON ord_auriculariales_geographic_distribution (species_id);
CREATE INDEX ix_ord_auriculariales_geographic_distribution_country_id ON ord_auriculariales_geographic_distribution (country_id);

CREATE TABLE ord_auriculariales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_phylogeny_tree_id ON ord_auriculariales_phylogeny (tree_id);
CREATE INDEX ix_ord_auriculariales_phylogeny_focal_genus_id ON ord_auriculariales_phylogeny (focal_genus_id);

CREATE TABLE ord_auriculariales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_genomics_assembly_id ON ord_auriculariales_genomics (assembly_id);
CREATE INDEX ix_ord_auriculariales_genomics_species_id ON ord_auriculariales_genomics (species_id);

CREATE TABLE ord_auriculariales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_biochemistry_species_id ON ord_auriculariales_biochemistry (species_id);
CREATE INDEX ix_ord_auriculariales_biochemistry_compound_id ON ord_auriculariales_biochemistry (compound_id);

CREATE TABLE ord_auriculariales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_cultivation_notes_species_id ON ord_auriculariales_cultivation_notes (species_id);
CREATE INDEX ix_ord_auriculariales_cultivation_notes_strain_id ON ord_auriculariales_cultivation_notes (strain_id);

CREATE TABLE ord_auriculariales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_pathogenicity_species_id ON ord_auriculariales_pathogenicity (species_id);
CREATE INDEX ix_ord_auriculariales_pathogenicity_host_id ON ord_auriculariales_pathogenicity (host_id);

CREATE TABLE ord_auriculariales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_edibility_species_id ON ord_auriculariales_edibility (species_id);
CREATE INDEX ix_ord_auriculariales_edibility_1 ON ord_auriculariales_edibility (regional_tradition_country_id);

CREATE TABLE ord_auriculariales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_medicinal_uses_species_id ON ord_auriculariales_medicinal_uses (species_id);
CREATE INDEX ix_ord_auriculariales_medicinal_uses_publication_id ON ord_auriculariales_medicinal_uses (publication_id);

CREATE TABLE ord_auriculariales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_taxonomic_revisions_publication_id ON ord_auriculariales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_auriculariales_taxonomic_revisions_affected_family_id ON ord_auriculariales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_auriculariales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_conservation_status_species_id ON ord_auriculariales_conservation_status (species_id);
CREATE INDEX ix_ord_auriculariales_conservation_status_country_id ON ord_auriculariales_conservation_status (country_id);

CREATE TABLE ord_auriculariales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_diagnostic_keys_publication_id ON ord_auriculariales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_auriculariales_diagnostic_keys_region_country_id ON ord_auriculariales_diagnostic_keys (region_country_id);

CREATE TABLE ord_auriculariales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_type_species_register_focal_genus_id ON ord_auriculariales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_auriculariales_type_species_register_type_species_id ON ord_auriculariales_type_species_register (type_species_id);

CREATE TABLE ord_auriculariales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_distribution_grids_species_id ON ord_auriculariales_distribution_grids (species_id);
CREATE INDEX ix_ord_auriculariales_distribution_grids_country_id ON ord_auriculariales_distribution_grids (country_id);

CREATE TABLE ord_auriculariales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_microclimate_studies_species_id ON ord_auriculariales_microclimate_studies (species_id);
CREATE INDEX ix_ord_auriculariales_microclimate_studies_publication_id ON ord_auriculariales_microclimate_studies (publication_id);

CREATE TABLE ord_auriculariales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_dna_barcoding_status_species_id ON ord_auriculariales_dna_barcoding_status (species_id);

CREATE TABLE ord_auriculariales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_spore_print_data_species_id ON ord_auriculariales_spore_print_data (species_id);
CREATE INDEX ix_ord_auriculariales_spore_print_data_specimen_id ON ord_auriculariales_spore_print_data (specimen_id);

CREATE TABLE ord_auriculariales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_mating_systems_species_id ON ord_auriculariales_mating_systems (species_id);
CREATE INDEX ix_ord_auriculariales_mating_systems_publication_id ON ord_auriculariales_mating_systems (publication_id);

CREATE TABLE ord_auriculariales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_nutrient_uptake_studies_species_id ON ord_auriculariales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_auriculariales_nutrient_uptake_studies_strain_id ON ord_auriculariales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_auriculariales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_range_maps_species_id ON ord_auriculariales_range_maps (species_id);
CREATE INDEX ix_ord_auriculariales_range_maps_publication_id ON ord_auriculariales_range_maps (publication_id);

CREATE TABLE ord_auriculariales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_abundance_estimates_species_id ON ord_auriculariales_abundance_estimates (species_id);
CREATE INDEX ix_ord_auriculariales_abundance_estimates_country_id ON ord_auriculariales_abundance_estimates (country_id);

CREATE TABLE ord_auriculariales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_toxin_profiles_species_id ON ord_auriculariales_toxin_profiles (species_id);
CREATE INDEX ix_ord_auriculariales_toxin_profiles_compound_id ON ord_auriculariales_toxin_profiles (compound_id);

CREATE TABLE ord_auriculariales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_enzyme_activity_assays_species_id ON ord_auriculariales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_auriculariales_enzyme_activity_assays_enzyme_id ON ord_auriculariales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_auriculariales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_biocontrol_evaluations_species_id ON ord_auriculariales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_auriculariales_biocontrol_evaluations_publication_id ON ord_auriculariales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_auriculariales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_auriculariales_regional_checklists_species_id ON ord_auriculariales_regional_checklists (species_id);
CREATE INDEX ix_ord_auriculariales_regional_checklists_country_id ON ord_auriculariales_regional_checklists (country_id);

CREATE TABLE ord_tremellales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_morphology_specimen_id ON ord_tremellales_morphology (specimen_id);
CREATE INDEX ix_ord_tremellales_morphology_species_id ON ord_tremellales_morphology (species_id);

CREATE TABLE ord_tremellales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_ecology_species_id ON ord_tremellales_ecology (species_id);
CREATE INDEX ix_ord_tremellales_ecology_dominant_habitat_id ON ord_tremellales_ecology (dominant_habitat_id);

CREATE TABLE ord_tremellales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_phenology_species_id ON ord_tremellales_phenology (species_id);
CREATE INDEX ix_ord_tremellales_phenology_region_country_id ON ord_tremellales_phenology (region_country_id);

CREATE TABLE ord_tremellales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_host_associations_species_id ON ord_tremellales_host_associations (species_id);
CREATE INDEX ix_ord_tremellales_host_associations_host_id ON ord_tremellales_host_associations (host_id);

CREATE TABLE ord_tremellales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_substrate_preferences_species_id ON ord_tremellales_substrate_preferences (species_id);
CREATE INDEX ix_ord_tremellales_substrate_preferences_substrate_id ON ord_tremellales_substrate_preferences (substrate_id);

CREATE TABLE ord_tremellales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_geographic_distribution_species_id ON ord_tremellales_geographic_distribution (species_id);
CREATE INDEX ix_ord_tremellales_geographic_distribution_country_id ON ord_tremellales_geographic_distribution (country_id);

CREATE TABLE ord_tremellales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_phylogeny_tree_id ON ord_tremellales_phylogeny (tree_id);
CREATE INDEX ix_ord_tremellales_phylogeny_focal_genus_id ON ord_tremellales_phylogeny (focal_genus_id);

CREATE TABLE ord_tremellales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_genomics_assembly_id ON ord_tremellales_genomics (assembly_id);
CREATE INDEX ix_ord_tremellales_genomics_species_id ON ord_tremellales_genomics (species_id);

CREATE TABLE ord_tremellales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_biochemistry_species_id ON ord_tremellales_biochemistry (species_id);
CREATE INDEX ix_ord_tremellales_biochemistry_compound_id ON ord_tremellales_biochemistry (compound_id);

CREATE TABLE ord_tremellales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_cultivation_notes_species_id ON ord_tremellales_cultivation_notes (species_id);
CREATE INDEX ix_ord_tremellales_cultivation_notes_strain_id ON ord_tremellales_cultivation_notes (strain_id);

CREATE TABLE ord_tremellales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_pathogenicity_species_id ON ord_tremellales_pathogenicity (species_id);
CREATE INDEX ix_ord_tremellales_pathogenicity_host_id ON ord_tremellales_pathogenicity (host_id);

CREATE TABLE ord_tremellales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_edibility_species_id ON ord_tremellales_edibility (species_id);
CREATE INDEX ix_ord_tremellales_edibility_regional_tradition_country_id ON ord_tremellales_edibility (regional_tradition_country_id);

CREATE TABLE ord_tremellales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_medicinal_uses_species_id ON ord_tremellales_medicinal_uses (species_id);
CREATE INDEX ix_ord_tremellales_medicinal_uses_publication_id ON ord_tremellales_medicinal_uses (publication_id);

CREATE TABLE ord_tremellales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_taxonomic_revisions_publication_id ON ord_tremellales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_tremellales_taxonomic_revisions_affected_family_id ON ord_tremellales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_tremellales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_conservation_status_species_id ON ord_tremellales_conservation_status (species_id);
CREATE INDEX ix_ord_tremellales_conservation_status_country_id ON ord_tremellales_conservation_status (country_id);

CREATE TABLE ord_tremellales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_diagnostic_keys_publication_id ON ord_tremellales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_tremellales_diagnostic_keys_region_country_id ON ord_tremellales_diagnostic_keys (region_country_id);

CREATE TABLE ord_tremellales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_type_species_register_focal_genus_id ON ord_tremellales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_tremellales_type_species_register_type_species_id ON ord_tremellales_type_species_register (type_species_id);

CREATE TABLE ord_tremellales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_distribution_grids_species_id ON ord_tremellales_distribution_grids (species_id);
CREATE INDEX ix_ord_tremellales_distribution_grids_country_id ON ord_tremellales_distribution_grids (country_id);

CREATE TABLE ord_tremellales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_microclimate_studies_species_id ON ord_tremellales_microclimate_studies (species_id);
CREATE INDEX ix_ord_tremellales_microclimate_studies_publication_id ON ord_tremellales_microclimate_studies (publication_id);

CREATE TABLE ord_tremellales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_dna_barcoding_status_species_id ON ord_tremellales_dna_barcoding_status (species_id);

CREATE TABLE ord_tremellales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_spore_print_data_species_id ON ord_tremellales_spore_print_data (species_id);
CREATE INDEX ix_ord_tremellales_spore_print_data_specimen_id ON ord_tremellales_spore_print_data (specimen_id);

CREATE TABLE ord_tremellales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_mating_systems_species_id ON ord_tremellales_mating_systems (species_id);
CREATE INDEX ix_ord_tremellales_mating_systems_publication_id ON ord_tremellales_mating_systems (publication_id);

CREATE TABLE ord_tremellales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_nutrient_uptake_studies_species_id ON ord_tremellales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_tremellales_nutrient_uptake_studies_strain_id ON ord_tremellales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_tremellales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_range_maps_species_id ON ord_tremellales_range_maps (species_id);
CREATE INDEX ix_ord_tremellales_range_maps_publication_id ON ord_tremellales_range_maps (publication_id);

CREATE TABLE ord_tremellales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_abundance_estimates_species_id ON ord_tremellales_abundance_estimates (species_id);
CREATE INDEX ix_ord_tremellales_abundance_estimates_country_id ON ord_tremellales_abundance_estimates (country_id);

CREATE TABLE ord_tremellales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_toxin_profiles_species_id ON ord_tremellales_toxin_profiles (species_id);
CREATE INDEX ix_ord_tremellales_toxin_profiles_compound_id ON ord_tremellales_toxin_profiles (compound_id);

CREATE TABLE ord_tremellales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_enzyme_activity_assays_species_id ON ord_tremellales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_tremellales_enzyme_activity_assays_enzyme_id ON ord_tremellales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_tremellales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_biocontrol_evaluations_species_id ON ord_tremellales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_tremellales_biocontrol_evaluations_publication_id ON ord_tremellales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_tremellales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tremellales_regional_checklists_species_id ON ord_tremellales_regional_checklists (species_id);
CREATE INDEX ix_ord_tremellales_regional_checklists_country_id ON ord_tremellales_regional_checklists (country_id);

CREATE TABLE ord_phallales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_morphology_specimen_id ON ord_phallales_morphology (specimen_id);
CREATE INDEX ix_ord_phallales_morphology_species_id ON ord_phallales_morphology (species_id);

CREATE TABLE ord_phallales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_ecology_species_id ON ord_phallales_ecology (species_id);
CREATE INDEX ix_ord_phallales_ecology_dominant_habitat_id ON ord_phallales_ecology (dominant_habitat_id);

CREATE TABLE ord_phallales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_phenology_species_id ON ord_phallales_phenology (species_id);
CREATE INDEX ix_ord_phallales_phenology_region_country_id ON ord_phallales_phenology (region_country_id);

CREATE TABLE ord_phallales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_host_associations_species_id ON ord_phallales_host_associations (species_id);
CREATE INDEX ix_ord_phallales_host_associations_host_id ON ord_phallales_host_associations (host_id);

CREATE TABLE ord_phallales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_substrate_preferences_species_id ON ord_phallales_substrate_preferences (species_id);
CREATE INDEX ix_ord_phallales_substrate_preferences_substrate_id ON ord_phallales_substrate_preferences (substrate_id);

CREATE TABLE ord_phallales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_geographic_distribution_species_id ON ord_phallales_geographic_distribution (species_id);
CREATE INDEX ix_ord_phallales_geographic_distribution_country_id ON ord_phallales_geographic_distribution (country_id);

CREATE TABLE ord_phallales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_phylogeny_tree_id ON ord_phallales_phylogeny (tree_id);
CREATE INDEX ix_ord_phallales_phylogeny_focal_genus_id ON ord_phallales_phylogeny (focal_genus_id);

CREATE TABLE ord_phallales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_genomics_assembly_id ON ord_phallales_genomics (assembly_id);
CREATE INDEX ix_ord_phallales_genomics_species_id ON ord_phallales_genomics (species_id);

CREATE TABLE ord_phallales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_biochemistry_species_id ON ord_phallales_biochemistry (species_id);
CREATE INDEX ix_ord_phallales_biochemistry_compound_id ON ord_phallales_biochemistry (compound_id);

CREATE TABLE ord_phallales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_cultivation_notes_species_id ON ord_phallales_cultivation_notes (species_id);
CREATE INDEX ix_ord_phallales_cultivation_notes_strain_id ON ord_phallales_cultivation_notes (strain_id);

CREATE TABLE ord_phallales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_pathogenicity_species_id ON ord_phallales_pathogenicity (species_id);
CREATE INDEX ix_ord_phallales_pathogenicity_host_id ON ord_phallales_pathogenicity (host_id);

CREATE TABLE ord_phallales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_edibility_species_id ON ord_phallales_edibility (species_id);
CREATE INDEX ix_ord_phallales_edibility_regional_tradition_country_id ON ord_phallales_edibility (regional_tradition_country_id);

CREATE TABLE ord_phallales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_medicinal_uses_species_id ON ord_phallales_medicinal_uses (species_id);
CREATE INDEX ix_ord_phallales_medicinal_uses_publication_id ON ord_phallales_medicinal_uses (publication_id);

CREATE TABLE ord_phallales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_taxonomic_revisions_publication_id ON ord_phallales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_phallales_taxonomic_revisions_affected_family_id ON ord_phallales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_phallales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_conservation_status_species_id ON ord_phallales_conservation_status (species_id);
CREATE INDEX ix_ord_phallales_conservation_status_country_id ON ord_phallales_conservation_status (country_id);

CREATE TABLE ord_phallales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_diagnostic_keys_publication_id ON ord_phallales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_phallales_diagnostic_keys_region_country_id ON ord_phallales_diagnostic_keys (region_country_id);

CREATE TABLE ord_phallales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_type_species_register_focal_genus_id ON ord_phallales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_phallales_type_species_register_type_species_id ON ord_phallales_type_species_register (type_species_id);

CREATE TABLE ord_phallales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_distribution_grids_species_id ON ord_phallales_distribution_grids (species_id);
CREATE INDEX ix_ord_phallales_distribution_grids_country_id ON ord_phallales_distribution_grids (country_id);

CREATE TABLE ord_phallales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_microclimate_studies_species_id ON ord_phallales_microclimate_studies (species_id);
CREATE INDEX ix_ord_phallales_microclimate_studies_publication_id ON ord_phallales_microclimate_studies (publication_id);

CREATE TABLE ord_phallales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_dna_barcoding_status_species_id ON ord_phallales_dna_barcoding_status (species_id);

CREATE TABLE ord_phallales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_spore_print_data_species_id ON ord_phallales_spore_print_data (species_id);
CREATE INDEX ix_ord_phallales_spore_print_data_specimen_id ON ord_phallales_spore_print_data (specimen_id);

CREATE TABLE ord_phallales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_mating_systems_species_id ON ord_phallales_mating_systems (species_id);
CREATE INDEX ix_ord_phallales_mating_systems_publication_id ON ord_phallales_mating_systems (publication_id);

CREATE TABLE ord_phallales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_nutrient_uptake_studies_species_id ON ord_phallales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_phallales_nutrient_uptake_studies_strain_id ON ord_phallales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_phallales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_range_maps_species_id ON ord_phallales_range_maps (species_id);
CREATE INDEX ix_ord_phallales_range_maps_publication_id ON ord_phallales_range_maps (publication_id);

CREATE TABLE ord_phallales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_abundance_estimates_species_id ON ord_phallales_abundance_estimates (species_id);
CREATE INDEX ix_ord_phallales_abundance_estimates_country_id ON ord_phallales_abundance_estimates (country_id);

CREATE TABLE ord_phallales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_toxin_profiles_species_id ON ord_phallales_toxin_profiles (species_id);
CREATE INDEX ix_ord_phallales_toxin_profiles_compound_id ON ord_phallales_toxin_profiles (compound_id);

CREATE TABLE ord_phallales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_enzyme_activity_assays_species_id ON ord_phallales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_phallales_enzyme_activity_assays_enzyme_id ON ord_phallales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_phallales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_biocontrol_evaluations_species_id ON ord_phallales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_phallales_biocontrol_evaluations_publication_id ON ord_phallales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_phallales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_phallales_regional_checklists_species_id ON ord_phallales_regional_checklists (species_id);
CREATE INDEX ix_ord_phallales_regional_checklists_country_id ON ord_phallales_regional_checklists (country_id);

CREATE TABLE ord_geastrales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_morphology_specimen_id ON ord_geastrales_morphology (specimen_id);
CREATE INDEX ix_ord_geastrales_morphology_species_id ON ord_geastrales_morphology (species_id);

CREATE TABLE ord_geastrales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_ecology_species_id ON ord_geastrales_ecology (species_id);
CREATE INDEX ix_ord_geastrales_ecology_dominant_habitat_id ON ord_geastrales_ecology (dominant_habitat_id);

CREATE TABLE ord_geastrales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_phenology_species_id ON ord_geastrales_phenology (species_id);
CREATE INDEX ix_ord_geastrales_phenology_region_country_id ON ord_geastrales_phenology (region_country_id);

CREATE TABLE ord_geastrales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_host_associations_species_id ON ord_geastrales_host_associations (species_id);
CREATE INDEX ix_ord_geastrales_host_associations_host_id ON ord_geastrales_host_associations (host_id);

CREATE TABLE ord_geastrales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_substrate_preferences_species_id ON ord_geastrales_substrate_preferences (species_id);
CREATE INDEX ix_ord_geastrales_substrate_preferences_substrate_id ON ord_geastrales_substrate_preferences (substrate_id);

CREATE TABLE ord_geastrales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_geographic_distribution_species_id ON ord_geastrales_geographic_distribution (species_id);
CREATE INDEX ix_ord_geastrales_geographic_distribution_country_id ON ord_geastrales_geographic_distribution (country_id);

CREATE TABLE ord_geastrales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_phylogeny_tree_id ON ord_geastrales_phylogeny (tree_id);
CREATE INDEX ix_ord_geastrales_phylogeny_focal_genus_id ON ord_geastrales_phylogeny (focal_genus_id);

CREATE TABLE ord_geastrales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_genomics_assembly_id ON ord_geastrales_genomics (assembly_id);
CREATE INDEX ix_ord_geastrales_genomics_species_id ON ord_geastrales_genomics (species_id);

CREATE TABLE ord_geastrales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_biochemistry_species_id ON ord_geastrales_biochemistry (species_id);
CREATE INDEX ix_ord_geastrales_biochemistry_compound_id ON ord_geastrales_biochemistry (compound_id);

CREATE TABLE ord_geastrales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_cultivation_notes_species_id ON ord_geastrales_cultivation_notes (species_id);
CREATE INDEX ix_ord_geastrales_cultivation_notes_strain_id ON ord_geastrales_cultivation_notes (strain_id);

CREATE TABLE ord_geastrales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_pathogenicity_species_id ON ord_geastrales_pathogenicity (species_id);
CREATE INDEX ix_ord_geastrales_pathogenicity_host_id ON ord_geastrales_pathogenicity (host_id);

CREATE TABLE ord_geastrales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_edibility_species_id ON ord_geastrales_edibility (species_id);
CREATE INDEX ix_ord_geastrales_edibility_regional_tradition_country_id ON ord_geastrales_edibility (regional_tradition_country_id);

CREATE TABLE ord_geastrales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_medicinal_uses_species_id ON ord_geastrales_medicinal_uses (species_id);
CREATE INDEX ix_ord_geastrales_medicinal_uses_publication_id ON ord_geastrales_medicinal_uses (publication_id);

CREATE TABLE ord_geastrales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_taxonomic_revisions_publication_id ON ord_geastrales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_geastrales_taxonomic_revisions_affected_family_id ON ord_geastrales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_geastrales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_conservation_status_species_id ON ord_geastrales_conservation_status (species_id);
CREATE INDEX ix_ord_geastrales_conservation_status_country_id ON ord_geastrales_conservation_status (country_id);

CREATE TABLE ord_geastrales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_diagnostic_keys_publication_id ON ord_geastrales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_geastrales_diagnostic_keys_region_country_id ON ord_geastrales_diagnostic_keys (region_country_id);

CREATE TABLE ord_geastrales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_type_species_register_focal_genus_id ON ord_geastrales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_geastrales_type_species_register_type_species_id ON ord_geastrales_type_species_register (type_species_id);

CREATE TABLE ord_geastrales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_distribution_grids_species_id ON ord_geastrales_distribution_grids (species_id);
CREATE INDEX ix_ord_geastrales_distribution_grids_country_id ON ord_geastrales_distribution_grids (country_id);

CREATE TABLE ord_geastrales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_microclimate_studies_species_id ON ord_geastrales_microclimate_studies (species_id);
CREATE INDEX ix_ord_geastrales_microclimate_studies_publication_id ON ord_geastrales_microclimate_studies (publication_id);

CREATE TABLE ord_geastrales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_dna_barcoding_status_species_id ON ord_geastrales_dna_barcoding_status (species_id);

CREATE TABLE ord_geastrales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_spore_print_data_species_id ON ord_geastrales_spore_print_data (species_id);
CREATE INDEX ix_ord_geastrales_spore_print_data_specimen_id ON ord_geastrales_spore_print_data (specimen_id);

CREATE TABLE ord_geastrales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_mating_systems_species_id ON ord_geastrales_mating_systems (species_id);
CREATE INDEX ix_ord_geastrales_mating_systems_publication_id ON ord_geastrales_mating_systems (publication_id);

CREATE TABLE ord_geastrales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_nutrient_uptake_studies_species_id ON ord_geastrales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_geastrales_nutrient_uptake_studies_strain_id ON ord_geastrales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_geastrales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_range_maps_species_id ON ord_geastrales_range_maps (species_id);
CREATE INDEX ix_ord_geastrales_range_maps_publication_id ON ord_geastrales_range_maps (publication_id);

CREATE TABLE ord_geastrales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_abundance_estimates_species_id ON ord_geastrales_abundance_estimates (species_id);
CREATE INDEX ix_ord_geastrales_abundance_estimates_country_id ON ord_geastrales_abundance_estimates (country_id);

CREATE TABLE ord_geastrales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_toxin_profiles_species_id ON ord_geastrales_toxin_profiles (species_id);
CREATE INDEX ix_ord_geastrales_toxin_profiles_compound_id ON ord_geastrales_toxin_profiles (compound_id);

CREATE TABLE ord_geastrales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_enzyme_activity_assays_species_id ON ord_geastrales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_geastrales_enzyme_activity_assays_enzyme_id ON ord_geastrales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_geastrales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_biocontrol_evaluations_species_id ON ord_geastrales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_geastrales_biocontrol_evaluations_publication_id ON ord_geastrales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_geastrales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_geastrales_regional_checklists_species_id ON ord_geastrales_regional_checklists (species_id);
CREATE INDEX ix_ord_geastrales_regional_checklists_country_id ON ord_geastrales_regional_checklists (country_id);

CREATE TABLE ord_lycoperdales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_morphology_specimen_id ON ord_lycoperdales_morphology (specimen_id);
CREATE INDEX ix_ord_lycoperdales_morphology_species_id ON ord_lycoperdales_morphology (species_id);

CREATE TABLE ord_lycoperdales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_ecology_species_id ON ord_lycoperdales_ecology (species_id);
CREATE INDEX ix_ord_lycoperdales_ecology_dominant_habitat_id ON ord_lycoperdales_ecology (dominant_habitat_id);

CREATE TABLE ord_lycoperdales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_phenology_species_id ON ord_lycoperdales_phenology (species_id);
CREATE INDEX ix_ord_lycoperdales_phenology_region_country_id ON ord_lycoperdales_phenology (region_country_id);

CREATE TABLE ord_lycoperdales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_host_associations_species_id ON ord_lycoperdales_host_associations (species_id);
CREATE INDEX ix_ord_lycoperdales_host_associations_host_id ON ord_lycoperdales_host_associations (host_id);

CREATE TABLE ord_lycoperdales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_substrate_preferences_species_id ON ord_lycoperdales_substrate_preferences (species_id);
CREATE INDEX ix_ord_lycoperdales_substrate_preferences_substrate_id ON ord_lycoperdales_substrate_preferences (substrate_id);

CREATE TABLE ord_lycoperdales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_geographic_distribution_species_id ON ord_lycoperdales_geographic_distribution (species_id);
CREATE INDEX ix_ord_lycoperdales_geographic_distribution_country_id ON ord_lycoperdales_geographic_distribution (country_id);

CREATE TABLE ord_lycoperdales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_phylogeny_tree_id ON ord_lycoperdales_phylogeny (tree_id);
CREATE INDEX ix_ord_lycoperdales_phylogeny_focal_genus_id ON ord_lycoperdales_phylogeny (focal_genus_id);

CREATE TABLE ord_lycoperdales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_genomics_assembly_id ON ord_lycoperdales_genomics (assembly_id);
CREATE INDEX ix_ord_lycoperdales_genomics_species_id ON ord_lycoperdales_genomics (species_id);

CREATE TABLE ord_lycoperdales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_biochemistry_species_id ON ord_lycoperdales_biochemistry (species_id);
CREATE INDEX ix_ord_lycoperdales_biochemistry_compound_id ON ord_lycoperdales_biochemistry (compound_id);

CREATE TABLE ord_lycoperdales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_cultivation_notes_species_id ON ord_lycoperdales_cultivation_notes (species_id);
CREATE INDEX ix_ord_lycoperdales_cultivation_notes_strain_id ON ord_lycoperdales_cultivation_notes (strain_id);

CREATE TABLE ord_lycoperdales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_pathogenicity_species_id ON ord_lycoperdales_pathogenicity (species_id);
CREATE INDEX ix_ord_lycoperdales_pathogenicity_host_id ON ord_lycoperdales_pathogenicity (host_id);

CREATE TABLE ord_lycoperdales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_edibility_species_id ON ord_lycoperdales_edibility (species_id);
CREATE INDEX ix_ord_lycoperdales_edibility_regional_tradition_country_id ON ord_lycoperdales_edibility (regional_tradition_country_id);

CREATE TABLE ord_lycoperdales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_medicinal_uses_species_id ON ord_lycoperdales_medicinal_uses (species_id);
CREATE INDEX ix_ord_lycoperdales_medicinal_uses_publication_id ON ord_lycoperdales_medicinal_uses (publication_id);

CREATE TABLE ord_lycoperdales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_taxonomic_revisions_publication_id ON ord_lycoperdales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_lycoperdales_taxonomic_revisions_affected_family_id ON ord_lycoperdales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_lycoperdales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_conservation_status_species_id ON ord_lycoperdales_conservation_status (species_id);
CREATE INDEX ix_ord_lycoperdales_conservation_status_country_id ON ord_lycoperdales_conservation_status (country_id);

CREATE TABLE ord_lycoperdales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_diagnostic_keys_publication_id ON ord_lycoperdales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_lycoperdales_diagnostic_keys_region_country_id ON ord_lycoperdales_diagnostic_keys (region_country_id);

CREATE TABLE ord_lycoperdales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_type_species_register_focal_genus_id ON ord_lycoperdales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_lycoperdales_type_species_register_type_species_id ON ord_lycoperdales_type_species_register (type_species_id);

CREATE TABLE ord_lycoperdales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_distribution_grids_species_id ON ord_lycoperdales_distribution_grids (species_id);
CREATE INDEX ix_ord_lycoperdales_distribution_grids_country_id ON ord_lycoperdales_distribution_grids (country_id);

CREATE TABLE ord_lycoperdales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_microclimate_studies_species_id ON ord_lycoperdales_microclimate_studies (species_id);
CREATE INDEX ix_ord_lycoperdales_microclimate_studies_publication_id ON ord_lycoperdales_microclimate_studies (publication_id);

CREATE TABLE ord_lycoperdales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_dna_barcoding_status_species_id ON ord_lycoperdales_dna_barcoding_status (species_id);

CREATE TABLE ord_lycoperdales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_spore_print_data_species_id ON ord_lycoperdales_spore_print_data (species_id);
CREATE INDEX ix_ord_lycoperdales_spore_print_data_specimen_id ON ord_lycoperdales_spore_print_data (specimen_id);

CREATE TABLE ord_lycoperdales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_mating_systems_species_id ON ord_lycoperdales_mating_systems (species_id);
CREATE INDEX ix_ord_lycoperdales_mating_systems_publication_id ON ord_lycoperdales_mating_systems (publication_id);

CREATE TABLE ord_lycoperdales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_nutrient_uptake_studies_species_id ON ord_lycoperdales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_lycoperdales_nutrient_uptake_studies_strain_id ON ord_lycoperdales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_lycoperdales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_range_maps_species_id ON ord_lycoperdales_range_maps (species_id);
CREATE INDEX ix_ord_lycoperdales_range_maps_publication_id ON ord_lycoperdales_range_maps (publication_id);

CREATE TABLE ord_lycoperdales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_abundance_estimates_species_id ON ord_lycoperdales_abundance_estimates (species_id);
CREATE INDEX ix_ord_lycoperdales_abundance_estimates_country_id ON ord_lycoperdales_abundance_estimates (country_id);

CREATE TABLE ord_lycoperdales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_toxin_profiles_species_id ON ord_lycoperdales_toxin_profiles (species_id);
CREATE INDEX ix_ord_lycoperdales_toxin_profiles_compound_id ON ord_lycoperdales_toxin_profiles (compound_id);

CREATE TABLE ord_lycoperdales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_enzyme_activity_assays_species_id ON ord_lycoperdales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_lycoperdales_enzyme_activity_assays_enzyme_id ON ord_lycoperdales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_lycoperdales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_biocontrol_evaluations_species_id ON ord_lycoperdales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_lycoperdales_biocontrol_evaluations_publication_id ON ord_lycoperdales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_lycoperdales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lycoperdales_regional_checklists_species_id ON ord_lycoperdales_regional_checklists (species_id);
CREATE INDEX ix_ord_lycoperdales_regional_checklists_country_id ON ord_lycoperdales_regional_checklists (country_id);

CREATE TABLE ord_sebacinales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_morphology_specimen_id ON ord_sebacinales_morphology (specimen_id);
CREATE INDEX ix_ord_sebacinales_morphology_species_id ON ord_sebacinales_morphology (species_id);

CREATE TABLE ord_sebacinales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_ecology_species_id ON ord_sebacinales_ecology (species_id);
CREATE INDEX ix_ord_sebacinales_ecology_dominant_habitat_id ON ord_sebacinales_ecology (dominant_habitat_id);

CREATE TABLE ord_sebacinales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_phenology_species_id ON ord_sebacinales_phenology (species_id);
CREATE INDEX ix_ord_sebacinales_phenology_region_country_id ON ord_sebacinales_phenology (region_country_id);

CREATE TABLE ord_sebacinales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_host_associations_species_id ON ord_sebacinales_host_associations (species_id);
CREATE INDEX ix_ord_sebacinales_host_associations_host_id ON ord_sebacinales_host_associations (host_id);

CREATE TABLE ord_sebacinales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_substrate_preferences_species_id ON ord_sebacinales_substrate_preferences (species_id);
CREATE INDEX ix_ord_sebacinales_substrate_preferences_substrate_id ON ord_sebacinales_substrate_preferences (substrate_id);

CREATE TABLE ord_sebacinales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_geographic_distribution_species_id ON ord_sebacinales_geographic_distribution (species_id);
CREATE INDEX ix_ord_sebacinales_geographic_distribution_country_id ON ord_sebacinales_geographic_distribution (country_id);

CREATE TABLE ord_sebacinales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_phylogeny_tree_id ON ord_sebacinales_phylogeny (tree_id);
CREATE INDEX ix_ord_sebacinales_phylogeny_focal_genus_id ON ord_sebacinales_phylogeny (focal_genus_id);

CREATE TABLE ord_sebacinales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_genomics_assembly_id ON ord_sebacinales_genomics (assembly_id);
CREATE INDEX ix_ord_sebacinales_genomics_species_id ON ord_sebacinales_genomics (species_id);

CREATE TABLE ord_sebacinales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_biochemistry_species_id ON ord_sebacinales_biochemistry (species_id);
CREATE INDEX ix_ord_sebacinales_biochemistry_compound_id ON ord_sebacinales_biochemistry (compound_id);

CREATE TABLE ord_sebacinales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_cultivation_notes_species_id ON ord_sebacinales_cultivation_notes (species_id);
CREATE INDEX ix_ord_sebacinales_cultivation_notes_strain_id ON ord_sebacinales_cultivation_notes (strain_id);

CREATE TABLE ord_sebacinales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_pathogenicity_species_id ON ord_sebacinales_pathogenicity (species_id);
CREATE INDEX ix_ord_sebacinales_pathogenicity_host_id ON ord_sebacinales_pathogenicity (host_id);

CREATE TABLE ord_sebacinales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_edibility_species_id ON ord_sebacinales_edibility (species_id);
CREATE INDEX ix_ord_sebacinales_edibility_regional_tradition_country_id ON ord_sebacinales_edibility (regional_tradition_country_id);

CREATE TABLE ord_sebacinales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_medicinal_uses_species_id ON ord_sebacinales_medicinal_uses (species_id);
CREATE INDEX ix_ord_sebacinales_medicinal_uses_publication_id ON ord_sebacinales_medicinal_uses (publication_id);

CREATE TABLE ord_sebacinales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_taxonomic_revisions_publication_id ON ord_sebacinales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_sebacinales_taxonomic_revisions_affected_family_id ON ord_sebacinales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_sebacinales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_conservation_status_species_id ON ord_sebacinales_conservation_status (species_id);
CREATE INDEX ix_ord_sebacinales_conservation_status_country_id ON ord_sebacinales_conservation_status (country_id);

CREATE TABLE ord_sebacinales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_diagnostic_keys_publication_id ON ord_sebacinales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_sebacinales_diagnostic_keys_region_country_id ON ord_sebacinales_diagnostic_keys (region_country_id);

CREATE TABLE ord_sebacinales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_type_species_register_focal_genus_id ON ord_sebacinales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_sebacinales_type_species_register_type_species_id ON ord_sebacinales_type_species_register (type_species_id);

CREATE TABLE ord_sebacinales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_distribution_grids_species_id ON ord_sebacinales_distribution_grids (species_id);
CREATE INDEX ix_ord_sebacinales_distribution_grids_country_id ON ord_sebacinales_distribution_grids (country_id);

CREATE TABLE ord_sebacinales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_microclimate_studies_species_id ON ord_sebacinales_microclimate_studies (species_id);
CREATE INDEX ix_ord_sebacinales_microclimate_studies_publication_id ON ord_sebacinales_microclimate_studies (publication_id);

CREATE TABLE ord_sebacinales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_dna_barcoding_status_species_id ON ord_sebacinales_dna_barcoding_status (species_id);

CREATE TABLE ord_sebacinales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_spore_print_data_species_id ON ord_sebacinales_spore_print_data (species_id);
CREATE INDEX ix_ord_sebacinales_spore_print_data_specimen_id ON ord_sebacinales_spore_print_data (specimen_id);

CREATE TABLE ord_sebacinales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_mating_systems_species_id ON ord_sebacinales_mating_systems (species_id);
CREATE INDEX ix_ord_sebacinales_mating_systems_publication_id ON ord_sebacinales_mating_systems (publication_id);

CREATE TABLE ord_sebacinales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_nutrient_uptake_studies_species_id ON ord_sebacinales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_sebacinales_nutrient_uptake_studies_strain_id ON ord_sebacinales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_sebacinales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_range_maps_species_id ON ord_sebacinales_range_maps (species_id);
CREATE INDEX ix_ord_sebacinales_range_maps_publication_id ON ord_sebacinales_range_maps (publication_id);

CREATE TABLE ord_sebacinales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_abundance_estimates_species_id ON ord_sebacinales_abundance_estimates (species_id);
CREATE INDEX ix_ord_sebacinales_abundance_estimates_country_id ON ord_sebacinales_abundance_estimates (country_id);

CREATE TABLE ord_sebacinales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_toxin_profiles_species_id ON ord_sebacinales_toxin_profiles (species_id);
CREATE INDEX ix_ord_sebacinales_toxin_profiles_compound_id ON ord_sebacinales_toxin_profiles (compound_id);

CREATE TABLE ord_sebacinales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_enzyme_activity_assays_species_id ON ord_sebacinales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_sebacinales_enzyme_activity_assays_enzyme_id ON ord_sebacinales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_sebacinales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_biocontrol_evaluations_species_id ON ord_sebacinales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_sebacinales_biocontrol_evaluations_publication_id ON ord_sebacinales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_sebacinales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sebacinales_regional_checklists_species_id ON ord_sebacinales_regional_checklists (species_id);
CREATE INDEX ix_ord_sebacinales_regional_checklists_country_id ON ord_sebacinales_regional_checklists (country_id);

CREATE TABLE ord_atheliales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_morphology_specimen_id ON ord_atheliales_morphology (specimen_id);
CREATE INDEX ix_ord_atheliales_morphology_species_id ON ord_atheliales_morphology (species_id);

CREATE TABLE ord_atheliales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_ecology_species_id ON ord_atheliales_ecology (species_id);
CREATE INDEX ix_ord_atheliales_ecology_dominant_habitat_id ON ord_atheliales_ecology (dominant_habitat_id);

CREATE TABLE ord_atheliales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_phenology_species_id ON ord_atheliales_phenology (species_id);
CREATE INDEX ix_ord_atheliales_phenology_region_country_id ON ord_atheliales_phenology (region_country_id);

CREATE TABLE ord_atheliales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_host_associations_species_id ON ord_atheliales_host_associations (species_id);
CREATE INDEX ix_ord_atheliales_host_associations_host_id ON ord_atheliales_host_associations (host_id);

CREATE TABLE ord_atheliales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_substrate_preferences_species_id ON ord_atheliales_substrate_preferences (species_id);
CREATE INDEX ix_ord_atheliales_substrate_preferences_substrate_id ON ord_atheliales_substrate_preferences (substrate_id);

CREATE TABLE ord_atheliales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_geographic_distribution_species_id ON ord_atheliales_geographic_distribution (species_id);
CREATE INDEX ix_ord_atheliales_geographic_distribution_country_id ON ord_atheliales_geographic_distribution (country_id);

CREATE TABLE ord_atheliales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_phylogeny_tree_id ON ord_atheliales_phylogeny (tree_id);
CREATE INDEX ix_ord_atheliales_phylogeny_focal_genus_id ON ord_atheliales_phylogeny (focal_genus_id);

CREATE TABLE ord_atheliales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_genomics_assembly_id ON ord_atheliales_genomics (assembly_id);
CREATE INDEX ix_ord_atheliales_genomics_species_id ON ord_atheliales_genomics (species_id);

CREATE TABLE ord_atheliales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_biochemistry_species_id ON ord_atheliales_biochemistry (species_id);
CREATE INDEX ix_ord_atheliales_biochemistry_compound_id ON ord_atheliales_biochemistry (compound_id);

CREATE TABLE ord_atheliales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_cultivation_notes_species_id ON ord_atheliales_cultivation_notes (species_id);
CREATE INDEX ix_ord_atheliales_cultivation_notes_strain_id ON ord_atheliales_cultivation_notes (strain_id);

CREATE TABLE ord_atheliales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_pathogenicity_species_id ON ord_atheliales_pathogenicity (species_id);
CREATE INDEX ix_ord_atheliales_pathogenicity_host_id ON ord_atheliales_pathogenicity (host_id);

CREATE TABLE ord_atheliales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_edibility_species_id ON ord_atheliales_edibility (species_id);
CREATE INDEX ix_ord_atheliales_edibility_regional_tradition_country_id ON ord_atheliales_edibility (regional_tradition_country_id);

CREATE TABLE ord_atheliales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_medicinal_uses_species_id ON ord_atheliales_medicinal_uses (species_id);
CREATE INDEX ix_ord_atheliales_medicinal_uses_publication_id ON ord_atheliales_medicinal_uses (publication_id);

CREATE TABLE ord_atheliales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_taxonomic_revisions_publication_id ON ord_atheliales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_atheliales_taxonomic_revisions_affected_family_id ON ord_atheliales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_atheliales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_conservation_status_species_id ON ord_atheliales_conservation_status (species_id);
CREATE INDEX ix_ord_atheliales_conservation_status_country_id ON ord_atheliales_conservation_status (country_id);

CREATE TABLE ord_atheliales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_diagnostic_keys_publication_id ON ord_atheliales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_atheliales_diagnostic_keys_region_country_id ON ord_atheliales_diagnostic_keys (region_country_id);

CREATE TABLE ord_atheliales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_type_species_register_focal_genus_id ON ord_atheliales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_atheliales_type_species_register_type_species_id ON ord_atheliales_type_species_register (type_species_id);

CREATE TABLE ord_atheliales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_distribution_grids_species_id ON ord_atheliales_distribution_grids (species_id);
CREATE INDEX ix_ord_atheliales_distribution_grids_country_id ON ord_atheliales_distribution_grids (country_id);

CREATE TABLE ord_atheliales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_microclimate_studies_species_id ON ord_atheliales_microclimate_studies (species_id);
CREATE INDEX ix_ord_atheliales_microclimate_studies_publication_id ON ord_atheliales_microclimate_studies (publication_id);

CREATE TABLE ord_atheliales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_dna_barcoding_status_species_id ON ord_atheliales_dna_barcoding_status (species_id);

CREATE TABLE ord_atheliales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_spore_print_data_species_id ON ord_atheliales_spore_print_data (species_id);
CREATE INDEX ix_ord_atheliales_spore_print_data_specimen_id ON ord_atheliales_spore_print_data (specimen_id);

CREATE TABLE ord_atheliales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_mating_systems_species_id ON ord_atheliales_mating_systems (species_id);
CREATE INDEX ix_ord_atheliales_mating_systems_publication_id ON ord_atheliales_mating_systems (publication_id);

CREATE TABLE ord_atheliales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_nutrient_uptake_studies_species_id ON ord_atheliales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_atheliales_nutrient_uptake_studies_strain_id ON ord_atheliales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_atheliales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_range_maps_species_id ON ord_atheliales_range_maps (species_id);
CREATE INDEX ix_ord_atheliales_range_maps_publication_id ON ord_atheliales_range_maps (publication_id);

CREATE TABLE ord_atheliales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_abundance_estimates_species_id ON ord_atheliales_abundance_estimates (species_id);
CREATE INDEX ix_ord_atheliales_abundance_estimates_country_id ON ord_atheliales_abundance_estimates (country_id);

CREATE TABLE ord_atheliales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_toxin_profiles_species_id ON ord_atheliales_toxin_profiles (species_id);
CREATE INDEX ix_ord_atheliales_toxin_profiles_compound_id ON ord_atheliales_toxin_profiles (compound_id);

CREATE TABLE ord_atheliales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_enzyme_activity_assays_species_id ON ord_atheliales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_atheliales_enzyme_activity_assays_enzyme_id ON ord_atheliales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_atheliales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_biocontrol_evaluations_species_id ON ord_atheliales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_atheliales_biocontrol_evaluations_publication_id ON ord_atheliales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_atheliales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_atheliales_regional_checklists_species_id ON ord_atheliales_regional_checklists (species_id);
CREATE INDEX ix_ord_atheliales_regional_checklists_country_id ON ord_atheliales_regional_checklists (country_id);

CREATE TABLE ord_corticiales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_morphology_specimen_id ON ord_corticiales_morphology (specimen_id);
CREATE INDEX ix_ord_corticiales_morphology_species_id ON ord_corticiales_morphology (species_id);

