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The actinide () or actinoid () series encompasses at least the 14 metallic chemical elements in the 5f series, with atomic numbers from 89 to 102, actinium through nobelium. Number 103, lawrencium, is also generally included despite being part of the 6d transition series. The actinide series derives its name from the first element in the series, actinium. The informal chemical symbol An is used in general discussions of actinide chemistry to refer to any actinide.
The 1985 IUPAC Red Book recommends that actinoid be used rather than actinide, since the suffix -ide normally indicates a negative ion. However, owing to widespread current use, actinide is still allowed. Since actinoid literally means actinium-like (cf. humanoid or android), it has been argued for semantic reasons that actinium cannot logically be an actinoid, but IUPAC acknowledges its inclusion based on common usage.
Actinium through nobelium are f-block elements, while lawrencium is a d-block element and a transition metal. The series mostly corresponds to the filling of the 5f electron shell, although as isolated atoms in the ground state many have anomalous configurations involving the filling of the 6d shell due to interelectronic repulsion. In comparison with the lanthanides, also mostly f-block elements, the actinides show much more variable valence. They all have very large atomic and ionic radii and exhibit an unusually large range of physical properties. While actinium and the late actinides (from curium onwards) behave similarly to the lanthanides, the elements thorium, protactinium, and uranium are much more similar to transition metals in their chemistry, with neptunium, plutonium, and americium occupying an intermediate position.
All actinides are radioactive and release energy upon radioactive decay; naturally occurring uranium and thorium, and synthetically produced plutonium are the most abundant actinides on Earth. These have been used in nuclear reactors, and uranium and plutonium are critical elements of nuclear weapons. Uranium and thorium also have diverse current or historical uses, and americium is used in the ionization chambers of most modern smoke detectors. | Actinide | Wikipedia | 470 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Of the actinides, primordial thorium and uranium occur naturally in substantial quantities. The radioactive decay of uranium produces transient amounts of actinium and protactinium, and atoms of neptunium and plutonium are occasionally produced from transmutation reactions in uranium ores. The other actinides are purely synthetic elements. Nuclear weapons tests have released at least six actinides heavier than plutonium into the environment; analysis of debris from a 1952 hydrogen bomb explosion showed the presence of americium, curium, berkelium, californium, einsteinium and fermium.
In presentations of the periodic table, the f-block elements are customarily shown as two additional rows below the main body of the table. This convention is entirely a matter of aesthetics and formatting practicality; a rarely used wide-formatted periodic table inserts the 4f and 5f series in their proper places, as parts of the table's sixth and seventh rows (periods).
Actinides
Discovery, isolation and synthesis
Like the lanthanides, the actinides form a family of elements with similar properties. Within the actinides, there are two overlapping groups: transuranium elements, which follow uranium in the periodic table; and transplutonium elements, which follow plutonium. Compared to the lanthanides, which (except for promethium) are found in nature in appreciable quantities, most actinides are rare. Most do not occur in nature, and of those that do, only thorium and uranium do so in more than trace quantities. The most abundant or easily synthesized actinides are uranium and thorium, followed by plutonium, americium, actinium, protactinium, neptunium, and curium. | Actinide | Wikipedia | 369 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
The existence of transuranium elements was suggested in 1934 by Enrico Fermi, based on his experiments. However, even though four actinides were known by that time, it was not yet understood that they formed a family similar to lanthanides. The prevailing view that dominated early research into transuranics was that they were regular elements in the 7th period, with thorium, protactinium and uranium corresponding to 6th-period hafnium, tantalum and tungsten, respectively. Synthesis of transuranics gradually undermined this point of view. By 1944, an observation that curium failed to exhibit oxidation states above 4 (whereas its supposed 6th period homolog, platinum, can reach oxidation state of 6) prompted Glenn Seaborg to formulate an "actinide hypothesis". Studies of known actinides and discoveries of further transuranic elements provided more data in support of this position, but the phrase "actinide hypothesis" (the implication being that a "hypothesis" is something that has not been decisively proven) remained in active use by scientists through the late 1950s.
At present, there are two major methods of producing isotopes of transplutonium elements: (1) irradiation of the lighter elements with neutrons; (2) irradiation with accelerated charged particles. The first method is more important for applications, as only neutron irradiation using nuclear reactors allows the production of sizeable amounts of synthetic actinides; however, it is limited to relatively light elements. The advantage of the second method is that elements heavier than plutonium, as well as neutron-deficient isotopes, can be obtained, which are not formed during neutron irradiation.
In 1962–1966, there were attempts in the United States to produce transplutonium isotopes using a series of six underground nuclear explosions. Small samples of rock were extracted from the blast area immediately after the test to study the explosion products, but no isotopes with mass number greater than 257 could be detected, despite predictions that such isotopes would have relatively long half-lives of α-decay. This non-observation was attributed to spontaneous fission owing to the large speed of the products and to other decay channels, such as neutron emission and nuclear fission.
From actinium to uranium | Actinide | Wikipedia | 466 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Uranium and thorium were the first actinides discovered. Uranium was identified in 1789 by the German chemist Martin Heinrich Klaproth in pitchblende ore. He named it after the planet Uranus, which had been discovered eight years earlier. Klaproth was able to precipitate a yellow compound (likely sodium diuranate) by dissolving pitchblende in nitric acid and neutralizing the solution with sodium hydroxide. He then reduced the obtained yellow powder with charcoal, and extracted a black substance that he mistook for metal. Sixty years later, the French scientist Eugène-Melchior Péligot identified it as uranium oxide. He also isolated the first sample of uranium metal by heating uranium tetrachloride with metallic potassium. The atomic mass of uranium was then calculated as 120, but Dmitri Mendeleev in 1872 corrected it to 240 using his periodicity laws. This value was confirmed experimentally in 1882 by K. Zimmerman.
Thorium oxide was discovered by Friedrich Wöhler in the mineral thorianite, which was found in Norway (1827). Jöns Jacob Berzelius characterized this material in more detail in 1828. By reduction of thorium tetrachloride with potassium, he isolated the metal and named it thorium after the Norse god of thunder and lightning Thor. The same isolation method was later used by Péligot for uranium.
Actinium was discovered in 1899 by André-Louis Debierne, an assistant of Marie Curie, in the pitchblende waste left after removal of radium and polonium. He described the substance (in 1899) as similar to titanium and (in 1900) as similar to thorium. The discovery of actinium by Debierne was however questioned in 1971 and 2000, arguing that Debierne's publications in 1904 contradicted his earlier work of 1899–1900. This view instead credits the 1902 work of Friedrich Oskar Giesel, who discovered a radioactive element named emanium that behaved similarly to lanthanum. The name actinium comes from the , meaning beam or ray. This metal was discovered not by its own radiation but by the radiation of the daughter products. Owing to the close similarity of actinium and lanthanum and low abundance, pure actinium could only be produced in 1950. The term actinide was probably introduced by Victor Goldschmidt in 1937. | Actinide | Wikipedia | 490 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Protactinium was possibly isolated in 1900 by William Crookes. It was first identified in 1913, when Kasimir Fajans and Oswald Helmuth Göhring encountered the short-lived isotope 234mPa (half-life 1.17 minutes) during their studies of the 238U decay chain. They named the new element brevium (from Latin brevis meaning brief); the name was changed to protoactinium (from Greek πρῶτος + ἀκτίς meaning "first beam element") in 1918 when two groups of scientists, led by the Austrian Lise Meitner and Otto Hahn of Germany and Frederick Soddy and John Arnold Cranston of Great Britain, independently discovered the much longer-lived 231Pa. The name was shortened to protactinium in 1949. This element was little characterized until 1960, when Alfred Maddock and his co-workers in the U.K. isolated 130 grams of protactinium from 60 tonnes of waste left after extraction of uranium from its ore.