CREATE TABLE ord_corticiales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_ecology_species_id ON ord_corticiales_ecology (species_id);
CREATE INDEX ix_ord_corticiales_ecology_dominant_habitat_id ON ord_corticiales_ecology (dominant_habitat_id);

CREATE TABLE ord_corticiales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_phenology_species_id ON ord_corticiales_phenology (species_id);
CREATE INDEX ix_ord_corticiales_phenology_region_country_id ON ord_corticiales_phenology (region_country_id);

CREATE TABLE ord_corticiales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_host_associations_species_id ON ord_corticiales_host_associations (species_id);
CREATE INDEX ix_ord_corticiales_host_associations_host_id ON ord_corticiales_host_associations (host_id);

CREATE TABLE ord_corticiales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_substrate_preferences_species_id ON ord_corticiales_substrate_preferences (species_id);
CREATE INDEX ix_ord_corticiales_substrate_preferences_substrate_id ON ord_corticiales_substrate_preferences (substrate_id);

CREATE TABLE ord_corticiales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_geographic_distribution_species_id ON ord_corticiales_geographic_distribution (species_id);
CREATE INDEX ix_ord_corticiales_geographic_distribution_country_id ON ord_corticiales_geographic_distribution (country_id);

CREATE TABLE ord_corticiales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_phylogeny_tree_id ON ord_corticiales_phylogeny (tree_id);
CREATE INDEX ix_ord_corticiales_phylogeny_focal_genus_id ON ord_corticiales_phylogeny (focal_genus_id);

CREATE TABLE ord_corticiales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_genomics_assembly_id ON ord_corticiales_genomics (assembly_id);
CREATE INDEX ix_ord_corticiales_genomics_species_id ON ord_corticiales_genomics (species_id);

CREATE TABLE ord_corticiales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_biochemistry_species_id ON ord_corticiales_biochemistry (species_id);
CREATE INDEX ix_ord_corticiales_biochemistry_compound_id ON ord_corticiales_biochemistry (compound_id);

CREATE TABLE ord_corticiales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_cultivation_notes_species_id ON ord_corticiales_cultivation_notes (species_id);
CREATE INDEX ix_ord_corticiales_cultivation_notes_strain_id ON ord_corticiales_cultivation_notes (strain_id);

CREATE TABLE ord_corticiales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_pathogenicity_species_id ON ord_corticiales_pathogenicity (species_id);
CREATE INDEX ix_ord_corticiales_pathogenicity_host_id ON ord_corticiales_pathogenicity (host_id);

CREATE TABLE ord_corticiales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_edibility_species_id ON ord_corticiales_edibility (species_id);
CREATE INDEX ix_ord_corticiales_edibility_regional_tradition_country_id ON ord_corticiales_edibility (regional_tradition_country_id);

CREATE TABLE ord_corticiales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_medicinal_uses_species_id ON ord_corticiales_medicinal_uses (species_id);
CREATE INDEX ix_ord_corticiales_medicinal_uses_publication_id ON ord_corticiales_medicinal_uses (publication_id);

CREATE TABLE ord_corticiales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_taxonomic_revisions_publication_id ON ord_corticiales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_corticiales_taxonomic_revisions_affected_family_id ON ord_corticiales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_corticiales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_conservation_status_species_id ON ord_corticiales_conservation_status (species_id);
CREATE INDEX ix_ord_corticiales_conservation_status_country_id ON ord_corticiales_conservation_status (country_id);

CREATE TABLE ord_corticiales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_diagnostic_keys_publication_id ON ord_corticiales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_corticiales_diagnostic_keys_region_country_id ON ord_corticiales_diagnostic_keys (region_country_id);

CREATE TABLE ord_corticiales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_type_species_register_focal_genus_id ON ord_corticiales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_corticiales_type_species_register_type_species_id ON ord_corticiales_type_species_register (type_species_id);

CREATE TABLE ord_corticiales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_distribution_grids_species_id ON ord_corticiales_distribution_grids (species_id);
CREATE INDEX ix_ord_corticiales_distribution_grids_country_id ON ord_corticiales_distribution_grids (country_id);

CREATE TABLE ord_corticiales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_microclimate_studies_species_id ON ord_corticiales_microclimate_studies (species_id);
CREATE INDEX ix_ord_corticiales_microclimate_studies_publication_id ON ord_corticiales_microclimate_studies (publication_id);

CREATE TABLE ord_corticiales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_dna_barcoding_status_species_id ON ord_corticiales_dna_barcoding_status (species_id);

CREATE TABLE ord_corticiales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_spore_print_data_species_id ON ord_corticiales_spore_print_data (species_id);
CREATE INDEX ix_ord_corticiales_spore_print_data_specimen_id ON ord_corticiales_spore_print_data (specimen_id);

CREATE TABLE ord_corticiales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_mating_systems_species_id ON ord_corticiales_mating_systems (species_id);
CREATE INDEX ix_ord_corticiales_mating_systems_publication_id ON ord_corticiales_mating_systems (publication_id);

CREATE TABLE ord_corticiales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_nutrient_uptake_studies_species_id ON ord_corticiales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_corticiales_nutrient_uptake_studies_strain_id ON ord_corticiales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_corticiales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_range_maps_species_id ON ord_corticiales_range_maps (species_id);
CREATE INDEX ix_ord_corticiales_range_maps_publication_id ON ord_corticiales_range_maps (publication_id);

CREATE TABLE ord_corticiales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_abundance_estimates_species_id ON ord_corticiales_abundance_estimates (species_id);
CREATE INDEX ix_ord_corticiales_abundance_estimates_country_id ON ord_corticiales_abundance_estimates (country_id);

CREATE TABLE ord_corticiales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_toxin_profiles_species_id ON ord_corticiales_toxin_profiles (species_id);
CREATE INDEX ix_ord_corticiales_toxin_profiles_compound_id ON ord_corticiales_toxin_profiles (compound_id);

CREATE TABLE ord_corticiales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_enzyme_activity_assays_species_id ON ord_corticiales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_corticiales_enzyme_activity_assays_enzyme_id ON ord_corticiales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_corticiales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_biocontrol_evaluations_species_id ON ord_corticiales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_corticiales_biocontrol_evaluations_publication_id ON ord_corticiales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_corticiales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_corticiales_regional_checklists_species_id ON ord_corticiales_regional_checklists (species_id);
CREATE INDEX ix_ord_corticiales_regional_checklists_country_id ON ord_corticiales_regional_checklists (country_id);

CREATE TABLE ord_gomphales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_morphology_specimen_id ON ord_gomphales_morphology (specimen_id);
CREATE INDEX ix_ord_gomphales_morphology_species_id ON ord_gomphales_morphology (species_id);

CREATE TABLE ord_gomphales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_ecology_species_id ON ord_gomphales_ecology (species_id);
CREATE INDEX ix_ord_gomphales_ecology_dominant_habitat_id ON ord_gomphales_ecology (dominant_habitat_id);

CREATE TABLE ord_gomphales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_phenology_species_id ON ord_gomphales_phenology (species_id);
CREATE INDEX ix_ord_gomphales_phenology_region_country_id ON ord_gomphales_phenology (region_country_id);

CREATE TABLE ord_gomphales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_host_associations_species_id ON ord_gomphales_host_associations (species_id);
CREATE INDEX ix_ord_gomphales_host_associations_host_id ON ord_gomphales_host_associations (host_id);

CREATE TABLE ord_gomphales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_substrate_preferences_species_id ON ord_gomphales_substrate_preferences (species_id);
CREATE INDEX ix_ord_gomphales_substrate_preferences_substrate_id ON ord_gomphales_substrate_preferences (substrate_id);

CREATE TABLE ord_gomphales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_geographic_distribution_species_id ON ord_gomphales_geographic_distribution (species_id);
CREATE INDEX ix_ord_gomphales_geographic_distribution_country_id ON ord_gomphales_geographic_distribution (country_id);

CREATE TABLE ord_gomphales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_phylogeny_tree_id ON ord_gomphales_phylogeny (tree_id);
CREATE INDEX ix_ord_gomphales_phylogeny_focal_genus_id ON ord_gomphales_phylogeny (focal_genus_id);

CREATE TABLE ord_gomphales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_genomics_assembly_id ON ord_gomphales_genomics (assembly_id);
CREATE INDEX ix_ord_gomphales_genomics_species_id ON ord_gomphales_genomics (species_id);

CREATE TABLE ord_gomphales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_biochemistry_species_id ON ord_gomphales_biochemistry (species_id);
CREATE INDEX ix_ord_gomphales_biochemistry_compound_id ON ord_gomphales_biochemistry (compound_id);

CREATE TABLE ord_gomphales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_cultivation_notes_species_id ON ord_gomphales_cultivation_notes (species_id);
CREATE INDEX ix_ord_gomphales_cultivation_notes_strain_id ON ord_gomphales_cultivation_notes (strain_id);

CREATE TABLE ord_gomphales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_pathogenicity_species_id ON ord_gomphales_pathogenicity (species_id);
CREATE INDEX ix_ord_gomphales_pathogenicity_host_id ON ord_gomphales_pathogenicity (host_id);

CREATE TABLE ord_gomphales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_edibility_species_id ON ord_gomphales_edibility (species_id);
CREATE INDEX ix_ord_gomphales_edibility_regional_tradition_country_id ON ord_gomphales_edibility (regional_tradition_country_id);

CREATE TABLE ord_gomphales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_medicinal_uses_species_id ON ord_gomphales_medicinal_uses (species_id);
CREATE INDEX ix_ord_gomphales_medicinal_uses_publication_id ON ord_gomphales_medicinal_uses (publication_id);

CREATE TABLE ord_gomphales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_taxonomic_revisions_publication_id ON ord_gomphales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_gomphales_taxonomic_revisions_affected_family_id ON ord_gomphales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_gomphales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_conservation_status_species_id ON ord_gomphales_conservation_status (species_id);
CREATE INDEX ix_ord_gomphales_conservation_status_country_id ON ord_gomphales_conservation_status (country_id);

CREATE TABLE ord_gomphales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_diagnostic_keys_publication_id ON ord_gomphales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_gomphales_diagnostic_keys_region_country_id ON ord_gomphales_diagnostic_keys (region_country_id);

CREATE TABLE ord_gomphales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_type_species_register_focal_genus_id ON ord_gomphales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_gomphales_type_species_register_type_species_id ON ord_gomphales_type_species_register (type_species_id);

CREATE TABLE ord_gomphales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_distribution_grids_species_id ON ord_gomphales_distribution_grids (species_id);
CREATE INDEX ix_ord_gomphales_distribution_grids_country_id ON ord_gomphales_distribution_grids (country_id);

CREATE TABLE ord_gomphales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_microclimate_studies_species_id ON ord_gomphales_microclimate_studies (species_id);
CREATE INDEX ix_ord_gomphales_microclimate_studies_publication_id ON ord_gomphales_microclimate_studies (publication_id);

CREATE TABLE ord_gomphales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_dna_barcoding_status_species_id ON ord_gomphales_dna_barcoding_status (species_id);

CREATE TABLE ord_gomphales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_spore_print_data_species_id ON ord_gomphales_spore_print_data (species_id);
CREATE INDEX ix_ord_gomphales_spore_print_data_specimen_id ON ord_gomphales_spore_print_data (specimen_id);

CREATE TABLE ord_gomphales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_mating_systems_species_id ON ord_gomphales_mating_systems (species_id);
CREATE INDEX ix_ord_gomphales_mating_systems_publication_id ON ord_gomphales_mating_systems (publication_id);

CREATE TABLE ord_gomphales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_nutrient_uptake_studies_species_id ON ord_gomphales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_gomphales_nutrient_uptake_studies_strain_id ON ord_gomphales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_gomphales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_range_maps_species_id ON ord_gomphales_range_maps (species_id);
CREATE INDEX ix_ord_gomphales_range_maps_publication_id ON ord_gomphales_range_maps (publication_id);

CREATE TABLE ord_gomphales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_abundance_estimates_species_id ON ord_gomphales_abundance_estimates (species_id);
CREATE INDEX ix_ord_gomphales_abundance_estimates_country_id ON ord_gomphales_abundance_estimates (country_id);

CREATE TABLE ord_gomphales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_toxin_profiles_species_id ON ord_gomphales_toxin_profiles (species_id);
CREATE INDEX ix_ord_gomphales_toxin_profiles_compound_id ON ord_gomphales_toxin_profiles (compound_id);

CREATE TABLE ord_gomphales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_enzyme_activity_assays_species_id ON ord_gomphales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_gomphales_enzyme_activity_assays_enzyme_id ON ord_gomphales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_gomphales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_biocontrol_evaluations_species_id ON ord_gomphales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_gomphales_biocontrol_evaluations_publication_id ON ord_gomphales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_gomphales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_gomphales_regional_checklists_species_id ON ord_gomphales_regional_checklists (species_id);
CREATE INDEX ix_ord_gomphales_regional_checklists_country_id ON ord_gomphales_regional_checklists (country_id);

CREATE TABLE ord_stereopsidales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_morphology_specimen_id ON ord_stereopsidales_morphology (specimen_id);
CREATE INDEX ix_ord_stereopsidales_morphology_species_id ON ord_stereopsidales_morphology (species_id);

CREATE TABLE ord_stereopsidales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_ecology_species_id ON ord_stereopsidales_ecology (species_id);
CREATE INDEX ix_ord_stereopsidales_ecology_dominant_habitat_id ON ord_stereopsidales_ecology (dominant_habitat_id);

CREATE TABLE ord_stereopsidales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_phenology_species_id ON ord_stereopsidales_phenology (species_id);
CREATE INDEX ix_ord_stereopsidales_phenology_region_country_id ON ord_stereopsidales_phenology (region_country_id);

CREATE TABLE ord_stereopsidales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_host_associations_species_id ON ord_stereopsidales_host_associations (species_id);
CREATE INDEX ix_ord_stereopsidales_host_associations_host_id ON ord_stereopsidales_host_associations (host_id);

CREATE TABLE ord_stereopsidales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_substrate_preferences_species_id ON ord_stereopsidales_substrate_preferences (species_id);
CREATE INDEX ix_ord_stereopsidales_substrate_preferences_substrate_id ON ord_stereopsidales_substrate_preferences (substrate_id);

CREATE TABLE ord_stereopsidales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_geographic_distribution_species_id ON ord_stereopsidales_geographic_distribution (species_id);
CREATE INDEX ix_ord_stereopsidales_geographic_distribution_country_id ON ord_stereopsidales_geographic_distribution (country_id);

CREATE TABLE ord_stereopsidales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_phylogeny_tree_id ON ord_stereopsidales_phylogeny (tree_id);
CREATE INDEX ix_ord_stereopsidales_phylogeny_focal_genus_id ON ord_stereopsidales_phylogeny (focal_genus_id);

CREATE TABLE ord_stereopsidales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_genomics_assembly_id ON ord_stereopsidales_genomics (assembly_id);
CREATE INDEX ix_ord_stereopsidales_genomics_species_id ON ord_stereopsidales_genomics (species_id);

CREATE TABLE ord_stereopsidales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_biochemistry_species_id ON ord_stereopsidales_biochemistry (species_id);
CREATE INDEX ix_ord_stereopsidales_biochemistry_compound_id ON ord_stereopsidales_biochemistry (compound_id);

CREATE TABLE ord_stereopsidales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_cultivation_notes_species_id ON ord_stereopsidales_cultivation_notes (species_id);
CREATE INDEX ix_ord_stereopsidales_cultivation_notes_strain_id ON ord_stereopsidales_cultivation_notes (strain_id);

CREATE TABLE ord_stereopsidales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_pathogenicity_species_id ON ord_stereopsidales_pathogenicity (species_id);
CREATE INDEX ix_ord_stereopsidales_pathogenicity_host_id ON ord_stereopsidales_pathogenicity (host_id);

CREATE TABLE ord_stereopsidales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_edibility_species_id ON ord_stereopsidales_edibility (species_id);
CREATE INDEX ix_ord_stereopsidales_edibility_1 ON ord_stereopsidales_edibility (regional_tradition_country_id);

CREATE TABLE ord_stereopsidales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_medicinal_uses_species_id ON ord_stereopsidales_medicinal_uses (species_id);
CREATE INDEX ix_ord_stereopsidales_medicinal_uses_publication_id ON ord_stereopsidales_medicinal_uses (publication_id);

CREATE TABLE ord_stereopsidales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_taxonomic_revisions_publication_id ON ord_stereopsidales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_stereopsidales_taxonomic_revisions_affected_family_id ON ord_stereopsidales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_stereopsidales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_conservation_status_species_id ON ord_stereopsidales_conservation_status (species_id);
CREATE INDEX ix_ord_stereopsidales_conservation_status_country_id ON ord_stereopsidales_conservation_status (country_id);

CREATE TABLE ord_stereopsidales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_diagnostic_keys_publication_id ON ord_stereopsidales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_stereopsidales_diagnostic_keys_region_country_id ON ord_stereopsidales_diagnostic_keys (region_country_id);

CREATE TABLE ord_stereopsidales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_type_species_register_focal_genus_id ON ord_stereopsidales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_stereopsidales_type_species_register_type_species_id ON ord_stereopsidales_type_species_register (type_species_id);

CREATE TABLE ord_stereopsidales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_distribution_grids_species_id ON ord_stereopsidales_distribution_grids (species_id);
CREATE INDEX ix_ord_stereopsidales_distribution_grids_country_id ON ord_stereopsidales_distribution_grids (country_id);

CREATE TABLE ord_stereopsidales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_microclimate_studies_species_id ON ord_stereopsidales_microclimate_studies (species_id);
CREATE INDEX ix_ord_stereopsidales_microclimate_studies_publication_id ON ord_stereopsidales_microclimate_studies (publication_id);

CREATE TABLE ord_stereopsidales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_dna_barcoding_status_species_id ON ord_stereopsidales_dna_barcoding_status (species_id);

CREATE TABLE ord_stereopsidales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_spore_print_data_species_id ON ord_stereopsidales_spore_print_data (species_id);
CREATE INDEX ix_ord_stereopsidales_spore_print_data_specimen_id ON ord_stereopsidales_spore_print_data (specimen_id);

CREATE TABLE ord_stereopsidales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_mating_systems_species_id ON ord_stereopsidales_mating_systems (species_id);
CREATE INDEX ix_ord_stereopsidales_mating_systems_publication_id ON ord_stereopsidales_mating_systems (publication_id);

CREATE TABLE ord_stereopsidales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_nutrient_uptake_studies_species_id ON ord_stereopsidales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_stereopsidales_nutrient_uptake_studies_strain_id ON ord_stereopsidales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_stereopsidales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_range_maps_species_id ON ord_stereopsidales_range_maps (species_id);
CREATE INDEX ix_ord_stereopsidales_range_maps_publication_id ON ord_stereopsidales_range_maps (publication_id);

CREATE TABLE ord_stereopsidales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_abundance_estimates_species_id ON ord_stereopsidales_abundance_estimates (species_id);
CREATE INDEX ix_ord_stereopsidales_abundance_estimates_country_id ON ord_stereopsidales_abundance_estimates (country_id);

CREATE TABLE ord_stereopsidales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_toxin_profiles_species_id ON ord_stereopsidales_toxin_profiles (species_id);
CREATE INDEX ix_ord_stereopsidales_toxin_profiles_compound_id ON ord_stereopsidales_toxin_profiles (compound_id);

CREATE TABLE ord_stereopsidales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_enzyme_activity_assays_species_id ON ord_stereopsidales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_stereopsidales_enzyme_activity_assays_enzyme_id ON ord_stereopsidales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_stereopsidales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_biocontrol_evaluations_species_id ON ord_stereopsidales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_stereopsidales_biocontrol_evaluations_publication_id ON ord_stereopsidales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_stereopsidales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_stereopsidales_regional_checklists_species_id ON ord_stereopsidales_regional_checklists (species_id);
CREATE INDEX ix_ord_stereopsidales_regional_checklists_country_id ON ord_stereopsidales_regional_checklists (country_id);

CREATE TABLE ord_pucciniales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_morphology_specimen_id ON ord_pucciniales_morphology (specimen_id);
CREATE INDEX ix_ord_pucciniales_morphology_species_id ON ord_pucciniales_morphology (species_id);

CREATE TABLE ord_pucciniales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_ecology_species_id ON ord_pucciniales_ecology (species_id);
CREATE INDEX ix_ord_pucciniales_ecology_dominant_habitat_id ON ord_pucciniales_ecology (dominant_habitat_id);

CREATE TABLE ord_pucciniales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_phenology_species_id ON ord_pucciniales_phenology (species_id);
CREATE INDEX ix_ord_pucciniales_phenology_region_country_id ON ord_pucciniales_phenology (region_country_id);

CREATE TABLE ord_pucciniales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_host_associations_species_id ON ord_pucciniales_host_associations (species_id);
CREATE INDEX ix_ord_pucciniales_host_associations_host_id ON ord_pucciniales_host_associations (host_id);

CREATE TABLE ord_pucciniales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_substrate_preferences_species_id ON ord_pucciniales_substrate_preferences (species_id);
CREATE INDEX ix_ord_pucciniales_substrate_preferences_substrate_id ON ord_pucciniales_substrate_preferences (substrate_id);

CREATE TABLE ord_pucciniales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_geographic_distribution_species_id ON ord_pucciniales_geographic_distribution (species_id);
CREATE INDEX ix_ord_pucciniales_geographic_distribution_country_id ON ord_pucciniales_geographic_distribution (country_id);

CREATE TABLE ord_pucciniales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_phylogeny_tree_id ON ord_pucciniales_phylogeny (tree_id);
CREATE INDEX ix_ord_pucciniales_phylogeny_focal_genus_id ON ord_pucciniales_phylogeny (focal_genus_id);

CREATE TABLE ord_pucciniales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_genomics_assembly_id ON ord_pucciniales_genomics (assembly_id);
CREATE INDEX ix_ord_pucciniales_genomics_species_id ON ord_pucciniales_genomics (species_id);

CREATE TABLE ord_pucciniales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_biochemistry_species_id ON ord_pucciniales_biochemistry (species_id);
CREATE INDEX ix_ord_pucciniales_biochemistry_compound_id ON ord_pucciniales_biochemistry (compound_id);

CREATE TABLE ord_pucciniales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_cultivation_notes_species_id ON ord_pucciniales_cultivation_notes (species_id);
CREATE INDEX ix_ord_pucciniales_cultivation_notes_strain_id ON ord_pucciniales_cultivation_notes (strain_id);

CREATE TABLE ord_pucciniales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_pathogenicity_species_id ON ord_pucciniales_pathogenicity (species_id);
CREATE INDEX ix_ord_pucciniales_pathogenicity_host_id ON ord_pucciniales_pathogenicity (host_id);

CREATE TABLE ord_pucciniales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_edibility_species_id ON ord_pucciniales_edibility (species_id);
CREATE INDEX ix_ord_pucciniales_edibility_regional_tradition_country_id ON ord_pucciniales_edibility (regional_tradition_country_id);

CREATE TABLE ord_pucciniales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_medicinal_uses_species_id ON ord_pucciniales_medicinal_uses (species_id);
CREATE INDEX ix_ord_pucciniales_medicinal_uses_publication_id ON ord_pucciniales_medicinal_uses (publication_id);

CREATE TABLE ord_pucciniales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_taxonomic_revisions_publication_id ON ord_pucciniales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_pucciniales_taxonomic_revisions_affected_family_id ON ord_pucciniales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_pucciniales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_conservation_status_species_id ON ord_pucciniales_conservation_status (species_id);
CREATE INDEX ix_ord_pucciniales_conservation_status_country_id ON ord_pucciniales_conservation_status (country_id);

CREATE TABLE ord_pucciniales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_diagnostic_keys_publication_id ON ord_pucciniales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_pucciniales_diagnostic_keys_region_country_id ON ord_pucciniales_diagnostic_keys (region_country_id);

CREATE TABLE ord_pucciniales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_type_species_register_focal_genus_id ON ord_pucciniales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_pucciniales_type_species_register_type_species_id ON ord_pucciniales_type_species_register (type_species_id);

CREATE TABLE ord_pucciniales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_distribution_grids_species_id ON ord_pucciniales_distribution_grids (species_id);
CREATE INDEX ix_ord_pucciniales_distribution_grids_country_id ON ord_pucciniales_distribution_grids (country_id);

CREATE TABLE ord_pucciniales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_microclimate_studies_species_id ON ord_pucciniales_microclimate_studies (species_id);
CREATE INDEX ix_ord_pucciniales_microclimate_studies_publication_id ON ord_pucciniales_microclimate_studies (publication_id);

CREATE TABLE ord_pucciniales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_dna_barcoding_status_species_id ON ord_pucciniales_dna_barcoding_status (species_id);

CREATE TABLE ord_pucciniales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_spore_print_data_species_id ON ord_pucciniales_spore_print_data (species_id);
CREATE INDEX ix_ord_pucciniales_spore_print_data_specimen_id ON ord_pucciniales_spore_print_data (specimen_id);

CREATE TABLE ord_pucciniales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_mating_systems_species_id ON ord_pucciniales_mating_systems (species_id);
CREATE INDEX ix_ord_pucciniales_mating_systems_publication_id ON ord_pucciniales_mating_systems (publication_id);

CREATE TABLE ord_pucciniales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_nutrient_uptake_studies_species_id ON ord_pucciniales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_pucciniales_nutrient_uptake_studies_strain_id ON ord_pucciniales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_pucciniales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_range_maps_species_id ON ord_pucciniales_range_maps (species_id);
CREATE INDEX ix_ord_pucciniales_range_maps_publication_id ON ord_pucciniales_range_maps (publication_id);

CREATE TABLE ord_pucciniales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_abundance_estimates_species_id ON ord_pucciniales_abundance_estimates (species_id);
CREATE INDEX ix_ord_pucciniales_abundance_estimates_country_id ON ord_pucciniales_abundance_estimates (country_id);

CREATE TABLE ord_pucciniales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_toxin_profiles_species_id ON ord_pucciniales_toxin_profiles (species_id);
CREATE INDEX ix_ord_pucciniales_toxin_profiles_compound_id ON ord_pucciniales_toxin_profiles (compound_id);

CREATE TABLE ord_pucciniales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_enzyme_activity_assays_species_id ON ord_pucciniales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_pucciniales_enzyme_activity_assays_enzyme_id ON ord_pucciniales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_pucciniales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_biocontrol_evaluations_species_id ON ord_pucciniales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_pucciniales_biocontrol_evaluations_publication_id ON ord_pucciniales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_pucciniales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pucciniales_regional_checklists_species_id ON ord_pucciniales_regional_checklists (species_id);
CREATE INDEX ix_ord_pucciniales_regional_checklists_country_id ON ord_pucciniales_regional_checklists (country_id);

CREATE TABLE ord_ustilaginales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_morphology_specimen_id ON ord_ustilaginales_morphology (specimen_id);
CREATE INDEX ix_ord_ustilaginales_morphology_species_id ON ord_ustilaginales_morphology (species_id);

CREATE TABLE ord_ustilaginales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_ecology_species_id ON ord_ustilaginales_ecology (species_id);
CREATE INDEX ix_ord_ustilaginales_ecology_dominant_habitat_id ON ord_ustilaginales_ecology (dominant_habitat_id);

CREATE TABLE ord_ustilaginales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_phenology_species_id ON ord_ustilaginales_phenology (species_id);
CREATE INDEX ix_ord_ustilaginales_phenology_region_country_id ON ord_ustilaginales_phenology (region_country_id);

CREATE TABLE ord_ustilaginales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_host_associations_species_id ON ord_ustilaginales_host_associations (species_id);
CREATE INDEX ix_ord_ustilaginales_host_associations_host_id ON ord_ustilaginales_host_associations (host_id);

CREATE TABLE ord_ustilaginales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_substrate_preferences_species_id ON ord_ustilaginales_substrate_preferences (species_id);
CREATE INDEX ix_ord_ustilaginales_substrate_preferences_substrate_id ON ord_ustilaginales_substrate_preferences (substrate_id);

CREATE TABLE ord_ustilaginales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_geographic_distribution_species_id ON ord_ustilaginales_geographic_distribution (species_id);
CREATE INDEX ix_ord_ustilaginales_geographic_distribution_country_id ON ord_ustilaginales_geographic_distribution (country_id);

CREATE TABLE ord_ustilaginales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_phylogeny_tree_id ON ord_ustilaginales_phylogeny (tree_id);
CREATE INDEX ix_ord_ustilaginales_phylogeny_focal_genus_id ON ord_ustilaginales_phylogeny (focal_genus_id);

CREATE TABLE ord_ustilaginales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_genomics_assembly_id ON ord_ustilaginales_genomics (assembly_id);
CREATE INDEX ix_ord_ustilaginales_genomics_species_id ON ord_ustilaginales_genomics (species_id);

CREATE TABLE ord_ustilaginales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_biochemistry_species_id ON ord_ustilaginales_biochemistry (species_id);
CREATE INDEX ix_ord_ustilaginales_biochemistry_compound_id ON ord_ustilaginales_biochemistry (compound_id);

CREATE TABLE ord_ustilaginales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_cultivation_notes_species_id ON ord_ustilaginales_cultivation_notes (species_id);
CREATE INDEX ix_ord_ustilaginales_cultivation_notes_strain_id ON ord_ustilaginales_cultivation_notes (strain_id);

CREATE TABLE ord_ustilaginales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_pathogenicity_species_id ON ord_ustilaginales_pathogenicity (species_id);
CREATE INDEX ix_ord_ustilaginales_pathogenicity_host_id ON ord_ustilaginales_pathogenicity (host_id);

CREATE TABLE ord_ustilaginales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_edibility_species_id ON ord_ustilaginales_edibility (species_id);
CREATE INDEX ix_ord_ustilaginales_edibility_regional_tradition_country_id ON ord_ustilaginales_edibility (regional_tradition_country_id);

CREATE TABLE ord_ustilaginales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_medicinal_uses_species_id ON ord_ustilaginales_medicinal_uses (species_id);
CREATE INDEX ix_ord_ustilaginales_medicinal_uses_publication_id ON ord_ustilaginales_medicinal_uses (publication_id);

CREATE TABLE ord_ustilaginales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_taxonomic_revisions_publication_id ON ord_ustilaginales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_ustilaginales_taxonomic_revisions_affected_family_id ON ord_ustilaginales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_ustilaginales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_conservation_status_species_id ON ord_ustilaginales_conservation_status (species_id);
CREATE INDEX ix_ord_ustilaginales_conservation_status_country_id ON ord_ustilaginales_conservation_status (country_id);

CREATE TABLE ord_ustilaginales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_diagnostic_keys_publication_id ON ord_ustilaginales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_ustilaginales_diagnostic_keys_region_country_id ON ord_ustilaginales_diagnostic_keys (region_country_id);

CREATE TABLE ord_ustilaginales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_type_species_register_focal_genus_id ON ord_ustilaginales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_ustilaginales_type_species_register_type_species_id ON ord_ustilaginales_type_species_register (type_species_id);

CREATE TABLE ord_ustilaginales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_distribution_grids_species_id ON ord_ustilaginales_distribution_grids (species_id);
CREATE INDEX ix_ord_ustilaginales_distribution_grids_country_id ON ord_ustilaginales_distribution_grids (country_id);

CREATE TABLE ord_ustilaginales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_microclimate_studies_species_id ON ord_ustilaginales_microclimate_studies (species_id);
CREATE INDEX ix_ord_ustilaginales_microclimate_studies_publication_id ON ord_ustilaginales_microclimate_studies (publication_id);

CREATE TABLE ord_ustilaginales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_dna_barcoding_status_species_id ON ord_ustilaginales_dna_barcoding_status (species_id);

CREATE TABLE ord_ustilaginales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_spore_print_data_species_id ON ord_ustilaginales_spore_print_data (species_id);
CREATE INDEX ix_ord_ustilaginales_spore_print_data_specimen_id ON ord_ustilaginales_spore_print_data (specimen_id);

CREATE TABLE ord_ustilaginales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_mating_systems_species_id ON ord_ustilaginales_mating_systems (species_id);
CREATE INDEX ix_ord_ustilaginales_mating_systems_publication_id ON ord_ustilaginales_mating_systems (publication_id);

CREATE TABLE ord_ustilaginales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_nutrient_uptake_studies_species_id ON ord_ustilaginales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_ustilaginales_nutrient_uptake_studies_strain_id ON ord_ustilaginales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_ustilaginales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_range_maps_species_id ON ord_ustilaginales_range_maps (species_id);
CREATE INDEX ix_ord_ustilaginales_range_maps_publication_id ON ord_ustilaginales_range_maps (publication_id);

CREATE TABLE ord_ustilaginales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_abundance_estimates_species_id ON ord_ustilaginales_abundance_estimates (species_id);
CREATE INDEX ix_ord_ustilaginales_abundance_estimates_country_id ON ord_ustilaginales_abundance_estimates (country_id);

CREATE TABLE ord_ustilaginales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_toxin_profiles_species_id ON ord_ustilaginales_toxin_profiles (species_id);
CREATE INDEX ix_ord_ustilaginales_toxin_profiles_compound_id ON ord_ustilaginales_toxin_profiles (compound_id);

CREATE TABLE ord_ustilaginales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_enzyme_activity_assays_species_id ON ord_ustilaginales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_ustilaginales_enzyme_activity_assays_enzyme_id ON ord_ustilaginales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_ustilaginales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_biocontrol_evaluations_species_id ON ord_ustilaginales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_ustilaginales_biocontrol_evaluations_publication_id ON ord_ustilaginales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_ustilaginales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ustilaginales_regional_checklists_species_id ON ord_ustilaginales_regional_checklists (species_id);
CREATE INDEX ix_ord_ustilaginales_regional_checklists_country_id ON ord_ustilaginales_regional_checklists (country_id);

CREATE TABLE ord_exobasidiales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_morphology_specimen_id ON ord_exobasidiales_morphology (specimen_id);
CREATE INDEX ix_ord_exobasidiales_morphology_species_id ON ord_exobasidiales_morphology (species_id);

CREATE TABLE ord_exobasidiales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_ecology_species_id ON ord_exobasidiales_ecology (species_id);
CREATE INDEX ix_ord_exobasidiales_ecology_dominant_habitat_id ON ord_exobasidiales_ecology (dominant_habitat_id);

CREATE TABLE ord_exobasidiales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_phenology_species_id ON ord_exobasidiales_phenology (species_id);
CREATE INDEX ix_ord_exobasidiales_phenology_region_country_id ON ord_exobasidiales_phenology (region_country_id);

CREATE TABLE ord_exobasidiales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_host_associations_species_id ON ord_exobasidiales_host_associations (species_id);
CREATE INDEX ix_ord_exobasidiales_host_associations_host_id ON ord_exobasidiales_host_associations (host_id);

CREATE TABLE ord_exobasidiales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_substrate_preferences_species_id ON ord_exobasidiales_substrate_preferences (species_id);
CREATE INDEX ix_ord_exobasidiales_substrate_preferences_substrate_id ON ord_exobasidiales_substrate_preferences (substrate_id);

CREATE TABLE ord_exobasidiales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_geographic_distribution_species_id ON ord_exobasidiales_geographic_distribution (species_id);
CREATE INDEX ix_ord_exobasidiales_geographic_distribution_country_id ON ord_exobasidiales_geographic_distribution (country_id);

CREATE TABLE ord_exobasidiales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_phylogeny_tree_id ON ord_exobasidiales_phylogeny (tree_id);
CREATE INDEX ix_ord_exobasidiales_phylogeny_focal_genus_id ON ord_exobasidiales_phylogeny (focal_genus_id);

CREATE TABLE ord_exobasidiales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_genomics_assembly_id ON ord_exobasidiales_genomics (assembly_id);
CREATE INDEX ix_ord_exobasidiales_genomics_species_id ON ord_exobasidiales_genomics (species_id);

CREATE TABLE ord_exobasidiales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_biochemistry_species_id ON ord_exobasidiales_biochemistry (species_id);
CREATE INDEX ix_ord_exobasidiales_biochemistry_compound_id ON ord_exobasidiales_biochemistry (compound_id);

CREATE TABLE ord_exobasidiales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_cultivation_notes_species_id ON ord_exobasidiales_cultivation_notes (species_id);
CREATE INDEX ix_ord_exobasidiales_cultivation_notes_strain_id ON ord_exobasidiales_cultivation_notes (strain_id);

CREATE TABLE ord_exobasidiales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_pathogenicity_species_id ON ord_exobasidiales_pathogenicity (species_id);
CREATE INDEX ix_ord_exobasidiales_pathogenicity_host_id ON ord_exobasidiales_pathogenicity (host_id);

CREATE TABLE ord_exobasidiales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_edibility_species_id ON ord_exobasidiales_edibility (species_id);
CREATE INDEX ix_ord_exobasidiales_edibility_regional_tradition_country_id ON ord_exobasidiales_edibility (regional_tradition_country_id);

CREATE TABLE ord_exobasidiales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_medicinal_uses_species_id ON ord_exobasidiales_medicinal_uses (species_id);
CREATE INDEX ix_ord_exobasidiales_medicinal_uses_publication_id ON ord_exobasidiales_medicinal_uses (publication_id);

CREATE TABLE ord_exobasidiales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_taxonomic_revisions_publication_id ON ord_exobasidiales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_exobasidiales_taxonomic_revisions_affected_family_id ON ord_exobasidiales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_exobasidiales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_conservation_status_species_id ON ord_exobasidiales_conservation_status (species_id);
CREATE INDEX ix_ord_exobasidiales_conservation_status_country_id ON ord_exobasidiales_conservation_status (country_id);

CREATE TABLE ord_exobasidiales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_diagnostic_keys_publication_id ON ord_exobasidiales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_exobasidiales_diagnostic_keys_region_country_id ON ord_exobasidiales_diagnostic_keys (region_country_id);

CREATE TABLE ord_exobasidiales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_type_species_register_focal_genus_id ON ord_exobasidiales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_exobasidiales_type_species_register_type_species_id ON ord_exobasidiales_type_species_register (type_species_id);

CREATE TABLE ord_exobasidiales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_distribution_grids_species_id ON ord_exobasidiales_distribution_grids (species_id);
CREATE INDEX ix_ord_exobasidiales_distribution_grids_country_id ON ord_exobasidiales_distribution_grids (country_id);

CREATE TABLE ord_exobasidiales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_microclimate_studies_species_id ON ord_exobasidiales_microclimate_studies (species_id);
CREATE INDEX ix_ord_exobasidiales_microclimate_studies_publication_id ON ord_exobasidiales_microclimate_studies (publication_id);

CREATE TABLE ord_exobasidiales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_dna_barcoding_status_species_id ON ord_exobasidiales_dna_barcoding_status (species_id);

CREATE TABLE ord_exobasidiales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_spore_print_data_species_id ON ord_exobasidiales_spore_print_data (species_id);
CREATE INDEX ix_ord_exobasidiales_spore_print_data_specimen_id ON ord_exobasidiales_spore_print_data (specimen_id);

CREATE TABLE ord_exobasidiales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_mating_systems_species_id ON ord_exobasidiales_mating_systems (species_id);
CREATE INDEX ix_ord_exobasidiales_mating_systems_publication_id ON ord_exobasidiales_mating_systems (publication_id);

CREATE TABLE ord_exobasidiales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_nutrient_uptake_studies_species_id ON ord_exobasidiales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_exobasidiales_nutrient_uptake_studies_strain_id ON ord_exobasidiales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_exobasidiales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_range_maps_species_id ON ord_exobasidiales_range_maps (species_id);
CREATE INDEX ix_ord_exobasidiales_range_maps_publication_id ON ord_exobasidiales_range_maps (publication_id);

CREATE TABLE ord_exobasidiales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_abundance_estimates_species_id ON ord_exobasidiales_abundance_estimates (species_id);
CREATE INDEX ix_ord_exobasidiales_abundance_estimates_country_id ON ord_exobasidiales_abundance_estimates (country_id);

CREATE TABLE ord_exobasidiales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_toxin_profiles_species_id ON ord_exobasidiales_toxin_profiles (species_id);
CREATE INDEX ix_ord_exobasidiales_toxin_profiles_compound_id ON ord_exobasidiales_toxin_profiles (compound_id);

CREATE TABLE ord_exobasidiales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_enzyme_activity_assays_species_id ON ord_exobasidiales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_exobasidiales_enzyme_activity_assays_enzyme_id ON ord_exobasidiales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_exobasidiales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_biocontrol_evaluations_species_id ON ord_exobasidiales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_exobasidiales_biocontrol_evaluations_publication_id ON ord_exobasidiales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_exobasidiales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_exobasidiales_regional_checklists_species_id ON ord_exobasidiales_regional_checklists (species_id);
CREATE INDEX ix_ord_exobasidiales_regional_checklists_country_id ON ord_exobasidiales_regional_checklists (country_id);

CREATE TABLE ord_tilletiales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_morphology_specimen_id ON ord_tilletiales_morphology (specimen_id);
CREATE INDEX ix_ord_tilletiales_morphology_species_id ON ord_tilletiales_morphology (species_id);

CREATE TABLE ord_tilletiales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_ecology_species_id ON ord_tilletiales_ecology (species_id);
CREATE INDEX ix_ord_tilletiales_ecology_dominant_habitat_id ON ord_tilletiales_ecology (dominant_habitat_id);

CREATE TABLE ord_tilletiales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_phenology_species_id ON ord_tilletiales_phenology (species_id);
CREATE INDEX ix_ord_tilletiales_phenology_region_country_id ON ord_tilletiales_phenology (region_country_id);

CREATE TABLE ord_tilletiales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_host_associations_species_id ON ord_tilletiales_host_associations (species_id);
CREATE INDEX ix_ord_tilletiales_host_associations_host_id ON ord_tilletiales_host_associations (host_id);

CREATE TABLE ord_tilletiales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_substrate_preferences_species_id ON ord_tilletiales_substrate_preferences (species_id);
CREATE INDEX ix_ord_tilletiales_substrate_preferences_substrate_id ON ord_tilletiales_substrate_preferences (substrate_id);

CREATE TABLE ord_tilletiales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_geographic_distribution_species_id ON ord_tilletiales_geographic_distribution (species_id);
CREATE INDEX ix_ord_tilletiales_geographic_distribution_country_id ON ord_tilletiales_geographic_distribution (country_id);

CREATE TABLE ord_tilletiales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_phylogeny_tree_id ON ord_tilletiales_phylogeny (tree_id);
CREATE INDEX ix_ord_tilletiales_phylogeny_focal_genus_id ON ord_tilletiales_phylogeny (focal_genus_id);

CREATE TABLE ord_tilletiales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_genomics_assembly_id ON ord_tilletiales_genomics (assembly_id);
CREATE INDEX ix_ord_tilletiales_genomics_species_id ON ord_tilletiales_genomics (species_id);

CREATE TABLE ord_tilletiales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_biochemistry_species_id ON ord_tilletiales_biochemistry (species_id);
CREATE INDEX ix_ord_tilletiales_biochemistry_compound_id ON ord_tilletiales_biochemistry (compound_id);

CREATE TABLE ord_tilletiales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_cultivation_notes_species_id ON ord_tilletiales_cultivation_notes (species_id);
CREATE INDEX ix_ord_tilletiales_cultivation_notes_strain_id ON ord_tilletiales_cultivation_notes (strain_id);

CREATE TABLE ord_tilletiales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_pathogenicity_species_id ON ord_tilletiales_pathogenicity (species_id);
CREATE INDEX ix_ord_tilletiales_pathogenicity_host_id ON ord_tilletiales_pathogenicity (host_id);

CREATE TABLE ord_tilletiales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_edibility_species_id ON ord_tilletiales_edibility (species_id);
CREATE INDEX ix_ord_tilletiales_edibility_regional_tradition_country_id ON ord_tilletiales_edibility (regional_tradition_country_id);

CREATE TABLE ord_tilletiales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_medicinal_uses_species_id ON ord_tilletiales_medicinal_uses (species_id);
CREATE INDEX ix_ord_tilletiales_medicinal_uses_publication_id ON ord_tilletiales_medicinal_uses (publication_id);

CREATE TABLE ord_tilletiales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_taxonomic_revisions_publication_id ON ord_tilletiales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_tilletiales_taxonomic_revisions_affected_family_id ON ord_tilletiales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_tilletiales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_conservation_status_species_id ON ord_tilletiales_conservation_status (species_id);
CREATE INDEX ix_ord_tilletiales_conservation_status_country_id ON ord_tilletiales_conservation_status (country_id);

CREATE TABLE ord_tilletiales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_diagnostic_keys_publication_id ON ord_tilletiales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_tilletiales_diagnostic_keys_region_country_id ON ord_tilletiales_diagnostic_keys (region_country_id);

CREATE TABLE ord_tilletiales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_type_species_register_focal_genus_id ON ord_tilletiales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_tilletiales_type_species_register_type_species_id ON ord_tilletiales_type_species_register (type_species_id);

CREATE TABLE ord_tilletiales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_distribution_grids_species_id ON ord_tilletiales_distribution_grids (species_id);
CREATE INDEX ix_ord_tilletiales_distribution_grids_country_id ON ord_tilletiales_distribution_grids (country_id);