Neptunium and above
Neptunium (named for the planet Neptune, the next planet out from Uranus, after which uranium was named) was discovered by Edwin McMillan and Philip H. Abelson in 1940 in Berkeley, California. They produced the 239Np isotope (half-life 2.4 days) by bombarding uranium with slow neutrons. It was the first transuranium element produced synthetically.
Transuranium elements do not occur in sizeable quantities in nature and are commonly synthesized via nuclear reactions conducted with nuclear reactors. For example, under irradiation with reactor neutrons, uranium-238 partially converts to plutonium-239:
This synthesis reaction was used by Fermi and his collaborators in their design of the reactors located at the Hanford Site, which produced significant amounts of plutonium-239 for the nuclear weapons of the Manhattan Project and the United States' post-war nuclear arsenal.
Actinides with the highest mass numbers are synthesized by bombarding uranium, plutonium, curium and californium with ions of nitrogen, oxygen, carbon, neon or boron in a particle accelerator. Thus nobelium was produced by bombarding uranium-238 with neon-22 as
_{92}^{238}U + _{10}^{22}Ne -> _{102}^{256}No + 4_0^1n. | Actinide | Wikipedia | 494 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
The first isotopes of transplutonium elements, americium-241 and curium-242, were synthesized in 1944 by Glenn T. Seaborg, Ralph A. James and Albert Ghiorso. Curium-242 was obtained by bombarding plutonium-239 with 32-MeV α-particles:
_{94}^{239}Pu + _2^4He -> _{96}^{242}Cm + _0^1n.
The americium-241 and curium-242 isotopes also were produced by irradiating plutonium in a nuclear reactor. The latter element was named after Marie Curie and her husband Pierre who are noted for discovering radium and for their work in radioactivity.
Bombarding curium-242 with α-particles resulted in an isotope of californium 245Cf in 1950, and a similar procedure yielded berkelium-243 from americium-241 in 1949. The new elements were named after Berkeley, California, by analogy with its lanthanide homologue terbium, which was named after the village of Ytterby in Sweden.
In 1945, B. B. Cunningham obtained the first bulk chemical compound of a transplutonium element, namely americium hydroxide. Over the few years, milligram quantities of americium and microgram amounts of curium were accumulated that allowed production of isotopes of berkelium and californium. Sizeable amounts of these elements were produced in 1958, and the first californium compound (0.3 μg of CfOCl) was obtained in 1960 by B. B. Cunningham and J. C. Wallmann. | Actinide | Wikipedia | 350 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Einsteinium and fermium were identified in 1952–1953 in the fallout from the "Ivy Mike" nuclear test (1 November 1952), the first successful test of a hydrogen bomb. Instantaneous exposure of uranium-238 to a large neutron flux resulting from the explosion produced heavy isotopes of uranium, which underwent a series of beta decays to nuclides such as einsteinium-253 and fermium-255. The discovery of the new elements and the new data on neutron capture were initially kept secret on the orders of the US military until 1955 due to Cold War tensions. Nevertheless, the Berkeley team were able to prepare einsteinium and fermium by civilian means, through the neutron bombardment of plutonium-239, and published this work in 1954 with the disclaimer that it was not the first studies that had been carried out on those elements. The "Ivy Mike" studies were declassified and published in 1955. The first significant (submicrogram) amounts of einsteinium were produced in 1961 by Cunningham and colleagues, but this has not been done for fermium yet.
The first isotope of mendelevium, 256Md (half-life 87 min), was synthesized by Albert Ghiorso, Glenn T. Seaborg, Gregory Robert Choppin, Bernard G. Harvey and Stanley Gerald Thompson when they bombarded an 253Es target with alpha particles in the 60-inch cyclotron of Berkeley Radiation Laboratory; this was the first isotope of any element to be synthesized one atom at a time.
There were several attempts to obtain isotopes of nobelium by Swedish (1957) and American (1958) groups, but the first reliable result was the synthesis of 256No by the Russian group of Georgy Flyorov in 1965, as acknowledged by the IUPAC in 1992. In their experiments, Flyorov et al. bombarded uranium-238 with neon-22.