CREATE TABLE ord_tilletiales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_microclimate_studies_species_id ON ord_tilletiales_microclimate_studies (species_id);
CREATE INDEX ix_ord_tilletiales_microclimate_studies_publication_id ON ord_tilletiales_microclimate_studies (publication_id);

CREATE TABLE ord_tilletiales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_dna_barcoding_status_species_id ON ord_tilletiales_dna_barcoding_status (species_id);

CREATE TABLE ord_tilletiales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_spore_print_data_species_id ON ord_tilletiales_spore_print_data (species_id);
CREATE INDEX ix_ord_tilletiales_spore_print_data_specimen_id ON ord_tilletiales_spore_print_data (specimen_id);

CREATE TABLE ord_tilletiales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_mating_systems_species_id ON ord_tilletiales_mating_systems (species_id);
CREATE INDEX ix_ord_tilletiales_mating_systems_publication_id ON ord_tilletiales_mating_systems (publication_id);

CREATE TABLE ord_tilletiales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_nutrient_uptake_studies_species_id ON ord_tilletiales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_tilletiales_nutrient_uptake_studies_strain_id ON ord_tilletiales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_tilletiales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_range_maps_species_id ON ord_tilletiales_range_maps (species_id);
CREATE INDEX ix_ord_tilletiales_range_maps_publication_id ON ord_tilletiales_range_maps (publication_id);

CREATE TABLE ord_tilletiales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_abundance_estimates_species_id ON ord_tilletiales_abundance_estimates (species_id);
CREATE INDEX ix_ord_tilletiales_abundance_estimates_country_id ON ord_tilletiales_abundance_estimates (country_id);

CREATE TABLE ord_tilletiales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_toxin_profiles_species_id ON ord_tilletiales_toxin_profiles (species_id);
CREATE INDEX ix_ord_tilletiales_toxin_profiles_compound_id ON ord_tilletiales_toxin_profiles (compound_id);

CREATE TABLE ord_tilletiales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_enzyme_activity_assays_species_id ON ord_tilletiales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_tilletiales_enzyme_activity_assays_enzyme_id ON ord_tilletiales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_tilletiales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_biocontrol_evaluations_species_id ON ord_tilletiales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_tilletiales_biocontrol_evaluations_publication_id ON ord_tilletiales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_tilletiales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_tilletiales_regional_checklists_species_id ON ord_tilletiales_regional_checklists (species_id);
CREATE INDEX ix_ord_tilletiales_regional_checklists_country_id ON ord_tilletiales_regional_checklists (country_id);

CREATE TABLE ord_malasseziales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_morphology_specimen_id ON ord_malasseziales_morphology (specimen_id);
CREATE INDEX ix_ord_malasseziales_morphology_species_id ON ord_malasseziales_morphology (species_id);

CREATE TABLE ord_malasseziales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_ecology_species_id ON ord_malasseziales_ecology (species_id);
CREATE INDEX ix_ord_malasseziales_ecology_dominant_habitat_id ON ord_malasseziales_ecology (dominant_habitat_id);

CREATE TABLE ord_malasseziales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_phenology_species_id ON ord_malasseziales_phenology (species_id);
CREATE INDEX ix_ord_malasseziales_phenology_region_country_id ON ord_malasseziales_phenology (region_country_id);

CREATE TABLE ord_malasseziales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_host_associations_species_id ON ord_malasseziales_host_associations (species_id);
CREATE INDEX ix_ord_malasseziales_host_associations_host_id ON ord_malasseziales_host_associations (host_id);

CREATE TABLE ord_malasseziales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_substrate_preferences_species_id ON ord_malasseziales_substrate_preferences (species_id);
CREATE INDEX ix_ord_malasseziales_substrate_preferences_substrate_id ON ord_malasseziales_substrate_preferences (substrate_id);

CREATE TABLE ord_malasseziales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_geographic_distribution_species_id ON ord_malasseziales_geographic_distribution (species_id);
CREATE INDEX ix_ord_malasseziales_geographic_distribution_country_id ON ord_malasseziales_geographic_distribution (country_id);

CREATE TABLE ord_malasseziales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_phylogeny_tree_id ON ord_malasseziales_phylogeny (tree_id);
CREATE INDEX ix_ord_malasseziales_phylogeny_focal_genus_id ON ord_malasseziales_phylogeny (focal_genus_id);

CREATE TABLE ord_malasseziales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_genomics_assembly_id ON ord_malasseziales_genomics (assembly_id);
CREATE INDEX ix_ord_malasseziales_genomics_species_id ON ord_malasseziales_genomics (species_id);

CREATE TABLE ord_malasseziales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_biochemistry_species_id ON ord_malasseziales_biochemistry (species_id);
CREATE INDEX ix_ord_malasseziales_biochemistry_compound_id ON ord_malasseziales_biochemistry (compound_id);

CREATE TABLE ord_malasseziales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_cultivation_notes_species_id ON ord_malasseziales_cultivation_notes (species_id);
CREATE INDEX ix_ord_malasseziales_cultivation_notes_strain_id ON ord_malasseziales_cultivation_notes (strain_id);

CREATE TABLE ord_malasseziales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_pathogenicity_species_id ON ord_malasseziales_pathogenicity (species_id);
CREATE INDEX ix_ord_malasseziales_pathogenicity_host_id ON ord_malasseziales_pathogenicity (host_id);

CREATE TABLE ord_malasseziales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_edibility_species_id ON ord_malasseziales_edibility (species_id);
CREATE INDEX ix_ord_malasseziales_edibility_regional_tradition_country_id ON ord_malasseziales_edibility (regional_tradition_country_id);

CREATE TABLE ord_malasseziales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_medicinal_uses_species_id ON ord_malasseziales_medicinal_uses (species_id);
CREATE INDEX ix_ord_malasseziales_medicinal_uses_publication_id ON ord_malasseziales_medicinal_uses (publication_id);

CREATE TABLE ord_malasseziales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_taxonomic_revisions_publication_id ON ord_malasseziales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_malasseziales_taxonomic_revisions_affected_family_id ON ord_malasseziales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_malasseziales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_conservation_status_species_id ON ord_malasseziales_conservation_status (species_id);
CREATE INDEX ix_ord_malasseziales_conservation_status_country_id ON ord_malasseziales_conservation_status (country_id);

CREATE TABLE ord_malasseziales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_diagnostic_keys_publication_id ON ord_malasseziales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_malasseziales_diagnostic_keys_region_country_id ON ord_malasseziales_diagnostic_keys (region_country_id);

CREATE TABLE ord_malasseziales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_type_species_register_focal_genus_id ON ord_malasseziales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_malasseziales_type_species_register_type_species_id ON ord_malasseziales_type_species_register (type_species_id);

CREATE TABLE ord_malasseziales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_distribution_grids_species_id ON ord_malasseziales_distribution_grids (species_id);
CREATE INDEX ix_ord_malasseziales_distribution_grids_country_id ON ord_malasseziales_distribution_grids (country_id);

CREATE TABLE ord_malasseziales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_microclimate_studies_species_id ON ord_malasseziales_microclimate_studies (species_id);
CREATE INDEX ix_ord_malasseziales_microclimate_studies_publication_id ON ord_malasseziales_microclimate_studies (publication_id);

CREATE TABLE ord_malasseziales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_dna_barcoding_status_species_id ON ord_malasseziales_dna_barcoding_status (species_id);

CREATE TABLE ord_malasseziales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_spore_print_data_species_id ON ord_malasseziales_spore_print_data (species_id);
CREATE INDEX ix_ord_malasseziales_spore_print_data_specimen_id ON ord_malasseziales_spore_print_data (specimen_id);

CREATE TABLE ord_malasseziales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_mating_systems_species_id ON ord_malasseziales_mating_systems (species_id);
CREATE INDEX ix_ord_malasseziales_mating_systems_publication_id ON ord_malasseziales_mating_systems (publication_id);

CREATE TABLE ord_malasseziales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_nutrient_uptake_studies_species_id ON ord_malasseziales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_malasseziales_nutrient_uptake_studies_strain_id ON ord_malasseziales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_malasseziales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_range_maps_species_id ON ord_malasseziales_range_maps (species_id);
CREATE INDEX ix_ord_malasseziales_range_maps_publication_id ON ord_malasseziales_range_maps (publication_id);

CREATE TABLE ord_malasseziales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_abundance_estimates_species_id ON ord_malasseziales_abundance_estimates (species_id);
CREATE INDEX ix_ord_malasseziales_abundance_estimates_country_id ON ord_malasseziales_abundance_estimates (country_id);

CREATE TABLE ord_malasseziales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_toxin_profiles_species_id ON ord_malasseziales_toxin_profiles (species_id);
CREATE INDEX ix_ord_malasseziales_toxin_profiles_compound_id ON ord_malasseziales_toxin_profiles (compound_id);

CREATE TABLE ord_malasseziales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_enzyme_activity_assays_species_id ON ord_malasseziales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_malasseziales_enzyme_activity_assays_enzyme_id ON ord_malasseziales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_malasseziales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_biocontrol_evaluations_species_id ON ord_malasseziales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_malasseziales_biocontrol_evaluations_publication_id ON ord_malasseziales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_malasseziales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_malasseziales_regional_checklists_species_id ON ord_malasseziales_regional_checklists (species_id);
CREATE INDEX ix_ord_malasseziales_regional_checklists_country_id ON ord_malasseziales_regional_checklists (country_id);

CREATE TABLE ord_trichosporonales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_morphology_specimen_id ON ord_trichosporonales_morphology (specimen_id);
CREATE INDEX ix_ord_trichosporonales_morphology_species_id ON ord_trichosporonales_morphology (species_id);

CREATE TABLE ord_trichosporonales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_ecology_species_id ON ord_trichosporonales_ecology (species_id);
CREATE INDEX ix_ord_trichosporonales_ecology_dominant_habitat_id ON ord_trichosporonales_ecology (dominant_habitat_id);

CREATE TABLE ord_trichosporonales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_phenology_species_id ON ord_trichosporonales_phenology (species_id);
CREATE INDEX ix_ord_trichosporonales_phenology_region_country_id ON ord_trichosporonales_phenology (region_country_id);

CREATE TABLE ord_trichosporonales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_host_associations_species_id ON ord_trichosporonales_host_associations (species_id);
CREATE INDEX ix_ord_trichosporonales_host_associations_host_id ON ord_trichosporonales_host_associations (host_id);

CREATE TABLE ord_trichosporonales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_substrate_preferences_species_id ON ord_trichosporonales_substrate_preferences (species_id);
CREATE INDEX ix_ord_trichosporonales_substrate_preferences_substrate_id ON ord_trichosporonales_substrate_preferences (substrate_id);

CREATE TABLE ord_trichosporonales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_geographic_distribution_species_id ON ord_trichosporonales_geographic_distribution (species_id);
CREATE INDEX ix_ord_trichosporonales_geographic_distribution_country_id ON ord_trichosporonales_geographic_distribution (country_id);

CREATE TABLE ord_trichosporonales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_phylogeny_tree_id ON ord_trichosporonales_phylogeny (tree_id);
CREATE INDEX ix_ord_trichosporonales_phylogeny_focal_genus_id ON ord_trichosporonales_phylogeny (focal_genus_id);

CREATE TABLE ord_trichosporonales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_genomics_assembly_id ON ord_trichosporonales_genomics (assembly_id);
CREATE INDEX ix_ord_trichosporonales_genomics_species_id ON ord_trichosporonales_genomics (species_id);

CREATE TABLE ord_trichosporonales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_biochemistry_species_id ON ord_trichosporonales_biochemistry (species_id);
CREATE INDEX ix_ord_trichosporonales_biochemistry_compound_id ON ord_trichosporonales_biochemistry (compound_id);

CREATE TABLE ord_trichosporonales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_cultivation_notes_species_id ON ord_trichosporonales_cultivation_notes (species_id);
CREATE INDEX ix_ord_trichosporonales_cultivation_notes_strain_id ON ord_trichosporonales_cultivation_notes (strain_id);

CREATE TABLE ord_trichosporonales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_pathogenicity_species_id ON ord_trichosporonales_pathogenicity (species_id);
CREATE INDEX ix_ord_trichosporonales_pathogenicity_host_id ON ord_trichosporonales_pathogenicity (host_id);

CREATE TABLE ord_trichosporonales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_edibility_species_id ON ord_trichosporonales_edibility (species_id);
CREATE INDEX ix_ord_trichosporonales_edibility_1 ON ord_trichosporonales_edibility (regional_tradition_country_id);

CREATE TABLE ord_trichosporonales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_medicinal_uses_species_id ON ord_trichosporonales_medicinal_uses (species_id);
CREATE INDEX ix_ord_trichosporonales_medicinal_uses_publication_id ON ord_trichosporonales_medicinal_uses (publication_id);

CREATE TABLE ord_trichosporonales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_taxonomic_revisions_publication_id ON ord_trichosporonales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_trichosporonales_taxonomic_revisions_1 ON ord_trichosporonales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_trichosporonales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_conservation_status_species_id ON ord_trichosporonales_conservation_status (species_id);
CREATE INDEX ix_ord_trichosporonales_conservation_status_country_id ON ord_trichosporonales_conservation_status (country_id);

CREATE TABLE ord_trichosporonales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_diagnostic_keys_publication_id ON ord_trichosporonales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_trichosporonales_diagnostic_keys_region_country_id ON ord_trichosporonales_diagnostic_keys (region_country_id);

CREATE TABLE ord_trichosporonales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_type_species_register_focal_genus_id ON ord_trichosporonales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_trichosporonales_type_species_register_1 ON ord_trichosporonales_type_species_register (type_species_id);

CREATE TABLE ord_trichosporonales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_distribution_grids_species_id ON ord_trichosporonales_distribution_grids (species_id);
CREATE INDEX ix_ord_trichosporonales_distribution_grids_country_id ON ord_trichosporonales_distribution_grids (country_id);

CREATE TABLE ord_trichosporonales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_microclimate_studies_species_id ON ord_trichosporonales_microclimate_studies (species_id);
CREATE INDEX ix_ord_trichosporonales_microclimate_studies_publication_id ON ord_trichosporonales_microclimate_studies (publication_id);

CREATE TABLE ord_trichosporonales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_dna_barcoding_status_species_id ON ord_trichosporonales_dna_barcoding_status (species_id);

CREATE TABLE ord_trichosporonales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_spore_print_data_species_id ON ord_trichosporonales_spore_print_data (species_id);
CREATE INDEX ix_ord_trichosporonales_spore_print_data_specimen_id ON ord_trichosporonales_spore_print_data (specimen_id);

CREATE TABLE ord_trichosporonales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_mating_systems_species_id ON ord_trichosporonales_mating_systems (species_id);
CREATE INDEX ix_ord_trichosporonales_mating_systems_publication_id ON ord_trichosporonales_mating_systems (publication_id);

CREATE TABLE ord_trichosporonales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_nutrient_uptake_studies_species_id ON ord_trichosporonales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_trichosporonales_nutrient_uptake_studies_strain_id ON ord_trichosporonales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_trichosporonales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_range_maps_species_id ON ord_trichosporonales_range_maps (species_id);
CREATE INDEX ix_ord_trichosporonales_range_maps_publication_id ON ord_trichosporonales_range_maps (publication_id);

CREATE TABLE ord_trichosporonales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_abundance_estimates_species_id ON ord_trichosporonales_abundance_estimates (species_id);
CREATE INDEX ix_ord_trichosporonales_abundance_estimates_country_id ON ord_trichosporonales_abundance_estimates (country_id);

CREATE TABLE ord_trichosporonales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_toxin_profiles_species_id ON ord_trichosporonales_toxin_profiles (species_id);
CREATE INDEX ix_ord_trichosporonales_toxin_profiles_compound_id ON ord_trichosporonales_toxin_profiles (compound_id);

CREATE TABLE ord_trichosporonales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_enzyme_activity_assays_species_id ON ord_trichosporonales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_trichosporonales_enzyme_activity_assays_enzyme_id ON ord_trichosporonales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_trichosporonales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_biocontrol_evaluations_species_id ON ord_trichosporonales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_trichosporonales_biocontrol_evaluations_1 ON ord_trichosporonales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_trichosporonales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_trichosporonales_regional_checklists_species_id ON ord_trichosporonales_regional_checklists (species_id);
CREATE INDEX ix_ord_trichosporonales_regional_checklists_country_id ON ord_trichosporonales_regional_checklists (country_id);

CREATE TABLE ord_saccharomycetales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_morphology_specimen_id ON ord_saccharomycetales_morphology (specimen_id);
CREATE INDEX ix_ord_saccharomycetales_morphology_species_id ON ord_saccharomycetales_morphology (species_id);

CREATE TABLE ord_saccharomycetales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_ecology_species_id ON ord_saccharomycetales_ecology (species_id);
CREATE INDEX ix_ord_saccharomycetales_ecology_dominant_habitat_id ON ord_saccharomycetales_ecology (dominant_habitat_id);

CREATE TABLE ord_saccharomycetales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_phenology_species_id ON ord_saccharomycetales_phenology (species_id);
CREATE INDEX ix_ord_saccharomycetales_phenology_region_country_id ON ord_saccharomycetales_phenology (region_country_id);

CREATE TABLE ord_saccharomycetales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_host_associations_species_id ON ord_saccharomycetales_host_associations (species_id);
CREATE INDEX ix_ord_saccharomycetales_host_associations_host_id ON ord_saccharomycetales_host_associations (host_id);

CREATE TABLE ord_saccharomycetales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_substrate_preferences_species_id ON ord_saccharomycetales_substrate_preferences (species_id);
CREATE INDEX ix_ord_saccharomycetales_substrate_preferences_substrate_id ON ord_saccharomycetales_substrate_preferences (substrate_id);

CREATE TABLE ord_saccharomycetales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_geographic_distribution_species_id ON ord_saccharomycetales_geographic_distribution (species_id);
CREATE INDEX ix_ord_saccharomycetales_geographic_distribution_country_id ON ord_saccharomycetales_geographic_distribution (country_id);

CREATE TABLE ord_saccharomycetales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_phylogeny_tree_id ON ord_saccharomycetales_phylogeny (tree_id);
CREATE INDEX ix_ord_saccharomycetales_phylogeny_focal_genus_id ON ord_saccharomycetales_phylogeny (focal_genus_id);

CREATE TABLE ord_saccharomycetales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_genomics_assembly_id ON ord_saccharomycetales_genomics (assembly_id);
CREATE INDEX ix_ord_saccharomycetales_genomics_species_id ON ord_saccharomycetales_genomics (species_id);

CREATE TABLE ord_saccharomycetales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_biochemistry_species_id ON ord_saccharomycetales_biochemistry (species_id);
CREATE INDEX ix_ord_saccharomycetales_biochemistry_compound_id ON ord_saccharomycetales_biochemistry (compound_id);

CREATE TABLE ord_saccharomycetales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_cultivation_notes_species_id ON ord_saccharomycetales_cultivation_notes (species_id);
CREATE INDEX ix_ord_saccharomycetales_cultivation_notes_strain_id ON ord_saccharomycetales_cultivation_notes (strain_id);

CREATE TABLE ord_saccharomycetales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_pathogenicity_species_id ON ord_saccharomycetales_pathogenicity (species_id);
CREATE INDEX ix_ord_saccharomycetales_pathogenicity_host_id ON ord_saccharomycetales_pathogenicity (host_id);

CREATE TABLE ord_saccharomycetales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_edibility_species_id ON ord_saccharomycetales_edibility (species_id);
CREATE INDEX ix_ord_saccharomycetales_edibility_1 ON ord_saccharomycetales_edibility (regional_tradition_country_id);

CREATE TABLE ord_saccharomycetales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_medicinal_uses_species_id ON ord_saccharomycetales_medicinal_uses (species_id);
CREATE INDEX ix_ord_saccharomycetales_medicinal_uses_publication_id ON ord_saccharomycetales_medicinal_uses (publication_id);

CREATE TABLE ord_saccharomycetales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_taxonomic_revisions_publication_id ON ord_saccharomycetales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_saccharomycetales_taxonomic_revisions_1 ON ord_saccharomycetales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_saccharomycetales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_conservation_status_species_id ON ord_saccharomycetales_conservation_status (species_id);
CREATE INDEX ix_ord_saccharomycetales_conservation_status_country_id ON ord_saccharomycetales_conservation_status (country_id);

CREATE TABLE ord_saccharomycetales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_diagnostic_keys_publication_id ON ord_saccharomycetales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_saccharomycetales_diagnostic_keys_region_country_id ON ord_saccharomycetales_diagnostic_keys (region_country_id);

CREATE TABLE ord_saccharomycetales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_type_species_register_0 ON ord_saccharomycetales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_saccharomycetales_type_species_register_1 ON ord_saccharomycetales_type_species_register (type_species_id);

CREATE TABLE ord_saccharomycetales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_distribution_grids_species_id ON ord_saccharomycetales_distribution_grids (species_id);
CREATE INDEX ix_ord_saccharomycetales_distribution_grids_country_id ON ord_saccharomycetales_distribution_grids (country_id);

CREATE TABLE ord_saccharomycetales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_microclimate_studies_species_id ON ord_saccharomycetales_microclimate_studies (species_id);
CREATE INDEX ix_ord_saccharomycetales_microclimate_studies_publication_id ON ord_saccharomycetales_microclimate_studies (publication_id);

CREATE TABLE ord_saccharomycetales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_dna_barcoding_status_species_id ON ord_saccharomycetales_dna_barcoding_status (species_id);

CREATE TABLE ord_saccharomycetales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_spore_print_data_species_id ON ord_saccharomycetales_spore_print_data (species_id);
CREATE INDEX ix_ord_saccharomycetales_spore_print_data_specimen_id ON ord_saccharomycetales_spore_print_data (specimen_id);

CREATE TABLE ord_saccharomycetales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_mating_systems_species_id ON ord_saccharomycetales_mating_systems (species_id);
CREATE INDEX ix_ord_saccharomycetales_mating_systems_publication_id ON ord_saccharomycetales_mating_systems (publication_id);

CREATE TABLE ord_saccharomycetales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_nutrient_uptake_studies_species_id ON ord_saccharomycetales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_saccharomycetales_nutrient_uptake_studies_strain_id ON ord_saccharomycetales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_saccharomycetales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_range_maps_species_id ON ord_saccharomycetales_range_maps (species_id);
CREATE INDEX ix_ord_saccharomycetales_range_maps_publication_id ON ord_saccharomycetales_range_maps (publication_id);

CREATE TABLE ord_saccharomycetales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_abundance_estimates_species_id ON ord_saccharomycetales_abundance_estimates (species_id);
CREATE INDEX ix_ord_saccharomycetales_abundance_estimates_country_id ON ord_saccharomycetales_abundance_estimates (country_id);

CREATE TABLE ord_saccharomycetales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_toxin_profiles_species_id ON ord_saccharomycetales_toxin_profiles (species_id);
CREATE INDEX ix_ord_saccharomycetales_toxin_profiles_compound_id ON ord_saccharomycetales_toxin_profiles (compound_id);

CREATE TABLE ord_saccharomycetales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_enzyme_activity_assays_species_id ON ord_saccharomycetales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_saccharomycetales_enzyme_activity_assays_enzyme_id ON ord_saccharomycetales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_saccharomycetales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_biocontrol_evaluations_species_id ON ord_saccharomycetales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_saccharomycetales_biocontrol_evaluations_1 ON ord_saccharomycetales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_saccharomycetales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_saccharomycetales_regional_checklists_species_id ON ord_saccharomycetales_regional_checklists (species_id);
CREATE INDEX ix_ord_saccharomycetales_regional_checklists_country_id ON ord_saccharomycetales_regional_checklists (country_id);

CREATE TABLE ord_schizosaccharomycetales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_morphology_specimen_id ON ord_schizosaccharomycetales_morphology (specimen_id);
CREATE INDEX ix_ord_schizosaccharomycetales_morphology_species_id ON ord_schizosaccharomycetales_morphology (species_id);

CREATE TABLE ord_schizosaccharomycetales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_ecology_species_id ON ord_schizosaccharomycetales_ecology (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_ecology_dominant_habitat_id ON ord_schizosaccharomycetales_ecology (dominant_habitat_id);

CREATE TABLE ord_schizosaccharomycetales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_phenology_species_id ON ord_schizosaccharomycetales_phenology (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_phenology_region_country_id ON ord_schizosaccharomycetales_phenology (region_country_id);

CREATE TABLE ord_schizosaccharomycetales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_host_associations_species_id ON ord_schizosaccharomycetales_host_associations (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_host_associations_host_id ON ord_schizosaccharomycetales_host_associations (host_id);

CREATE TABLE ord_schizosaccharomycetales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_substrate_preferences_0 ON ord_schizosaccharomycetales_substrate_preferences (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_substrate_preferences_1 ON ord_schizosaccharomycetales_substrate_preferences (substrate_id);

CREATE TABLE ord_schizosaccharomycetales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_geographic_distribution_0 ON ord_schizosaccharomycetales_geographic_distribution (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_geographic_distribution_1 ON ord_schizosaccharomycetales_geographic_distribution (country_id);

CREATE TABLE ord_schizosaccharomycetales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_phylogeny_tree_id ON ord_schizosaccharomycetales_phylogeny (tree_id);
CREATE INDEX ix_ord_schizosaccharomycetales_phylogeny_focal_genus_id ON ord_schizosaccharomycetales_phylogeny (focal_genus_id);

CREATE TABLE ord_schizosaccharomycetales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_genomics_assembly_id ON ord_schizosaccharomycetales_genomics (assembly_id);
CREATE INDEX ix_ord_schizosaccharomycetales_genomics_species_id ON ord_schizosaccharomycetales_genomics (species_id);

CREATE TABLE ord_schizosaccharomycetales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_biochemistry_species_id ON ord_schizosaccharomycetales_biochemistry (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_biochemistry_compound_id ON ord_schizosaccharomycetales_biochemistry (compound_id);

CREATE TABLE ord_schizosaccharomycetales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_cultivation_notes_species_id ON ord_schizosaccharomycetales_cultivation_notes (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_cultivation_notes_strain_id ON ord_schizosaccharomycetales_cultivation_notes (strain_id);

CREATE TABLE ord_schizosaccharomycetales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_pathogenicity_species_id ON ord_schizosaccharomycetales_pathogenicity (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_pathogenicity_host_id ON ord_schizosaccharomycetales_pathogenicity (host_id);

CREATE TABLE ord_schizosaccharomycetales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_edibility_species_id ON ord_schizosaccharomycetales_edibility (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_edibility_1 ON ord_schizosaccharomycetales_edibility (regional_tradition_country_id);

CREATE TABLE ord_schizosaccharomycetales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_medicinal_uses_species_id ON ord_schizosaccharomycetales_medicinal_uses (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_medicinal_uses_publication_id ON ord_schizosaccharomycetales_medicinal_uses (publication_id);

CREATE TABLE ord_schizosaccharomycetales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_taxonomic_revisions_0 ON ord_schizosaccharomycetales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_schizosaccharomycetales_taxonomic_revisions_1 ON ord_schizosaccharomycetales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_schizosaccharomycetales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_conservation_status_0 ON ord_schizosaccharomycetales_conservation_status (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_conservation_status_1 ON ord_schizosaccharomycetales_conservation_status (country_id);

CREATE TABLE ord_schizosaccharomycetales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_diagnostic_keys_0 ON ord_schizosaccharomycetales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_schizosaccharomycetales_diagnostic_keys_1 ON ord_schizosaccharomycetales_diagnostic_keys (region_country_id);

CREATE TABLE ord_schizosaccharomycetales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_type_species_register_0 ON ord_schizosaccharomycetales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_schizosaccharomycetales_type_species_register_1 ON ord_schizosaccharomycetales_type_species_register (type_species_id);

CREATE TABLE ord_schizosaccharomycetales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_distribution_grids_species_id ON ord_schizosaccharomycetales_distribution_grids (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_distribution_grids_country_id ON ord_schizosaccharomycetales_distribution_grids (country_id);

CREATE TABLE ord_schizosaccharomycetales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_microclimate_studies_0 ON ord_schizosaccharomycetales_microclimate_studies (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_microclimate_studies_1 ON ord_schizosaccharomycetales_microclimate_studies (publication_id);

CREATE TABLE ord_schizosaccharomycetales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_dna_barcoding_status_0 ON ord_schizosaccharomycetales_dna_barcoding_status (species_id);

CREATE TABLE ord_schizosaccharomycetales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_spore_print_data_species_id ON ord_schizosaccharomycetales_spore_print_data (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_spore_print_data_specimen_id ON ord_schizosaccharomycetales_spore_print_data (specimen_id);

CREATE TABLE ord_schizosaccharomycetales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_mating_systems_species_id ON ord_schizosaccharomycetales_mating_systems (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_mating_systems_publication_id ON ord_schizosaccharomycetales_mating_systems (publication_id);

CREATE TABLE ord_schizosaccharomycetales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_nutrient_uptake_studies_0 ON ord_schizosaccharomycetales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_nutrient_uptake_studies_1 ON ord_schizosaccharomycetales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_schizosaccharomycetales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_range_maps_species_id ON ord_schizosaccharomycetales_range_maps (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_range_maps_publication_id ON ord_schizosaccharomycetales_range_maps (publication_id);

CREATE TABLE ord_schizosaccharomycetales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_abundance_estimates_0 ON ord_schizosaccharomycetales_abundance_estimates (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_abundance_estimates_1 ON ord_schizosaccharomycetales_abundance_estimates (country_id);

CREATE TABLE ord_schizosaccharomycetales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_toxin_profiles_species_id ON ord_schizosaccharomycetales_toxin_profiles (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_toxin_profiles_compound_id ON ord_schizosaccharomycetales_toxin_profiles (compound_id);

CREATE TABLE ord_schizosaccharomycetales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_enzyme_activity_assays_0 ON ord_schizosaccharomycetales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_enzyme_activity_assays_1 ON ord_schizosaccharomycetales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_schizosaccharomycetales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_biocontrol_evaluations_0 ON ord_schizosaccharomycetales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_biocontrol_evaluations_1 ON ord_schizosaccharomycetales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_schizosaccharomycetales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_schizosaccharomycetales_regional_checklists_0 ON ord_schizosaccharomycetales_regional_checklists (species_id);
CREATE INDEX ix_ord_schizosaccharomycetales_regional_checklists_1 ON ord_schizosaccharomycetales_regional_checklists (country_id);

CREATE TABLE ord_taphrinales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_morphology_specimen_id ON ord_taphrinales_morphology (specimen_id);
CREATE INDEX ix_ord_taphrinales_morphology_species_id ON ord_taphrinales_morphology (species_id);

CREATE TABLE ord_taphrinales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_ecology_species_id ON ord_taphrinales_ecology (species_id);
CREATE INDEX ix_ord_taphrinales_ecology_dominant_habitat_id ON ord_taphrinales_ecology (dominant_habitat_id);

CREATE TABLE ord_taphrinales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_phenology_species_id ON ord_taphrinales_phenology (species_id);
CREATE INDEX ix_ord_taphrinales_phenology_region_country_id ON ord_taphrinales_phenology (region_country_id);

CREATE TABLE ord_taphrinales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_host_associations_species_id ON ord_taphrinales_host_associations (species_id);
CREATE INDEX ix_ord_taphrinales_host_associations_host_id ON ord_taphrinales_host_associations (host_id);

CREATE TABLE ord_taphrinales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_substrate_preferences_species_id ON ord_taphrinales_substrate_preferences (species_id);
CREATE INDEX ix_ord_taphrinales_substrate_preferences_substrate_id ON ord_taphrinales_substrate_preferences (substrate_id);

CREATE TABLE ord_taphrinales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_geographic_distribution_species_id ON ord_taphrinales_geographic_distribution (species_id);
CREATE INDEX ix_ord_taphrinales_geographic_distribution_country_id ON ord_taphrinales_geographic_distribution (country_id);

CREATE TABLE ord_taphrinales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_phylogeny_tree_id ON ord_taphrinales_phylogeny (tree_id);
CREATE INDEX ix_ord_taphrinales_phylogeny_focal_genus_id ON ord_taphrinales_phylogeny (focal_genus_id);

CREATE TABLE ord_taphrinales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_genomics_assembly_id ON ord_taphrinales_genomics (assembly_id);
CREATE INDEX ix_ord_taphrinales_genomics_species_id ON ord_taphrinales_genomics (species_id);

CREATE TABLE ord_taphrinales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_biochemistry_species_id ON ord_taphrinales_biochemistry (species_id);
CREATE INDEX ix_ord_taphrinales_biochemistry_compound_id ON ord_taphrinales_biochemistry (compound_id);

CREATE TABLE ord_taphrinales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_cultivation_notes_species_id ON ord_taphrinales_cultivation_notes (species_id);
CREATE INDEX ix_ord_taphrinales_cultivation_notes_strain_id ON ord_taphrinales_cultivation_notes (strain_id);

CREATE TABLE ord_taphrinales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_pathogenicity_species_id ON ord_taphrinales_pathogenicity (species_id);
CREATE INDEX ix_ord_taphrinales_pathogenicity_host_id ON ord_taphrinales_pathogenicity (host_id);

CREATE TABLE ord_taphrinales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_edibility_species_id ON ord_taphrinales_edibility (species_id);
CREATE INDEX ix_ord_taphrinales_edibility_regional_tradition_country_id ON ord_taphrinales_edibility (regional_tradition_country_id);

CREATE TABLE ord_taphrinales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_medicinal_uses_species_id ON ord_taphrinales_medicinal_uses (species_id);
CREATE INDEX ix_ord_taphrinales_medicinal_uses_publication_id ON ord_taphrinales_medicinal_uses (publication_id);

CREATE TABLE ord_taphrinales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_taxonomic_revisions_publication_id ON ord_taphrinales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_taphrinales_taxonomic_revisions_affected_family_id ON ord_taphrinales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_taphrinales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_conservation_status_species_id ON ord_taphrinales_conservation_status (species_id);
CREATE INDEX ix_ord_taphrinales_conservation_status_country_id ON ord_taphrinales_conservation_status (country_id);

CREATE TABLE ord_taphrinales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_diagnostic_keys_publication_id ON ord_taphrinales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_taphrinales_diagnostic_keys_region_country_id ON ord_taphrinales_diagnostic_keys (region_country_id);

CREATE TABLE ord_taphrinales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_type_species_register_focal_genus_id ON ord_taphrinales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_taphrinales_type_species_register_type_species_id ON ord_taphrinales_type_species_register (type_species_id);

CREATE TABLE ord_taphrinales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_distribution_grids_species_id ON ord_taphrinales_distribution_grids (species_id);
CREATE INDEX ix_ord_taphrinales_distribution_grids_country_id ON ord_taphrinales_distribution_grids (country_id);

CREATE TABLE ord_taphrinales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_microclimate_studies_species_id ON ord_taphrinales_microclimate_studies (species_id);
CREATE INDEX ix_ord_taphrinales_microclimate_studies_publication_id ON ord_taphrinales_microclimate_studies (publication_id);

CREATE TABLE ord_taphrinales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_dna_barcoding_status_species_id ON ord_taphrinales_dna_barcoding_status (species_id);

CREATE TABLE ord_taphrinales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_spore_print_data_species_id ON ord_taphrinales_spore_print_data (species_id);
CREATE INDEX ix_ord_taphrinales_spore_print_data_specimen_id ON ord_taphrinales_spore_print_data (specimen_id);

CREATE TABLE ord_taphrinales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_mating_systems_species_id ON ord_taphrinales_mating_systems (species_id);
CREATE INDEX ix_ord_taphrinales_mating_systems_publication_id ON ord_taphrinales_mating_systems (publication_id);

CREATE TABLE ord_taphrinales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_nutrient_uptake_studies_species_id ON ord_taphrinales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_taphrinales_nutrient_uptake_studies_strain_id ON ord_taphrinales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_taphrinales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_range_maps_species_id ON ord_taphrinales_range_maps (species_id);
CREATE INDEX ix_ord_taphrinales_range_maps_publication_id ON ord_taphrinales_range_maps (publication_id);

CREATE TABLE ord_taphrinales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_abundance_estimates_species_id ON ord_taphrinales_abundance_estimates (species_id);
CREATE INDEX ix_ord_taphrinales_abundance_estimates_country_id ON ord_taphrinales_abundance_estimates (country_id);

CREATE TABLE ord_taphrinales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_toxin_profiles_species_id ON ord_taphrinales_toxin_profiles (species_id);
CREATE INDEX ix_ord_taphrinales_toxin_profiles_compound_id ON ord_taphrinales_toxin_profiles (compound_id);

CREATE TABLE ord_taphrinales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_enzyme_activity_assays_species_id ON ord_taphrinales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_taphrinales_enzyme_activity_assays_enzyme_id ON ord_taphrinales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_taphrinales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_biocontrol_evaluations_species_id ON ord_taphrinales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_taphrinales_biocontrol_evaluations_publication_id ON ord_taphrinales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_taphrinales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_taphrinales_regional_checklists_species_id ON ord_taphrinales_regional_checklists (species_id);
CREATE INDEX ix_ord_taphrinales_regional_checklists_country_id ON ord_taphrinales_regional_checklists (country_id);

CREATE TABLE ord_pezizales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_morphology_specimen_id ON ord_pezizales_morphology (specimen_id);
CREATE INDEX ix_ord_pezizales_morphology_species_id ON ord_pezizales_morphology (species_id);

CREATE TABLE ord_pezizales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_ecology_species_id ON ord_pezizales_ecology (species_id);
CREATE INDEX ix_ord_pezizales_ecology_dominant_habitat_id ON ord_pezizales_ecology (dominant_habitat_id);

CREATE TABLE ord_pezizales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_phenology_species_id ON ord_pezizales_phenology (species_id);
CREATE INDEX ix_ord_pezizales_phenology_region_country_id ON ord_pezizales_phenology (region_country_id);

CREATE TABLE ord_pezizales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_host_associations_species_id ON ord_pezizales_host_associations (species_id);
CREATE INDEX ix_ord_pezizales_host_associations_host_id ON ord_pezizales_host_associations (host_id);

CREATE TABLE ord_pezizales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_substrate_preferences_species_id ON ord_pezizales_substrate_preferences (species_id);
CREATE INDEX ix_ord_pezizales_substrate_preferences_substrate_id ON ord_pezizales_substrate_preferences (substrate_id);

CREATE TABLE ord_pezizales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_geographic_distribution_species_id ON ord_pezizales_geographic_distribution (species_id);
CREATE INDEX ix_ord_pezizales_geographic_distribution_country_id ON ord_pezizales_geographic_distribution (country_id);

CREATE TABLE ord_pezizales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_phylogeny_tree_id ON ord_pezizales_phylogeny (tree_id);
CREATE INDEX ix_ord_pezizales_phylogeny_focal_genus_id ON ord_pezizales_phylogeny (focal_genus_id);

CREATE TABLE ord_pezizales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_genomics_assembly_id ON ord_pezizales_genomics (assembly_id);
CREATE INDEX ix_ord_pezizales_genomics_species_id ON ord_pezizales_genomics (species_id);

CREATE TABLE ord_pezizales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_biochemistry_species_id ON ord_pezizales_biochemistry (species_id);
CREATE INDEX ix_ord_pezizales_biochemistry_compound_id ON ord_pezizales_biochemistry (compound_id);

CREATE TABLE ord_pezizales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_cultivation_notes_species_id ON ord_pezizales_cultivation_notes (species_id);
CREATE INDEX ix_ord_pezizales_cultivation_notes_strain_id ON ord_pezizales_cultivation_notes (strain_id);

CREATE TABLE ord_pezizales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_pathogenicity_species_id ON ord_pezizales_pathogenicity (species_id);
CREATE INDEX ix_ord_pezizales_pathogenicity_host_id ON ord_pezizales_pathogenicity (host_id);

CREATE TABLE ord_pezizales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_edibility_species_id ON ord_pezizales_edibility (species_id);
CREATE INDEX ix_ord_pezizales_edibility_regional_tradition_country_id ON ord_pezizales_edibility (regional_tradition_country_id);

CREATE TABLE ord_pezizales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_medicinal_uses_species_id ON ord_pezizales_medicinal_uses (species_id);
CREATE INDEX ix_ord_pezizales_medicinal_uses_publication_id ON ord_pezizales_medicinal_uses (publication_id);

CREATE TABLE ord_pezizales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_taxonomic_revisions_publication_id ON ord_pezizales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_pezizales_taxonomic_revisions_affected_family_id ON ord_pezizales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_pezizales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_conservation_status_species_id ON ord_pezizales_conservation_status (species_id);
CREATE INDEX ix_ord_pezizales_conservation_status_country_id ON ord_pezizales_conservation_status (country_id);

CREATE TABLE ord_pezizales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_diagnostic_keys_publication_id ON ord_pezizales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_pezizales_diagnostic_keys_region_country_id ON ord_pezizales_diagnostic_keys (region_country_id);

CREATE TABLE ord_pezizales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_type_species_register_focal_genus_id ON ord_pezizales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_pezizales_type_species_register_type_species_id ON ord_pezizales_type_species_register (type_species_id);

CREATE TABLE ord_pezizales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_distribution_grids_species_id ON ord_pezizales_distribution_grids (species_id);
CREATE INDEX ix_ord_pezizales_distribution_grids_country_id ON ord_pezizales_distribution_grids (country_id);

CREATE TABLE ord_pezizales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_microclimate_studies_species_id ON ord_pezizales_microclimate_studies (species_id);
CREATE INDEX ix_ord_pezizales_microclimate_studies_publication_id ON ord_pezizales_microclimate_studies (publication_id);

CREATE TABLE ord_pezizales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_dna_barcoding_status_species_id ON ord_pezizales_dna_barcoding_status (species_id);

CREATE TABLE ord_pezizales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_spore_print_data_species_id ON ord_pezizales_spore_print_data (species_id);
CREATE INDEX ix_ord_pezizales_spore_print_data_specimen_id ON ord_pezizales_spore_print_data (specimen_id);

CREATE TABLE ord_pezizales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_mating_systems_species_id ON ord_pezizales_mating_systems (species_id);
CREATE INDEX ix_ord_pezizales_mating_systems_publication_id ON ord_pezizales_mating_systems (publication_id);

CREATE TABLE ord_pezizales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_nutrient_uptake_studies_species_id ON ord_pezizales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_pezizales_nutrient_uptake_studies_strain_id ON ord_pezizales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_pezizales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_range_maps_species_id ON ord_pezizales_range_maps (species_id);
CREATE INDEX ix_ord_pezizales_range_maps_publication_id ON ord_pezizales_range_maps (publication_id);

CREATE TABLE ord_pezizales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_abundance_estimates_species_id ON ord_pezizales_abundance_estimates (species_id);
CREATE INDEX ix_ord_pezizales_abundance_estimates_country_id ON ord_pezizales_abundance_estimates (country_id);

CREATE TABLE ord_pezizales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_toxin_profiles_species_id ON ord_pezizales_toxin_profiles (species_id);
CREATE INDEX ix_ord_pezizales_toxin_profiles_compound_id ON ord_pezizales_toxin_profiles (compound_id);

CREATE TABLE ord_pezizales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_enzyme_activity_assays_species_id ON ord_pezizales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_pezizales_enzyme_activity_assays_enzyme_id ON ord_pezizales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_pezizales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_biocontrol_evaluations_species_id ON ord_pezizales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_pezizales_biocontrol_evaluations_publication_id ON ord_pezizales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_pezizales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pezizales_regional_checklists_species_id ON ord_pezizales_regional_checklists (species_id);
CREATE INDEX ix_ord_pezizales_regional_checklists_country_id ON ord_pezizales_regional_checklists (country_id);

CREATE TABLE ord_helotiales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_morphology_specimen_id ON ord_helotiales_morphology (specimen_id);
CREATE INDEX ix_ord_helotiales_morphology_species_id ON ord_helotiales_morphology (species_id);

CREATE TABLE ord_helotiales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_ecology_species_id ON ord_helotiales_ecology (species_id);
CREATE INDEX ix_ord_helotiales_ecology_dominant_habitat_id ON ord_helotiales_ecology (dominant_habitat_id);

CREATE TABLE ord_helotiales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_phenology_species_id ON ord_helotiales_phenology (species_id);
CREATE INDEX ix_ord_helotiales_phenology_region_country_id ON ord_helotiales_phenology (region_country_id);

CREATE TABLE ord_helotiales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_host_associations_species_id ON ord_helotiales_host_associations (species_id);
CREATE INDEX ix_ord_helotiales_host_associations_host_id ON ord_helotiales_host_associations (host_id);

CREATE TABLE ord_helotiales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_substrate_preferences_species_id ON ord_helotiales_substrate_preferences (species_id);
CREATE INDEX ix_ord_helotiales_substrate_preferences_substrate_id ON ord_helotiales_substrate_preferences (substrate_id);

CREATE TABLE ord_helotiales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_geographic_distribution_species_id ON ord_helotiales_geographic_distribution (species_id);
CREATE INDEX ix_ord_helotiales_geographic_distribution_country_id ON ord_helotiales_geographic_distribution (country_id);

CREATE TABLE ord_helotiales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_phylogeny_tree_id ON ord_helotiales_phylogeny (tree_id);
CREATE INDEX ix_ord_helotiales_phylogeny_focal_genus_id ON ord_helotiales_phylogeny (focal_genus_id);

CREATE TABLE ord_helotiales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_genomics_assembly_id ON ord_helotiales_genomics (assembly_id);
CREATE INDEX ix_ord_helotiales_genomics_species_id ON ord_helotiales_genomics (species_id);

CREATE TABLE ord_helotiales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_biochemistry_species_id ON ord_helotiales_biochemistry (species_id);
CREATE INDEX ix_ord_helotiales_biochemistry_compound_id ON ord_helotiales_biochemistry (compound_id);

CREATE TABLE ord_helotiales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_cultivation_notes_species_id ON ord_helotiales_cultivation_notes (species_id);
CREATE INDEX ix_ord_helotiales_cultivation_notes_strain_id ON ord_helotiales_cultivation_notes (strain_id);

CREATE TABLE ord_helotiales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_pathogenicity_species_id ON ord_helotiales_pathogenicity (species_id);
CREATE INDEX ix_ord_helotiales_pathogenicity_host_id ON ord_helotiales_pathogenicity (host_id);

CREATE TABLE ord_helotiales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_edibility_species_id ON ord_helotiales_edibility (species_id);
CREATE INDEX ix_ord_helotiales_edibility_regional_tradition_country_id ON ord_helotiales_edibility (regional_tradition_country_id);

CREATE TABLE ord_helotiales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_medicinal_uses_species_id ON ord_helotiales_medicinal_uses (species_id);
CREATE INDEX ix_ord_helotiales_medicinal_uses_publication_id ON ord_helotiales_medicinal_uses (publication_id);

CREATE TABLE ord_helotiales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_taxonomic_revisions_publication_id ON ord_helotiales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_helotiales_taxonomic_revisions_affected_family_id ON ord_helotiales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_helotiales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_conservation_status_species_id ON ord_helotiales_conservation_status (species_id);
CREATE INDEX ix_ord_helotiales_conservation_status_country_id ON ord_helotiales_conservation_status (country_id);

CREATE TABLE ord_helotiales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_diagnostic_keys_publication_id ON ord_helotiales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_helotiales_diagnostic_keys_region_country_id ON ord_helotiales_diagnostic_keys (region_country_id);

CREATE TABLE ord_helotiales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_type_species_register_focal_genus_id ON ord_helotiales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_helotiales_type_species_register_type_species_id ON ord_helotiales_type_species_register (type_species_id);

CREATE TABLE ord_helotiales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_distribution_grids_species_id ON ord_helotiales_distribution_grids (species_id);
CREATE INDEX ix_ord_helotiales_distribution_grids_country_id ON ord_helotiales_distribution_grids (country_id);

CREATE TABLE ord_helotiales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_microclimate_studies_species_id ON ord_helotiales_microclimate_studies (species_id);
CREATE INDEX ix_ord_helotiales_microclimate_studies_publication_id ON ord_helotiales_microclimate_studies (publication_id);

CREATE TABLE ord_helotiales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_dna_barcoding_status_species_id ON ord_helotiales_dna_barcoding_status (species_id);

CREATE TABLE ord_helotiales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_spore_print_data_species_id ON ord_helotiales_spore_print_data (species_id);
CREATE INDEX ix_ord_helotiales_spore_print_data_specimen_id ON ord_helotiales_spore_print_data (specimen_id);

CREATE TABLE ord_helotiales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_mating_systems_species_id ON ord_helotiales_mating_systems (species_id);
CREATE INDEX ix_ord_helotiales_mating_systems_publication_id ON ord_helotiales_mating_systems (publication_id);

CREATE TABLE ord_helotiales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_nutrient_uptake_studies_species_id ON ord_helotiales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_helotiales_nutrient_uptake_studies_strain_id ON ord_helotiales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_helotiales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_range_maps_species_id ON ord_helotiales_range_maps (species_id);
CREATE INDEX ix_ord_helotiales_range_maps_publication_id ON ord_helotiales_range_maps (publication_id);

CREATE TABLE ord_helotiales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_abundance_estimates_species_id ON ord_helotiales_abundance_estimates (species_id);
CREATE INDEX ix_ord_helotiales_abundance_estimates_country_id ON ord_helotiales_abundance_estimates (country_id);

CREATE TABLE ord_helotiales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_toxin_profiles_species_id ON ord_helotiales_toxin_profiles (species_id);
CREATE INDEX ix_ord_helotiales_toxin_profiles_compound_id ON ord_helotiales_toxin_profiles (compound_id);

CREATE TABLE ord_helotiales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_enzyme_activity_assays_species_id ON ord_helotiales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_helotiales_enzyme_activity_assays_enzyme_id ON ord_helotiales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_helotiales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_biocontrol_evaluations_species_id ON ord_helotiales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_helotiales_biocontrol_evaluations_publication_id ON ord_helotiales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_helotiales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_helotiales_regional_checklists_species_id ON ord_helotiales_regional_checklists (species_id);
CREATE INDEX ix_ord_helotiales_regional_checklists_country_id ON ord_helotiales_regional_checklists (country_id);

CREATE TABLE ord_rhytismatales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_morphology_specimen_id ON ord_rhytismatales_morphology (specimen_id);
CREATE INDEX ix_ord_rhytismatales_morphology_species_id ON ord_rhytismatales_morphology (species_id);

CREATE TABLE ord_rhytismatales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_ecology_species_id ON ord_rhytismatales_ecology (species_id);
CREATE INDEX ix_ord_rhytismatales_ecology_dominant_habitat_id ON ord_rhytismatales_ecology (dominant_habitat_id);

CREATE TABLE ord_rhytismatales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_phenology_species_id ON ord_rhytismatales_phenology (species_id);
CREATE INDEX ix_ord_rhytismatales_phenology_region_country_id ON ord_rhytismatales_phenology (region_country_id);

CREATE TABLE ord_rhytismatales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_host_associations_species_id ON ord_rhytismatales_host_associations (species_id);
CREATE INDEX ix_ord_rhytismatales_host_associations_host_id ON ord_rhytismatales_host_associations (host_id);

CREATE TABLE ord_rhytismatales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_substrate_preferences_species_id ON ord_rhytismatales_substrate_preferences (species_id);
CREATE INDEX ix_ord_rhytismatales_substrate_preferences_substrate_id ON ord_rhytismatales_substrate_preferences (substrate_id);

CREATE TABLE ord_rhytismatales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_geographic_distribution_species_id ON ord_rhytismatales_geographic_distribution (species_id);
CREATE INDEX ix_ord_rhytismatales_geographic_distribution_country_id ON ord_rhytismatales_geographic_distribution (country_id);

CREATE TABLE ord_rhytismatales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_phylogeny_tree_id ON ord_rhytismatales_phylogeny (tree_id);
CREATE INDEX ix_ord_rhytismatales_phylogeny_focal_genus_id ON ord_rhytismatales_phylogeny (focal_genus_id);

CREATE TABLE ord_rhytismatales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_genomics_assembly_id ON ord_rhytismatales_genomics (assembly_id);
CREATE INDEX ix_ord_rhytismatales_genomics_species_id ON ord_rhytismatales_genomics (species_id);

CREATE TABLE ord_rhytismatales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_biochemistry_species_id ON ord_rhytismatales_biochemistry (species_id);
CREATE INDEX ix_ord_rhytismatales_biochemistry_compound_id ON ord_rhytismatales_biochemistry (compound_id);

CREATE TABLE ord_rhytismatales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_cultivation_notes_species_id ON ord_rhytismatales_cultivation_notes (species_id);
CREATE INDEX ix_ord_rhytismatales_cultivation_notes_strain_id ON ord_rhytismatales_cultivation_notes (strain_id);

CREATE TABLE ord_rhytismatales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_pathogenicity_species_id ON ord_rhytismatales_pathogenicity (species_id);
CREATE INDEX ix_ord_rhytismatales_pathogenicity_host_id ON ord_rhytismatales_pathogenicity (host_id);

CREATE TABLE ord_rhytismatales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_edibility_species_id ON ord_rhytismatales_edibility (species_id);
CREATE INDEX ix_ord_rhytismatales_edibility_regional_tradition_country_id ON ord_rhytismatales_edibility (regional_tradition_country_id);

CREATE TABLE ord_rhytismatales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_medicinal_uses_species_id ON ord_rhytismatales_medicinal_uses (species_id);
CREATE INDEX ix_ord_rhytismatales_medicinal_uses_publication_id ON ord_rhytismatales_medicinal_uses (publication_id);

CREATE TABLE ord_rhytismatales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_taxonomic_revisions_publication_id ON ord_rhytismatales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_rhytismatales_taxonomic_revisions_affected_family_id ON ord_rhytismatales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_rhytismatales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_conservation_status_species_id ON ord_rhytismatales_conservation_status (species_id);
CREATE INDEX ix_ord_rhytismatales_conservation_status_country_id ON ord_rhytismatales_conservation_status (country_id);

CREATE TABLE ord_rhytismatales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_diagnostic_keys_publication_id ON ord_rhytismatales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_rhytismatales_diagnostic_keys_region_country_id ON ord_rhytismatales_diagnostic_keys (region_country_id);

CREATE TABLE ord_rhytismatales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_type_species_register_focal_genus_id ON ord_rhytismatales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_rhytismatales_type_species_register_type_species_id ON ord_rhytismatales_type_species_register (type_species_id);

CREATE TABLE ord_rhytismatales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_distribution_grids_species_id ON ord_rhytismatales_distribution_grids (species_id);
CREATE INDEX ix_ord_rhytismatales_distribution_grids_country_id ON ord_rhytismatales_distribution_grids (country_id);

CREATE TABLE ord_rhytismatales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_microclimate_studies_species_id ON ord_rhytismatales_microclimate_studies (species_id);
CREATE INDEX ix_ord_rhytismatales_microclimate_studies_publication_id ON ord_rhytismatales_microclimate_studies (publication_id);

CREATE TABLE ord_rhytismatales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_dna_barcoding_status_species_id ON ord_rhytismatales_dna_barcoding_status (species_id);

CREATE TABLE ord_rhytismatales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_spore_print_data_species_id ON ord_rhytismatales_spore_print_data (species_id);
CREATE INDEX ix_ord_rhytismatales_spore_print_data_specimen_id ON ord_rhytismatales_spore_print_data (specimen_id);

CREATE TABLE ord_rhytismatales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_mating_systems_species_id ON ord_rhytismatales_mating_systems (species_id);
CREATE INDEX ix_ord_rhytismatales_mating_systems_publication_id ON ord_rhytismatales_mating_systems (publication_id);

CREATE TABLE ord_rhytismatales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_nutrient_uptake_studies_species_id ON ord_rhytismatales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_rhytismatales_nutrient_uptake_studies_strain_id ON ord_rhytismatales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_rhytismatales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_range_maps_species_id ON ord_rhytismatales_range_maps (species_id);
CREATE INDEX ix_ord_rhytismatales_range_maps_publication_id ON ord_rhytismatales_range_maps (publication_id);

CREATE TABLE ord_rhytismatales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_abundance_estimates_species_id ON ord_rhytismatales_abundance_estimates (species_id);
CREATE INDEX ix_ord_rhytismatales_abundance_estimates_country_id ON ord_rhytismatales_abundance_estimates (country_id);

CREATE TABLE ord_rhytismatales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_toxin_profiles_species_id ON ord_rhytismatales_toxin_profiles (species_id);
CREATE INDEX ix_ord_rhytismatales_toxin_profiles_compound_id ON ord_rhytismatales_toxin_profiles (compound_id);

CREATE TABLE ord_rhytismatales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_enzyme_activity_assays_species_id ON ord_rhytismatales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_rhytismatales_enzyme_activity_assays_enzyme_id ON ord_rhytismatales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_rhytismatales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_biocontrol_evaluations_species_id ON ord_rhytismatales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_rhytismatales_biocontrol_evaluations_publication_id ON ord_rhytismatales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_rhytismatales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhytismatales_regional_checklists_species_id ON ord_rhytismatales_regional_checklists (species_id);
CREATE INDEX ix_ord_rhytismatales_regional_checklists_country_id ON ord_rhytismatales_regional_checklists (country_id);

CREATE TABLE ord_erysiphales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_morphology_specimen_id ON ord_erysiphales_morphology (specimen_id);
CREATE INDEX ix_ord_erysiphales_morphology_species_id ON ord_erysiphales_morphology (species_id);

CREATE TABLE ord_erysiphales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_ecology_species_id ON ord_erysiphales_ecology (species_id);
CREATE INDEX ix_ord_erysiphales_ecology_dominant_habitat_id ON ord_erysiphales_ecology (dominant_habitat_id);

CREATE TABLE ord_erysiphales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_phenology_species_id ON ord_erysiphales_phenology (species_id);
CREATE INDEX ix_ord_erysiphales_phenology_region_country_id ON ord_erysiphales_phenology (region_country_id);

CREATE TABLE ord_erysiphales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_host_associations_species_id ON ord_erysiphales_host_associations (species_id);
CREATE INDEX ix_ord_erysiphales_host_associations_host_id ON ord_erysiphales_host_associations (host_id);

CREATE TABLE ord_erysiphales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_substrate_preferences_species_id ON ord_erysiphales_substrate_preferences (species_id);
CREATE INDEX ix_ord_erysiphales_substrate_preferences_substrate_id ON ord_erysiphales_substrate_preferences (substrate_id);

CREATE TABLE ord_erysiphales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_geographic_distribution_species_id ON ord_erysiphales_geographic_distribution (species_id);
CREATE INDEX ix_ord_erysiphales_geographic_distribution_country_id ON ord_erysiphales_geographic_distribution (country_id);

CREATE TABLE ord_erysiphales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_phylogeny_tree_id ON ord_erysiphales_phylogeny (tree_id);
CREATE INDEX ix_ord_erysiphales_phylogeny_focal_genus_id ON ord_erysiphales_phylogeny (focal_genus_id);

CREATE TABLE ord_erysiphales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_genomics_assembly_id ON ord_erysiphales_genomics (assembly_id);
CREATE INDEX ix_ord_erysiphales_genomics_species_id ON ord_erysiphales_genomics (species_id);

CREATE TABLE ord_erysiphales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_biochemistry_species_id ON ord_erysiphales_biochemistry (species_id);
CREATE INDEX ix_ord_erysiphales_biochemistry_compound_id ON ord_erysiphales_biochemistry (compound_id);

CREATE TABLE ord_erysiphales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_cultivation_notes_species_id ON ord_erysiphales_cultivation_notes (species_id);
CREATE INDEX ix_ord_erysiphales_cultivation_notes_strain_id ON ord_erysiphales_cultivation_notes (strain_id);

CREATE TABLE ord_erysiphales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_pathogenicity_species_id ON ord_erysiphales_pathogenicity (species_id);
CREATE INDEX ix_ord_erysiphales_pathogenicity_host_id ON ord_erysiphales_pathogenicity (host_id);

CREATE TABLE ord_erysiphales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_edibility_species_id ON ord_erysiphales_edibility (species_id);
CREATE INDEX ix_ord_erysiphales_edibility_regional_tradition_country_id ON ord_erysiphales_edibility (regional_tradition_country_id);

CREATE TABLE ord_erysiphales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_medicinal_uses_species_id ON ord_erysiphales_medicinal_uses (species_id);
CREATE INDEX ix_ord_erysiphales_medicinal_uses_publication_id ON ord_erysiphales_medicinal_uses (publication_id);

CREATE TABLE ord_erysiphales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_taxonomic_revisions_publication_id ON ord_erysiphales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_erysiphales_taxonomic_revisions_affected_family_id ON ord_erysiphales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_erysiphales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_conservation_status_species_id ON ord_erysiphales_conservation_status (species_id);
CREATE INDEX ix_ord_erysiphales_conservation_status_country_id ON ord_erysiphales_conservation_status (country_id);

CREATE TABLE ord_erysiphales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_diagnostic_keys_publication_id ON ord_erysiphales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_erysiphales_diagnostic_keys_region_country_id ON ord_erysiphales_diagnostic_keys (region_country_id);

CREATE TABLE ord_erysiphales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_type_species_register_focal_genus_id ON ord_erysiphales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_erysiphales_type_species_register_type_species_id ON ord_erysiphales_type_species_register (type_species_id);

CREATE TABLE ord_erysiphales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_distribution_grids_species_id ON ord_erysiphales_distribution_grids (species_id);
CREATE INDEX ix_ord_erysiphales_distribution_grids_country_id ON ord_erysiphales_distribution_grids (country_id);

CREATE TABLE ord_erysiphales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_microclimate_studies_species_id ON ord_erysiphales_microclimate_studies (species_id);
CREATE INDEX ix_ord_erysiphales_microclimate_studies_publication_id ON ord_erysiphales_microclimate_studies (publication_id);

CREATE TABLE ord_erysiphales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_dna_barcoding_status_species_id ON ord_erysiphales_dna_barcoding_status (species_id);

CREATE TABLE ord_erysiphales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_spore_print_data_species_id ON ord_erysiphales_spore_print_data (species_id);
CREATE INDEX ix_ord_erysiphales_spore_print_data_specimen_id ON ord_erysiphales_spore_print_data (specimen_id);

CREATE TABLE ord_erysiphales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_mating_systems_species_id ON ord_erysiphales_mating_systems (species_id);
CREATE INDEX ix_ord_erysiphales_mating_systems_publication_id ON ord_erysiphales_mating_systems (publication_id);

CREATE TABLE ord_erysiphales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_nutrient_uptake_studies_species_id ON ord_erysiphales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_erysiphales_nutrient_uptake_studies_strain_id ON ord_erysiphales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_erysiphales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_range_maps_species_id ON ord_erysiphales_range_maps (species_id);
CREATE INDEX ix_ord_erysiphales_range_maps_publication_id ON ord_erysiphales_range_maps (publication_id);

CREATE TABLE ord_erysiphales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_abundance_estimates_species_id ON ord_erysiphales_abundance_estimates (species_id);
CREATE INDEX ix_ord_erysiphales_abundance_estimates_country_id ON ord_erysiphales_abundance_estimates (country_id);

CREATE TABLE ord_erysiphales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_toxin_profiles_species_id ON ord_erysiphales_toxin_profiles (species_id);
CREATE INDEX ix_ord_erysiphales_toxin_profiles_compound_id ON ord_erysiphales_toxin_profiles (compound_id);

CREATE TABLE ord_erysiphales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_enzyme_activity_assays_species_id ON ord_erysiphales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_erysiphales_enzyme_activity_assays_enzyme_id ON ord_erysiphales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_erysiphales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_biocontrol_evaluations_species_id ON ord_erysiphales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_erysiphales_biocontrol_evaluations_publication_id ON ord_erysiphales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_erysiphales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_erysiphales_regional_checklists_species_id ON ord_erysiphales_regional_checklists (species_id);
CREATE INDEX ix_ord_erysiphales_regional_checklists_country_id ON ord_erysiphales_regional_checklists (country_id);

CREATE TABLE ord_hypocreales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_morphology_specimen_id ON ord_hypocreales_morphology (specimen_id);
CREATE INDEX ix_ord_hypocreales_morphology_species_id ON ord_hypocreales_morphology (species_id);

CREATE TABLE ord_hypocreales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_ecology_species_id ON ord_hypocreales_ecology (species_id);
CREATE INDEX ix_ord_hypocreales_ecology_dominant_habitat_id ON ord_hypocreales_ecology (dominant_habitat_id);

CREATE TABLE ord_hypocreales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_phenology_species_id ON ord_hypocreales_phenology (species_id);
CREATE INDEX ix_ord_hypocreales_phenology_region_country_id ON ord_hypocreales_phenology (region_country_id);

CREATE TABLE ord_hypocreales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_host_associations_species_id ON ord_hypocreales_host_associations (species_id);
CREATE INDEX ix_ord_hypocreales_host_associations_host_id ON ord_hypocreales_host_associations (host_id);

CREATE TABLE ord_hypocreales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_substrate_preferences_species_id ON ord_hypocreales_substrate_preferences (species_id);
CREATE INDEX ix_ord_hypocreales_substrate_preferences_substrate_id ON ord_hypocreales_substrate_preferences (substrate_id);

CREATE TABLE ord_hypocreales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_geographic_distribution_species_id ON ord_hypocreales_geographic_distribution (species_id);
CREATE INDEX ix_ord_hypocreales_geographic_distribution_country_id ON ord_hypocreales_geographic_distribution (country_id);

CREATE TABLE ord_hypocreales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_phylogeny_tree_id ON ord_hypocreales_phylogeny (tree_id);
CREATE INDEX ix_ord_hypocreales_phylogeny_focal_genus_id ON ord_hypocreales_phylogeny (focal_genus_id);

CREATE TABLE ord_hypocreales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_genomics_assembly_id ON ord_hypocreales_genomics (assembly_id);
CREATE INDEX ix_ord_hypocreales_genomics_species_id ON ord_hypocreales_genomics (species_id);

CREATE TABLE ord_hypocreales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_biochemistry_species_id ON ord_hypocreales_biochemistry (species_id);
CREATE INDEX ix_ord_hypocreales_biochemistry_compound_id ON ord_hypocreales_biochemistry (compound_id);

CREATE TABLE ord_hypocreales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_cultivation_notes_species_id ON ord_hypocreales_cultivation_notes (species_id);
CREATE INDEX ix_ord_hypocreales_cultivation_notes_strain_id ON ord_hypocreales_cultivation_notes (strain_id);

CREATE TABLE ord_hypocreales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_pathogenicity_species_id ON ord_hypocreales_pathogenicity (species_id);
CREATE INDEX ix_ord_hypocreales_pathogenicity_host_id ON ord_hypocreales_pathogenicity (host_id);

CREATE TABLE ord_hypocreales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_edibility_species_id ON ord_hypocreales_edibility (species_id);
CREATE INDEX ix_ord_hypocreales_edibility_regional_tradition_country_id ON ord_hypocreales_edibility (regional_tradition_country_id);

CREATE TABLE ord_hypocreales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_medicinal_uses_species_id ON ord_hypocreales_medicinal_uses (species_id);
CREATE INDEX ix_ord_hypocreales_medicinal_uses_publication_id ON ord_hypocreales_medicinal_uses (publication_id);

CREATE TABLE ord_hypocreales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_taxonomic_revisions_publication_id ON ord_hypocreales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_hypocreales_taxonomic_revisions_affected_family_id ON ord_hypocreales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_hypocreales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_conservation_status_species_id ON ord_hypocreales_conservation_status (species_id);
CREATE INDEX ix_ord_hypocreales_conservation_status_country_id ON ord_hypocreales_conservation_status (country_id);

CREATE TABLE ord_hypocreales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_diagnostic_keys_publication_id ON ord_hypocreales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_hypocreales_diagnostic_keys_region_country_id ON ord_hypocreales_diagnostic_keys (region_country_id);

CREATE TABLE ord_hypocreales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_type_species_register_focal_genus_id ON ord_hypocreales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_hypocreales_type_species_register_type_species_id ON ord_hypocreales_type_species_register (type_species_id);

CREATE TABLE ord_hypocreales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_distribution_grids_species_id ON ord_hypocreales_distribution_grids (species_id);
CREATE INDEX ix_ord_hypocreales_distribution_grids_country_id ON ord_hypocreales_distribution_grids (country_id);

CREATE TABLE ord_hypocreales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_microclimate_studies_species_id ON ord_hypocreales_microclimate_studies (species_id);
CREATE INDEX ix_ord_hypocreales_microclimate_studies_publication_id ON ord_hypocreales_microclimate_studies (publication_id);

CREATE TABLE ord_hypocreales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_dna_barcoding_status_species_id ON ord_hypocreales_dna_barcoding_status (species_id);

CREATE TABLE ord_hypocreales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_spore_print_data_species_id ON ord_hypocreales_spore_print_data (species_id);
CREATE INDEX ix_ord_hypocreales_spore_print_data_specimen_id ON ord_hypocreales_spore_print_data (specimen_id);

CREATE TABLE ord_hypocreales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_mating_systems_species_id ON ord_hypocreales_mating_systems (species_id);
CREATE INDEX ix_ord_hypocreales_mating_systems_publication_id ON ord_hypocreales_mating_systems (publication_id);

CREATE TABLE ord_hypocreales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_nutrient_uptake_studies_species_id ON ord_hypocreales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_hypocreales_nutrient_uptake_studies_strain_id ON ord_hypocreales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_hypocreales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_range_maps_species_id ON ord_hypocreales_range_maps (species_id);
CREATE INDEX ix_ord_hypocreales_range_maps_publication_id ON ord_hypocreales_range_maps (publication_id);

CREATE TABLE ord_hypocreales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_abundance_estimates_species_id ON ord_hypocreales_abundance_estimates (species_id);
CREATE INDEX ix_ord_hypocreales_abundance_estimates_country_id ON ord_hypocreales_abundance_estimates (country_id);

CREATE TABLE ord_hypocreales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_toxin_profiles_species_id ON ord_hypocreales_toxin_profiles (species_id);
CREATE INDEX ix_ord_hypocreales_toxin_profiles_compound_id ON ord_hypocreales_toxin_profiles (compound_id);

CREATE TABLE ord_hypocreales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_enzyme_activity_assays_species_id ON ord_hypocreales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_hypocreales_enzyme_activity_assays_enzyme_id ON ord_hypocreales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_hypocreales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_biocontrol_evaluations_species_id ON ord_hypocreales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_hypocreales_biocontrol_evaluations_publication_id ON ord_hypocreales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_hypocreales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_hypocreales_regional_checklists_species_id ON ord_hypocreales_regional_checklists (species_id);
CREATE INDEX ix_ord_hypocreales_regional_checklists_country_id ON ord_hypocreales_regional_checklists (country_id);

CREATE TABLE ord_xylariales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_morphology_specimen_id ON ord_xylariales_morphology (specimen_id);
CREATE INDEX ix_ord_xylariales_morphology_species_id ON ord_xylariales_morphology (species_id);

CREATE TABLE ord_xylariales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_ecology_species_id ON ord_xylariales_ecology (species_id);
CREATE INDEX ix_ord_xylariales_ecology_dominant_habitat_id ON ord_xylariales_ecology (dominant_habitat_id);

CREATE TABLE ord_xylariales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_phenology_species_id ON ord_xylariales_phenology (species_id);
CREATE INDEX ix_ord_xylariales_phenology_region_country_id ON ord_xylariales_phenology (region_country_id);

CREATE TABLE ord_xylariales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_host_associations_species_id ON ord_xylariales_host_associations (species_id);
CREATE INDEX ix_ord_xylariales_host_associations_host_id ON ord_xylariales_host_associations (host_id);

CREATE TABLE ord_xylariales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_substrate_preferences_species_id ON ord_xylariales_substrate_preferences (species_id);
CREATE INDEX ix_ord_xylariales_substrate_preferences_substrate_id ON ord_xylariales_substrate_preferences (substrate_id);

CREATE TABLE ord_xylariales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_geographic_distribution_species_id ON ord_xylariales_geographic_distribution (species_id);
CREATE INDEX ix_ord_xylariales_geographic_distribution_country_id ON ord_xylariales_geographic_distribution (country_id);

CREATE TABLE ord_xylariales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_phylogeny_tree_id ON ord_xylariales_phylogeny (tree_id);
CREATE INDEX ix_ord_xylariales_phylogeny_focal_genus_id ON ord_xylariales_phylogeny (focal_genus_id);

CREATE TABLE ord_xylariales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_genomics_assembly_id ON ord_xylariales_genomics (assembly_id);
CREATE INDEX ix_ord_xylariales_genomics_species_id ON ord_xylariales_genomics (species_id);

CREATE TABLE ord_xylariales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_biochemistry_species_id ON ord_xylariales_biochemistry (species_id);
CREATE INDEX ix_ord_xylariales_biochemistry_compound_id ON ord_xylariales_biochemistry (compound_id);

CREATE TABLE ord_xylariales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_cultivation_notes_species_id ON ord_xylariales_cultivation_notes (species_id);
CREATE INDEX ix_ord_xylariales_cultivation_notes_strain_id ON ord_xylariales_cultivation_notes (strain_id);

CREATE TABLE ord_xylariales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_pathogenicity_species_id ON ord_xylariales_pathogenicity (species_id);
CREATE INDEX ix_ord_xylariales_pathogenicity_host_id ON ord_xylariales_pathogenicity (host_id);

CREATE TABLE ord_xylariales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_edibility_species_id ON ord_xylariales_edibility (species_id);
CREATE INDEX ix_ord_xylariales_edibility_regional_tradition_country_id ON ord_xylariales_edibility (regional_tradition_country_id);

CREATE TABLE ord_xylariales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_medicinal_uses_species_id ON ord_xylariales_medicinal_uses (species_id);
CREATE INDEX ix_ord_xylariales_medicinal_uses_publication_id ON ord_xylariales_medicinal_uses (publication_id);

CREATE TABLE ord_xylariales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_taxonomic_revisions_publication_id ON ord_xylariales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_xylariales_taxonomic_revisions_affected_family_id ON ord_xylariales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_xylariales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_conservation_status_species_id ON ord_xylariales_conservation_status (species_id);
CREATE INDEX ix_ord_xylariales_conservation_status_country_id ON ord_xylariales_conservation_status (country_id);

CREATE TABLE ord_xylariales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_diagnostic_keys_publication_id ON ord_xylariales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_xylariales_diagnostic_keys_region_country_id ON ord_xylariales_diagnostic_keys (region_country_id);

CREATE TABLE ord_xylariales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_type_species_register_focal_genus_id ON ord_xylariales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_xylariales_type_species_register_type_species_id ON ord_xylariales_type_species_register (type_species_id);

CREATE TABLE ord_xylariales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_distribution_grids_species_id ON ord_xylariales_distribution_grids (species_id);
CREATE INDEX ix_ord_xylariales_distribution_grids_country_id ON ord_xylariales_distribution_grids (country_id);

CREATE TABLE ord_xylariales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_microclimate_studies_species_id ON ord_xylariales_microclimate_studies (species_id);
CREATE INDEX ix_ord_xylariales_microclimate_studies_publication_id ON ord_xylariales_microclimate_studies (publication_id);

CREATE TABLE ord_xylariales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_dna_barcoding_status_species_id ON ord_xylariales_dna_barcoding_status (species_id);

CREATE TABLE ord_xylariales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_spore_print_data_species_id ON ord_xylariales_spore_print_data (species_id);
CREATE INDEX ix_ord_xylariales_spore_print_data_specimen_id ON ord_xylariales_spore_print_data (specimen_id);

CREATE TABLE ord_xylariales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_mating_systems_species_id ON ord_xylariales_mating_systems (species_id);
CREATE INDEX ix_ord_xylariales_mating_systems_publication_id ON ord_xylariales_mating_systems (publication_id);

CREATE TABLE ord_xylariales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_nutrient_uptake_studies_species_id ON ord_xylariales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_xylariales_nutrient_uptake_studies_strain_id ON ord_xylariales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_xylariales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_range_maps_species_id ON ord_xylariales_range_maps (species_id);
CREATE INDEX ix_ord_xylariales_range_maps_publication_id ON ord_xylariales_range_maps (publication_id);

CREATE TABLE ord_xylariales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_abundance_estimates_species_id ON ord_xylariales_abundance_estimates (species_id);
CREATE INDEX ix_ord_xylariales_abundance_estimates_country_id ON ord_xylariales_abundance_estimates (country_id);

CREATE TABLE ord_xylariales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_toxin_profiles_species_id ON ord_xylariales_toxin_profiles (species_id);
CREATE INDEX ix_ord_xylariales_toxin_profiles_compound_id ON ord_xylariales_toxin_profiles (compound_id);

CREATE TABLE ord_xylariales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_enzyme_activity_assays_species_id ON ord_xylariales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_xylariales_enzyme_activity_assays_enzyme_id ON ord_xylariales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_xylariales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_biocontrol_evaluations_species_id ON ord_xylariales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_xylariales_biocontrol_evaluations_publication_id ON ord_xylariales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_xylariales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_xylariales_regional_checklists_species_id ON ord_xylariales_regional_checklists (species_id);
CREATE INDEX ix_ord_xylariales_regional_checklists_country_id ON ord_xylariales_regional_checklists (country_id);

CREATE TABLE ord_sordariales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_morphology_specimen_id ON ord_sordariales_morphology (specimen_id);
CREATE INDEX ix_ord_sordariales_morphology_species_id ON ord_sordariales_morphology (species_id);

CREATE TABLE ord_sordariales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_ecology_species_id ON ord_sordariales_ecology (species_id);
CREATE INDEX ix_ord_sordariales_ecology_dominant_habitat_id ON ord_sordariales_ecology (dominant_habitat_id);

CREATE TABLE ord_sordariales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_phenology_species_id ON ord_sordariales_phenology (species_id);
CREATE INDEX ix_ord_sordariales_phenology_region_country_id ON ord_sordariales_phenology (region_country_id);

CREATE TABLE ord_sordariales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_host_associations_species_id ON ord_sordariales_host_associations (species_id);
CREATE INDEX ix_ord_sordariales_host_associations_host_id ON ord_sordariales_host_associations (host_id);

CREATE TABLE ord_sordariales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_substrate_preferences_species_id ON ord_sordariales_substrate_preferences (species_id);
CREATE INDEX ix_ord_sordariales_substrate_preferences_substrate_id ON ord_sordariales_substrate_preferences (substrate_id);

CREATE TABLE ord_sordariales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_geographic_distribution_species_id ON ord_sordariales_geographic_distribution (species_id);
CREATE INDEX ix_ord_sordariales_geographic_distribution_country_id ON ord_sordariales_geographic_distribution (country_id);

CREATE TABLE ord_sordariales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_phylogeny_tree_id ON ord_sordariales_phylogeny (tree_id);
CREATE INDEX ix_ord_sordariales_phylogeny_focal_genus_id ON ord_sordariales_phylogeny (focal_genus_id);

CREATE TABLE ord_sordariales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_genomics_assembly_id ON ord_sordariales_genomics (assembly_id);
CREATE INDEX ix_ord_sordariales_genomics_species_id ON ord_sordariales_genomics (species_id);

CREATE TABLE ord_sordariales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_biochemistry_species_id ON ord_sordariales_biochemistry (species_id);
CREATE INDEX ix_ord_sordariales_biochemistry_compound_id ON ord_sordariales_biochemistry (compound_id);

CREATE TABLE ord_sordariales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_cultivation_notes_species_id ON ord_sordariales_cultivation_notes (species_id);
CREATE INDEX ix_ord_sordariales_cultivation_notes_strain_id ON ord_sordariales_cultivation_notes (strain_id);

CREATE TABLE ord_sordariales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_pathogenicity_species_id ON ord_sordariales_pathogenicity (species_id);
CREATE INDEX ix_ord_sordariales_pathogenicity_host_id ON ord_sordariales_pathogenicity (host_id);

CREATE TABLE ord_sordariales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_edibility_species_id ON ord_sordariales_edibility (species_id);
CREATE INDEX ix_ord_sordariales_edibility_regional_tradition_country_id ON ord_sordariales_edibility (regional_tradition_country_id);

CREATE TABLE ord_sordariales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_medicinal_uses_species_id ON ord_sordariales_medicinal_uses (species_id);
CREATE INDEX ix_ord_sordariales_medicinal_uses_publication_id ON ord_sordariales_medicinal_uses (publication_id);

CREATE TABLE ord_sordariales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_taxonomic_revisions_publication_id ON ord_sordariales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_sordariales_taxonomic_revisions_affected_family_id ON ord_sordariales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_sordariales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_conservation_status_species_id ON ord_sordariales_conservation_status (species_id);
CREATE INDEX ix_ord_sordariales_conservation_status_country_id ON ord_sordariales_conservation_status (country_id);

CREATE TABLE ord_sordariales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_diagnostic_keys_publication_id ON ord_sordariales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_sordariales_diagnostic_keys_region_country_id ON ord_sordariales_diagnostic_keys (region_country_id);

CREATE TABLE ord_sordariales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_type_species_register_focal_genus_id ON ord_sordariales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_sordariales_type_species_register_type_species_id ON ord_sordariales_type_species_register (type_species_id);

CREATE TABLE ord_sordariales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_distribution_grids_species_id ON ord_sordariales_distribution_grids (species_id);
CREATE INDEX ix_ord_sordariales_distribution_grids_country_id ON ord_sordariales_distribution_grids (country_id);

CREATE TABLE ord_sordariales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_microclimate_studies_species_id ON ord_sordariales_microclimate_studies (species_id);
CREATE INDEX ix_ord_sordariales_microclimate_studies_publication_id ON ord_sordariales_microclimate_studies (publication_id);

CREATE TABLE ord_sordariales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_dna_barcoding_status_species_id ON ord_sordariales_dna_barcoding_status (species_id);

CREATE TABLE ord_sordariales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_spore_print_data_species_id ON ord_sordariales_spore_print_data (species_id);
CREATE INDEX ix_ord_sordariales_spore_print_data_specimen_id ON ord_sordariales_spore_print_data (specimen_id);

CREATE TABLE ord_sordariales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_mating_systems_species_id ON ord_sordariales_mating_systems (species_id);
CREATE INDEX ix_ord_sordariales_mating_systems_publication_id ON ord_sordariales_mating_systems (publication_id);

CREATE TABLE ord_sordariales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_nutrient_uptake_studies_species_id ON ord_sordariales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_sordariales_nutrient_uptake_studies_strain_id ON ord_sordariales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_sordariales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_range_maps_species_id ON ord_sordariales_range_maps (species_id);
CREATE INDEX ix_ord_sordariales_range_maps_publication_id ON ord_sordariales_range_maps (publication_id);

CREATE TABLE ord_sordariales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_abundance_estimates_species_id ON ord_sordariales_abundance_estimates (species_id);
CREATE INDEX ix_ord_sordariales_abundance_estimates_country_id ON ord_sordariales_abundance_estimates (country_id);

CREATE TABLE ord_sordariales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_toxin_profiles_species_id ON ord_sordariales_toxin_profiles (species_id);
CREATE INDEX ix_ord_sordariales_toxin_profiles_compound_id ON ord_sordariales_toxin_profiles (compound_id);

CREATE TABLE ord_sordariales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_enzyme_activity_assays_species_id ON ord_sordariales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_sordariales_enzyme_activity_assays_enzyme_id ON ord_sordariales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_sordariales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_biocontrol_evaluations_species_id ON ord_sordariales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_sordariales_biocontrol_evaluations_publication_id ON ord_sordariales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_sordariales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_sordariales_regional_checklists_species_id ON ord_sordariales_regional_checklists (species_id);
CREATE INDEX ix_ord_sordariales_regional_checklists_country_id ON ord_sordariales_regional_checklists (country_id);

CREATE TABLE ord_diaporthales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_morphology_specimen_id ON ord_diaporthales_morphology (specimen_id);
CREATE INDEX ix_ord_diaporthales_morphology_species_id ON ord_diaporthales_morphology (species_id);

CREATE TABLE ord_diaporthales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_ecology_species_id ON ord_diaporthales_ecology (species_id);
CREATE INDEX ix_ord_diaporthales_ecology_dominant_habitat_id ON ord_diaporthales_ecology (dominant_habitat_id);

CREATE TABLE ord_diaporthales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_phenology_species_id ON ord_diaporthales_phenology (species_id);
CREATE INDEX ix_ord_diaporthales_phenology_region_country_id ON ord_diaporthales_phenology (region_country_id);

CREATE TABLE ord_diaporthales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_host_associations_species_id ON ord_diaporthales_host_associations (species_id);
CREATE INDEX ix_ord_diaporthales_host_associations_host_id ON ord_diaporthales_host_associations (host_id);

CREATE TABLE ord_diaporthales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_substrate_preferences_species_id ON ord_diaporthales_substrate_preferences (species_id);
CREATE INDEX ix_ord_diaporthales_substrate_preferences_substrate_id ON ord_diaporthales_substrate_preferences (substrate_id);

CREATE TABLE ord_diaporthales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_geographic_distribution_species_id ON ord_diaporthales_geographic_distribution (species_id);
CREATE INDEX ix_ord_diaporthales_geographic_distribution_country_id ON ord_diaporthales_geographic_distribution (country_id);

CREATE TABLE ord_diaporthales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_phylogeny_tree_id ON ord_diaporthales_phylogeny (tree_id);
CREATE INDEX ix_ord_diaporthales_phylogeny_focal_genus_id ON ord_diaporthales_phylogeny (focal_genus_id);

CREATE TABLE ord_diaporthales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_genomics_assembly_id ON ord_diaporthales_genomics (assembly_id);
CREATE INDEX ix_ord_diaporthales_genomics_species_id ON ord_diaporthales_genomics (species_id);

CREATE TABLE ord_diaporthales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_biochemistry_species_id ON ord_diaporthales_biochemistry (species_id);
CREATE INDEX ix_ord_diaporthales_biochemistry_compound_id ON ord_diaporthales_biochemistry (compound_id);

CREATE TABLE ord_diaporthales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_cultivation_notes_species_id ON ord_diaporthales_cultivation_notes (species_id);
CREATE INDEX ix_ord_diaporthales_cultivation_notes_strain_id ON ord_diaporthales_cultivation_notes (strain_id);

CREATE TABLE ord_diaporthales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_pathogenicity_species_id ON ord_diaporthales_pathogenicity (species_id);
CREATE INDEX ix_ord_diaporthales_pathogenicity_host_id ON ord_diaporthales_pathogenicity (host_id);

CREATE TABLE ord_diaporthales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_edibility_species_id ON ord_diaporthales_edibility (species_id);
CREATE INDEX ix_ord_diaporthales_edibility_regional_tradition_country_id ON ord_diaporthales_edibility (regional_tradition_country_id);

CREATE TABLE ord_diaporthales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_medicinal_uses_species_id ON ord_diaporthales_medicinal_uses (species_id);
CREATE INDEX ix_ord_diaporthales_medicinal_uses_publication_id ON ord_diaporthales_medicinal_uses (publication_id);

CREATE TABLE ord_diaporthales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_taxonomic_revisions_publication_id ON ord_diaporthales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_diaporthales_taxonomic_revisions_affected_family_id ON ord_diaporthales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_diaporthales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_conservation_status_species_id ON ord_diaporthales_conservation_status (species_id);
CREATE INDEX ix_ord_diaporthales_conservation_status_country_id ON ord_diaporthales_conservation_status (country_id);

CREATE TABLE ord_diaporthales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_diagnostic_keys_publication_id ON ord_diaporthales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_diaporthales_diagnostic_keys_region_country_id ON ord_diaporthales_diagnostic_keys (region_country_id);

CREATE TABLE ord_diaporthales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_type_species_register_focal_genus_id ON ord_diaporthales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_diaporthales_type_species_register_type_species_id ON ord_diaporthales_type_species_register (type_species_id);

CREATE TABLE ord_diaporthales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_distribution_grids_species_id ON ord_diaporthales_distribution_grids (species_id);
CREATE INDEX ix_ord_diaporthales_distribution_grids_country_id ON ord_diaporthales_distribution_grids (country_id);

CREATE TABLE ord_diaporthales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_microclimate_studies_species_id ON ord_diaporthales_microclimate_studies (species_id);
CREATE INDEX ix_ord_diaporthales_microclimate_studies_publication_id ON ord_diaporthales_microclimate_studies (publication_id);

CREATE TABLE ord_diaporthales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_dna_barcoding_status_species_id ON ord_diaporthales_dna_barcoding_status (species_id);

CREATE TABLE ord_diaporthales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_spore_print_data_species_id ON ord_diaporthales_spore_print_data (species_id);
CREATE INDEX ix_ord_diaporthales_spore_print_data_specimen_id ON ord_diaporthales_spore_print_data (specimen_id);

CREATE TABLE ord_diaporthales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_mating_systems_species_id ON ord_diaporthales_mating_systems (species_id);
CREATE INDEX ix_ord_diaporthales_mating_systems_publication_id ON ord_diaporthales_mating_systems (publication_id);

CREATE TABLE ord_diaporthales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_nutrient_uptake_studies_species_id ON ord_diaporthales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_diaporthales_nutrient_uptake_studies_strain_id ON ord_diaporthales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_diaporthales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_range_maps_species_id ON ord_diaporthales_range_maps (species_id);
CREATE INDEX ix_ord_diaporthales_range_maps_publication_id ON ord_diaporthales_range_maps (publication_id);

CREATE TABLE ord_diaporthales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_abundance_estimates_species_id ON ord_diaporthales_abundance_estimates (species_id);
CREATE INDEX ix_ord_diaporthales_abundance_estimates_country_id ON ord_diaporthales_abundance_estimates (country_id);

CREATE TABLE ord_diaporthales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_toxin_profiles_species_id ON ord_diaporthales_toxin_profiles (species_id);
CREATE INDEX ix_ord_diaporthales_toxin_profiles_compound_id ON ord_diaporthales_toxin_profiles (compound_id);

CREATE TABLE ord_diaporthales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_enzyme_activity_assays_species_id ON ord_diaporthales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_diaporthales_enzyme_activity_assays_enzyme_id ON ord_diaporthales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_diaporthales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_biocontrol_evaluations_species_id ON ord_diaporthales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_diaporthales_biocontrol_evaluations_publication_id ON ord_diaporthales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_diaporthales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diaporthales_regional_checklists_species_id ON ord_diaporthales_regional_checklists (species_id);
CREATE INDEX ix_ord_diaporthales_regional_checklists_country_id ON ord_diaporthales_regional_checklists (country_id);