In 1961, Ghiorso et al. obtained the first isotope of lawrencium by irradiating californium (mostly californium-252) with boron-10 and boron-11 ions. The mass number of this isotope was not clearly established (possibly 258 or 259) at the time. In 1965, 256Lr was synthesized by Flyorov et al. from 243Am and 18O. Thus IUPAC recognized the nuclear physics teams at Dubna and Berkeley as the co-discoverers of lawrencium.
Isotopes | Actinide | Wikipedia | 505 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Thirty-four isotopes of actinium and eight excited isomeric states of some of its nuclides are known, ranging in mass number from 203 to 236. Three isotopes, 225Ac, 227Ac and 228Ac, were found in nature and the others were produced in the laboratory; only the three natural isotopes are used in applications. Actinium-225 is a member of the radioactive neptunium series; it was first discovered in 1947 as a decay product of uranium-233 and it is an α-emitter with a half-life of 10 days. Actinium-225 is less available than actinium-228, but is more promising in radiotracer applications. Actinium-227 (half-life 21.77 years) occurs in all uranium ores, but in small quantities. One gram of uranium (in radioactive equilibrium) contains only 2 gram of 227Ac. Actinium-228 is a member of the radioactive thorium series formed by the decay of 228Ra; it is a β− emitter with a half-life of 6.15 hours. In one tonne of thorium there is 5 gram of 228Ac. It was discovered by Otto Hahn in 1906.
There are 32 known isotopes of thorium ranging in mass number from 207 to 238. Of these, the longest-lived is 232Th, whose half-life of means that it still exists in nature as a primordial nuclide. The next longest-lived is 230Th, an intermediate decay product of 238U with a half-life of 75,400 years. Several other thorium isotopes have half-lives over a day; all of these are also transient in the decay chains of 232Th, 235U, and 238U.
Twenty-nine isotopes of protactinium are known with mass numbers 211–239 as well as three excited isomeric states. Only 231Pa and 234Pa have been found in nature. All the isotopes have short lifetimes, except for protactinium-231 (half-life 32,760 years). The most important isotopes are 231Pa and 233Pa, which is an intermediate product in obtaining uranium-233 and is the most affordable among artificial isotopes of protactinium. 233Pa has convenient half-life and energy of γ-radiation, and thus was used in most studies of protactinium chemistry. Protactinium-233 is a β-emitter with a half-life of 26.97 days. | Actinide | Wikipedia | 511 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
There are 27 known isotopes of uranium, having mass numbers 215–242 (except 220). Three of them, 234U, 235U and 238U, are present in appreciable quantities in nature. Among others, the most important is 233U, which is a final product of transformation of 232Th irradiated by slow neutrons. 233U has a much higher fission efficiency by low-energy (thermal) neutrons, compared e.g. with 235U. Most uranium chemistry studies were carried out on uranium-238 owing to its long half-life of 4.4 years.
There are 25 isotopes of neptunium with mass numbers 219–244 (except 221); they are all highly radioactive. The most popular among scientists are long-lived 237Np (t1/2 = 2.20 years) and short-lived 239Np, 238Np (t1/2 ~ 2 days).
There are 21 known isotopes of plutonium, having mass numbers 227–247. The most stable isotope of plutonium is 244Pu with half-life of 8.13 years.