CREATE TABLE ord_magnaporthales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_morphology_specimen_id ON ord_magnaporthales_morphology (specimen_id);
CREATE INDEX ix_ord_magnaporthales_morphology_species_id ON ord_magnaporthales_morphology (species_id);

CREATE TABLE ord_magnaporthales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_ecology_species_id ON ord_magnaporthales_ecology (species_id);
CREATE INDEX ix_ord_magnaporthales_ecology_dominant_habitat_id ON ord_magnaporthales_ecology (dominant_habitat_id);

CREATE TABLE ord_magnaporthales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_phenology_species_id ON ord_magnaporthales_phenology (species_id);
CREATE INDEX ix_ord_magnaporthales_phenology_region_country_id ON ord_magnaporthales_phenology (region_country_id);

CREATE TABLE ord_magnaporthales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_host_associations_species_id ON ord_magnaporthales_host_associations (species_id);
CREATE INDEX ix_ord_magnaporthales_host_associations_host_id ON ord_magnaporthales_host_associations (host_id);

CREATE TABLE ord_magnaporthales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_substrate_preferences_species_id ON ord_magnaporthales_substrate_preferences (species_id);
CREATE INDEX ix_ord_magnaporthales_substrate_preferences_substrate_id ON ord_magnaporthales_substrate_preferences (substrate_id);

CREATE TABLE ord_magnaporthales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_geographic_distribution_species_id ON ord_magnaporthales_geographic_distribution (species_id);
CREATE INDEX ix_ord_magnaporthales_geographic_distribution_country_id ON ord_magnaporthales_geographic_distribution (country_id);

CREATE TABLE ord_magnaporthales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_phylogeny_tree_id ON ord_magnaporthales_phylogeny (tree_id);
CREATE INDEX ix_ord_magnaporthales_phylogeny_focal_genus_id ON ord_magnaporthales_phylogeny (focal_genus_id);

CREATE TABLE ord_magnaporthales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_genomics_assembly_id ON ord_magnaporthales_genomics (assembly_id);
CREATE INDEX ix_ord_magnaporthales_genomics_species_id ON ord_magnaporthales_genomics (species_id);

CREATE TABLE ord_magnaporthales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_biochemistry_species_id ON ord_magnaporthales_biochemistry (species_id);
CREATE INDEX ix_ord_magnaporthales_biochemistry_compound_id ON ord_magnaporthales_biochemistry (compound_id);

CREATE TABLE ord_magnaporthales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_cultivation_notes_species_id ON ord_magnaporthales_cultivation_notes (species_id);
CREATE INDEX ix_ord_magnaporthales_cultivation_notes_strain_id ON ord_magnaporthales_cultivation_notes (strain_id);

CREATE TABLE ord_magnaporthales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_pathogenicity_species_id ON ord_magnaporthales_pathogenicity (species_id);
CREATE INDEX ix_ord_magnaporthales_pathogenicity_host_id ON ord_magnaporthales_pathogenicity (host_id);

CREATE TABLE ord_magnaporthales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_edibility_species_id ON ord_magnaporthales_edibility (species_id);
CREATE INDEX ix_ord_magnaporthales_edibility_1 ON ord_magnaporthales_edibility (regional_tradition_country_id);

CREATE TABLE ord_magnaporthales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_medicinal_uses_species_id ON ord_magnaporthales_medicinal_uses (species_id);
CREATE INDEX ix_ord_magnaporthales_medicinal_uses_publication_id ON ord_magnaporthales_medicinal_uses (publication_id);

CREATE TABLE ord_magnaporthales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_taxonomic_revisions_publication_id ON ord_magnaporthales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_magnaporthales_taxonomic_revisions_affected_family_id ON ord_magnaporthales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_magnaporthales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_conservation_status_species_id ON ord_magnaporthales_conservation_status (species_id);
CREATE INDEX ix_ord_magnaporthales_conservation_status_country_id ON ord_magnaporthales_conservation_status (country_id);

CREATE TABLE ord_magnaporthales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_diagnostic_keys_publication_id ON ord_magnaporthales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_magnaporthales_diagnostic_keys_region_country_id ON ord_magnaporthales_diagnostic_keys (region_country_id);

CREATE TABLE ord_magnaporthales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_type_species_register_focal_genus_id ON ord_magnaporthales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_magnaporthales_type_species_register_type_species_id ON ord_magnaporthales_type_species_register (type_species_id);

CREATE TABLE ord_magnaporthales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_distribution_grids_species_id ON ord_magnaporthales_distribution_grids (species_id);
CREATE INDEX ix_ord_magnaporthales_distribution_grids_country_id ON ord_magnaporthales_distribution_grids (country_id);

CREATE TABLE ord_magnaporthales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_microclimate_studies_species_id ON ord_magnaporthales_microclimate_studies (species_id);
CREATE INDEX ix_ord_magnaporthales_microclimate_studies_publication_id ON ord_magnaporthales_microclimate_studies (publication_id);

CREATE TABLE ord_magnaporthales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_dna_barcoding_status_species_id ON ord_magnaporthales_dna_barcoding_status (species_id);

CREATE TABLE ord_magnaporthales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_spore_print_data_species_id ON ord_magnaporthales_spore_print_data (species_id);
CREATE INDEX ix_ord_magnaporthales_spore_print_data_specimen_id ON ord_magnaporthales_spore_print_data (specimen_id);

CREATE TABLE ord_magnaporthales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_mating_systems_species_id ON ord_magnaporthales_mating_systems (species_id);
CREATE INDEX ix_ord_magnaporthales_mating_systems_publication_id ON ord_magnaporthales_mating_systems (publication_id);

CREATE TABLE ord_magnaporthales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_nutrient_uptake_studies_species_id ON ord_magnaporthales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_magnaporthales_nutrient_uptake_studies_strain_id ON ord_magnaporthales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_magnaporthales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_range_maps_species_id ON ord_magnaporthales_range_maps (species_id);
CREATE INDEX ix_ord_magnaporthales_range_maps_publication_id ON ord_magnaporthales_range_maps (publication_id);

CREATE TABLE ord_magnaporthales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_abundance_estimates_species_id ON ord_magnaporthales_abundance_estimates (species_id);
CREATE INDEX ix_ord_magnaporthales_abundance_estimates_country_id ON ord_magnaporthales_abundance_estimates (country_id);

CREATE TABLE ord_magnaporthales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_toxin_profiles_species_id ON ord_magnaporthales_toxin_profiles (species_id);
CREATE INDEX ix_ord_magnaporthales_toxin_profiles_compound_id ON ord_magnaporthales_toxin_profiles (compound_id);

CREATE TABLE ord_magnaporthales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_enzyme_activity_assays_species_id ON ord_magnaporthales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_magnaporthales_enzyme_activity_assays_enzyme_id ON ord_magnaporthales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_magnaporthales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_biocontrol_evaluations_species_id ON ord_magnaporthales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_magnaporthales_biocontrol_evaluations_publication_id ON ord_magnaporthales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_magnaporthales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_magnaporthales_regional_checklists_species_id ON ord_magnaporthales_regional_checklists (species_id);
CREATE INDEX ix_ord_magnaporthales_regional_checklists_country_id ON ord_magnaporthales_regional_checklists (country_id);

CREATE TABLE ord_ophiostomatales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_morphology_specimen_id ON ord_ophiostomatales_morphology (specimen_id);
CREATE INDEX ix_ord_ophiostomatales_morphology_species_id ON ord_ophiostomatales_morphology (species_id);

CREATE TABLE ord_ophiostomatales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_ecology_species_id ON ord_ophiostomatales_ecology (species_id);
CREATE INDEX ix_ord_ophiostomatales_ecology_dominant_habitat_id ON ord_ophiostomatales_ecology (dominant_habitat_id);

CREATE TABLE ord_ophiostomatales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_phenology_species_id ON ord_ophiostomatales_phenology (species_id);
CREATE INDEX ix_ord_ophiostomatales_phenology_region_country_id ON ord_ophiostomatales_phenology (region_country_id);

CREATE TABLE ord_ophiostomatales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_host_associations_species_id ON ord_ophiostomatales_host_associations (species_id);
CREATE INDEX ix_ord_ophiostomatales_host_associations_host_id ON ord_ophiostomatales_host_associations (host_id);

CREATE TABLE ord_ophiostomatales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_substrate_preferences_species_id ON ord_ophiostomatales_substrate_preferences (species_id);
CREATE INDEX ix_ord_ophiostomatales_substrate_preferences_substrate_id ON ord_ophiostomatales_substrate_preferences (substrate_id);

CREATE TABLE ord_ophiostomatales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_geographic_distribution_species_id ON ord_ophiostomatales_geographic_distribution (species_id);
CREATE INDEX ix_ord_ophiostomatales_geographic_distribution_country_id ON ord_ophiostomatales_geographic_distribution (country_id);

CREATE TABLE ord_ophiostomatales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_phylogeny_tree_id ON ord_ophiostomatales_phylogeny (tree_id);
CREATE INDEX ix_ord_ophiostomatales_phylogeny_focal_genus_id ON ord_ophiostomatales_phylogeny (focal_genus_id);

CREATE TABLE ord_ophiostomatales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_genomics_assembly_id ON ord_ophiostomatales_genomics (assembly_id);
CREATE INDEX ix_ord_ophiostomatales_genomics_species_id ON ord_ophiostomatales_genomics (species_id);

CREATE TABLE ord_ophiostomatales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_biochemistry_species_id ON ord_ophiostomatales_biochemistry (species_id);
CREATE INDEX ix_ord_ophiostomatales_biochemistry_compound_id ON ord_ophiostomatales_biochemistry (compound_id);

CREATE TABLE ord_ophiostomatales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_cultivation_notes_species_id ON ord_ophiostomatales_cultivation_notes (species_id);
CREATE INDEX ix_ord_ophiostomatales_cultivation_notes_strain_id ON ord_ophiostomatales_cultivation_notes (strain_id);

CREATE TABLE ord_ophiostomatales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_pathogenicity_species_id ON ord_ophiostomatales_pathogenicity (species_id);
CREATE INDEX ix_ord_ophiostomatales_pathogenicity_host_id ON ord_ophiostomatales_pathogenicity (host_id);

CREATE TABLE ord_ophiostomatales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_edibility_species_id ON ord_ophiostomatales_edibility (species_id);
CREATE INDEX ix_ord_ophiostomatales_edibility_1 ON ord_ophiostomatales_edibility (regional_tradition_country_id);

CREATE TABLE ord_ophiostomatales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_medicinal_uses_species_id ON ord_ophiostomatales_medicinal_uses (species_id);
CREATE INDEX ix_ord_ophiostomatales_medicinal_uses_publication_id ON ord_ophiostomatales_medicinal_uses (publication_id);

CREATE TABLE ord_ophiostomatales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_taxonomic_revisions_publication_id ON ord_ophiostomatales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_ophiostomatales_taxonomic_revisions_1 ON ord_ophiostomatales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_ophiostomatales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_conservation_status_species_id ON ord_ophiostomatales_conservation_status (species_id);
CREATE INDEX ix_ord_ophiostomatales_conservation_status_country_id ON ord_ophiostomatales_conservation_status (country_id);

CREATE TABLE ord_ophiostomatales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_diagnostic_keys_publication_id ON ord_ophiostomatales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_ophiostomatales_diagnostic_keys_region_country_id ON ord_ophiostomatales_diagnostic_keys (region_country_id);

CREATE TABLE ord_ophiostomatales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_type_species_register_focal_genus_id ON ord_ophiostomatales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_ophiostomatales_type_species_register_type_species_id ON ord_ophiostomatales_type_species_register (type_species_id);

CREATE TABLE ord_ophiostomatales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_distribution_grids_species_id ON ord_ophiostomatales_distribution_grids (species_id);
CREATE INDEX ix_ord_ophiostomatales_distribution_grids_country_id ON ord_ophiostomatales_distribution_grids (country_id);

CREATE TABLE ord_ophiostomatales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_microclimate_studies_species_id ON ord_ophiostomatales_microclimate_studies (species_id);
CREATE INDEX ix_ord_ophiostomatales_microclimate_studies_publication_id ON ord_ophiostomatales_microclimate_studies (publication_id);

CREATE TABLE ord_ophiostomatales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_dna_barcoding_status_species_id ON ord_ophiostomatales_dna_barcoding_status (species_id);

CREATE TABLE ord_ophiostomatales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_spore_print_data_species_id ON ord_ophiostomatales_spore_print_data (species_id);
CREATE INDEX ix_ord_ophiostomatales_spore_print_data_specimen_id ON ord_ophiostomatales_spore_print_data (specimen_id);

CREATE TABLE ord_ophiostomatales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_mating_systems_species_id ON ord_ophiostomatales_mating_systems (species_id);
CREATE INDEX ix_ord_ophiostomatales_mating_systems_publication_id ON ord_ophiostomatales_mating_systems (publication_id);

CREATE TABLE ord_ophiostomatales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_nutrient_uptake_studies_species_id ON ord_ophiostomatales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_ophiostomatales_nutrient_uptake_studies_strain_id ON ord_ophiostomatales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_ophiostomatales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_range_maps_species_id ON ord_ophiostomatales_range_maps (species_id);
CREATE INDEX ix_ord_ophiostomatales_range_maps_publication_id ON ord_ophiostomatales_range_maps (publication_id);

CREATE TABLE ord_ophiostomatales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_abundance_estimates_species_id ON ord_ophiostomatales_abundance_estimates (species_id);
CREATE INDEX ix_ord_ophiostomatales_abundance_estimates_country_id ON ord_ophiostomatales_abundance_estimates (country_id);

CREATE TABLE ord_ophiostomatales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_toxin_profiles_species_id ON ord_ophiostomatales_toxin_profiles (species_id);
CREATE INDEX ix_ord_ophiostomatales_toxin_profiles_compound_id ON ord_ophiostomatales_toxin_profiles (compound_id);

CREATE TABLE ord_ophiostomatales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_enzyme_activity_assays_species_id ON ord_ophiostomatales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_ophiostomatales_enzyme_activity_assays_enzyme_id ON ord_ophiostomatales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_ophiostomatales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_biocontrol_evaluations_species_id ON ord_ophiostomatales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_ophiostomatales_biocontrol_evaluations_publication_id ON ord_ophiostomatales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_ophiostomatales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ophiostomatales_regional_checklists_species_id ON ord_ophiostomatales_regional_checklists (species_id);
CREATE INDEX ix_ord_ophiostomatales_regional_checklists_country_id ON ord_ophiostomatales_regional_checklists (country_id);

CREATE TABLE ord_lecanorales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_morphology_specimen_id ON ord_lecanorales_morphology (specimen_id);
CREATE INDEX ix_ord_lecanorales_morphology_species_id ON ord_lecanorales_morphology (species_id);

CREATE TABLE ord_lecanorales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_ecology_species_id ON ord_lecanorales_ecology (species_id);
CREATE INDEX ix_ord_lecanorales_ecology_dominant_habitat_id ON ord_lecanorales_ecology (dominant_habitat_id);

CREATE TABLE ord_lecanorales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_phenology_species_id ON ord_lecanorales_phenology (species_id);
CREATE INDEX ix_ord_lecanorales_phenology_region_country_id ON ord_lecanorales_phenology (region_country_id);

CREATE TABLE ord_lecanorales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_host_associations_species_id ON ord_lecanorales_host_associations (species_id);
CREATE INDEX ix_ord_lecanorales_host_associations_host_id ON ord_lecanorales_host_associations (host_id);

CREATE TABLE ord_lecanorales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_substrate_preferences_species_id ON ord_lecanorales_substrate_preferences (species_id);
CREATE INDEX ix_ord_lecanorales_substrate_preferences_substrate_id ON ord_lecanorales_substrate_preferences (substrate_id);

CREATE TABLE ord_lecanorales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_geographic_distribution_species_id ON ord_lecanorales_geographic_distribution (species_id);
CREATE INDEX ix_ord_lecanorales_geographic_distribution_country_id ON ord_lecanorales_geographic_distribution (country_id);

CREATE TABLE ord_lecanorales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_phylogeny_tree_id ON ord_lecanorales_phylogeny (tree_id);
CREATE INDEX ix_ord_lecanorales_phylogeny_focal_genus_id ON ord_lecanorales_phylogeny (focal_genus_id);

CREATE TABLE ord_lecanorales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_genomics_assembly_id ON ord_lecanorales_genomics (assembly_id);
CREATE INDEX ix_ord_lecanorales_genomics_species_id ON ord_lecanorales_genomics (species_id);

CREATE TABLE ord_lecanorales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_biochemistry_species_id ON ord_lecanorales_biochemistry (species_id);
CREATE INDEX ix_ord_lecanorales_biochemistry_compound_id ON ord_lecanorales_biochemistry (compound_id);

CREATE TABLE ord_lecanorales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_cultivation_notes_species_id ON ord_lecanorales_cultivation_notes (species_id);
CREATE INDEX ix_ord_lecanorales_cultivation_notes_strain_id ON ord_lecanorales_cultivation_notes (strain_id);

CREATE TABLE ord_lecanorales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_pathogenicity_species_id ON ord_lecanorales_pathogenicity (species_id);
CREATE INDEX ix_ord_lecanorales_pathogenicity_host_id ON ord_lecanorales_pathogenicity (host_id);

CREATE TABLE ord_lecanorales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_edibility_species_id ON ord_lecanorales_edibility (species_id);
CREATE INDEX ix_ord_lecanorales_edibility_regional_tradition_country_id ON ord_lecanorales_edibility (regional_tradition_country_id);

CREATE TABLE ord_lecanorales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_medicinal_uses_species_id ON ord_lecanorales_medicinal_uses (species_id);
CREATE INDEX ix_ord_lecanorales_medicinal_uses_publication_id ON ord_lecanorales_medicinal_uses (publication_id);

CREATE TABLE ord_lecanorales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_taxonomic_revisions_publication_id ON ord_lecanorales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_lecanorales_taxonomic_revisions_affected_family_id ON ord_lecanorales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_lecanorales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_conservation_status_species_id ON ord_lecanorales_conservation_status (species_id);
CREATE INDEX ix_ord_lecanorales_conservation_status_country_id ON ord_lecanorales_conservation_status (country_id);

CREATE TABLE ord_lecanorales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_diagnostic_keys_publication_id ON ord_lecanorales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_lecanorales_diagnostic_keys_region_country_id ON ord_lecanorales_diagnostic_keys (region_country_id);

CREATE TABLE ord_lecanorales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_type_species_register_focal_genus_id ON ord_lecanorales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_lecanorales_type_species_register_type_species_id ON ord_lecanorales_type_species_register (type_species_id);

CREATE TABLE ord_lecanorales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_distribution_grids_species_id ON ord_lecanorales_distribution_grids (species_id);
CREATE INDEX ix_ord_lecanorales_distribution_grids_country_id ON ord_lecanorales_distribution_grids (country_id);

CREATE TABLE ord_lecanorales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_microclimate_studies_species_id ON ord_lecanorales_microclimate_studies (species_id);
CREATE INDEX ix_ord_lecanorales_microclimate_studies_publication_id ON ord_lecanorales_microclimate_studies (publication_id);

CREATE TABLE ord_lecanorales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_dna_barcoding_status_species_id ON ord_lecanorales_dna_barcoding_status (species_id);

CREATE TABLE ord_lecanorales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_spore_print_data_species_id ON ord_lecanorales_spore_print_data (species_id);
CREATE INDEX ix_ord_lecanorales_spore_print_data_specimen_id ON ord_lecanorales_spore_print_data (specimen_id);

CREATE TABLE ord_lecanorales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_mating_systems_species_id ON ord_lecanorales_mating_systems (species_id);
CREATE INDEX ix_ord_lecanorales_mating_systems_publication_id ON ord_lecanorales_mating_systems (publication_id);

CREATE TABLE ord_lecanorales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_nutrient_uptake_studies_species_id ON ord_lecanorales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_lecanorales_nutrient_uptake_studies_strain_id ON ord_lecanorales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_lecanorales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_range_maps_species_id ON ord_lecanorales_range_maps (species_id);
CREATE INDEX ix_ord_lecanorales_range_maps_publication_id ON ord_lecanorales_range_maps (publication_id);

CREATE TABLE ord_lecanorales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_abundance_estimates_species_id ON ord_lecanorales_abundance_estimates (species_id);
CREATE INDEX ix_ord_lecanorales_abundance_estimates_country_id ON ord_lecanorales_abundance_estimates (country_id);

CREATE TABLE ord_lecanorales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_toxin_profiles_species_id ON ord_lecanorales_toxin_profiles (species_id);
CREATE INDEX ix_ord_lecanorales_toxin_profiles_compound_id ON ord_lecanorales_toxin_profiles (compound_id);

CREATE TABLE ord_lecanorales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_enzyme_activity_assays_species_id ON ord_lecanorales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_lecanorales_enzyme_activity_assays_enzyme_id ON ord_lecanorales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_lecanorales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_biocontrol_evaluations_species_id ON ord_lecanorales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_lecanorales_biocontrol_evaluations_publication_id ON ord_lecanorales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_lecanorales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lecanorales_regional_checklists_species_id ON ord_lecanorales_regional_checklists (species_id);
CREATE INDEX ix_ord_lecanorales_regional_checklists_country_id ON ord_lecanorales_regional_checklists (country_id);

CREATE TABLE ord_teloschistales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_morphology_specimen_id ON ord_teloschistales_morphology (specimen_id);
CREATE INDEX ix_ord_teloschistales_morphology_species_id ON ord_teloschistales_morphology (species_id);

CREATE TABLE ord_teloschistales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_ecology_species_id ON ord_teloschistales_ecology (species_id);
CREATE INDEX ix_ord_teloschistales_ecology_dominant_habitat_id ON ord_teloschistales_ecology (dominant_habitat_id);

CREATE TABLE ord_teloschistales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_phenology_species_id ON ord_teloschistales_phenology (species_id);
CREATE INDEX ix_ord_teloschistales_phenology_region_country_id ON ord_teloschistales_phenology (region_country_id);

CREATE TABLE ord_teloschistales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_host_associations_species_id ON ord_teloschistales_host_associations (species_id);
CREATE INDEX ix_ord_teloschistales_host_associations_host_id ON ord_teloschistales_host_associations (host_id);

CREATE TABLE ord_teloschistales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_substrate_preferences_species_id ON ord_teloschistales_substrate_preferences (species_id);
CREATE INDEX ix_ord_teloschistales_substrate_preferences_substrate_id ON ord_teloschistales_substrate_preferences (substrate_id);

CREATE TABLE ord_teloschistales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_geographic_distribution_species_id ON ord_teloschistales_geographic_distribution (species_id);
CREATE INDEX ix_ord_teloschistales_geographic_distribution_country_id ON ord_teloschistales_geographic_distribution (country_id);

CREATE TABLE ord_teloschistales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_phylogeny_tree_id ON ord_teloschistales_phylogeny (tree_id);
CREATE INDEX ix_ord_teloschistales_phylogeny_focal_genus_id ON ord_teloschistales_phylogeny (focal_genus_id);

CREATE TABLE ord_teloschistales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_genomics_assembly_id ON ord_teloschistales_genomics (assembly_id);
CREATE INDEX ix_ord_teloschistales_genomics_species_id ON ord_teloschistales_genomics (species_id);

CREATE TABLE ord_teloschistales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_biochemistry_species_id ON ord_teloschistales_biochemistry (species_id);
CREATE INDEX ix_ord_teloschistales_biochemistry_compound_id ON ord_teloschistales_biochemistry (compound_id);

CREATE TABLE ord_teloschistales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_cultivation_notes_species_id ON ord_teloschistales_cultivation_notes (species_id);
CREATE INDEX ix_ord_teloschistales_cultivation_notes_strain_id ON ord_teloschistales_cultivation_notes (strain_id);

CREATE TABLE ord_teloschistales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_pathogenicity_species_id ON ord_teloschistales_pathogenicity (species_id);
CREATE INDEX ix_ord_teloschistales_pathogenicity_host_id ON ord_teloschistales_pathogenicity (host_id);

CREATE TABLE ord_teloschistales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_edibility_species_id ON ord_teloschistales_edibility (species_id);
CREATE INDEX ix_ord_teloschistales_edibility_1 ON ord_teloschistales_edibility (regional_tradition_country_id);

CREATE TABLE ord_teloschistales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_medicinal_uses_species_id ON ord_teloschistales_medicinal_uses (species_id);
CREATE INDEX ix_ord_teloschistales_medicinal_uses_publication_id ON ord_teloschistales_medicinal_uses (publication_id);

CREATE TABLE ord_teloschistales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_taxonomic_revisions_publication_id ON ord_teloschistales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_teloschistales_taxonomic_revisions_affected_family_id ON ord_teloschistales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_teloschistales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_conservation_status_species_id ON ord_teloschistales_conservation_status (species_id);
CREATE INDEX ix_ord_teloschistales_conservation_status_country_id ON ord_teloschistales_conservation_status (country_id);

CREATE TABLE ord_teloschistales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_diagnostic_keys_publication_id ON ord_teloschistales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_teloschistales_diagnostic_keys_region_country_id ON ord_teloschistales_diagnostic_keys (region_country_id);

CREATE TABLE ord_teloschistales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_type_species_register_focal_genus_id ON ord_teloschistales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_teloschistales_type_species_register_type_species_id ON ord_teloschistales_type_species_register (type_species_id);

CREATE TABLE ord_teloschistales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_distribution_grids_species_id ON ord_teloschistales_distribution_grids (species_id);
CREATE INDEX ix_ord_teloschistales_distribution_grids_country_id ON ord_teloschistales_distribution_grids (country_id);

CREATE TABLE ord_teloschistales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_microclimate_studies_species_id ON ord_teloschistales_microclimate_studies (species_id);
CREATE INDEX ix_ord_teloschistales_microclimate_studies_publication_id ON ord_teloschistales_microclimate_studies (publication_id);

CREATE TABLE ord_teloschistales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_dna_barcoding_status_species_id ON ord_teloschistales_dna_barcoding_status (species_id);

CREATE TABLE ord_teloschistales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_spore_print_data_species_id ON ord_teloschistales_spore_print_data (species_id);
CREATE INDEX ix_ord_teloschistales_spore_print_data_specimen_id ON ord_teloschistales_spore_print_data (specimen_id);

CREATE TABLE ord_teloschistales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_mating_systems_species_id ON ord_teloschistales_mating_systems (species_id);
CREATE INDEX ix_ord_teloschistales_mating_systems_publication_id ON ord_teloschistales_mating_systems (publication_id);

CREATE TABLE ord_teloschistales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_nutrient_uptake_studies_species_id ON ord_teloschistales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_teloschistales_nutrient_uptake_studies_strain_id ON ord_teloschistales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_teloschistales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_range_maps_species_id ON ord_teloschistales_range_maps (species_id);
CREATE INDEX ix_ord_teloschistales_range_maps_publication_id ON ord_teloschistales_range_maps (publication_id);

CREATE TABLE ord_teloschistales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_abundance_estimates_species_id ON ord_teloschistales_abundance_estimates (species_id);
CREATE INDEX ix_ord_teloschistales_abundance_estimates_country_id ON ord_teloschistales_abundance_estimates (country_id);

CREATE TABLE ord_teloschistales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_toxin_profiles_species_id ON ord_teloschistales_toxin_profiles (species_id);
CREATE INDEX ix_ord_teloschistales_toxin_profiles_compound_id ON ord_teloschistales_toxin_profiles (compound_id);

CREATE TABLE ord_teloschistales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_enzyme_activity_assays_species_id ON ord_teloschistales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_teloschistales_enzyme_activity_assays_enzyme_id ON ord_teloschistales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_teloschistales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_biocontrol_evaluations_species_id ON ord_teloschistales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_teloschistales_biocontrol_evaluations_publication_id ON ord_teloschistales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_teloschistales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_teloschistales_regional_checklists_species_id ON ord_teloschistales_regional_checklists (species_id);
CREATE INDEX ix_ord_teloschistales_regional_checklists_country_id ON ord_teloschistales_regional_checklists (country_id);

CREATE TABLE ord_ostropales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_morphology_specimen_id ON ord_ostropales_morphology (specimen_id);
CREATE INDEX ix_ord_ostropales_morphology_species_id ON ord_ostropales_morphology (species_id);

CREATE TABLE ord_ostropales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_ecology_species_id ON ord_ostropales_ecology (species_id);
CREATE INDEX ix_ord_ostropales_ecology_dominant_habitat_id ON ord_ostropales_ecology (dominant_habitat_id);

CREATE TABLE ord_ostropales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_phenology_species_id ON ord_ostropales_phenology (species_id);
CREATE INDEX ix_ord_ostropales_phenology_region_country_id ON ord_ostropales_phenology (region_country_id);

CREATE TABLE ord_ostropales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_host_associations_species_id ON ord_ostropales_host_associations (species_id);
CREATE INDEX ix_ord_ostropales_host_associations_host_id ON ord_ostropales_host_associations (host_id);

CREATE TABLE ord_ostropales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_substrate_preferences_species_id ON ord_ostropales_substrate_preferences (species_id);
CREATE INDEX ix_ord_ostropales_substrate_preferences_substrate_id ON ord_ostropales_substrate_preferences (substrate_id);

CREATE TABLE ord_ostropales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_geographic_distribution_species_id ON ord_ostropales_geographic_distribution (species_id);
CREATE INDEX ix_ord_ostropales_geographic_distribution_country_id ON ord_ostropales_geographic_distribution (country_id);

CREATE TABLE ord_ostropales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_phylogeny_tree_id ON ord_ostropales_phylogeny (tree_id);
CREATE INDEX ix_ord_ostropales_phylogeny_focal_genus_id ON ord_ostropales_phylogeny (focal_genus_id);

CREATE TABLE ord_ostropales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_genomics_assembly_id ON ord_ostropales_genomics (assembly_id);
CREATE INDEX ix_ord_ostropales_genomics_species_id ON ord_ostropales_genomics (species_id);

CREATE TABLE ord_ostropales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_biochemistry_species_id ON ord_ostropales_biochemistry (species_id);
CREATE INDEX ix_ord_ostropales_biochemistry_compound_id ON ord_ostropales_biochemistry (compound_id);

CREATE TABLE ord_ostropales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_cultivation_notes_species_id ON ord_ostropales_cultivation_notes (species_id);
CREATE INDEX ix_ord_ostropales_cultivation_notes_strain_id ON ord_ostropales_cultivation_notes (strain_id);

CREATE TABLE ord_ostropales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_pathogenicity_species_id ON ord_ostropales_pathogenicity (species_id);
CREATE INDEX ix_ord_ostropales_pathogenicity_host_id ON ord_ostropales_pathogenicity (host_id);

CREATE TABLE ord_ostropales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_edibility_species_id ON ord_ostropales_edibility (species_id);
CREATE INDEX ix_ord_ostropales_edibility_regional_tradition_country_id ON ord_ostropales_edibility (regional_tradition_country_id);

CREATE TABLE ord_ostropales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_medicinal_uses_species_id ON ord_ostropales_medicinal_uses (species_id);
CREATE INDEX ix_ord_ostropales_medicinal_uses_publication_id ON ord_ostropales_medicinal_uses (publication_id);

CREATE TABLE ord_ostropales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_taxonomic_revisions_publication_id ON ord_ostropales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_ostropales_taxonomic_revisions_affected_family_id ON ord_ostropales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_ostropales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_conservation_status_species_id ON ord_ostropales_conservation_status (species_id);
CREATE INDEX ix_ord_ostropales_conservation_status_country_id ON ord_ostropales_conservation_status (country_id);

CREATE TABLE ord_ostropales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_diagnostic_keys_publication_id ON ord_ostropales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_ostropales_diagnostic_keys_region_country_id ON ord_ostropales_diagnostic_keys (region_country_id);

CREATE TABLE ord_ostropales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_type_species_register_focal_genus_id ON ord_ostropales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_ostropales_type_species_register_type_species_id ON ord_ostropales_type_species_register (type_species_id);

CREATE TABLE ord_ostropales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_distribution_grids_species_id ON ord_ostropales_distribution_grids (species_id);
CREATE INDEX ix_ord_ostropales_distribution_grids_country_id ON ord_ostropales_distribution_grids (country_id);

CREATE TABLE ord_ostropales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_microclimate_studies_species_id ON ord_ostropales_microclimate_studies (species_id);
CREATE INDEX ix_ord_ostropales_microclimate_studies_publication_id ON ord_ostropales_microclimate_studies (publication_id);

CREATE TABLE ord_ostropales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_dna_barcoding_status_species_id ON ord_ostropales_dna_barcoding_status (species_id);

CREATE TABLE ord_ostropales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_spore_print_data_species_id ON ord_ostropales_spore_print_data (species_id);
CREATE INDEX ix_ord_ostropales_spore_print_data_specimen_id ON ord_ostropales_spore_print_data (specimen_id);

CREATE TABLE ord_ostropales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_mating_systems_species_id ON ord_ostropales_mating_systems (species_id);
CREATE INDEX ix_ord_ostropales_mating_systems_publication_id ON ord_ostropales_mating_systems (publication_id);

CREATE TABLE ord_ostropales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_nutrient_uptake_studies_species_id ON ord_ostropales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_ostropales_nutrient_uptake_studies_strain_id ON ord_ostropales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_ostropales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_range_maps_species_id ON ord_ostropales_range_maps (species_id);
CREATE INDEX ix_ord_ostropales_range_maps_publication_id ON ord_ostropales_range_maps (publication_id);

CREATE TABLE ord_ostropales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_abundance_estimates_species_id ON ord_ostropales_abundance_estimates (species_id);
CREATE INDEX ix_ord_ostropales_abundance_estimates_country_id ON ord_ostropales_abundance_estimates (country_id);

CREATE TABLE ord_ostropales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_toxin_profiles_species_id ON ord_ostropales_toxin_profiles (species_id);
CREATE INDEX ix_ord_ostropales_toxin_profiles_compound_id ON ord_ostropales_toxin_profiles (compound_id);

CREATE TABLE ord_ostropales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_enzyme_activity_assays_species_id ON ord_ostropales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_ostropales_enzyme_activity_assays_enzyme_id ON ord_ostropales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_ostropales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_biocontrol_evaluations_species_id ON ord_ostropales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_ostropales_biocontrol_evaluations_publication_id ON ord_ostropales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_ostropales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_ostropales_regional_checklists_species_id ON ord_ostropales_regional_checklists (species_id);
CREATE INDEX ix_ord_ostropales_regional_checklists_country_id ON ord_ostropales_regional_checklists (country_id);

CREATE TABLE ord_verrucariales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_morphology_specimen_id ON ord_verrucariales_morphology (specimen_id);
CREATE INDEX ix_ord_verrucariales_morphology_species_id ON ord_verrucariales_morphology (species_id);

CREATE TABLE ord_verrucariales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_ecology_species_id ON ord_verrucariales_ecology (species_id);
CREATE INDEX ix_ord_verrucariales_ecology_dominant_habitat_id ON ord_verrucariales_ecology (dominant_habitat_id);

CREATE TABLE ord_verrucariales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_phenology_species_id ON ord_verrucariales_phenology (species_id);
CREATE INDEX ix_ord_verrucariales_phenology_region_country_id ON ord_verrucariales_phenology (region_country_id);

CREATE TABLE ord_verrucariales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_host_associations_species_id ON ord_verrucariales_host_associations (species_id);
CREATE INDEX ix_ord_verrucariales_host_associations_host_id ON ord_verrucariales_host_associations (host_id);

CREATE TABLE ord_verrucariales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_substrate_preferences_species_id ON ord_verrucariales_substrate_preferences (species_id);
CREATE INDEX ix_ord_verrucariales_substrate_preferences_substrate_id ON ord_verrucariales_substrate_preferences (substrate_id);

CREATE TABLE ord_verrucariales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_geographic_distribution_species_id ON ord_verrucariales_geographic_distribution (species_id);
CREATE INDEX ix_ord_verrucariales_geographic_distribution_country_id ON ord_verrucariales_geographic_distribution (country_id);

CREATE TABLE ord_verrucariales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_phylogeny_tree_id ON ord_verrucariales_phylogeny (tree_id);
CREATE INDEX ix_ord_verrucariales_phylogeny_focal_genus_id ON ord_verrucariales_phylogeny (focal_genus_id);

CREATE TABLE ord_verrucariales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_genomics_assembly_id ON ord_verrucariales_genomics (assembly_id);
CREATE INDEX ix_ord_verrucariales_genomics_species_id ON ord_verrucariales_genomics (species_id);

CREATE TABLE ord_verrucariales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_biochemistry_species_id ON ord_verrucariales_biochemistry (species_id);
CREATE INDEX ix_ord_verrucariales_biochemistry_compound_id ON ord_verrucariales_biochemistry (compound_id);

CREATE TABLE ord_verrucariales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_cultivation_notes_species_id ON ord_verrucariales_cultivation_notes (species_id);
CREATE INDEX ix_ord_verrucariales_cultivation_notes_strain_id ON ord_verrucariales_cultivation_notes (strain_id);

CREATE TABLE ord_verrucariales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_pathogenicity_species_id ON ord_verrucariales_pathogenicity (species_id);
CREATE INDEX ix_ord_verrucariales_pathogenicity_host_id ON ord_verrucariales_pathogenicity (host_id);

CREATE TABLE ord_verrucariales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_edibility_species_id ON ord_verrucariales_edibility (species_id);
CREATE INDEX ix_ord_verrucariales_edibility_regional_tradition_country_id ON ord_verrucariales_edibility (regional_tradition_country_id);

CREATE TABLE ord_verrucariales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_medicinal_uses_species_id ON ord_verrucariales_medicinal_uses (species_id);
CREATE INDEX ix_ord_verrucariales_medicinal_uses_publication_id ON ord_verrucariales_medicinal_uses (publication_id);

CREATE TABLE ord_verrucariales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_taxonomic_revisions_publication_id ON ord_verrucariales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_verrucariales_taxonomic_revisions_affected_family_id ON ord_verrucariales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_verrucariales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_conservation_status_species_id ON ord_verrucariales_conservation_status (species_id);
CREATE INDEX ix_ord_verrucariales_conservation_status_country_id ON ord_verrucariales_conservation_status (country_id);

CREATE TABLE ord_verrucariales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_diagnostic_keys_publication_id ON ord_verrucariales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_verrucariales_diagnostic_keys_region_country_id ON ord_verrucariales_diagnostic_keys (region_country_id);

CREATE TABLE ord_verrucariales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_type_species_register_focal_genus_id ON ord_verrucariales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_verrucariales_type_species_register_type_species_id ON ord_verrucariales_type_species_register (type_species_id);

CREATE TABLE ord_verrucariales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_distribution_grids_species_id ON ord_verrucariales_distribution_grids (species_id);
CREATE INDEX ix_ord_verrucariales_distribution_grids_country_id ON ord_verrucariales_distribution_grids (country_id);

CREATE TABLE ord_verrucariales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_microclimate_studies_species_id ON ord_verrucariales_microclimate_studies (species_id);
CREATE INDEX ix_ord_verrucariales_microclimate_studies_publication_id ON ord_verrucariales_microclimate_studies (publication_id);

CREATE TABLE ord_verrucariales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_dna_barcoding_status_species_id ON ord_verrucariales_dna_barcoding_status (species_id);

CREATE TABLE ord_verrucariales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_spore_print_data_species_id ON ord_verrucariales_spore_print_data (species_id);
CREATE INDEX ix_ord_verrucariales_spore_print_data_specimen_id ON ord_verrucariales_spore_print_data (specimen_id);

CREATE TABLE ord_verrucariales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_mating_systems_species_id ON ord_verrucariales_mating_systems (species_id);
CREATE INDEX ix_ord_verrucariales_mating_systems_publication_id ON ord_verrucariales_mating_systems (publication_id);

CREATE TABLE ord_verrucariales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_nutrient_uptake_studies_species_id ON ord_verrucariales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_verrucariales_nutrient_uptake_studies_strain_id ON ord_verrucariales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_verrucariales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_range_maps_species_id ON ord_verrucariales_range_maps (species_id);
CREATE INDEX ix_ord_verrucariales_range_maps_publication_id ON ord_verrucariales_range_maps (publication_id);

CREATE TABLE ord_verrucariales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_abundance_estimates_species_id ON ord_verrucariales_abundance_estimates (species_id);
CREATE INDEX ix_ord_verrucariales_abundance_estimates_country_id ON ord_verrucariales_abundance_estimates (country_id);

CREATE TABLE ord_verrucariales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_toxin_profiles_species_id ON ord_verrucariales_toxin_profiles (species_id);
CREATE INDEX ix_ord_verrucariales_toxin_profiles_compound_id ON ord_verrucariales_toxin_profiles (compound_id);

CREATE TABLE ord_verrucariales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_enzyme_activity_assays_species_id ON ord_verrucariales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_verrucariales_enzyme_activity_assays_enzyme_id ON ord_verrucariales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_verrucariales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_biocontrol_evaluations_species_id ON ord_verrucariales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_verrucariales_biocontrol_evaluations_publication_id ON ord_verrucariales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_verrucariales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_verrucariales_regional_checklists_species_id ON ord_verrucariales_regional_checklists (species_id);
CREATE INDEX ix_ord_verrucariales_regional_checklists_country_id ON ord_verrucariales_regional_checklists (country_id);

CREATE TABLE ord_lichinales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_morphology_specimen_id ON ord_lichinales_morphology (specimen_id);
CREATE INDEX ix_ord_lichinales_morphology_species_id ON ord_lichinales_morphology (species_id);

CREATE TABLE ord_lichinales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_ecology_species_id ON ord_lichinales_ecology (species_id);
CREATE INDEX ix_ord_lichinales_ecology_dominant_habitat_id ON ord_lichinales_ecology (dominant_habitat_id);

CREATE TABLE ord_lichinales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_phenology_species_id ON ord_lichinales_phenology (species_id);
CREATE INDEX ix_ord_lichinales_phenology_region_country_id ON ord_lichinales_phenology (region_country_id);

CREATE TABLE ord_lichinales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_host_associations_species_id ON ord_lichinales_host_associations (species_id);
CREATE INDEX ix_ord_lichinales_host_associations_host_id ON ord_lichinales_host_associations (host_id);

CREATE TABLE ord_lichinales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_substrate_preferences_species_id ON ord_lichinales_substrate_preferences (species_id);
CREATE INDEX ix_ord_lichinales_substrate_preferences_substrate_id ON ord_lichinales_substrate_preferences (substrate_id);

CREATE TABLE ord_lichinales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_geographic_distribution_species_id ON ord_lichinales_geographic_distribution (species_id);
CREATE INDEX ix_ord_lichinales_geographic_distribution_country_id ON ord_lichinales_geographic_distribution (country_id);

CREATE TABLE ord_lichinales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_phylogeny_tree_id ON ord_lichinales_phylogeny (tree_id);
CREATE INDEX ix_ord_lichinales_phylogeny_focal_genus_id ON ord_lichinales_phylogeny (focal_genus_id);

CREATE TABLE ord_lichinales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_genomics_assembly_id ON ord_lichinales_genomics (assembly_id);
CREATE INDEX ix_ord_lichinales_genomics_species_id ON ord_lichinales_genomics (species_id);

CREATE TABLE ord_lichinales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_biochemistry_species_id ON ord_lichinales_biochemistry (species_id);
CREATE INDEX ix_ord_lichinales_biochemistry_compound_id ON ord_lichinales_biochemistry (compound_id);

CREATE TABLE ord_lichinales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_cultivation_notes_species_id ON ord_lichinales_cultivation_notes (species_id);
CREATE INDEX ix_ord_lichinales_cultivation_notes_strain_id ON ord_lichinales_cultivation_notes (strain_id);

CREATE TABLE ord_lichinales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_pathogenicity_species_id ON ord_lichinales_pathogenicity (species_id);
CREATE INDEX ix_ord_lichinales_pathogenicity_host_id ON ord_lichinales_pathogenicity (host_id);

CREATE TABLE ord_lichinales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_edibility_species_id ON ord_lichinales_edibility (species_id);
CREATE INDEX ix_ord_lichinales_edibility_regional_tradition_country_id ON ord_lichinales_edibility (regional_tradition_country_id);

CREATE TABLE ord_lichinales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_medicinal_uses_species_id ON ord_lichinales_medicinal_uses (species_id);
CREATE INDEX ix_ord_lichinales_medicinal_uses_publication_id ON ord_lichinales_medicinal_uses (publication_id);

CREATE TABLE ord_lichinales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_taxonomic_revisions_publication_id ON ord_lichinales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_lichinales_taxonomic_revisions_affected_family_id ON ord_lichinales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_lichinales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_conservation_status_species_id ON ord_lichinales_conservation_status (species_id);
CREATE INDEX ix_ord_lichinales_conservation_status_country_id ON ord_lichinales_conservation_status (country_id);

CREATE TABLE ord_lichinales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_diagnostic_keys_publication_id ON ord_lichinales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_lichinales_diagnostic_keys_region_country_id ON ord_lichinales_diagnostic_keys (region_country_id);

CREATE TABLE ord_lichinales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_type_species_register_focal_genus_id ON ord_lichinales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_lichinales_type_species_register_type_species_id ON ord_lichinales_type_species_register (type_species_id);

CREATE TABLE ord_lichinales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_distribution_grids_species_id ON ord_lichinales_distribution_grids (species_id);
CREATE INDEX ix_ord_lichinales_distribution_grids_country_id ON ord_lichinales_distribution_grids (country_id);

CREATE TABLE ord_lichinales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_microclimate_studies_species_id ON ord_lichinales_microclimate_studies (species_id);
CREATE INDEX ix_ord_lichinales_microclimate_studies_publication_id ON ord_lichinales_microclimate_studies (publication_id);

CREATE TABLE ord_lichinales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_dna_barcoding_status_species_id ON ord_lichinales_dna_barcoding_status (species_id);

CREATE TABLE ord_lichinales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_spore_print_data_species_id ON ord_lichinales_spore_print_data (species_id);
CREATE INDEX ix_ord_lichinales_spore_print_data_specimen_id ON ord_lichinales_spore_print_data (specimen_id);

CREATE TABLE ord_lichinales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_mating_systems_species_id ON ord_lichinales_mating_systems (species_id);
CREATE INDEX ix_ord_lichinales_mating_systems_publication_id ON ord_lichinales_mating_systems (publication_id);

CREATE TABLE ord_lichinales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_nutrient_uptake_studies_species_id ON ord_lichinales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_lichinales_nutrient_uptake_studies_strain_id ON ord_lichinales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_lichinales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_range_maps_species_id ON ord_lichinales_range_maps (species_id);
CREATE INDEX ix_ord_lichinales_range_maps_publication_id ON ord_lichinales_range_maps (publication_id);

CREATE TABLE ord_lichinales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_abundance_estimates_species_id ON ord_lichinales_abundance_estimates (species_id);
CREATE INDEX ix_ord_lichinales_abundance_estimates_country_id ON ord_lichinales_abundance_estimates (country_id);

CREATE TABLE ord_lichinales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_toxin_profiles_species_id ON ord_lichinales_toxin_profiles (species_id);
CREATE INDEX ix_ord_lichinales_toxin_profiles_compound_id ON ord_lichinales_toxin_profiles (compound_id);

CREATE TABLE ord_lichinales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_enzyme_activity_assays_species_id ON ord_lichinales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_lichinales_enzyme_activity_assays_enzyme_id ON ord_lichinales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_lichinales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_biocontrol_evaluations_species_id ON ord_lichinales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_lichinales_biocontrol_evaluations_publication_id ON ord_lichinales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_lichinales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_lichinales_regional_checklists_species_id ON ord_lichinales_regional_checklists (species_id);
CREATE INDEX ix_ord_lichinales_regional_checklists_country_id ON ord_lichinales_regional_checklists (country_id);

CREATE TABLE ord_umbilicariales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_morphology_specimen_id ON ord_umbilicariales_morphology (specimen_id);
CREATE INDEX ix_ord_umbilicariales_morphology_species_id ON ord_umbilicariales_morphology (species_id);

CREATE TABLE ord_umbilicariales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_ecology_species_id ON ord_umbilicariales_ecology (species_id);
CREATE INDEX ix_ord_umbilicariales_ecology_dominant_habitat_id ON ord_umbilicariales_ecology (dominant_habitat_id);

CREATE TABLE ord_umbilicariales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_phenology_species_id ON ord_umbilicariales_phenology (species_id);
CREATE INDEX ix_ord_umbilicariales_phenology_region_country_id ON ord_umbilicariales_phenology (region_country_id);

CREATE TABLE ord_umbilicariales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_host_associations_species_id ON ord_umbilicariales_host_associations (species_id);
CREATE INDEX ix_ord_umbilicariales_host_associations_host_id ON ord_umbilicariales_host_associations (host_id);

CREATE TABLE ord_umbilicariales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_substrate_preferences_species_id ON ord_umbilicariales_substrate_preferences (species_id);
CREATE INDEX ix_ord_umbilicariales_substrate_preferences_substrate_id ON ord_umbilicariales_substrate_preferences (substrate_id);

CREATE TABLE ord_umbilicariales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_geographic_distribution_species_id ON ord_umbilicariales_geographic_distribution (species_id);
CREATE INDEX ix_ord_umbilicariales_geographic_distribution_country_id ON ord_umbilicariales_geographic_distribution (country_id);

CREATE TABLE ord_umbilicariales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_phylogeny_tree_id ON ord_umbilicariales_phylogeny (tree_id);
CREATE INDEX ix_ord_umbilicariales_phylogeny_focal_genus_id ON ord_umbilicariales_phylogeny (focal_genus_id);

CREATE TABLE ord_umbilicariales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_genomics_assembly_id ON ord_umbilicariales_genomics (assembly_id);
CREATE INDEX ix_ord_umbilicariales_genomics_species_id ON ord_umbilicariales_genomics (species_id);

CREATE TABLE ord_umbilicariales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_biochemistry_species_id ON ord_umbilicariales_biochemistry (species_id);
CREATE INDEX ix_ord_umbilicariales_biochemistry_compound_id ON ord_umbilicariales_biochemistry (compound_id);

CREATE TABLE ord_umbilicariales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_cultivation_notes_species_id ON ord_umbilicariales_cultivation_notes (species_id);
CREATE INDEX ix_ord_umbilicariales_cultivation_notes_strain_id ON ord_umbilicariales_cultivation_notes (strain_id);

CREATE TABLE ord_umbilicariales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_pathogenicity_species_id ON ord_umbilicariales_pathogenicity (species_id);
CREATE INDEX ix_ord_umbilicariales_pathogenicity_host_id ON ord_umbilicariales_pathogenicity (host_id);

CREATE TABLE ord_umbilicariales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_edibility_species_id ON ord_umbilicariales_edibility (species_id);
CREATE INDEX ix_ord_umbilicariales_edibility_1 ON ord_umbilicariales_edibility (regional_tradition_country_id);

CREATE TABLE ord_umbilicariales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_medicinal_uses_species_id ON ord_umbilicariales_medicinal_uses (species_id);
CREATE INDEX ix_ord_umbilicariales_medicinal_uses_publication_id ON ord_umbilicariales_medicinal_uses (publication_id);

CREATE TABLE ord_umbilicariales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_taxonomic_revisions_publication_id ON ord_umbilicariales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_umbilicariales_taxonomic_revisions_affected_family_id ON ord_umbilicariales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_umbilicariales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_conservation_status_species_id ON ord_umbilicariales_conservation_status (species_id);
CREATE INDEX ix_ord_umbilicariales_conservation_status_country_id ON ord_umbilicariales_conservation_status (country_id);

CREATE TABLE ord_umbilicariales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_diagnostic_keys_publication_id ON ord_umbilicariales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_umbilicariales_diagnostic_keys_region_country_id ON ord_umbilicariales_diagnostic_keys (region_country_id);

CREATE TABLE ord_umbilicariales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_type_species_register_focal_genus_id ON ord_umbilicariales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_umbilicariales_type_species_register_type_species_id ON ord_umbilicariales_type_species_register (type_species_id);

CREATE TABLE ord_umbilicariales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_distribution_grids_species_id ON ord_umbilicariales_distribution_grids (species_id);
CREATE INDEX ix_ord_umbilicariales_distribution_grids_country_id ON ord_umbilicariales_distribution_grids (country_id);

CREATE TABLE ord_umbilicariales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_microclimate_studies_species_id ON ord_umbilicariales_microclimate_studies (species_id);
CREATE INDEX ix_ord_umbilicariales_microclimate_studies_publication_id ON ord_umbilicariales_microclimate_studies (publication_id);

CREATE TABLE ord_umbilicariales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_dna_barcoding_status_species_id ON ord_umbilicariales_dna_barcoding_status (species_id);

CREATE TABLE ord_umbilicariales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_spore_print_data_species_id ON ord_umbilicariales_spore_print_data (species_id);
CREATE INDEX ix_ord_umbilicariales_spore_print_data_specimen_id ON ord_umbilicariales_spore_print_data (specimen_id);

CREATE TABLE ord_umbilicariales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_mating_systems_species_id ON ord_umbilicariales_mating_systems (species_id);
CREATE INDEX ix_ord_umbilicariales_mating_systems_publication_id ON ord_umbilicariales_mating_systems (publication_id);

CREATE TABLE ord_umbilicariales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_nutrient_uptake_studies_species_id ON ord_umbilicariales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_umbilicariales_nutrient_uptake_studies_strain_id ON ord_umbilicariales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_umbilicariales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_range_maps_species_id ON ord_umbilicariales_range_maps (species_id);
CREATE INDEX ix_ord_umbilicariales_range_maps_publication_id ON ord_umbilicariales_range_maps (publication_id);

CREATE TABLE ord_umbilicariales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_abundance_estimates_species_id ON ord_umbilicariales_abundance_estimates (species_id);
CREATE INDEX ix_ord_umbilicariales_abundance_estimates_country_id ON ord_umbilicariales_abundance_estimates (country_id);

CREATE TABLE ord_umbilicariales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_toxin_profiles_species_id ON ord_umbilicariales_toxin_profiles (species_id);
CREATE INDEX ix_ord_umbilicariales_toxin_profiles_compound_id ON ord_umbilicariales_toxin_profiles (compound_id);

CREATE TABLE ord_umbilicariales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_enzyme_activity_assays_species_id ON ord_umbilicariales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_umbilicariales_enzyme_activity_assays_enzyme_id ON ord_umbilicariales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_umbilicariales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_biocontrol_evaluations_species_id ON ord_umbilicariales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_umbilicariales_biocontrol_evaluations_publication_id ON ord_umbilicariales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_umbilicariales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_umbilicariales_regional_checklists_species_id ON ord_umbilicariales_regional_checklists (species_id);
CREATE INDEX ix_ord_umbilicariales_regional_checklists_country_id ON ord_umbilicariales_regional_checklists (country_id);

CREATE TABLE ord_candelariales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_morphology_specimen_id ON ord_candelariales_morphology (specimen_id);
CREATE INDEX ix_ord_candelariales_morphology_species_id ON ord_candelariales_morphology (species_id);

CREATE TABLE ord_candelariales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_ecology_species_id ON ord_candelariales_ecology (species_id);
CREATE INDEX ix_ord_candelariales_ecology_dominant_habitat_id ON ord_candelariales_ecology (dominant_habitat_id);

CREATE TABLE ord_candelariales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_phenology_species_id ON ord_candelariales_phenology (species_id);
CREATE INDEX ix_ord_candelariales_phenology_region_country_id ON ord_candelariales_phenology (region_country_id);

CREATE TABLE ord_candelariales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_host_associations_species_id ON ord_candelariales_host_associations (species_id);
CREATE INDEX ix_ord_candelariales_host_associations_host_id ON ord_candelariales_host_associations (host_id);

CREATE TABLE ord_candelariales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_substrate_preferences_species_id ON ord_candelariales_substrate_preferences (species_id);
CREATE INDEX ix_ord_candelariales_substrate_preferences_substrate_id ON ord_candelariales_substrate_preferences (substrate_id);

CREATE TABLE ord_candelariales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_geographic_distribution_species_id ON ord_candelariales_geographic_distribution (species_id);
CREATE INDEX ix_ord_candelariales_geographic_distribution_country_id ON ord_candelariales_geographic_distribution (country_id);

CREATE TABLE ord_candelariales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_phylogeny_tree_id ON ord_candelariales_phylogeny (tree_id);
CREATE INDEX ix_ord_candelariales_phylogeny_focal_genus_id ON ord_candelariales_phylogeny (focal_genus_id);

CREATE TABLE ord_candelariales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_genomics_assembly_id ON ord_candelariales_genomics (assembly_id);
CREATE INDEX ix_ord_candelariales_genomics_species_id ON ord_candelariales_genomics (species_id);

CREATE TABLE ord_candelariales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_biochemistry_species_id ON ord_candelariales_biochemistry (species_id);
CREATE INDEX ix_ord_candelariales_biochemistry_compound_id ON ord_candelariales_biochemistry (compound_id);

CREATE TABLE ord_candelariales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_cultivation_notes_species_id ON ord_candelariales_cultivation_notes (species_id);
CREATE INDEX ix_ord_candelariales_cultivation_notes_strain_id ON ord_candelariales_cultivation_notes (strain_id);

CREATE TABLE ord_candelariales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_pathogenicity_species_id ON ord_candelariales_pathogenicity (species_id);
CREATE INDEX ix_ord_candelariales_pathogenicity_host_id ON ord_candelariales_pathogenicity (host_id);

CREATE TABLE ord_candelariales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_edibility_species_id ON ord_candelariales_edibility (species_id);
CREATE INDEX ix_ord_candelariales_edibility_regional_tradition_country_id ON ord_candelariales_edibility (regional_tradition_country_id);

CREATE TABLE ord_candelariales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_medicinal_uses_species_id ON ord_candelariales_medicinal_uses (species_id);
CREATE INDEX ix_ord_candelariales_medicinal_uses_publication_id ON ord_candelariales_medicinal_uses (publication_id);

CREATE TABLE ord_candelariales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_taxonomic_revisions_publication_id ON ord_candelariales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_candelariales_taxonomic_revisions_affected_family_id ON ord_candelariales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_candelariales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_conservation_status_species_id ON ord_candelariales_conservation_status (species_id);
CREATE INDEX ix_ord_candelariales_conservation_status_country_id ON ord_candelariales_conservation_status (country_id);

CREATE TABLE ord_candelariales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_diagnostic_keys_publication_id ON ord_candelariales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_candelariales_diagnostic_keys_region_country_id ON ord_candelariales_diagnostic_keys (region_country_id);

CREATE TABLE ord_candelariales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_type_species_register_focal_genus_id ON ord_candelariales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_candelariales_type_species_register_type_species_id ON ord_candelariales_type_species_register (type_species_id);

CREATE TABLE ord_candelariales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_distribution_grids_species_id ON ord_candelariales_distribution_grids (species_id);
CREATE INDEX ix_ord_candelariales_distribution_grids_country_id ON ord_candelariales_distribution_grids (country_id);

CREATE TABLE ord_candelariales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_microclimate_studies_species_id ON ord_candelariales_microclimate_studies (species_id);
CREATE INDEX ix_ord_candelariales_microclimate_studies_publication_id ON ord_candelariales_microclimate_studies (publication_id);

CREATE TABLE ord_candelariales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_dna_barcoding_status_species_id ON ord_candelariales_dna_barcoding_status (species_id);

CREATE TABLE ord_candelariales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_spore_print_data_species_id ON ord_candelariales_spore_print_data (species_id);
CREATE INDEX ix_ord_candelariales_spore_print_data_specimen_id ON ord_candelariales_spore_print_data (specimen_id);

CREATE TABLE ord_candelariales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_mating_systems_species_id ON ord_candelariales_mating_systems (species_id);
CREATE INDEX ix_ord_candelariales_mating_systems_publication_id ON ord_candelariales_mating_systems (publication_id);

CREATE TABLE ord_candelariales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_nutrient_uptake_studies_species_id ON ord_candelariales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_candelariales_nutrient_uptake_studies_strain_id ON ord_candelariales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_candelariales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_range_maps_species_id ON ord_candelariales_range_maps (species_id);
CREATE INDEX ix_ord_candelariales_range_maps_publication_id ON ord_candelariales_range_maps (publication_id);

CREATE TABLE ord_candelariales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_abundance_estimates_species_id ON ord_candelariales_abundance_estimates (species_id);
CREATE INDEX ix_ord_candelariales_abundance_estimates_country_id ON ord_candelariales_abundance_estimates (country_id);

CREATE TABLE ord_candelariales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_toxin_profiles_species_id ON ord_candelariales_toxin_profiles (species_id);
CREATE INDEX ix_ord_candelariales_toxin_profiles_compound_id ON ord_candelariales_toxin_profiles (compound_id);

CREATE TABLE ord_candelariales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_enzyme_activity_assays_species_id ON ord_candelariales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_candelariales_enzyme_activity_assays_enzyme_id ON ord_candelariales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_candelariales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_biocontrol_evaluations_species_id ON ord_candelariales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_candelariales_biocontrol_evaluations_publication_id ON ord_candelariales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_candelariales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_candelariales_regional_checklists_species_id ON ord_candelariales_regional_checklists (species_id);
CREATE INDEX ix_ord_candelariales_regional_checklists_country_id ON ord_candelariales_regional_checklists (country_id);

CREATE TABLE ord_pertusariales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_morphology_specimen_id ON ord_pertusariales_morphology (specimen_id);
CREATE INDEX ix_ord_pertusariales_morphology_species_id ON ord_pertusariales_morphology (species_id);

CREATE TABLE ord_pertusariales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_ecology_species_id ON ord_pertusariales_ecology (species_id);
CREATE INDEX ix_ord_pertusariales_ecology_dominant_habitat_id ON ord_pertusariales_ecology (dominant_habitat_id);

CREATE TABLE ord_pertusariales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_phenology_species_id ON ord_pertusariales_phenology (species_id);
CREATE INDEX ix_ord_pertusariales_phenology_region_country_id ON ord_pertusariales_phenology (region_country_id);

CREATE TABLE ord_pertusariales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_host_associations_species_id ON ord_pertusariales_host_associations (species_id);
CREATE INDEX ix_ord_pertusariales_host_associations_host_id ON ord_pertusariales_host_associations (host_id);

CREATE TABLE ord_pertusariales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_substrate_preferences_species_id ON ord_pertusariales_substrate_preferences (species_id);
CREATE INDEX ix_ord_pertusariales_substrate_preferences_substrate_id ON ord_pertusariales_substrate_preferences (substrate_id);

CREATE TABLE ord_pertusariales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_geographic_distribution_species_id ON ord_pertusariales_geographic_distribution (species_id);
CREATE INDEX ix_ord_pertusariales_geographic_distribution_country_id ON ord_pertusariales_geographic_distribution (country_id);

CREATE TABLE ord_pertusariales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_phylogeny_tree_id ON ord_pertusariales_phylogeny (tree_id);
CREATE INDEX ix_ord_pertusariales_phylogeny_focal_genus_id ON ord_pertusariales_phylogeny (focal_genus_id);

CREATE TABLE ord_pertusariales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_genomics_assembly_id ON ord_pertusariales_genomics (assembly_id);
CREATE INDEX ix_ord_pertusariales_genomics_species_id ON ord_pertusariales_genomics (species_id);

CREATE TABLE ord_pertusariales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_biochemistry_species_id ON ord_pertusariales_biochemistry (species_id);
CREATE INDEX ix_ord_pertusariales_biochemistry_compound_id ON ord_pertusariales_biochemistry (compound_id);

CREATE TABLE ord_pertusariales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_cultivation_notes_species_id ON ord_pertusariales_cultivation_notes (species_id);
CREATE INDEX ix_ord_pertusariales_cultivation_notes_strain_id ON ord_pertusariales_cultivation_notes (strain_id);

CREATE TABLE ord_pertusariales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_pathogenicity_species_id ON ord_pertusariales_pathogenicity (species_id);
CREATE INDEX ix_ord_pertusariales_pathogenicity_host_id ON ord_pertusariales_pathogenicity (host_id);

CREATE TABLE ord_pertusariales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_edibility_species_id ON ord_pertusariales_edibility (species_id);
CREATE INDEX ix_ord_pertusariales_edibility_regional_tradition_country_id ON ord_pertusariales_edibility (regional_tradition_country_id);

CREATE TABLE ord_pertusariales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_medicinal_uses_species_id ON ord_pertusariales_medicinal_uses (species_id);
CREATE INDEX ix_ord_pertusariales_medicinal_uses_publication_id ON ord_pertusariales_medicinal_uses (publication_id);

CREATE TABLE ord_pertusariales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_taxonomic_revisions_publication_id ON ord_pertusariales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_pertusariales_taxonomic_revisions_affected_family_id ON ord_pertusariales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_pertusariales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_conservation_status_species_id ON ord_pertusariales_conservation_status (species_id);
CREATE INDEX ix_ord_pertusariales_conservation_status_country_id ON ord_pertusariales_conservation_status (country_id);

CREATE TABLE ord_pertusariales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_diagnostic_keys_publication_id ON ord_pertusariales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_pertusariales_diagnostic_keys_region_country_id ON ord_pertusariales_diagnostic_keys (region_country_id);

CREATE TABLE ord_pertusariales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_type_species_register_focal_genus_id ON ord_pertusariales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_pertusariales_type_species_register_type_species_id ON ord_pertusariales_type_species_register (type_species_id);

CREATE TABLE ord_pertusariales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_distribution_grids_species_id ON ord_pertusariales_distribution_grids (species_id);
CREATE INDEX ix_ord_pertusariales_distribution_grids_country_id ON ord_pertusariales_distribution_grids (country_id);

CREATE TABLE ord_pertusariales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_microclimate_studies_species_id ON ord_pertusariales_microclimate_studies (species_id);
CREATE INDEX ix_ord_pertusariales_microclimate_studies_publication_id ON ord_pertusariales_microclimate_studies (publication_id);

CREATE TABLE ord_pertusariales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_dna_barcoding_status_species_id ON ord_pertusariales_dna_barcoding_status (species_id);

CREATE TABLE ord_pertusariales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_spore_print_data_species_id ON ord_pertusariales_spore_print_data (species_id);
CREATE INDEX ix_ord_pertusariales_spore_print_data_specimen_id ON ord_pertusariales_spore_print_data (specimen_id);

CREATE TABLE ord_pertusariales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_mating_systems_species_id ON ord_pertusariales_mating_systems (species_id);
CREATE INDEX ix_ord_pertusariales_mating_systems_publication_id ON ord_pertusariales_mating_systems (publication_id);

CREATE TABLE ord_pertusariales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_nutrient_uptake_studies_species_id ON ord_pertusariales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_pertusariales_nutrient_uptake_studies_strain_id ON ord_pertusariales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_pertusariales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_range_maps_species_id ON ord_pertusariales_range_maps (species_id);
CREATE INDEX ix_ord_pertusariales_range_maps_publication_id ON ord_pertusariales_range_maps (publication_id);

CREATE TABLE ord_pertusariales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_abundance_estimates_species_id ON ord_pertusariales_abundance_estimates (species_id);
CREATE INDEX ix_ord_pertusariales_abundance_estimates_country_id ON ord_pertusariales_abundance_estimates (country_id);

CREATE TABLE ord_pertusariales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_toxin_profiles_species_id ON ord_pertusariales_toxin_profiles (species_id);
CREATE INDEX ix_ord_pertusariales_toxin_profiles_compound_id ON ord_pertusariales_toxin_profiles (compound_id);

CREATE TABLE ord_pertusariales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_enzyme_activity_assays_species_id ON ord_pertusariales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_pertusariales_enzyme_activity_assays_enzyme_id ON ord_pertusariales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_pertusariales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_biocontrol_evaluations_species_id ON ord_pertusariales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_pertusariales_biocontrol_evaluations_publication_id ON ord_pertusariales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_pertusariales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_pertusariales_regional_checklists_species_id ON ord_pertusariales_regional_checklists (species_id);
CREATE INDEX ix_ord_pertusariales_regional_checklists_country_id ON ord_pertusariales_regional_checklists (country_id);

CREATE TABLE ord_mycocaliciales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_morphology_specimen_id ON ord_mycocaliciales_morphology (specimen_id);
CREATE INDEX ix_ord_mycocaliciales_morphology_species_id ON ord_mycocaliciales_morphology (species_id);

CREATE TABLE ord_mycocaliciales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_ecology_species_id ON ord_mycocaliciales_ecology (species_id);
CREATE INDEX ix_ord_mycocaliciales_ecology_dominant_habitat_id ON ord_mycocaliciales_ecology (dominant_habitat_id);

CREATE TABLE ord_mycocaliciales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_phenology_species_id ON ord_mycocaliciales_phenology (species_id);
CREATE INDEX ix_ord_mycocaliciales_phenology_region_country_id ON ord_mycocaliciales_phenology (region_country_id);

CREATE TABLE ord_mycocaliciales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_host_associations_species_id ON ord_mycocaliciales_host_associations (species_id);
CREATE INDEX ix_ord_mycocaliciales_host_associations_host_id ON ord_mycocaliciales_host_associations (host_id);

CREATE TABLE ord_mycocaliciales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_substrate_preferences_species_id ON ord_mycocaliciales_substrate_preferences (species_id);
CREATE INDEX ix_ord_mycocaliciales_substrate_preferences_substrate_id ON ord_mycocaliciales_substrate_preferences (substrate_id);

CREATE TABLE ord_mycocaliciales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_geographic_distribution_species_id ON ord_mycocaliciales_geographic_distribution (species_id);
CREATE INDEX ix_ord_mycocaliciales_geographic_distribution_country_id ON ord_mycocaliciales_geographic_distribution (country_id);

CREATE TABLE ord_mycocaliciales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_phylogeny_tree_id ON ord_mycocaliciales_phylogeny (tree_id);
CREATE INDEX ix_ord_mycocaliciales_phylogeny_focal_genus_id ON ord_mycocaliciales_phylogeny (focal_genus_id);

CREATE TABLE ord_mycocaliciales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_genomics_assembly_id ON ord_mycocaliciales_genomics (assembly_id);
CREATE INDEX ix_ord_mycocaliciales_genomics_species_id ON ord_mycocaliciales_genomics (species_id);

CREATE TABLE ord_mycocaliciales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_biochemistry_species_id ON ord_mycocaliciales_biochemistry (species_id);
CREATE INDEX ix_ord_mycocaliciales_biochemistry_compound_id ON ord_mycocaliciales_biochemistry (compound_id);

CREATE TABLE ord_mycocaliciales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_cultivation_notes_species_id ON ord_mycocaliciales_cultivation_notes (species_id);
CREATE INDEX ix_ord_mycocaliciales_cultivation_notes_strain_id ON ord_mycocaliciales_cultivation_notes (strain_id);

CREATE TABLE ord_mycocaliciales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_pathogenicity_species_id ON ord_mycocaliciales_pathogenicity (species_id);
CREATE INDEX ix_ord_mycocaliciales_pathogenicity_host_id ON ord_mycocaliciales_pathogenicity (host_id);

CREATE TABLE ord_mycocaliciales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_edibility_species_id ON ord_mycocaliciales_edibility (species_id);
CREATE INDEX ix_ord_mycocaliciales_edibility_1 ON ord_mycocaliciales_edibility (regional_tradition_country_id);

CREATE TABLE ord_mycocaliciales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_medicinal_uses_species_id ON ord_mycocaliciales_medicinal_uses (species_id);
CREATE INDEX ix_ord_mycocaliciales_medicinal_uses_publication_id ON ord_mycocaliciales_medicinal_uses (publication_id);

CREATE TABLE ord_mycocaliciales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_taxonomic_revisions_publication_id ON ord_mycocaliciales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_mycocaliciales_taxonomic_revisions_affected_family_id ON ord_mycocaliciales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_mycocaliciales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_conservation_status_species_id ON ord_mycocaliciales_conservation_status (species_id);
CREATE INDEX ix_ord_mycocaliciales_conservation_status_country_id ON ord_mycocaliciales_conservation_status (country_id);

CREATE TABLE ord_mycocaliciales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_diagnostic_keys_publication_id ON ord_mycocaliciales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_mycocaliciales_diagnostic_keys_region_country_id ON ord_mycocaliciales_diagnostic_keys (region_country_id);

CREATE TABLE ord_mycocaliciales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_type_species_register_focal_genus_id ON ord_mycocaliciales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_mycocaliciales_type_species_register_type_species_id ON ord_mycocaliciales_type_species_register (type_species_id);

CREATE TABLE ord_mycocaliciales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_distribution_grids_species_id ON ord_mycocaliciales_distribution_grids (species_id);
CREATE INDEX ix_ord_mycocaliciales_distribution_grids_country_id ON ord_mycocaliciales_distribution_grids (country_id);

CREATE TABLE ord_mycocaliciales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_microclimate_studies_species_id ON ord_mycocaliciales_microclimate_studies (species_id);
CREATE INDEX ix_ord_mycocaliciales_microclimate_studies_publication_id ON ord_mycocaliciales_microclimate_studies (publication_id);

CREATE TABLE ord_mycocaliciales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_dna_barcoding_status_species_id ON ord_mycocaliciales_dna_barcoding_status (species_id);

CREATE TABLE ord_mycocaliciales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_spore_print_data_species_id ON ord_mycocaliciales_spore_print_data (species_id);
CREATE INDEX ix_ord_mycocaliciales_spore_print_data_specimen_id ON ord_mycocaliciales_spore_print_data (specimen_id);

CREATE TABLE ord_mycocaliciales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_mating_systems_species_id ON ord_mycocaliciales_mating_systems (species_id);
CREATE INDEX ix_ord_mycocaliciales_mating_systems_publication_id ON ord_mycocaliciales_mating_systems (publication_id);

CREATE TABLE ord_mycocaliciales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_nutrient_uptake_studies_species_id ON ord_mycocaliciales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_mycocaliciales_nutrient_uptake_studies_strain_id ON ord_mycocaliciales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_mycocaliciales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_range_maps_species_id ON ord_mycocaliciales_range_maps (species_id);
CREATE INDEX ix_ord_mycocaliciales_range_maps_publication_id ON ord_mycocaliciales_range_maps (publication_id);

CREATE TABLE ord_mycocaliciales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_abundance_estimates_species_id ON ord_mycocaliciales_abundance_estimates (species_id);
CREATE INDEX ix_ord_mycocaliciales_abundance_estimates_country_id ON ord_mycocaliciales_abundance_estimates (country_id);

CREATE TABLE ord_mycocaliciales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_toxin_profiles_species_id ON ord_mycocaliciales_toxin_profiles (species_id);
CREATE INDEX ix_ord_mycocaliciales_toxin_profiles_compound_id ON ord_mycocaliciales_toxin_profiles (compound_id);

CREATE TABLE ord_mycocaliciales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_enzyme_activity_assays_species_id ON ord_mycocaliciales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_mycocaliciales_enzyme_activity_assays_enzyme_id ON ord_mycocaliciales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_mycocaliciales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_biocontrol_evaluations_species_id ON ord_mycocaliciales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_mycocaliciales_biocontrol_evaluations_publication_id ON ord_mycocaliciales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_mycocaliciales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mycocaliciales_regional_checklists_species_id ON ord_mycocaliciales_regional_checklists (species_id);
CREATE INDEX ix_ord_mycocaliciales_regional_checklists_country_id ON ord_mycocaliciales_regional_checklists (country_id);

CREATE TABLE ord_graphidales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_morphology_specimen_id ON ord_graphidales_morphology (specimen_id);
CREATE INDEX ix_ord_graphidales_morphology_species_id ON ord_graphidales_morphology (species_id);

CREATE TABLE ord_graphidales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_ecology_species_id ON ord_graphidales_ecology (species_id);
CREATE INDEX ix_ord_graphidales_ecology_dominant_habitat_id ON ord_graphidales_ecology (dominant_habitat_id);

CREATE TABLE ord_graphidales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_phenology_species_id ON ord_graphidales_phenology (species_id);
CREATE INDEX ix_ord_graphidales_phenology_region_country_id ON ord_graphidales_phenology (region_country_id);

CREATE TABLE ord_graphidales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_host_associations_species_id ON ord_graphidales_host_associations (species_id);
CREATE INDEX ix_ord_graphidales_host_associations_host_id ON ord_graphidales_host_associations (host_id);

CREATE TABLE ord_graphidales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_substrate_preferences_species_id ON ord_graphidales_substrate_preferences (species_id);
CREATE INDEX ix_ord_graphidales_substrate_preferences_substrate_id ON ord_graphidales_substrate_preferences (substrate_id);

CREATE TABLE ord_graphidales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_geographic_distribution_species_id ON ord_graphidales_geographic_distribution (species_id);
CREATE INDEX ix_ord_graphidales_geographic_distribution_country_id ON ord_graphidales_geographic_distribution (country_id);

CREATE TABLE ord_graphidales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_phylogeny_tree_id ON ord_graphidales_phylogeny (tree_id);
CREATE INDEX ix_ord_graphidales_phylogeny_focal_genus_id ON ord_graphidales_phylogeny (focal_genus_id);

CREATE TABLE ord_graphidales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_genomics_assembly_id ON ord_graphidales_genomics (assembly_id);
CREATE INDEX ix_ord_graphidales_genomics_species_id ON ord_graphidales_genomics (species_id);

CREATE TABLE ord_graphidales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_biochemistry_species_id ON ord_graphidales_biochemistry (species_id);
CREATE INDEX ix_ord_graphidales_biochemistry_compound_id ON ord_graphidales_biochemistry (compound_id);

CREATE TABLE ord_graphidales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_cultivation_notes_species_id ON ord_graphidales_cultivation_notes (species_id);
CREATE INDEX ix_ord_graphidales_cultivation_notes_strain_id ON ord_graphidales_cultivation_notes (strain_id);

CREATE TABLE ord_graphidales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_pathogenicity_species_id ON ord_graphidales_pathogenicity (species_id);
CREATE INDEX ix_ord_graphidales_pathogenicity_host_id ON ord_graphidales_pathogenicity (host_id);

CREATE TABLE ord_graphidales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_edibility_species_id ON ord_graphidales_edibility (species_id);
CREATE INDEX ix_ord_graphidales_edibility_regional_tradition_country_id ON ord_graphidales_edibility (regional_tradition_country_id);

CREATE TABLE ord_graphidales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_medicinal_uses_species_id ON ord_graphidales_medicinal_uses (species_id);
CREATE INDEX ix_ord_graphidales_medicinal_uses_publication_id ON ord_graphidales_medicinal_uses (publication_id);

CREATE TABLE ord_graphidales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_taxonomic_revisions_publication_id ON ord_graphidales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_graphidales_taxonomic_revisions_affected_family_id ON ord_graphidales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_graphidales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_conservation_status_species_id ON ord_graphidales_conservation_status (species_id);
CREATE INDEX ix_ord_graphidales_conservation_status_country_id ON ord_graphidales_conservation_status (country_id);

CREATE TABLE ord_graphidales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_diagnostic_keys_publication_id ON ord_graphidales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_graphidales_diagnostic_keys_region_country_id ON ord_graphidales_diagnostic_keys (region_country_id);

CREATE TABLE ord_graphidales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_type_species_register_focal_genus_id ON ord_graphidales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_graphidales_type_species_register_type_species_id ON ord_graphidales_type_species_register (type_species_id);

CREATE TABLE ord_graphidales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_distribution_grids_species_id ON ord_graphidales_distribution_grids (species_id);
CREATE INDEX ix_ord_graphidales_distribution_grids_country_id ON ord_graphidales_distribution_grids (country_id);

CREATE TABLE ord_graphidales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_microclimate_studies_species_id ON ord_graphidales_microclimate_studies (species_id);
CREATE INDEX ix_ord_graphidales_microclimate_studies_publication_id ON ord_graphidales_microclimate_studies (publication_id);

CREATE TABLE ord_graphidales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_dna_barcoding_status_species_id ON ord_graphidales_dna_barcoding_status (species_id);

CREATE TABLE ord_graphidales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_spore_print_data_species_id ON ord_graphidales_spore_print_data (species_id);
CREATE INDEX ix_ord_graphidales_spore_print_data_specimen_id ON ord_graphidales_spore_print_data (specimen_id);

CREATE TABLE ord_graphidales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_mating_systems_species_id ON ord_graphidales_mating_systems (species_id);
CREATE INDEX ix_ord_graphidales_mating_systems_publication_id ON ord_graphidales_mating_systems (publication_id);

CREATE TABLE ord_graphidales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_nutrient_uptake_studies_species_id ON ord_graphidales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_graphidales_nutrient_uptake_studies_strain_id ON ord_graphidales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_graphidales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_range_maps_species_id ON ord_graphidales_range_maps (species_id);
CREATE INDEX ix_ord_graphidales_range_maps_publication_id ON ord_graphidales_range_maps (publication_id);

CREATE TABLE ord_graphidales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_abundance_estimates_species_id ON ord_graphidales_abundance_estimates (species_id);
CREATE INDEX ix_ord_graphidales_abundance_estimates_country_id ON ord_graphidales_abundance_estimates (country_id);

CREATE TABLE ord_graphidales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_toxin_profiles_species_id ON ord_graphidales_toxin_profiles (species_id);
CREATE INDEX ix_ord_graphidales_toxin_profiles_compound_id ON ord_graphidales_toxin_profiles (compound_id);

CREATE TABLE ord_graphidales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_enzyme_activity_assays_species_id ON ord_graphidales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_graphidales_enzyme_activity_assays_enzyme_id ON ord_graphidales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_graphidales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_biocontrol_evaluations_species_id ON ord_graphidales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_graphidales_biocontrol_evaluations_publication_id ON ord_graphidales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_graphidales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_graphidales_regional_checklists_species_id ON ord_graphidales_regional_checklists (species_id);
CREATE INDEX ix_ord_graphidales_regional_checklists_country_id ON ord_graphidales_regional_checklists (country_id);

CREATE TABLE ord_mucorales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_morphology_specimen_id ON ord_mucorales_morphology (specimen_id);
CREATE INDEX ix_ord_mucorales_morphology_species_id ON ord_mucorales_morphology (species_id);

CREATE TABLE ord_mucorales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_ecology_species_id ON ord_mucorales_ecology (species_id);
CREATE INDEX ix_ord_mucorales_ecology_dominant_habitat_id ON ord_mucorales_ecology (dominant_habitat_id);

CREATE TABLE ord_mucorales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_phenology_species_id ON ord_mucorales_phenology (species_id);
CREATE INDEX ix_ord_mucorales_phenology_region_country_id ON ord_mucorales_phenology (region_country_id);

CREATE TABLE ord_mucorales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_host_associations_species_id ON ord_mucorales_host_associations (species_id);
CREATE INDEX ix_ord_mucorales_host_associations_host_id ON ord_mucorales_host_associations (host_id);

CREATE TABLE ord_mucorales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_substrate_preferences_species_id ON ord_mucorales_substrate_preferences (species_id);
CREATE INDEX ix_ord_mucorales_substrate_preferences_substrate_id ON ord_mucorales_substrate_preferences (substrate_id);

CREATE TABLE ord_mucorales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_geographic_distribution_species_id ON ord_mucorales_geographic_distribution (species_id);
CREATE INDEX ix_ord_mucorales_geographic_distribution_country_id ON ord_mucorales_geographic_distribution (country_id);

CREATE TABLE ord_mucorales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_phylogeny_tree_id ON ord_mucorales_phylogeny (tree_id);
CREATE INDEX ix_ord_mucorales_phylogeny_focal_genus_id ON ord_mucorales_phylogeny (focal_genus_id);

CREATE TABLE ord_mucorales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_genomics_assembly_id ON ord_mucorales_genomics (assembly_id);
CREATE INDEX ix_ord_mucorales_genomics_species_id ON ord_mucorales_genomics (species_id);

CREATE TABLE ord_mucorales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_biochemistry_species_id ON ord_mucorales_biochemistry (species_id);
CREATE INDEX ix_ord_mucorales_biochemistry_compound_id ON ord_mucorales_biochemistry (compound_id);

CREATE TABLE ord_mucorales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_cultivation_notes_species_id ON ord_mucorales_cultivation_notes (species_id);
CREATE INDEX ix_ord_mucorales_cultivation_notes_strain_id ON ord_mucorales_cultivation_notes (strain_id);

CREATE TABLE ord_mucorales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_pathogenicity_species_id ON ord_mucorales_pathogenicity (species_id);
CREATE INDEX ix_ord_mucorales_pathogenicity_host_id ON ord_mucorales_pathogenicity (host_id);

CREATE TABLE ord_mucorales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_edibility_species_id ON ord_mucorales_edibility (species_id);
CREATE INDEX ix_ord_mucorales_edibility_regional_tradition_country_id ON ord_mucorales_edibility (regional_tradition_country_id);

CREATE TABLE ord_mucorales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_medicinal_uses_species_id ON ord_mucorales_medicinal_uses (species_id);
CREATE INDEX ix_ord_mucorales_medicinal_uses_publication_id ON ord_mucorales_medicinal_uses (publication_id);

CREATE TABLE ord_mucorales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_taxonomic_revisions_publication_id ON ord_mucorales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_mucorales_taxonomic_revisions_affected_family_id ON ord_mucorales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_mucorales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_conservation_status_species_id ON ord_mucorales_conservation_status (species_id);
CREATE INDEX ix_ord_mucorales_conservation_status_country_id ON ord_mucorales_conservation_status (country_id);

CREATE TABLE ord_mucorales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_diagnostic_keys_publication_id ON ord_mucorales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_mucorales_diagnostic_keys_region_country_id ON ord_mucorales_diagnostic_keys (region_country_id);

CREATE TABLE ord_mucorales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_type_species_register_focal_genus_id ON ord_mucorales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_mucorales_type_species_register_type_species_id ON ord_mucorales_type_species_register (type_species_id);

CREATE TABLE ord_mucorales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_distribution_grids_species_id ON ord_mucorales_distribution_grids (species_id);
CREATE INDEX ix_ord_mucorales_distribution_grids_country_id ON ord_mucorales_distribution_grids (country_id);

CREATE TABLE ord_mucorales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_microclimate_studies_species_id ON ord_mucorales_microclimate_studies (species_id);
CREATE INDEX ix_ord_mucorales_microclimate_studies_publication_id ON ord_mucorales_microclimate_studies (publication_id);

CREATE TABLE ord_mucorales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_dna_barcoding_status_species_id ON ord_mucorales_dna_barcoding_status (species_id);

CREATE TABLE ord_mucorales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_spore_print_data_species_id ON ord_mucorales_spore_print_data (species_id);
CREATE INDEX ix_ord_mucorales_spore_print_data_specimen_id ON ord_mucorales_spore_print_data (specimen_id);

CREATE TABLE ord_mucorales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_mating_systems_species_id ON ord_mucorales_mating_systems (species_id);
CREATE INDEX ix_ord_mucorales_mating_systems_publication_id ON ord_mucorales_mating_systems (publication_id);

CREATE TABLE ord_mucorales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_nutrient_uptake_studies_species_id ON ord_mucorales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_mucorales_nutrient_uptake_studies_strain_id ON ord_mucorales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_mucorales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_range_maps_species_id ON ord_mucorales_range_maps (species_id);
CREATE INDEX ix_ord_mucorales_range_maps_publication_id ON ord_mucorales_range_maps (publication_id);

CREATE TABLE ord_mucorales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_abundance_estimates_species_id ON ord_mucorales_abundance_estimates (species_id);
CREATE INDEX ix_ord_mucorales_abundance_estimates_country_id ON ord_mucorales_abundance_estimates (country_id);

CREATE TABLE ord_mucorales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_toxin_profiles_species_id ON ord_mucorales_toxin_profiles (species_id);
CREATE INDEX ix_ord_mucorales_toxin_profiles_compound_id ON ord_mucorales_toxin_profiles (compound_id);

CREATE TABLE ord_mucorales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_enzyme_activity_assays_species_id ON ord_mucorales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_mucorales_enzyme_activity_assays_enzyme_id ON ord_mucorales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_mucorales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_biocontrol_evaluations_species_id ON ord_mucorales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_mucorales_biocontrol_evaluations_publication_id ON ord_mucorales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_mucorales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mucorales_regional_checklists_species_id ON ord_mucorales_regional_checklists (species_id);
CREATE INDEX ix_ord_mucorales_regional_checklists_country_id ON ord_mucorales_regional_checklists (country_id);

CREATE TABLE ord_endogonales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_morphology_specimen_id ON ord_endogonales_morphology (specimen_id);
CREATE INDEX ix_ord_endogonales_morphology_species_id ON ord_endogonales_morphology (species_id);

CREATE TABLE ord_endogonales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_ecology_species_id ON ord_endogonales_ecology (species_id);
CREATE INDEX ix_ord_endogonales_ecology_dominant_habitat_id ON ord_endogonales_ecology (dominant_habitat_id);

CREATE TABLE ord_endogonales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_phenology_species_id ON ord_endogonales_phenology (species_id);
CREATE INDEX ix_ord_endogonales_phenology_region_country_id ON ord_endogonales_phenology (region_country_id);

CREATE TABLE ord_endogonales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_host_associations_species_id ON ord_endogonales_host_associations (species_id);
CREATE INDEX ix_ord_endogonales_host_associations_host_id ON ord_endogonales_host_associations (host_id);

CREATE TABLE ord_endogonales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_substrate_preferences_species_id ON ord_endogonales_substrate_preferences (species_id);
CREATE INDEX ix_ord_endogonales_substrate_preferences_substrate_id ON ord_endogonales_substrate_preferences (substrate_id);

CREATE TABLE ord_endogonales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_geographic_distribution_species_id ON ord_endogonales_geographic_distribution (species_id);
CREATE INDEX ix_ord_endogonales_geographic_distribution_country_id ON ord_endogonales_geographic_distribution (country_id);

CREATE TABLE ord_endogonales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_phylogeny_tree_id ON ord_endogonales_phylogeny (tree_id);
CREATE INDEX ix_ord_endogonales_phylogeny_focal_genus_id ON ord_endogonales_phylogeny (focal_genus_id);

CREATE TABLE ord_endogonales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_genomics_assembly_id ON ord_endogonales_genomics (assembly_id);
CREATE INDEX ix_ord_endogonales_genomics_species_id ON ord_endogonales_genomics (species_id);

CREATE TABLE ord_endogonales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_biochemistry_species_id ON ord_endogonales_biochemistry (species_id);
CREATE INDEX ix_ord_endogonales_biochemistry_compound_id ON ord_endogonales_biochemistry (compound_id);

CREATE TABLE ord_endogonales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_cultivation_notes_species_id ON ord_endogonales_cultivation_notes (species_id);
CREATE INDEX ix_ord_endogonales_cultivation_notes_strain_id ON ord_endogonales_cultivation_notes (strain_id);

CREATE TABLE ord_endogonales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_pathogenicity_species_id ON ord_endogonales_pathogenicity (species_id);
CREATE INDEX ix_ord_endogonales_pathogenicity_host_id ON ord_endogonales_pathogenicity (host_id);

CREATE TABLE ord_endogonales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_edibility_species_id ON ord_endogonales_edibility (species_id);
CREATE INDEX ix_ord_endogonales_edibility_regional_tradition_country_id ON ord_endogonales_edibility (regional_tradition_country_id);

CREATE TABLE ord_endogonales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_medicinal_uses_species_id ON ord_endogonales_medicinal_uses (species_id);
CREATE INDEX ix_ord_endogonales_medicinal_uses_publication_id ON ord_endogonales_medicinal_uses (publication_id);

CREATE TABLE ord_endogonales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_taxonomic_revisions_publication_id ON ord_endogonales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_endogonales_taxonomic_revisions_affected_family_id ON ord_endogonales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_endogonales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_conservation_status_species_id ON ord_endogonales_conservation_status (species_id);
CREATE INDEX ix_ord_endogonales_conservation_status_country_id ON ord_endogonales_conservation_status (country_id);

CREATE TABLE ord_endogonales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_diagnostic_keys_publication_id ON ord_endogonales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_endogonales_diagnostic_keys_region_country_id ON ord_endogonales_diagnostic_keys (region_country_id);

CREATE TABLE ord_endogonales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_type_species_register_focal_genus_id ON ord_endogonales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_endogonales_type_species_register_type_species_id ON ord_endogonales_type_species_register (type_species_id);

CREATE TABLE ord_endogonales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_distribution_grids_species_id ON ord_endogonales_distribution_grids (species_id);
CREATE INDEX ix_ord_endogonales_distribution_grids_country_id ON ord_endogonales_distribution_grids (country_id);

CREATE TABLE ord_endogonales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_microclimate_studies_species_id ON ord_endogonales_microclimate_studies (species_id);
CREATE INDEX ix_ord_endogonales_microclimate_studies_publication_id ON ord_endogonales_microclimate_studies (publication_id);

CREATE TABLE ord_endogonales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_dna_barcoding_status_species_id ON ord_endogonales_dna_barcoding_status (species_id);

CREATE TABLE ord_endogonales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_spore_print_data_species_id ON ord_endogonales_spore_print_data (species_id);
CREATE INDEX ix_ord_endogonales_spore_print_data_specimen_id ON ord_endogonales_spore_print_data (specimen_id);

CREATE TABLE ord_endogonales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_mating_systems_species_id ON ord_endogonales_mating_systems (species_id);
CREATE INDEX ix_ord_endogonales_mating_systems_publication_id ON ord_endogonales_mating_systems (publication_id);

CREATE TABLE ord_endogonales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_nutrient_uptake_studies_species_id ON ord_endogonales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_endogonales_nutrient_uptake_studies_strain_id ON ord_endogonales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_endogonales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_range_maps_species_id ON ord_endogonales_range_maps (species_id);
CREATE INDEX ix_ord_endogonales_range_maps_publication_id ON ord_endogonales_range_maps (publication_id);

CREATE TABLE ord_endogonales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_abundance_estimates_species_id ON ord_endogonales_abundance_estimates (species_id);
CREATE INDEX ix_ord_endogonales_abundance_estimates_country_id ON ord_endogonales_abundance_estimates (country_id);

CREATE TABLE ord_endogonales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_toxin_profiles_species_id ON ord_endogonales_toxin_profiles (species_id);
CREATE INDEX ix_ord_endogonales_toxin_profiles_compound_id ON ord_endogonales_toxin_profiles (compound_id);

CREATE TABLE ord_endogonales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_enzyme_activity_assays_species_id ON ord_endogonales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_endogonales_enzyme_activity_assays_enzyme_id ON ord_endogonales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_endogonales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_biocontrol_evaluations_species_id ON ord_endogonales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_endogonales_biocontrol_evaluations_publication_id ON ord_endogonales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_endogonales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_endogonales_regional_checklists_species_id ON ord_endogonales_regional_checklists (species_id);
CREATE INDEX ix_ord_endogonales_regional_checklists_country_id ON ord_endogonales_regional_checklists (country_id);

CREATE TABLE ord_kickxellales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_morphology_specimen_id ON ord_kickxellales_morphology (specimen_id);
CREATE INDEX ix_ord_kickxellales_morphology_species_id ON ord_kickxellales_morphology (species_id);

CREATE TABLE ord_kickxellales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_ecology_species_id ON ord_kickxellales_ecology (species_id);
CREATE INDEX ix_ord_kickxellales_ecology_dominant_habitat_id ON ord_kickxellales_ecology (dominant_habitat_id);

CREATE TABLE ord_kickxellales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_phenology_species_id ON ord_kickxellales_phenology (species_id);
CREATE INDEX ix_ord_kickxellales_phenology_region_country_id ON ord_kickxellales_phenology (region_country_id);

CREATE TABLE ord_kickxellales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_host_associations_species_id ON ord_kickxellales_host_associations (species_id);
CREATE INDEX ix_ord_kickxellales_host_associations_host_id ON ord_kickxellales_host_associations (host_id);

CREATE TABLE ord_kickxellales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_substrate_preferences_species_id ON ord_kickxellales_substrate_preferences (species_id);
CREATE INDEX ix_ord_kickxellales_substrate_preferences_substrate_id ON ord_kickxellales_substrate_preferences (substrate_id);

CREATE TABLE ord_kickxellales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_geographic_distribution_species_id ON ord_kickxellales_geographic_distribution (species_id);
CREATE INDEX ix_ord_kickxellales_geographic_distribution_country_id ON ord_kickxellales_geographic_distribution (country_id);

CREATE TABLE ord_kickxellales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_phylogeny_tree_id ON ord_kickxellales_phylogeny (tree_id);
CREATE INDEX ix_ord_kickxellales_phylogeny_focal_genus_id ON ord_kickxellales_phylogeny (focal_genus_id);

CREATE TABLE ord_kickxellales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_genomics_assembly_id ON ord_kickxellales_genomics (assembly_id);
CREATE INDEX ix_ord_kickxellales_genomics_species_id ON ord_kickxellales_genomics (species_id);

CREATE TABLE ord_kickxellales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_biochemistry_species_id ON ord_kickxellales_biochemistry (species_id);
CREATE INDEX ix_ord_kickxellales_biochemistry_compound_id ON ord_kickxellales_biochemistry (compound_id);

CREATE TABLE ord_kickxellales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_cultivation_notes_species_id ON ord_kickxellales_cultivation_notes (species_id);
CREATE INDEX ix_ord_kickxellales_cultivation_notes_strain_id ON ord_kickxellales_cultivation_notes (strain_id);

CREATE TABLE ord_kickxellales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_pathogenicity_species_id ON ord_kickxellales_pathogenicity (species_id);
CREATE INDEX ix_ord_kickxellales_pathogenicity_host_id ON ord_kickxellales_pathogenicity (host_id);

CREATE TABLE ord_kickxellales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_edibility_species_id ON ord_kickxellales_edibility (species_id);
CREATE INDEX ix_ord_kickxellales_edibility_regional_tradition_country_id ON ord_kickxellales_edibility (regional_tradition_country_id);

CREATE TABLE ord_kickxellales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_medicinal_uses_species_id ON ord_kickxellales_medicinal_uses (species_id);
CREATE INDEX ix_ord_kickxellales_medicinal_uses_publication_id ON ord_kickxellales_medicinal_uses (publication_id);

CREATE TABLE ord_kickxellales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_taxonomic_revisions_publication_id ON ord_kickxellales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_kickxellales_taxonomic_revisions_affected_family_id ON ord_kickxellales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_kickxellales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_conservation_status_species_id ON ord_kickxellales_conservation_status (species_id);
CREATE INDEX ix_ord_kickxellales_conservation_status_country_id ON ord_kickxellales_conservation_status (country_id);

CREATE TABLE ord_kickxellales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_diagnostic_keys_publication_id ON ord_kickxellales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_kickxellales_diagnostic_keys_region_country_id ON ord_kickxellales_diagnostic_keys (region_country_id);

CREATE TABLE ord_kickxellales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_type_species_register_focal_genus_id ON ord_kickxellales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_kickxellales_type_species_register_type_species_id ON ord_kickxellales_type_species_register (type_species_id);

CREATE TABLE ord_kickxellales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_distribution_grids_species_id ON ord_kickxellales_distribution_grids (species_id);
CREATE INDEX ix_ord_kickxellales_distribution_grids_country_id ON ord_kickxellales_distribution_grids (country_id);

CREATE TABLE ord_kickxellales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_microclimate_studies_species_id ON ord_kickxellales_microclimate_studies (species_id);
CREATE INDEX ix_ord_kickxellales_microclimate_studies_publication_id ON ord_kickxellales_microclimate_studies (publication_id);

CREATE TABLE ord_kickxellales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_dna_barcoding_status_species_id ON ord_kickxellales_dna_barcoding_status (species_id);

CREATE TABLE ord_kickxellales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_spore_print_data_species_id ON ord_kickxellales_spore_print_data (species_id);
CREATE INDEX ix_ord_kickxellales_spore_print_data_specimen_id ON ord_kickxellales_spore_print_data (specimen_id);

CREATE TABLE ord_kickxellales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_mating_systems_species_id ON ord_kickxellales_mating_systems (species_id);
CREATE INDEX ix_ord_kickxellales_mating_systems_publication_id ON ord_kickxellales_mating_systems (publication_id);

CREATE TABLE ord_kickxellales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_nutrient_uptake_studies_species_id ON ord_kickxellales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_kickxellales_nutrient_uptake_studies_strain_id ON ord_kickxellales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_kickxellales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_range_maps_species_id ON ord_kickxellales_range_maps (species_id);
CREATE INDEX ix_ord_kickxellales_range_maps_publication_id ON ord_kickxellales_range_maps (publication_id);

CREATE TABLE ord_kickxellales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_abundance_estimates_species_id ON ord_kickxellales_abundance_estimates (species_id);
CREATE INDEX ix_ord_kickxellales_abundance_estimates_country_id ON ord_kickxellales_abundance_estimates (country_id);

CREATE TABLE ord_kickxellales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_toxin_profiles_species_id ON ord_kickxellales_toxin_profiles (species_id);
CREATE INDEX ix_ord_kickxellales_toxin_profiles_compound_id ON ord_kickxellales_toxin_profiles (compound_id);

CREATE TABLE ord_kickxellales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_enzyme_activity_assays_species_id ON ord_kickxellales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_kickxellales_enzyme_activity_assays_enzyme_id ON ord_kickxellales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_kickxellales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_biocontrol_evaluations_species_id ON ord_kickxellales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_kickxellales_biocontrol_evaluations_publication_id ON ord_kickxellales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_kickxellales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_kickxellales_regional_checklists_species_id ON ord_kickxellales_regional_checklists (species_id);
CREATE INDEX ix_ord_kickxellales_regional_checklists_country_id ON ord_kickxellales_regional_checklists (country_id);

CREATE TABLE ord_mortierellales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_morphology_specimen_id ON ord_mortierellales_morphology (specimen_id);
CREATE INDEX ix_ord_mortierellales_morphology_species_id ON ord_mortierellales_morphology (species_id);

CREATE TABLE ord_mortierellales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_ecology_species_id ON ord_mortierellales_ecology (species_id);
CREATE INDEX ix_ord_mortierellales_ecology_dominant_habitat_id ON ord_mortierellales_ecology (dominant_habitat_id);

CREATE TABLE ord_mortierellales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_phenology_species_id ON ord_mortierellales_phenology (species_id);
CREATE INDEX ix_ord_mortierellales_phenology_region_country_id ON ord_mortierellales_phenology (region_country_id);

CREATE TABLE ord_mortierellales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_host_associations_species_id ON ord_mortierellales_host_associations (species_id);
CREATE INDEX ix_ord_mortierellales_host_associations_host_id ON ord_mortierellales_host_associations (host_id);

CREATE TABLE ord_mortierellales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_substrate_preferences_species_id ON ord_mortierellales_substrate_preferences (species_id);
CREATE INDEX ix_ord_mortierellales_substrate_preferences_substrate_id ON ord_mortierellales_substrate_preferences (substrate_id);

CREATE TABLE ord_mortierellales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_geographic_distribution_species_id ON ord_mortierellales_geographic_distribution (species_id);
CREATE INDEX ix_ord_mortierellales_geographic_distribution_country_id ON ord_mortierellales_geographic_distribution (country_id);

CREATE TABLE ord_mortierellales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_phylogeny_tree_id ON ord_mortierellales_phylogeny (tree_id);
CREATE INDEX ix_ord_mortierellales_phylogeny_focal_genus_id ON ord_mortierellales_phylogeny (focal_genus_id);

CREATE TABLE ord_mortierellales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_genomics_assembly_id ON ord_mortierellales_genomics (assembly_id);
CREATE INDEX ix_ord_mortierellales_genomics_species_id ON ord_mortierellales_genomics (species_id);

CREATE TABLE ord_mortierellales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_biochemistry_species_id ON ord_mortierellales_biochemistry (species_id);
CREATE INDEX ix_ord_mortierellales_biochemistry_compound_id ON ord_mortierellales_biochemistry (compound_id);

CREATE TABLE ord_mortierellales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_cultivation_notes_species_id ON ord_mortierellales_cultivation_notes (species_id);
CREATE INDEX ix_ord_mortierellales_cultivation_notes_strain_id ON ord_mortierellales_cultivation_notes (strain_id);

CREATE TABLE ord_mortierellales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_pathogenicity_species_id ON ord_mortierellales_pathogenicity (species_id);
CREATE INDEX ix_ord_mortierellales_pathogenicity_host_id ON ord_mortierellales_pathogenicity (host_id);

CREATE TABLE ord_mortierellales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_edibility_species_id ON ord_mortierellales_edibility (species_id);
CREATE INDEX ix_ord_mortierellales_edibility_1 ON ord_mortierellales_edibility (regional_tradition_country_id);

CREATE TABLE ord_mortierellales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_medicinal_uses_species_id ON ord_mortierellales_medicinal_uses (species_id);
CREATE INDEX ix_ord_mortierellales_medicinal_uses_publication_id ON ord_mortierellales_medicinal_uses (publication_id);

CREATE TABLE ord_mortierellales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_taxonomic_revisions_publication_id ON ord_mortierellales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_mortierellales_taxonomic_revisions_affected_family_id ON ord_mortierellales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_mortierellales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_conservation_status_species_id ON ord_mortierellales_conservation_status (species_id);
CREATE INDEX ix_ord_mortierellales_conservation_status_country_id ON ord_mortierellales_conservation_status (country_id);

CREATE TABLE ord_mortierellales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_diagnostic_keys_publication_id ON ord_mortierellales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_mortierellales_diagnostic_keys_region_country_id ON ord_mortierellales_diagnostic_keys (region_country_id);

CREATE TABLE ord_mortierellales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_type_species_register_focal_genus_id ON ord_mortierellales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_mortierellales_type_species_register_type_species_id ON ord_mortierellales_type_species_register (type_species_id);

CREATE TABLE ord_mortierellales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_distribution_grids_species_id ON ord_mortierellales_distribution_grids (species_id);
CREATE INDEX ix_ord_mortierellales_distribution_grids_country_id ON ord_mortierellales_distribution_grids (country_id);

CREATE TABLE ord_mortierellales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_microclimate_studies_species_id ON ord_mortierellales_microclimate_studies (species_id);
CREATE INDEX ix_ord_mortierellales_microclimate_studies_publication_id ON ord_mortierellales_microclimate_studies (publication_id);

CREATE TABLE ord_mortierellales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_dna_barcoding_status_species_id ON ord_mortierellales_dna_barcoding_status (species_id);

CREATE TABLE ord_mortierellales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_spore_print_data_species_id ON ord_mortierellales_spore_print_data (species_id);
CREATE INDEX ix_ord_mortierellales_spore_print_data_specimen_id ON ord_mortierellales_spore_print_data (specimen_id);

CREATE TABLE ord_mortierellales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_mating_systems_species_id ON ord_mortierellales_mating_systems (species_id);
CREATE INDEX ix_ord_mortierellales_mating_systems_publication_id ON ord_mortierellales_mating_systems (publication_id);

CREATE TABLE ord_mortierellales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_nutrient_uptake_studies_species_id ON ord_mortierellales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_mortierellales_nutrient_uptake_studies_strain_id ON ord_mortierellales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_mortierellales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_range_maps_species_id ON ord_mortierellales_range_maps (species_id);
CREATE INDEX ix_ord_mortierellales_range_maps_publication_id ON ord_mortierellales_range_maps (publication_id);

CREATE TABLE ord_mortierellales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_abundance_estimates_species_id ON ord_mortierellales_abundance_estimates (species_id);
CREATE INDEX ix_ord_mortierellales_abundance_estimates_country_id ON ord_mortierellales_abundance_estimates (country_id);

CREATE TABLE ord_mortierellales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_toxin_profiles_species_id ON ord_mortierellales_toxin_profiles (species_id);
CREATE INDEX ix_ord_mortierellales_toxin_profiles_compound_id ON ord_mortierellales_toxin_profiles (compound_id);

CREATE TABLE ord_mortierellales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_enzyme_activity_assays_species_id ON ord_mortierellales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_mortierellales_enzyme_activity_assays_enzyme_id ON ord_mortierellales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_mortierellales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_biocontrol_evaluations_species_id ON ord_mortierellales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_mortierellales_biocontrol_evaluations_publication_id ON ord_mortierellales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_mortierellales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_mortierellales_regional_checklists_species_id ON ord_mortierellales_regional_checklists (species_id);
CREATE INDEX ix_ord_mortierellales_regional_checklists_country_id ON ord_mortierellales_regional_checklists (country_id);

CREATE TABLE ord_glomerales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_morphology_specimen_id ON ord_glomerales_morphology (specimen_id);
CREATE INDEX ix_ord_glomerales_morphology_species_id ON ord_glomerales_morphology (species_id);

CREATE TABLE ord_glomerales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_ecology_species_id ON ord_glomerales_ecology (species_id);
CREATE INDEX ix_ord_glomerales_ecology_dominant_habitat_id ON ord_glomerales_ecology (dominant_habitat_id);

CREATE TABLE ord_glomerales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_phenology_species_id ON ord_glomerales_phenology (species_id);
CREATE INDEX ix_ord_glomerales_phenology_region_country_id ON ord_glomerales_phenology (region_country_id);

CREATE TABLE ord_glomerales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_host_associations_species_id ON ord_glomerales_host_associations (species_id);
CREATE INDEX ix_ord_glomerales_host_associations_host_id ON ord_glomerales_host_associations (host_id);

CREATE TABLE ord_glomerales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_substrate_preferences_species_id ON ord_glomerales_substrate_preferences (species_id);
CREATE INDEX ix_ord_glomerales_substrate_preferences_substrate_id ON ord_glomerales_substrate_preferences (substrate_id);

CREATE TABLE ord_glomerales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_geographic_distribution_species_id ON ord_glomerales_geographic_distribution (species_id);
CREATE INDEX ix_ord_glomerales_geographic_distribution_country_id ON ord_glomerales_geographic_distribution (country_id);

CREATE TABLE ord_glomerales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_phylogeny_tree_id ON ord_glomerales_phylogeny (tree_id);
CREATE INDEX ix_ord_glomerales_phylogeny_focal_genus_id ON ord_glomerales_phylogeny (focal_genus_id);

CREATE TABLE ord_glomerales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_genomics_assembly_id ON ord_glomerales_genomics (assembly_id);
CREATE INDEX ix_ord_glomerales_genomics_species_id ON ord_glomerales_genomics (species_id);

CREATE TABLE ord_glomerales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_biochemistry_species_id ON ord_glomerales_biochemistry (species_id);
CREATE INDEX ix_ord_glomerales_biochemistry_compound_id ON ord_glomerales_biochemistry (compound_id);

CREATE TABLE ord_glomerales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_cultivation_notes_species_id ON ord_glomerales_cultivation_notes (species_id);
CREATE INDEX ix_ord_glomerales_cultivation_notes_strain_id ON ord_glomerales_cultivation_notes (strain_id);

CREATE TABLE ord_glomerales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_pathogenicity_species_id ON ord_glomerales_pathogenicity (species_id);
CREATE INDEX ix_ord_glomerales_pathogenicity_host_id ON ord_glomerales_pathogenicity (host_id);

CREATE TABLE ord_glomerales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_edibility_species_id ON ord_glomerales_edibility (species_id);
CREATE INDEX ix_ord_glomerales_edibility_regional_tradition_country_id ON ord_glomerales_edibility (regional_tradition_country_id);

CREATE TABLE ord_glomerales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_medicinal_uses_species_id ON ord_glomerales_medicinal_uses (species_id);
CREATE INDEX ix_ord_glomerales_medicinal_uses_publication_id ON ord_glomerales_medicinal_uses (publication_id);

CREATE TABLE ord_glomerales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_taxonomic_revisions_publication_id ON ord_glomerales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_glomerales_taxonomic_revisions_affected_family_id ON ord_glomerales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_glomerales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_conservation_status_species_id ON ord_glomerales_conservation_status (species_id);
CREATE INDEX ix_ord_glomerales_conservation_status_country_id ON ord_glomerales_conservation_status (country_id);

CREATE TABLE ord_glomerales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_diagnostic_keys_publication_id ON ord_glomerales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_glomerales_diagnostic_keys_region_country_id ON ord_glomerales_diagnostic_keys (region_country_id);

CREATE TABLE ord_glomerales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_type_species_register_focal_genus_id ON ord_glomerales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_glomerales_type_species_register_type_species_id ON ord_glomerales_type_species_register (type_species_id);

CREATE TABLE ord_glomerales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_distribution_grids_species_id ON ord_glomerales_distribution_grids (species_id);
CREATE INDEX ix_ord_glomerales_distribution_grids_country_id ON ord_glomerales_distribution_grids (country_id);

CREATE TABLE ord_glomerales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_microclimate_studies_species_id ON ord_glomerales_microclimate_studies (species_id);
CREATE INDEX ix_ord_glomerales_microclimate_studies_publication_id ON ord_glomerales_microclimate_studies (publication_id);

CREATE TABLE ord_glomerales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_dna_barcoding_status_species_id ON ord_glomerales_dna_barcoding_status (species_id);

CREATE TABLE ord_glomerales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_spore_print_data_species_id ON ord_glomerales_spore_print_data (species_id);
CREATE INDEX ix_ord_glomerales_spore_print_data_specimen_id ON ord_glomerales_spore_print_data (specimen_id);

CREATE TABLE ord_glomerales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_mating_systems_species_id ON ord_glomerales_mating_systems (species_id);
CREATE INDEX ix_ord_glomerales_mating_systems_publication_id ON ord_glomerales_mating_systems (publication_id);

CREATE TABLE ord_glomerales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_nutrient_uptake_studies_species_id ON ord_glomerales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_glomerales_nutrient_uptake_studies_strain_id ON ord_glomerales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_glomerales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_range_maps_species_id ON ord_glomerales_range_maps (species_id);
CREATE INDEX ix_ord_glomerales_range_maps_publication_id ON ord_glomerales_range_maps (publication_id);

CREATE TABLE ord_glomerales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_abundance_estimates_species_id ON ord_glomerales_abundance_estimates (species_id);
CREATE INDEX ix_ord_glomerales_abundance_estimates_country_id ON ord_glomerales_abundance_estimates (country_id);

CREATE TABLE ord_glomerales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_toxin_profiles_species_id ON ord_glomerales_toxin_profiles (species_id);
CREATE INDEX ix_ord_glomerales_toxin_profiles_compound_id ON ord_glomerales_toxin_profiles (compound_id);

CREATE TABLE ord_glomerales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_enzyme_activity_assays_species_id ON ord_glomerales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_glomerales_enzyme_activity_assays_enzyme_id ON ord_glomerales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_glomerales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_biocontrol_evaluations_species_id ON ord_glomerales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_glomerales_biocontrol_evaluations_publication_id ON ord_glomerales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_glomerales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_glomerales_regional_checklists_species_id ON ord_glomerales_regional_checklists (species_id);
CREATE INDEX ix_ord_glomerales_regional_checklists_country_id ON ord_glomerales_regional_checklists (country_id);

CREATE TABLE ord_diversisporales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_morphology_specimen_id ON ord_diversisporales_morphology (specimen_id);
CREATE INDEX ix_ord_diversisporales_morphology_species_id ON ord_diversisporales_morphology (species_id);

CREATE TABLE ord_diversisporales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_ecology_species_id ON ord_diversisporales_ecology (species_id);
CREATE INDEX ix_ord_diversisporales_ecology_dominant_habitat_id ON ord_diversisporales_ecology (dominant_habitat_id);

CREATE TABLE ord_diversisporales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_phenology_species_id ON ord_diversisporales_phenology (species_id);
CREATE INDEX ix_ord_diversisporales_phenology_region_country_id ON ord_diversisporales_phenology (region_country_id);

CREATE TABLE ord_diversisporales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_host_associations_species_id ON ord_diversisporales_host_associations (species_id);
CREATE INDEX ix_ord_diversisporales_host_associations_host_id ON ord_diversisporales_host_associations (host_id);

CREATE TABLE ord_diversisporales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_substrate_preferences_species_id ON ord_diversisporales_substrate_preferences (species_id);
CREATE INDEX ix_ord_diversisporales_substrate_preferences_substrate_id ON ord_diversisporales_substrate_preferences (substrate_id);

CREATE TABLE ord_diversisporales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_geographic_distribution_species_id ON ord_diversisporales_geographic_distribution (species_id);
CREATE INDEX ix_ord_diversisporales_geographic_distribution_country_id ON ord_diversisporales_geographic_distribution (country_id);

CREATE TABLE ord_diversisporales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_phylogeny_tree_id ON ord_diversisporales_phylogeny (tree_id);
CREATE INDEX ix_ord_diversisporales_phylogeny_focal_genus_id ON ord_diversisporales_phylogeny (focal_genus_id);

CREATE TABLE ord_diversisporales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_genomics_assembly_id ON ord_diversisporales_genomics (assembly_id);
CREATE INDEX ix_ord_diversisporales_genomics_species_id ON ord_diversisporales_genomics (species_id);

CREATE TABLE ord_diversisporales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_biochemistry_species_id ON ord_diversisporales_biochemistry (species_id);
CREATE INDEX ix_ord_diversisporales_biochemistry_compound_id ON ord_diversisporales_biochemistry (compound_id);

CREATE TABLE ord_diversisporales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_cultivation_notes_species_id ON ord_diversisporales_cultivation_notes (species_id);
CREATE INDEX ix_ord_diversisporales_cultivation_notes_strain_id ON ord_diversisporales_cultivation_notes (strain_id);

CREATE TABLE ord_diversisporales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_pathogenicity_species_id ON ord_diversisporales_pathogenicity (species_id);
CREATE INDEX ix_ord_diversisporales_pathogenicity_host_id ON ord_diversisporales_pathogenicity (host_id);

CREATE TABLE ord_diversisporales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_edibility_species_id ON ord_diversisporales_edibility (species_id);
CREATE INDEX ix_ord_diversisporales_edibility_1 ON ord_diversisporales_edibility (regional_tradition_country_id);

CREATE TABLE ord_diversisporales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_medicinal_uses_species_id ON ord_diversisporales_medicinal_uses (species_id);
CREATE INDEX ix_ord_diversisporales_medicinal_uses_publication_id ON ord_diversisporales_medicinal_uses (publication_id);

CREATE TABLE ord_diversisporales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_taxonomic_revisions_publication_id ON ord_diversisporales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_diversisporales_taxonomic_revisions_1 ON ord_diversisporales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_diversisporales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_conservation_status_species_id ON ord_diversisporales_conservation_status (species_id);
CREATE INDEX ix_ord_diversisporales_conservation_status_country_id ON ord_diversisporales_conservation_status (country_id);

CREATE TABLE ord_diversisporales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_diagnostic_keys_publication_id ON ord_diversisporales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_diversisporales_diagnostic_keys_region_country_id ON ord_diversisporales_diagnostic_keys (region_country_id);

CREATE TABLE ord_diversisporales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_type_species_register_focal_genus_id ON ord_diversisporales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_diversisporales_type_species_register_type_species_id ON ord_diversisporales_type_species_register (type_species_id);

CREATE TABLE ord_diversisporales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_distribution_grids_species_id ON ord_diversisporales_distribution_grids (species_id);
CREATE INDEX ix_ord_diversisporales_distribution_grids_country_id ON ord_diversisporales_distribution_grids (country_id);

CREATE TABLE ord_diversisporales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_microclimate_studies_species_id ON ord_diversisporales_microclimate_studies (species_id);
CREATE INDEX ix_ord_diversisporales_microclimate_studies_publication_id ON ord_diversisporales_microclimate_studies (publication_id);

CREATE TABLE ord_diversisporales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_dna_barcoding_status_species_id ON ord_diversisporales_dna_barcoding_status (species_id);

CREATE TABLE ord_diversisporales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_spore_print_data_species_id ON ord_diversisporales_spore_print_data (species_id);
CREATE INDEX ix_ord_diversisporales_spore_print_data_specimen_id ON ord_diversisporales_spore_print_data (specimen_id);

CREATE TABLE ord_diversisporales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_mating_systems_species_id ON ord_diversisporales_mating_systems (species_id);
CREATE INDEX ix_ord_diversisporales_mating_systems_publication_id ON ord_diversisporales_mating_systems (publication_id);

CREATE TABLE ord_diversisporales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_nutrient_uptake_studies_species_id ON ord_diversisporales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_diversisporales_nutrient_uptake_studies_strain_id ON ord_diversisporales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_diversisporales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_range_maps_species_id ON ord_diversisporales_range_maps (species_id);
CREATE INDEX ix_ord_diversisporales_range_maps_publication_id ON ord_diversisporales_range_maps (publication_id);

CREATE TABLE ord_diversisporales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_abundance_estimates_species_id ON ord_diversisporales_abundance_estimates (species_id);
CREATE INDEX ix_ord_diversisporales_abundance_estimates_country_id ON ord_diversisporales_abundance_estimates (country_id);

CREATE TABLE ord_diversisporales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_toxin_profiles_species_id ON ord_diversisporales_toxin_profiles (species_id);
CREATE INDEX ix_ord_diversisporales_toxin_profiles_compound_id ON ord_diversisporales_toxin_profiles (compound_id);

CREATE TABLE ord_diversisporales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_enzyme_activity_assays_species_id ON ord_diversisporales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_diversisporales_enzyme_activity_assays_enzyme_id ON ord_diversisporales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_diversisporales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_biocontrol_evaluations_species_id ON ord_diversisporales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_diversisporales_biocontrol_evaluations_publication_id ON ord_diversisporales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_diversisporales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_diversisporales_regional_checklists_species_id ON ord_diversisporales_regional_checklists (species_id);
CREATE INDEX ix_ord_diversisporales_regional_checklists_country_id ON ord_diversisporales_regional_checklists (country_id);

CREATE TABLE ord_blastocladiales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_morphology_specimen_id ON ord_blastocladiales_morphology (specimen_id);
CREATE INDEX ix_ord_blastocladiales_morphology_species_id ON ord_blastocladiales_morphology (species_id);

CREATE TABLE ord_blastocladiales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_ecology_species_id ON ord_blastocladiales_ecology (species_id);
CREATE INDEX ix_ord_blastocladiales_ecology_dominant_habitat_id ON ord_blastocladiales_ecology (dominant_habitat_id);

CREATE TABLE ord_blastocladiales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_phenology_species_id ON ord_blastocladiales_phenology (species_id);
CREATE INDEX ix_ord_blastocladiales_phenology_region_country_id ON ord_blastocladiales_phenology (region_country_id);

CREATE TABLE ord_blastocladiales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_host_associations_species_id ON ord_blastocladiales_host_associations (species_id);
CREATE INDEX ix_ord_blastocladiales_host_associations_host_id ON ord_blastocladiales_host_associations (host_id);

CREATE TABLE ord_blastocladiales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_substrate_preferences_species_id ON ord_blastocladiales_substrate_preferences (species_id);
CREATE INDEX ix_ord_blastocladiales_substrate_preferences_substrate_id ON ord_blastocladiales_substrate_preferences (substrate_id);

CREATE TABLE ord_blastocladiales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_geographic_distribution_species_id ON ord_blastocladiales_geographic_distribution (species_id);
CREATE INDEX ix_ord_blastocladiales_geographic_distribution_country_id ON ord_blastocladiales_geographic_distribution (country_id);

CREATE TABLE ord_blastocladiales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_phylogeny_tree_id ON ord_blastocladiales_phylogeny (tree_id);
CREATE INDEX ix_ord_blastocladiales_phylogeny_focal_genus_id ON ord_blastocladiales_phylogeny (focal_genus_id);

CREATE TABLE ord_blastocladiales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_genomics_assembly_id ON ord_blastocladiales_genomics (assembly_id);
CREATE INDEX ix_ord_blastocladiales_genomics_species_id ON ord_blastocladiales_genomics (species_id);

CREATE TABLE ord_blastocladiales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_biochemistry_species_id ON ord_blastocladiales_biochemistry (species_id);
CREATE INDEX ix_ord_blastocladiales_biochemistry_compound_id ON ord_blastocladiales_biochemistry (compound_id);

CREATE TABLE ord_blastocladiales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_cultivation_notes_species_id ON ord_blastocladiales_cultivation_notes (species_id);
CREATE INDEX ix_ord_blastocladiales_cultivation_notes_strain_id ON ord_blastocladiales_cultivation_notes (strain_id);

CREATE TABLE ord_blastocladiales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_pathogenicity_species_id ON ord_blastocladiales_pathogenicity (species_id);
CREATE INDEX ix_ord_blastocladiales_pathogenicity_host_id ON ord_blastocladiales_pathogenicity (host_id);

CREATE TABLE ord_blastocladiales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_edibility_species_id ON ord_blastocladiales_edibility (species_id);
CREATE INDEX ix_ord_blastocladiales_edibility_1 ON ord_blastocladiales_edibility (regional_tradition_country_id);

CREATE TABLE ord_blastocladiales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_medicinal_uses_species_id ON ord_blastocladiales_medicinal_uses (species_id);
CREATE INDEX ix_ord_blastocladiales_medicinal_uses_publication_id ON ord_blastocladiales_medicinal_uses (publication_id);

CREATE TABLE ord_blastocladiales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_taxonomic_revisions_publication_id ON ord_blastocladiales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_blastocladiales_taxonomic_revisions_1 ON ord_blastocladiales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_blastocladiales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_conservation_status_species_id ON ord_blastocladiales_conservation_status (species_id);
CREATE INDEX ix_ord_blastocladiales_conservation_status_country_id ON ord_blastocladiales_conservation_status (country_id);

CREATE TABLE ord_blastocladiales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_diagnostic_keys_publication_id ON ord_blastocladiales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_blastocladiales_diagnostic_keys_region_country_id ON ord_blastocladiales_diagnostic_keys (region_country_id);

CREATE TABLE ord_blastocladiales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_type_species_register_focal_genus_id ON ord_blastocladiales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_blastocladiales_type_species_register_type_species_id ON ord_blastocladiales_type_species_register (type_species_id);

CREATE TABLE ord_blastocladiales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_distribution_grids_species_id ON ord_blastocladiales_distribution_grids (species_id);
CREATE INDEX ix_ord_blastocladiales_distribution_grids_country_id ON ord_blastocladiales_distribution_grids (country_id);

CREATE TABLE ord_blastocladiales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_microclimate_studies_species_id ON ord_blastocladiales_microclimate_studies (species_id);
CREATE INDEX ix_ord_blastocladiales_microclimate_studies_publication_id ON ord_blastocladiales_microclimate_studies (publication_id);

CREATE TABLE ord_blastocladiales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_dna_barcoding_status_species_id ON ord_blastocladiales_dna_barcoding_status (species_id);

CREATE TABLE ord_blastocladiales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_spore_print_data_species_id ON ord_blastocladiales_spore_print_data (species_id);
CREATE INDEX ix_ord_blastocladiales_spore_print_data_specimen_id ON ord_blastocladiales_spore_print_data (specimen_id);

CREATE TABLE ord_blastocladiales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_mating_systems_species_id ON ord_blastocladiales_mating_systems (species_id);
CREATE INDEX ix_ord_blastocladiales_mating_systems_publication_id ON ord_blastocladiales_mating_systems (publication_id);

CREATE TABLE ord_blastocladiales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_nutrient_uptake_studies_species_id ON ord_blastocladiales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_blastocladiales_nutrient_uptake_studies_strain_id ON ord_blastocladiales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_blastocladiales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_range_maps_species_id ON ord_blastocladiales_range_maps (species_id);
CREATE INDEX ix_ord_blastocladiales_range_maps_publication_id ON ord_blastocladiales_range_maps (publication_id);

CREATE TABLE ord_blastocladiales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_abundance_estimates_species_id ON ord_blastocladiales_abundance_estimates (species_id);
CREATE INDEX ix_ord_blastocladiales_abundance_estimates_country_id ON ord_blastocladiales_abundance_estimates (country_id);

CREATE TABLE ord_blastocladiales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_toxin_profiles_species_id ON ord_blastocladiales_toxin_profiles (species_id);
CREATE INDEX ix_ord_blastocladiales_toxin_profiles_compound_id ON ord_blastocladiales_toxin_profiles (compound_id);

CREATE TABLE ord_blastocladiales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_enzyme_activity_assays_species_id ON ord_blastocladiales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_blastocladiales_enzyme_activity_assays_enzyme_id ON ord_blastocladiales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_blastocladiales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_biocontrol_evaluations_species_id ON ord_blastocladiales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_blastocladiales_biocontrol_evaluations_publication_id ON ord_blastocladiales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_blastocladiales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_blastocladiales_regional_checklists_species_id ON ord_blastocladiales_regional_checklists (species_id);
CREATE INDEX ix_ord_blastocladiales_regional_checklists_country_id ON ord_blastocladiales_regional_checklists (country_id);

CREATE TABLE ord_monoblepharidales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_morphology_specimen_id ON ord_monoblepharidales_morphology (specimen_id);
CREATE INDEX ix_ord_monoblepharidales_morphology_species_id ON ord_monoblepharidales_morphology (species_id);

CREATE TABLE ord_monoblepharidales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_ecology_species_id ON ord_monoblepharidales_ecology (species_id);
CREATE INDEX ix_ord_monoblepharidales_ecology_dominant_habitat_id ON ord_monoblepharidales_ecology (dominant_habitat_id);

CREATE TABLE ord_monoblepharidales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_phenology_species_id ON ord_monoblepharidales_phenology (species_id);
CREATE INDEX ix_ord_monoblepharidales_phenology_region_country_id ON ord_monoblepharidales_phenology (region_country_id);

CREATE TABLE ord_monoblepharidales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_host_associations_species_id ON ord_monoblepharidales_host_associations (species_id);
CREATE INDEX ix_ord_monoblepharidales_host_associations_host_id ON ord_monoblepharidales_host_associations (host_id);

CREATE TABLE ord_monoblepharidales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_substrate_preferences_species_id ON ord_monoblepharidales_substrate_preferences (species_id);
CREATE INDEX ix_ord_monoblepharidales_substrate_preferences_substrate_id ON ord_monoblepharidales_substrate_preferences (substrate_id);

CREATE TABLE ord_monoblepharidales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_geographic_distribution_species_id ON ord_monoblepharidales_geographic_distribution (species_id);
CREATE INDEX ix_ord_monoblepharidales_geographic_distribution_country_id ON ord_monoblepharidales_geographic_distribution (country_id);

CREATE TABLE ord_monoblepharidales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_phylogeny_tree_id ON ord_monoblepharidales_phylogeny (tree_id);
CREATE INDEX ix_ord_monoblepharidales_phylogeny_focal_genus_id ON ord_monoblepharidales_phylogeny (focal_genus_id);

CREATE TABLE ord_monoblepharidales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_genomics_assembly_id ON ord_monoblepharidales_genomics (assembly_id);
CREATE INDEX ix_ord_monoblepharidales_genomics_species_id ON ord_monoblepharidales_genomics (species_id);

CREATE TABLE ord_monoblepharidales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_biochemistry_species_id ON ord_monoblepharidales_biochemistry (species_id);
CREATE INDEX ix_ord_monoblepharidales_biochemistry_compound_id ON ord_monoblepharidales_biochemistry (compound_id);

CREATE TABLE ord_monoblepharidales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_cultivation_notes_species_id ON ord_monoblepharidales_cultivation_notes (species_id);
CREATE INDEX ix_ord_monoblepharidales_cultivation_notes_strain_id ON ord_monoblepharidales_cultivation_notes (strain_id);

CREATE TABLE ord_monoblepharidales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_pathogenicity_species_id ON ord_monoblepharidales_pathogenicity (species_id);
CREATE INDEX ix_ord_monoblepharidales_pathogenicity_host_id ON ord_monoblepharidales_pathogenicity (host_id);

CREATE TABLE ord_monoblepharidales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_edibility_species_id ON ord_monoblepharidales_edibility (species_id);
CREATE INDEX ix_ord_monoblepharidales_edibility_1 ON ord_monoblepharidales_edibility (regional_tradition_country_id);

CREATE TABLE ord_monoblepharidales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_medicinal_uses_species_id ON ord_monoblepharidales_medicinal_uses (species_id);
CREATE INDEX ix_ord_monoblepharidales_medicinal_uses_publication_id ON ord_monoblepharidales_medicinal_uses (publication_id);

CREATE TABLE ord_monoblepharidales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_taxonomic_revisions_publication_id ON ord_monoblepharidales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_monoblepharidales_taxonomic_revisions_1 ON ord_monoblepharidales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_monoblepharidales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_conservation_status_species_id ON ord_monoblepharidales_conservation_status (species_id);
CREATE INDEX ix_ord_monoblepharidales_conservation_status_country_id ON ord_monoblepharidales_conservation_status (country_id);

CREATE TABLE ord_monoblepharidales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_diagnostic_keys_publication_id ON ord_monoblepharidales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_monoblepharidales_diagnostic_keys_region_country_id ON ord_monoblepharidales_diagnostic_keys (region_country_id);

CREATE TABLE ord_monoblepharidales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_type_species_register_0 ON ord_monoblepharidales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_monoblepharidales_type_species_register_1 ON ord_monoblepharidales_type_species_register (type_species_id);

CREATE TABLE ord_monoblepharidales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_distribution_grids_species_id ON ord_monoblepharidales_distribution_grids (species_id);
CREATE INDEX ix_ord_monoblepharidales_distribution_grids_country_id ON ord_monoblepharidales_distribution_grids (country_id);

CREATE TABLE ord_monoblepharidales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_microclimate_studies_species_id ON ord_monoblepharidales_microclimate_studies (species_id);
CREATE INDEX ix_ord_monoblepharidales_microclimate_studies_publication_id ON ord_monoblepharidales_microclimate_studies (publication_id);

CREATE TABLE ord_monoblepharidales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_dna_barcoding_status_species_id ON ord_monoblepharidales_dna_barcoding_status (species_id);

CREATE TABLE ord_monoblepharidales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_spore_print_data_species_id ON ord_monoblepharidales_spore_print_data (species_id);
CREATE INDEX ix_ord_monoblepharidales_spore_print_data_specimen_id ON ord_monoblepharidales_spore_print_data (specimen_id);

CREATE TABLE ord_monoblepharidales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_mating_systems_species_id ON ord_monoblepharidales_mating_systems (species_id);
CREATE INDEX ix_ord_monoblepharidales_mating_systems_publication_id ON ord_monoblepharidales_mating_systems (publication_id);

CREATE TABLE ord_monoblepharidales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_nutrient_uptake_studies_species_id ON ord_monoblepharidales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_monoblepharidales_nutrient_uptake_studies_strain_id ON ord_monoblepharidales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_monoblepharidales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_range_maps_species_id ON ord_monoblepharidales_range_maps (species_id);
CREATE INDEX ix_ord_monoblepharidales_range_maps_publication_id ON ord_monoblepharidales_range_maps (publication_id);

CREATE TABLE ord_monoblepharidales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_abundance_estimates_species_id ON ord_monoblepharidales_abundance_estimates (species_id);
CREATE INDEX ix_ord_monoblepharidales_abundance_estimates_country_id ON ord_monoblepharidales_abundance_estimates (country_id);

CREATE TABLE ord_monoblepharidales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_toxin_profiles_species_id ON ord_monoblepharidales_toxin_profiles (species_id);
CREATE INDEX ix_ord_monoblepharidales_toxin_profiles_compound_id ON ord_monoblepharidales_toxin_profiles (compound_id);

CREATE TABLE ord_monoblepharidales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_enzyme_activity_assays_species_id ON ord_monoblepharidales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_monoblepharidales_enzyme_activity_assays_enzyme_id ON ord_monoblepharidales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_monoblepharidales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_biocontrol_evaluations_species_id ON ord_monoblepharidales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_monoblepharidales_biocontrol_evaluations_1 ON ord_monoblepharidales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_monoblepharidales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_monoblepharidales_regional_checklists_species_id ON ord_monoblepharidales_regional_checklists (species_id);
CREATE INDEX ix_ord_monoblepharidales_regional_checklists_country_id ON ord_monoblepharidales_regional_checklists (country_id);

CREATE TABLE ord_rhizophydiales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_morphology_specimen_id ON ord_rhizophydiales_morphology (specimen_id);
CREATE INDEX ix_ord_rhizophydiales_morphology_species_id ON ord_rhizophydiales_morphology (species_id);

CREATE TABLE ord_rhizophydiales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_ecology_species_id ON ord_rhizophydiales_ecology (species_id);
CREATE INDEX ix_ord_rhizophydiales_ecology_dominant_habitat_id ON ord_rhizophydiales_ecology (dominant_habitat_id);

CREATE TABLE ord_rhizophydiales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_phenology_species_id ON ord_rhizophydiales_phenology (species_id);
CREATE INDEX ix_ord_rhizophydiales_phenology_region_country_id ON ord_rhizophydiales_phenology (region_country_id);

CREATE TABLE ord_rhizophydiales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_host_associations_species_id ON ord_rhizophydiales_host_associations (species_id);
CREATE INDEX ix_ord_rhizophydiales_host_associations_host_id ON ord_rhizophydiales_host_associations (host_id);

CREATE TABLE ord_rhizophydiales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_substrate_preferences_species_id ON ord_rhizophydiales_substrate_preferences (species_id);
CREATE INDEX ix_ord_rhizophydiales_substrate_preferences_substrate_id ON ord_rhizophydiales_substrate_preferences (substrate_id);

CREATE TABLE ord_rhizophydiales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_geographic_distribution_species_id ON ord_rhizophydiales_geographic_distribution (species_id);
CREATE INDEX ix_ord_rhizophydiales_geographic_distribution_country_id ON ord_rhizophydiales_geographic_distribution (country_id);

CREATE TABLE ord_rhizophydiales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_phylogeny_tree_id ON ord_rhizophydiales_phylogeny (tree_id);
CREATE INDEX ix_ord_rhizophydiales_phylogeny_focal_genus_id ON ord_rhizophydiales_phylogeny (focal_genus_id);

CREATE TABLE ord_rhizophydiales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_genomics_assembly_id ON ord_rhizophydiales_genomics (assembly_id);
CREATE INDEX ix_ord_rhizophydiales_genomics_species_id ON ord_rhizophydiales_genomics (species_id);

CREATE TABLE ord_rhizophydiales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_biochemistry_species_id ON ord_rhizophydiales_biochemistry (species_id);
CREATE INDEX ix_ord_rhizophydiales_biochemistry_compound_id ON ord_rhizophydiales_biochemistry (compound_id);

CREATE TABLE ord_rhizophydiales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_cultivation_notes_species_id ON ord_rhizophydiales_cultivation_notes (species_id);
CREATE INDEX ix_ord_rhizophydiales_cultivation_notes_strain_id ON ord_rhizophydiales_cultivation_notes (strain_id);

CREATE TABLE ord_rhizophydiales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_pathogenicity_species_id ON ord_rhizophydiales_pathogenicity (species_id);
CREATE INDEX ix_ord_rhizophydiales_pathogenicity_host_id ON ord_rhizophydiales_pathogenicity (host_id);

CREATE TABLE ord_rhizophydiales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_edibility_species_id ON ord_rhizophydiales_edibility (species_id);
CREATE INDEX ix_ord_rhizophydiales_edibility_1 ON ord_rhizophydiales_edibility (regional_tradition_country_id);

CREATE TABLE ord_rhizophydiales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_medicinal_uses_species_id ON ord_rhizophydiales_medicinal_uses (species_id);
CREATE INDEX ix_ord_rhizophydiales_medicinal_uses_publication_id ON ord_rhizophydiales_medicinal_uses (publication_id);

CREATE TABLE ord_rhizophydiales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_taxonomic_revisions_publication_id ON ord_rhizophydiales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_rhizophydiales_taxonomic_revisions_affected_family_id ON ord_rhizophydiales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_rhizophydiales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_conservation_status_species_id ON ord_rhizophydiales_conservation_status (species_id);
CREATE INDEX ix_ord_rhizophydiales_conservation_status_country_id ON ord_rhizophydiales_conservation_status (country_id);

CREATE TABLE ord_rhizophydiales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_diagnostic_keys_publication_id ON ord_rhizophydiales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_rhizophydiales_diagnostic_keys_region_country_id ON ord_rhizophydiales_diagnostic_keys (region_country_id);

CREATE TABLE ord_rhizophydiales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_type_species_register_focal_genus_id ON ord_rhizophydiales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_rhizophydiales_type_species_register_type_species_id ON ord_rhizophydiales_type_species_register (type_species_id);

CREATE TABLE ord_rhizophydiales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_distribution_grids_species_id ON ord_rhizophydiales_distribution_grids (species_id);
CREATE INDEX ix_ord_rhizophydiales_distribution_grids_country_id ON ord_rhizophydiales_distribution_grids (country_id);

CREATE TABLE ord_rhizophydiales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_microclimate_studies_species_id ON ord_rhizophydiales_microclimate_studies (species_id);
CREATE INDEX ix_ord_rhizophydiales_microclimate_studies_publication_id ON ord_rhizophydiales_microclimate_studies (publication_id);

CREATE TABLE ord_rhizophydiales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_dna_barcoding_status_species_id ON ord_rhizophydiales_dna_barcoding_status (species_id);

CREATE TABLE ord_rhizophydiales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_spore_print_data_species_id ON ord_rhizophydiales_spore_print_data (species_id);
CREATE INDEX ix_ord_rhizophydiales_spore_print_data_specimen_id ON ord_rhizophydiales_spore_print_data (specimen_id);

CREATE TABLE ord_rhizophydiales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_mating_systems_species_id ON ord_rhizophydiales_mating_systems (species_id);
CREATE INDEX ix_ord_rhizophydiales_mating_systems_publication_id ON ord_rhizophydiales_mating_systems (publication_id);

CREATE TABLE ord_rhizophydiales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_nutrient_uptake_studies_species_id ON ord_rhizophydiales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_rhizophydiales_nutrient_uptake_studies_strain_id ON ord_rhizophydiales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_rhizophydiales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_range_maps_species_id ON ord_rhizophydiales_range_maps (species_id);
CREATE INDEX ix_ord_rhizophydiales_range_maps_publication_id ON ord_rhizophydiales_range_maps (publication_id);

CREATE TABLE ord_rhizophydiales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_abundance_estimates_species_id ON ord_rhizophydiales_abundance_estimates (species_id);
CREATE INDEX ix_ord_rhizophydiales_abundance_estimates_country_id ON ord_rhizophydiales_abundance_estimates (country_id);

CREATE TABLE ord_rhizophydiales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_toxin_profiles_species_id ON ord_rhizophydiales_toxin_profiles (species_id);
CREATE INDEX ix_ord_rhizophydiales_toxin_profiles_compound_id ON ord_rhizophydiales_toxin_profiles (compound_id);

CREATE TABLE ord_rhizophydiales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_enzyme_activity_assays_species_id ON ord_rhizophydiales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_rhizophydiales_enzyme_activity_assays_enzyme_id ON ord_rhizophydiales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_rhizophydiales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_biocontrol_evaluations_species_id ON ord_rhizophydiales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_rhizophydiales_biocontrol_evaluations_publication_id ON ord_rhizophydiales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_rhizophydiales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_rhizophydiales_regional_checklists_species_id ON ord_rhizophydiales_regional_checklists (species_id);
CREATE INDEX ix_ord_rhizophydiales_regional_checklists_country_id ON ord_rhizophydiales_regional_checklists (country_id);

CREATE TABLE ord_spizellomycetales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_morphology_specimen_id ON ord_spizellomycetales_morphology (specimen_id);
CREATE INDEX ix_ord_spizellomycetales_morphology_species_id ON ord_spizellomycetales_morphology (species_id);

CREATE TABLE ord_spizellomycetales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_ecology_species_id ON ord_spizellomycetales_ecology (species_id);
CREATE INDEX ix_ord_spizellomycetales_ecology_dominant_habitat_id ON ord_spizellomycetales_ecology (dominant_habitat_id);

CREATE TABLE ord_spizellomycetales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_phenology_species_id ON ord_spizellomycetales_phenology (species_id);
CREATE INDEX ix_ord_spizellomycetales_phenology_region_country_id ON ord_spizellomycetales_phenology (region_country_id);

CREATE TABLE ord_spizellomycetales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_host_associations_species_id ON ord_spizellomycetales_host_associations (species_id);
CREATE INDEX ix_ord_spizellomycetales_host_associations_host_id ON ord_spizellomycetales_host_associations (host_id);

CREATE TABLE ord_spizellomycetales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_substrate_preferences_species_id ON ord_spizellomycetales_substrate_preferences (species_id);
CREATE INDEX ix_ord_spizellomycetales_substrate_preferences_substrate_id ON ord_spizellomycetales_substrate_preferences (substrate_id);

CREATE TABLE ord_spizellomycetales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_geographic_distribution_species_id ON ord_spizellomycetales_geographic_distribution (species_id);
CREATE INDEX ix_ord_spizellomycetales_geographic_distribution_country_id ON ord_spizellomycetales_geographic_distribution (country_id);

CREATE TABLE ord_spizellomycetales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_phylogeny_tree_id ON ord_spizellomycetales_phylogeny (tree_id);
CREATE INDEX ix_ord_spizellomycetales_phylogeny_focal_genus_id ON ord_spizellomycetales_phylogeny (focal_genus_id);

CREATE TABLE ord_spizellomycetales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_genomics_assembly_id ON ord_spizellomycetales_genomics (assembly_id);
CREATE INDEX ix_ord_spizellomycetales_genomics_species_id ON ord_spizellomycetales_genomics (species_id);

CREATE TABLE ord_spizellomycetales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_biochemistry_species_id ON ord_spizellomycetales_biochemistry (species_id);
CREATE INDEX ix_ord_spizellomycetales_biochemistry_compound_id ON ord_spizellomycetales_biochemistry (compound_id);

CREATE TABLE ord_spizellomycetales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_cultivation_notes_species_id ON ord_spizellomycetales_cultivation_notes (species_id);
CREATE INDEX ix_ord_spizellomycetales_cultivation_notes_strain_id ON ord_spizellomycetales_cultivation_notes (strain_id);

CREATE TABLE ord_spizellomycetales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_pathogenicity_species_id ON ord_spizellomycetales_pathogenicity (species_id);
CREATE INDEX ix_ord_spizellomycetales_pathogenicity_host_id ON ord_spizellomycetales_pathogenicity (host_id);

CREATE TABLE ord_spizellomycetales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_edibility_species_id ON ord_spizellomycetales_edibility (species_id);
CREATE INDEX ix_ord_spizellomycetales_edibility_1 ON ord_spizellomycetales_edibility (regional_tradition_country_id);

CREATE TABLE ord_spizellomycetales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_medicinal_uses_species_id ON ord_spizellomycetales_medicinal_uses (species_id);
CREATE INDEX ix_ord_spizellomycetales_medicinal_uses_publication_id ON ord_spizellomycetales_medicinal_uses (publication_id);

CREATE TABLE ord_spizellomycetales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_taxonomic_revisions_publication_id ON ord_spizellomycetales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_spizellomycetales_taxonomic_revisions_1 ON ord_spizellomycetales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_spizellomycetales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_conservation_status_species_id ON ord_spizellomycetales_conservation_status (species_id);
CREATE INDEX ix_ord_spizellomycetales_conservation_status_country_id ON ord_spizellomycetales_conservation_status (country_id);

CREATE TABLE ord_spizellomycetales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_diagnostic_keys_publication_id ON ord_spizellomycetales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_spizellomycetales_diagnostic_keys_region_country_id ON ord_spizellomycetales_diagnostic_keys (region_country_id);

CREATE TABLE ord_spizellomycetales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_type_species_register_0 ON ord_spizellomycetales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_spizellomycetales_type_species_register_1 ON ord_spizellomycetales_type_species_register (type_species_id);

CREATE TABLE ord_spizellomycetales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_distribution_grids_species_id ON ord_spizellomycetales_distribution_grids (species_id);
CREATE INDEX ix_ord_spizellomycetales_distribution_grids_country_id ON ord_spizellomycetales_distribution_grids (country_id);

CREATE TABLE ord_spizellomycetales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_microclimate_studies_species_id ON ord_spizellomycetales_microclimate_studies (species_id);
CREATE INDEX ix_ord_spizellomycetales_microclimate_studies_publication_id ON ord_spizellomycetales_microclimate_studies (publication_id);

CREATE TABLE ord_spizellomycetales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_dna_barcoding_status_species_id ON ord_spizellomycetales_dna_barcoding_status (species_id);

CREATE TABLE ord_spizellomycetales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_spore_print_data_species_id ON ord_spizellomycetales_spore_print_data (species_id);
CREATE INDEX ix_ord_spizellomycetales_spore_print_data_specimen_id ON ord_spizellomycetales_spore_print_data (specimen_id);

CREATE TABLE ord_spizellomycetales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_mating_systems_species_id ON ord_spizellomycetales_mating_systems (species_id);
CREATE INDEX ix_ord_spizellomycetales_mating_systems_publication_id ON ord_spizellomycetales_mating_systems (publication_id);

CREATE TABLE ord_spizellomycetales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_nutrient_uptake_studies_species_id ON ord_spizellomycetales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_spizellomycetales_nutrient_uptake_studies_strain_id ON ord_spizellomycetales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_spizellomycetales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_range_maps_species_id ON ord_spizellomycetales_range_maps (species_id);
CREATE INDEX ix_ord_spizellomycetales_range_maps_publication_id ON ord_spizellomycetales_range_maps (publication_id);

CREATE TABLE ord_spizellomycetales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_abundance_estimates_species_id ON ord_spizellomycetales_abundance_estimates (species_id);
CREATE INDEX ix_ord_spizellomycetales_abundance_estimates_country_id ON ord_spizellomycetales_abundance_estimates (country_id);

CREATE TABLE ord_spizellomycetales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_toxin_profiles_species_id ON ord_spizellomycetales_toxin_profiles (species_id);
CREATE INDEX ix_ord_spizellomycetales_toxin_profiles_compound_id ON ord_spizellomycetales_toxin_profiles (compound_id);

CREATE TABLE ord_spizellomycetales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_enzyme_activity_assays_species_id ON ord_spizellomycetales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_spizellomycetales_enzyme_activity_assays_enzyme_id ON ord_spizellomycetales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_spizellomycetales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_biocontrol_evaluations_species_id ON ord_spizellomycetales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_spizellomycetales_biocontrol_evaluations_1 ON ord_spizellomycetales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_spizellomycetales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_spizellomycetales_regional_checklists_species_id ON ord_spizellomycetales_regional_checklists (species_id);
CREATE INDEX ix_ord_spizellomycetales_regional_checklists_country_id ON ord_spizellomycetales_regional_checklists (country_id);

CREATE TABLE ord_neocallimastigales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_morphology_specimen_id ON ord_neocallimastigales_morphology (specimen_id);
CREATE INDEX ix_ord_neocallimastigales_morphology_species_id ON ord_neocallimastigales_morphology (species_id);

CREATE TABLE ord_neocallimastigales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_ecology_species_id ON ord_neocallimastigales_ecology (species_id);
CREATE INDEX ix_ord_neocallimastigales_ecology_dominant_habitat_id ON ord_neocallimastigales_ecology (dominant_habitat_id);

CREATE TABLE ord_neocallimastigales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_phenology_species_id ON ord_neocallimastigales_phenology (species_id);
CREATE INDEX ix_ord_neocallimastigales_phenology_region_country_id ON ord_neocallimastigales_phenology (region_country_id);

CREATE TABLE ord_neocallimastigales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_host_associations_species_id ON ord_neocallimastigales_host_associations (species_id);
CREATE INDEX ix_ord_neocallimastigales_host_associations_host_id ON ord_neocallimastigales_host_associations (host_id);

CREATE TABLE ord_neocallimastigales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_substrate_preferences_species_id ON ord_neocallimastigales_substrate_preferences (species_id);
CREATE INDEX ix_ord_neocallimastigales_substrate_preferences_substrate_id ON ord_neocallimastigales_substrate_preferences (substrate_id);

CREATE TABLE ord_neocallimastigales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_geographic_distribution_species_id ON ord_neocallimastigales_geographic_distribution (species_id);
CREATE INDEX ix_ord_neocallimastigales_geographic_distribution_country_id ON ord_neocallimastigales_geographic_distribution (country_id);

CREATE TABLE ord_neocallimastigales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_phylogeny_tree_id ON ord_neocallimastigales_phylogeny (tree_id);
CREATE INDEX ix_ord_neocallimastigales_phylogeny_focal_genus_id ON ord_neocallimastigales_phylogeny (focal_genus_id);

CREATE TABLE ord_neocallimastigales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_genomics_assembly_id ON ord_neocallimastigales_genomics (assembly_id);
CREATE INDEX ix_ord_neocallimastigales_genomics_species_id ON ord_neocallimastigales_genomics (species_id);

CREATE TABLE ord_neocallimastigales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_biochemistry_species_id ON ord_neocallimastigales_biochemistry (species_id);
CREATE INDEX ix_ord_neocallimastigales_biochemistry_compound_id ON ord_neocallimastigales_biochemistry (compound_id);

CREATE TABLE ord_neocallimastigales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_cultivation_notes_species_id ON ord_neocallimastigales_cultivation_notes (species_id);
CREATE INDEX ix_ord_neocallimastigales_cultivation_notes_strain_id ON ord_neocallimastigales_cultivation_notes (strain_id);

CREATE TABLE ord_neocallimastigales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_pathogenicity_species_id ON ord_neocallimastigales_pathogenicity (species_id);
CREATE INDEX ix_ord_neocallimastigales_pathogenicity_host_id ON ord_neocallimastigales_pathogenicity (host_id);

CREATE TABLE ord_neocallimastigales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_edibility_species_id ON ord_neocallimastigales_edibility (species_id);
CREATE INDEX ix_ord_neocallimastigales_edibility_1 ON ord_neocallimastigales_edibility (regional_tradition_country_id);

CREATE TABLE ord_neocallimastigales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_medicinal_uses_species_id ON ord_neocallimastigales_medicinal_uses (species_id);
CREATE INDEX ix_ord_neocallimastigales_medicinal_uses_publication_id ON ord_neocallimastigales_medicinal_uses (publication_id);

CREATE TABLE ord_neocallimastigales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_taxonomic_revisions_publication_id ON ord_neocallimastigales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_neocallimastigales_taxonomic_revisions_1 ON ord_neocallimastigales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_neocallimastigales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_conservation_status_species_id ON ord_neocallimastigales_conservation_status (species_id);
CREATE INDEX ix_ord_neocallimastigales_conservation_status_country_id ON ord_neocallimastigales_conservation_status (country_id);

CREATE TABLE ord_neocallimastigales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_diagnostic_keys_publication_id ON ord_neocallimastigales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_neocallimastigales_diagnostic_keys_region_country_id ON ord_neocallimastigales_diagnostic_keys (region_country_id);

CREATE TABLE ord_neocallimastigales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_type_species_register_0 ON ord_neocallimastigales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_neocallimastigales_type_species_register_1 ON ord_neocallimastigales_type_species_register (type_species_id);

CREATE TABLE ord_neocallimastigales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_distribution_grids_species_id ON ord_neocallimastigales_distribution_grids (species_id);
CREATE INDEX ix_ord_neocallimastigales_distribution_grids_country_id ON ord_neocallimastigales_distribution_grids (country_id);

CREATE TABLE ord_neocallimastigales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_microclimate_studies_species_id ON ord_neocallimastigales_microclimate_studies (species_id);
CREATE INDEX ix_ord_neocallimastigales_microclimate_studies_1 ON ord_neocallimastigales_microclimate_studies (publication_id);

CREATE TABLE ord_neocallimastigales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_dna_barcoding_status_species_id ON ord_neocallimastigales_dna_barcoding_status (species_id);

CREATE TABLE ord_neocallimastigales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_spore_print_data_species_id ON ord_neocallimastigales_spore_print_data (species_id);
CREATE INDEX ix_ord_neocallimastigales_spore_print_data_specimen_id ON ord_neocallimastigales_spore_print_data (specimen_id);

CREATE TABLE ord_neocallimastigales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_mating_systems_species_id ON ord_neocallimastigales_mating_systems (species_id);
CREATE INDEX ix_ord_neocallimastigales_mating_systems_publication_id ON ord_neocallimastigales_mating_systems (publication_id);

CREATE TABLE ord_neocallimastigales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_nutrient_uptake_studies_species_id ON ord_neocallimastigales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_neocallimastigales_nutrient_uptake_studies_strain_id ON ord_neocallimastigales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_neocallimastigales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_range_maps_species_id ON ord_neocallimastigales_range_maps (species_id);
CREATE INDEX ix_ord_neocallimastigales_range_maps_publication_id ON ord_neocallimastigales_range_maps (publication_id);

CREATE TABLE ord_neocallimastigales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_abundance_estimates_species_id ON ord_neocallimastigales_abundance_estimates (species_id);
CREATE INDEX ix_ord_neocallimastigales_abundance_estimates_country_id ON ord_neocallimastigales_abundance_estimates (country_id);

CREATE TABLE ord_neocallimastigales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_toxin_profiles_species_id ON ord_neocallimastigales_toxin_profiles (species_id);
CREATE INDEX ix_ord_neocallimastigales_toxin_profiles_compound_id ON ord_neocallimastigales_toxin_profiles (compound_id);

CREATE TABLE ord_neocallimastigales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_enzyme_activity_assays_species_id ON ord_neocallimastigales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_neocallimastigales_enzyme_activity_assays_enzyme_id ON ord_neocallimastigales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_neocallimastigales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_biocontrol_evaluations_species_id ON ord_neocallimastigales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_neocallimastigales_biocontrol_evaluations_1 ON ord_neocallimastigales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_neocallimastigales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_neocallimastigales_regional_checklists_species_id ON ord_neocallimastigales_regional_checklists (species_id);
CREATE INDEX ix_ord_neocallimastigales_regional_checklists_country_id ON ord_neocallimastigales_regional_checklists (country_id);

CREATE TABLE ord_microsporidiales_morphology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    specimen_id INTEGER NOT NULL,
    species_id INTEGER,
    hymenium_color_at_maturity TEXT,
    context_color_at_maturity TEXT,
    characteristic_microstructure TEXT,
    diagnostic_features_text TEXT,
    notes_kohler_reaction TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_morphology_specimen_id ON ord_microsporidiales_morphology (specimen_id);
CREATE INDEX ix_ord_microsporidiales_morphology_species_id ON ord_microsporidiales_morphology (species_id);

CREATE TABLE ord_microsporidiales_ecology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    dominant_habitat_id INTEGER,
    dominant_substrate_id INTEGER,
    dominant_biome_id INTEGER,
    trophic_strategy TEXT,
    typical_fruiting_period TEXT,
    known_distribution_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_habitat_id) REFERENCES eco_habitat_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_substrate_id) REFERENCES eco_substrate_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (dominant_biome_id) REFERENCES geo_biomes (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_ecology_species_id ON ord_microsporidiales_ecology (species_id);
CREATE INDEX ix_ord_microsporidiales_ecology_dominant_habitat_id ON ord_microsporidiales_ecology (dominant_habitat_id);

CREATE TABLE ord_microsporidiales_phenology (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    season_name TEXT,
    region_country_id INTEGER,
    first_doy INTEGER,
    peak_doy INTEGER,
    last_doy INTEGER,
    years_observed INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_phenology_species_id ON ord_microsporidiales_phenology (species_id);
CREATE INDEX ix_ord_microsporidiales_phenology_region_country_id ON ord_microsporidiales_phenology (region_country_id);

CREATE TABLE ord_microsporidiales_host_associations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    association_type TEXT,
    specificity TEXT,
    evidence_publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (evidence_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_host_associations_species_id ON ord_microsporidiales_host_associations (species_id);
CREATE INDEX ix_ord_microsporidiales_host_associations_host_id ON ord_microsporidiales_host_associations (host_id);

CREATE TABLE ord_microsporidiales_substrate_preferences (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    substrate_id INTEGER NOT NULL,
    preference_score REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (substrate_id) REFERENCES eco_substrate_types (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_substrate_preferences_species_id ON ord_microsporidiales_substrate_preferences (species_id);
CREATE INDEX ix_ord_microsporidiales_substrate_preferences_substrate_id ON ord_microsporidiales_substrate_preferences (substrate_id);

CREATE TABLE ord_microsporidiales_geographic_distribution (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    occurrence_status TEXT,
    first_record_year INTEGER,
    record_count INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_geographic_distribution_species_id ON ord_microsporidiales_geographic_distribution (species_id);
CREATE INDEX ix_ord_microsporidiales_geographic_distribution_country_id ON ord_microsporidiales_geographic_distribution (country_id);

CREATE TABLE ord_microsporidiales_phylogeny (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    tree_id INTEGER NOT NULL,
    focal_genus_id INTEGER,
    publication_id INTEGER,
    notes_summary TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (tree_id) REFERENCES phy_trees (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_phylogeny_tree_id ON ord_microsporidiales_phylogeny (tree_id);
CREATE INDEX ix_ord_microsporidiales_phylogeny_focal_genus_id ON ord_microsporidiales_phylogeny (focal_genus_id);

CREATE TABLE ord_microsporidiales_genomics (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    assembly_id INTEGER NOT NULL,
    species_id INTEGER,
    avg_genome_size_mb REAL,
    avg_gene_count INTEGER,
    avg_busco_complete_pct REAL,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (assembly_id) REFERENCES gen_assemblies (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_genomics_assembly_id ON ord_microsporidiales_genomics (assembly_id);
CREATE INDEX ix_ord_microsporidiales_genomics_species_id ON ord_microsporidiales_genomics (species_id);

CREATE TABLE ord_microsporidiales_biochemistry (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    typicality TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_biochemistry_species_id ON ord_microsporidiales_biochemistry (species_id);
CREATE INDEX ix_ord_microsporidiales_biochemistry_compound_id ON ord_microsporidiales_biochemistry (compound_id);

CREATE TABLE ord_microsporidiales_cultivation_notes (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    typical_growth_rate_mm_per_day REAL,
    preferred_media_type_id INTEGER,
    optimal_temperature_c REAL,
    difficulty_score INTEGER CHECK (difficulty_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (preferred_media_type_id) REFERENCES cul_media_types (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_cultivation_notes_species_id ON ord_microsporidiales_cultivation_notes (species_id);
CREATE INDEX ix_ord_microsporidiales_cultivation_notes_strain_id ON ord_microsporidiales_cultivation_notes (strain_id);

CREATE TABLE ord_microsporidiales_pathogenicity (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    host_id INTEGER NOT NULL,
    disease_id INTEGER,
    severity_score INTEGER CHECK (severity_score BETWEEN 1 AND 5),
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (host_id) REFERENCES pat_host_organisms (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (disease_id) REFERENCES pat_diseases (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_pathogenicity_species_id ON ord_microsporidiales_pathogenicity (species_id);
CREATE INDEX ix_ord_microsporidiales_pathogenicity_host_id ON ord_microsporidiales_pathogenicity (host_id);

CREATE TABLE ord_microsporidiales_edibility (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    edibility_class TEXT,
    preparation_notes TEXT,
    regional_tradition_country_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (regional_tradition_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_edibility_species_id ON ord_microsporidiales_edibility (species_id);
CREATE INDEX ix_ord_microsporidiales_edibility_1 ON ord_microsporidiales_edibility (regional_tradition_country_id);

CREATE TABLE ord_microsporidiales_medicinal_uses (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    traditional_use_text TEXT,
    modern_evidence_level TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_medicinal_uses_species_id ON ord_microsporidiales_medicinal_uses (species_id);
CREATE INDEX ix_ord_microsporidiales_medicinal_uses_publication_id ON ord_microsporidiales_medicinal_uses (publication_id);

CREATE TABLE ord_microsporidiales_taxonomic_revisions (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER NOT NULL,
    affected_family_id INTEGER,
    affected_genus_id INTEGER,
    revision_summary TEXT,
    revision_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_family_id) REFERENCES tax_families (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (affected_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_taxonomic_revisions_publication_id ON ord_microsporidiales_taxonomic_revisions (publication_id);
CREATE INDEX ix_ord_microsporidiales_taxonomic_revisions_1 ON ord_microsporidiales_taxonomic_revisions (affected_family_id);

CREATE TABLE ord_microsporidiales_conservation_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    national_redlist_category TEXT,
    habitat_pressure_text TEXT,
    last_assessment_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_conservation_status_species_id ON ord_microsporidiales_conservation_status (species_id);
CREATE INDEX ix_ord_microsporidiales_conservation_status_country_id ON ord_microsporidiales_conservation_status (country_id);

CREATE TABLE ord_microsporidiales_diagnostic_keys (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    publication_id INTEGER,
    key_title TEXT NOT NULL,
    region_country_id INTEGER,
    n_taxa_covered INTEGER,
    key_format TEXT,
    includes_microscopy INTEGER NOT NULL DEFAULT 0,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (region_country_id) REFERENCES geo_countries (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_diagnostic_keys_publication_id ON ord_microsporidiales_diagnostic_keys (publication_id);
CREATE INDEX ix_ord_microsporidiales_diagnostic_keys_region_country_id ON ord_microsporidiales_diagnostic_keys (region_country_id);

CREATE TABLE ord_microsporidiales_type_species_register (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    focal_genus_id INTEGER NOT NULL,
    type_species_id INTEGER,
    designation_publication_id INTEGER,
    designation_year INTEGER,
    designated_by_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (focal_genus_id) REFERENCES tax_genera (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (type_species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (designation_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_type_species_register_focal_genus_id ON ord_microsporidiales_type_species_register (focal_genus_id);
CREATE INDEX ix_ord_microsporidiales_type_species_register_1 ON ord_microsporidiales_type_species_register (type_species_id);

CREATE TABLE ord_microsporidiales_distribution_grids (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    grid_cell_code TEXT NOT NULL,
    centroid_lat REAL,
    centroid_lon REAL,
    record_count INTEGER,
    first_record_year INTEGER,
    most_recent_record_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_distribution_grids_species_id ON ord_microsporidiales_distribution_grids (species_id);
CREATE INDEX ix_ord_microsporidiales_distribution_grids_country_id ON ord_microsporidiales_distribution_grids (country_id);

CREATE TABLE ord_microsporidiales_microclimate_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER,
    publication_id INTEGER,
    substrate_temperature_c REAL,
    substrate_moisture_pct REAL,
    canopy_closure_pct REAL,
    photosynthetic_par_umol_m2_s REAL,
    days_post_rainfall INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_microclimate_studies_species_id ON ord_microsporidiales_microclimate_studies (species_id);
CREATE INDEX ix_ord_microsporidiales_microclimate_studies_publication_id ON ord_microsporidiales_microclimate_studies (publication_id);

CREATE TABLE ord_microsporidiales_dna_barcoding_status (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    its_sequenced INTEGER NOT NULL DEFAULT 0,
    lsu_sequenced INTEGER NOT NULL DEFAULT 0,
    rpb2_sequenced INTEGER NOT NULL DEFAULT 0,
    ef1a_sequenced INTEGER NOT NULL DEFAULT 0,
    genome_assembled INTEGER NOT NULL DEFAULT 0,
    priority_for_sequencing_score INTEGER CHECK (priority_for_sequencing_score BETWEEN 1 AND 5),
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_dna_barcoding_status_species_id ON ord_microsporidiales_dna_barcoding_status (species_id);

CREATE TABLE ord_microsporidiales_spore_print_data (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    specimen_id INTEGER,
    print_color_label TEXT,
    print_color_chip_id INTEGER,
    spore_density_per_mm2 REAL,
    collection_substrate TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (specimen_id) REFERENCES spc_specimens (id) ON DELETE CASCADE ON UPDATE CASCADE,
    FOREIGN KEY (print_color_chip_id) REFERENCES mor_color_chips (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_spore_print_data_species_id ON ord_microsporidiales_spore_print_data (species_id);
CREATE INDEX ix_ord_microsporidiales_spore_print_data_specimen_id ON ord_microsporidiales_spore_print_data (specimen_id);

CREATE TABLE ord_microsporidiales_mating_systems (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    system_type TEXT,
    mating_loci_count INTEGER,
    publication_id INTEGER,
    notes_text TEXT,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_mating_systems_species_id ON ord_microsporidiales_mating_systems (species_id);
CREATE INDEX ix_ord_microsporidiales_mating_systems_publication_id ON ord_microsporidiales_mating_systems (publication_id);

CREATE TABLE ord_microsporidiales_nutrient_uptake_studies (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    strain_id INTEGER,
    nitrogen_source TEXT,
    carbon_source TEXT,
    growth_response TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_nutrient_uptake_studies_species_id ON ord_microsporidiales_nutrient_uptake_studies (species_id);
CREATE INDEX ix_ord_microsporidiales_nutrient_uptake_studies_strain_id ON ord_microsporidiales_nutrient_uptake_studies (strain_id);

CREATE TABLE ord_microsporidiales_range_maps (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    polygon_file_uri TEXT NOT NULL,
    source_methodology TEXT,
    area_km2 REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_range_maps_species_id ON ord_microsporidiales_range_maps (species_id);
CREATE INDEX ix_ord_microsporidiales_range_maps_publication_id ON ord_microsporidiales_range_maps (publication_id);

CREATE TABLE ord_microsporidiales_abundance_estimates (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER,
    estimate_kind TEXT,
    value_min REAL,
    value_max REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_abundance_estimates_species_id ON ord_microsporidiales_abundance_estimates (species_id);
CREATE INDEX ix_ord_microsporidiales_abundance_estimates_country_id ON ord_microsporidiales_abundance_estimates (country_id);

CREATE TABLE ord_microsporidiales_toxin_profiles (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    compound_id INTEGER NOT NULL,
    presence TEXT,
    typical_concentration_mg_per_kg REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (compound_id) REFERENCES bio_compounds (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_toxin_profiles_species_id ON ord_microsporidiales_toxin_profiles (species_id);
CREATE INDEX ix_ord_microsporidiales_toxin_profiles_compound_id ON ord_microsporidiales_toxin_profiles (compound_id);

CREATE TABLE ord_microsporidiales_enzyme_activity_assays (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    enzyme_id INTEGER NOT NULL,
    strain_id INTEGER,
    activity_u_per_mg REAL,
    temperature_c REAL,
    ph REAL,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (enzyme_id) REFERENCES bio_enzymes (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (strain_id) REFERENCES cul_strains (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_enzyme_activity_assays_species_id ON ord_microsporidiales_enzyme_activity_assays (species_id);
CREATE INDEX ix_ord_microsporidiales_enzyme_activity_assays_enzyme_id ON ord_microsporidiales_enzyme_activity_assays (enzyme_id);

CREATE TABLE ord_microsporidiales_biocontrol_evaluations (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    target_pest_text TEXT NOT NULL,
    efficacy_pct REAL,
    trial_setting TEXT,
    publication_id INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_biocontrol_evaluations_species_id ON ord_microsporidiales_biocontrol_evaluations (species_id);
CREATE INDEX ix_ord_microsporidiales_biocontrol_evaluations_1 ON ord_microsporidiales_biocontrol_evaluations (publication_id);

CREATE TABLE ord_microsporidiales_regional_checklists (
    id INTEGER PRIMARY KEY AUTOINCREMENT,
    species_id INTEGER NOT NULL,
    country_id INTEGER NOT NULL,
    checklist_publication_id INTEGER,
    status TEXT,
    checklist_year INTEGER,
    notes TEXT,
    created_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    updated_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    created_by_user_id INTEGER,
    updated_by_user_id INTEGER,
    is_deleted INTEGER NOT NULL DEFAULT 0,
    row_version INTEGER NOT NULL DEFAULT 1,
    FOREIGN KEY (species_id) REFERENCES tax_species (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (country_id) REFERENCES geo_countries (id) ON DELETE RESTRICT ON UPDATE CASCADE,
    FOREIGN KEY (checklist_publication_id) REFERENCES lit_publications (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (created_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE,
    FOREIGN KEY (updated_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_ord_microsporidiales_regional_checklists_species_id ON ord_microsporidiales_regional_checklists (species_id);
CREATE INDEX ix_ord_microsporidiales_regional_checklists_country_id ON ord_microsporidiales_regional_checklists (country_id);

CREATE TABLE tax_species_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_species_audit_source_id ON tax_species_audit (source_id);
CREATE INDEX ix_tax_species_audit_changed_at ON tax_species_audit (changed_at);
CREATE INDEX ix_tax_species_audit_operation ON tax_species_audit (operation);

CREATE TABLE tax_genera_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_genera_audit_source_id ON tax_genera_audit (source_id);
CREATE INDEX ix_tax_genera_audit_changed_at ON tax_genera_audit (changed_at);
CREATE INDEX ix_tax_genera_audit_operation ON tax_genera_audit (operation);

CREATE TABLE tax_families_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_families_audit_source_id ON tax_families_audit (source_id);
CREATE INDEX ix_tax_families_audit_changed_at ON tax_families_audit (changed_at);
CREATE INDEX ix_tax_families_audit_operation ON tax_families_audit (operation);

CREATE TABLE tax_orders_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_orders_audit_source_id ON tax_orders_audit (source_id);
CREATE INDEX ix_tax_orders_audit_changed_at ON tax_orders_audit (changed_at);
CREATE INDEX ix_tax_orders_audit_operation ON tax_orders_audit (operation);

CREATE TABLE tax_classes_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_classes_audit_source_id ON tax_classes_audit (source_id);
CREATE INDEX ix_tax_classes_audit_changed_at ON tax_classes_audit (changed_at);
CREATE INDEX ix_tax_classes_audit_operation ON tax_classes_audit (operation);

CREATE TABLE tax_phyla_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_phyla_audit_source_id ON tax_phyla_audit (source_id);
CREATE INDEX ix_tax_phyla_audit_changed_at ON tax_phyla_audit (changed_at);
CREATE INDEX ix_tax_phyla_audit_operation ON tax_phyla_audit (operation);

CREATE TABLE tax_subspecies_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_subspecies_audit_source_id ON tax_subspecies_audit (source_id);
CREATE INDEX ix_tax_subspecies_audit_changed_at ON tax_subspecies_audit (changed_at);
CREATE INDEX ix_tax_subspecies_audit_operation ON tax_subspecies_audit (operation);

CREATE TABLE tax_varieties_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_varieties_audit_source_id ON tax_varieties_audit (source_id);
CREATE INDEX ix_tax_varieties_audit_changed_at ON tax_varieties_audit (changed_at);
CREATE INDEX ix_tax_varieties_audit_operation ON tax_varieties_audit (operation);

CREATE TABLE tax_forms_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_tax_forms_audit_source_id ON tax_forms_audit (source_id);
CREATE INDEX ix_tax_forms_audit_changed_at ON tax_forms_audit (changed_at);
CREATE INDEX ix_tax_forms_audit_operation ON tax_forms_audit (operation);

CREATE TABLE spc_specimens_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_specimens_audit_source_id ON spc_specimens_audit (source_id);
CREATE INDEX ix_spc_specimens_audit_changed_at ON spc_specimens_audit (changed_at);
CREATE INDEX ix_spc_specimens_audit_operation ON spc_specimens_audit (operation);

CREATE TABLE spc_collection_events_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_collection_events_audit_source_id ON spc_collection_events_audit (source_id);
CREATE INDEX ix_spc_collection_events_audit_changed_at ON spc_collection_events_audit (changed_at);
CREATE INDEX ix_spc_collection_events_audit_operation ON spc_collection_events_audit (operation);

CREATE TABLE spc_loans_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_spc_loans_audit_source_id ON spc_loans_audit (source_id);
CREATE INDEX ix_spc_loans_audit_changed_at ON spc_loans_audit (changed_at);
CREATE INDEX ix_spc_loans_audit_operation ON spc_loans_audit (operation);

CREATE TABLE gen_sequences_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_sequences_audit_source_id ON gen_sequences_audit (source_id);
CREATE INDEX ix_gen_sequences_audit_changed_at ON gen_sequences_audit (changed_at);
CREATE INDEX ix_gen_sequences_audit_operation ON gen_sequences_audit (operation);

CREATE TABLE gen_assemblies_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_assemblies_audit_source_id ON gen_assemblies_audit (source_id);
CREATE INDEX ix_gen_assemblies_audit_changed_at ON gen_assemblies_audit (changed_at);
CREATE INDEX ix_gen_assemblies_audit_operation ON gen_assemblies_audit (operation);

CREATE TABLE gen_dna_extracts_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_gen_dna_extracts_audit_source_id ON gen_dna_extracts_audit (source_id);
CREATE INDEX ix_gen_dna_extracts_audit_changed_at ON gen_dna_extracts_audit (changed_at);
CREATE INDEX ix_gen_dna_extracts_audit_operation ON gen_dna_extracts_audit (operation);

CREATE TABLE phy_trees_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_phy_trees_audit_source_id ON phy_trees_audit (source_id);
CREATE INDEX ix_phy_trees_audit_changed_at ON phy_trees_audit (changed_at);
CREATE INDEX ix_phy_trees_audit_operation ON phy_trees_audit (operation);

CREATE TABLE bio_compounds_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_bio_compounds_audit_source_id ON bio_compounds_audit (source_id);
CREATE INDEX ix_bio_compounds_audit_changed_at ON bio_compounds_audit (changed_at);
CREATE INDEX ix_bio_compounds_audit_operation ON bio_compounds_audit (operation);

CREATE TABLE bio_species_compound_occurrences_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_bio_species_compound_occurrences_audit_source_id ON bio_species_compound_occurrences_audit (source_id);
CREATE INDEX ix_bio_species_compound_occurrences_audit_changed_at ON bio_species_compound_occurrences_audit (changed_at);
CREATE INDEX ix_bio_species_compound_occurrences_audit_operation ON bio_species_compound_occurrences_audit (operation);

CREATE TABLE cul_strains_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_cul_strains_audit_source_id ON cul_strains_audit (source_id);
CREATE INDEX ix_cul_strains_audit_changed_at ON cul_strains_audit (changed_at);
CREATE INDEX ix_cul_strains_audit_operation ON cul_strains_audit (operation);

CREATE TABLE pat_disease_associations_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_pat_disease_associations_audit_source_id ON pat_disease_associations_audit (source_id);
CREATE INDEX ix_pat_disease_associations_audit_changed_at ON pat_disease_associations_audit (changed_at);
CREATE INDEX ix_pat_disease_associations_audit_operation ON pat_disease_associations_audit (operation);

CREATE TABLE pat_clinical_isolates_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_pat_clinical_isolates_audit_source_id ON pat_clinical_isolates_audit (source_id);
CREATE INDEX ix_pat_clinical_isolates_audit_changed_at ON pat_clinical_isolates_audit (changed_at);
CREATE INDEX ix_pat_clinical_isolates_audit_operation ON pat_clinical_isolates_audit (operation);

CREATE TABLE eco_phenology_observations_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_eco_phenology_observations_audit_source_id ON eco_phenology_observations_audit (source_id);
CREATE INDEX ix_eco_phenology_observations_audit_changed_at ON eco_phenology_observations_audit (changed_at);
CREATE INDEX ix_eco_phenology_observations_audit_operation ON eco_phenology_observations_audit (operation);

CREATE TABLE eco_iucn_assessments_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_eco_iucn_assessments_audit_source_id ON eco_iucn_assessments_audit (source_id);
CREATE INDEX ix_eco_iucn_assessments_audit_changed_at ON eco_iucn_assessments_audit (changed_at);
CREATE INDEX ix_eco_iucn_assessments_audit_operation ON eco_iucn_assessments_audit (operation);

CREATE TABLE lic_lichens_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_lic_lichens_audit_source_id ON lic_lichens_audit (source_id);
CREATE INDEX ix_lic_lichens_audit_changed_at ON lic_lichens_audit (changed_at);
CREATE INDEX ix_lic_lichens_audit_operation ON lic_lichens_audit (operation);

CREATE TABLE img_images_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_img_images_audit_source_id ON img_images_audit (source_id);
CREATE INDEX ix_img_images_audit_changed_at ON img_images_audit (changed_at);
CREATE INDEX ix_img_images_audit_operation ON img_images_audit (operation);

CREATE TABLE field_expeditions_audit (
    audit_id INTEGER PRIMARY KEY AUTOINCREMENT,
    source_id INTEGER NOT NULL,
    operation TEXT NOT NULL CHECK (operation IN ('I','U','D')),
    changed_at TEXT NOT NULL DEFAULT CURRENT_TIMESTAMP,
    changed_by_user_id INTEGER,
    old_row TEXT,
    new_row TEXT,
    change_reason TEXT,
    FOREIGN KEY (changed_by_user_id) REFERENCES sys_users (id) ON DELETE SET NULL ON UPDATE CASCADE
);
CREATE INDEX ix_field_expeditions_audit_source_id ON field_expeditions_audit (source_id);
CREATE INDEX ix_field_expeditions_audit_changed_at ON field_expeditions_audit (changed_at);
CREATE INDEX ix_field_expeditions_audit_operation ON field_expeditions_audit (operation);