Eighteen isotopes of americium are known with mass numbers from 229 to 247 (with the exception of 231). The most important are 241Am and 243Am, which are alpha-emitters and also emit soft, but intense γ-rays; both of them can be obtained in an isotopically pure form. Chemical properties of americium were first studied with 241Am, but later shifted to 243Am, which is almost 20 times less radioactive. The disadvantage of 243Am is production of the short-lived daughter isotope 239Np, which has to be considered in the data analysis. | Actinide | Wikipedia | 349 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Among 19 isotopes of curium, ranging in mass number from 233 to 251, the most accessible are 242Cm and 244Cm; they are α-emitters, but with much shorter lifetime than the americium isotopes. These isotopes emit almost no γ-radiation, but undergo spontaneous fission with the associated emission of neutrons. More long-lived isotopes of curium (245–248Cm, all α-emitters) are formed as a mixture during neutron irradiation of plutonium or americium. Upon short irradiation, this mixture is dominated by 246Cm, and then 248Cm begins to accumulate. Both of these isotopes, especially 248Cm, have a longer half-life (3.48 years) and are much more convenient for carrying out chemical research than 242Cm and 244Cm, but they also have a rather high rate of spontaneous fission. 247Cm has the longest lifetime among isotopes of curium (1.56 years), but is not formed in large quantities because of the strong fission induced by thermal neutrons.
Seventeen isotopes of berkelium have been identified with mass numbers 233, 234, 236, 238, and 240–252. Only 249Bk is available in large quantities; it has a relatively short half-life of 330 days and emits mostly soft β-particles, which are inconvenient for detection. Its alpha radiation is rather weak (1.45% with respect to β-radiation), but is sometimes used to detect this isotope. 247Bk is an alpha-emitter with a long half-life of 1,380 years, but it is hard to obtain in appreciable quantities; it is not formed upon neutron irradiation of plutonium because β-decay of curium isotopes with mass number below 248 is not known. (247Cm would actually release energy by β-decaying to 247Bk, but this has never been seen.) | Actinide | Wikipedia | 401 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
The 20 isotopes of californium with mass numbers 237–256 are formed in nuclear reactors; californium-253 is a β-emitter and the rest are α-emitters. The isotopes with even mass numbers (250Cf, 252Cf and 254Cf) have a high rate of spontaneous fission, especially 254Cf of which 99.7% decays by spontaneous fission. Californium-249 has a relatively long half-life (352 years), weak spontaneous fission and strong γ-emission that facilitates its identification. 249Cf is not formed in large quantities in a nuclear reactor because of the slow β-decay of the parent isotope 249Bk and a large cross section of interaction with neutrons, but it can be accumulated in the isotopically pure form as the β-decay product of (pre-selected) 249Bk. Californium produced by reactor-irradiation of plutonium mostly consists of 250Cf and 252Cf, the latter being predominant for large neutron fluences, and its study is hindered by the strong neutron radiation.
Among the 18 known isotopes of einsteinium with mass numbers from 240 to 257, the most affordable is 253Es. It is an α-emitter with a half-life of 20.47 days, a relatively weak γ-emission and small spontaneous fission rate as compared with the isotopes of californium. Prolonged neutron irradiation also produces a long-lived isotope 254Es (t1/2 = 275.5 days).
Twenty isotopes of fermium are known with mass numbers of 241–260. 254Fm, 255Fm and 256Fm are α-emitters with a short half-life (hours), which can be isolated in significant amounts. 257Fm (t1/2 = 100 days) can accumulate upon prolonged and strong irradiation. All these isotopes are characterized by high rates of spontaneous fission.
Among the 17 known isotopes of mendelevium (mass numbers from 244 to 260), the most studied is 256Md, which mainly decays through electron capture (α-radiation is ≈10%) with a half-life of 77 minutes. Another alpha emitter, 258Md, has a half-life of 53 days. Both these isotopes are produced from rare einsteinium (253Es and 255Es respectively), that therefore limits their availability. | Actinide | Wikipedia | 498 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Long-lived isotopes of nobelium and isotopes of lawrencium (and of heavier elements) have relatively short half-lives. For nobelium, 13 isotopes are known, with mass numbers 249–260 and 262. The chemical properties of nobelium and lawrencium were studied with 255No (t1/2 = 3 min) and 256Lr (t1/2 = 35 s). The longest-lived nobelium isotope, 259No, has a half-life of approximately 1 hour. Lawrencium has 14 known isotopes with mass numbers 251–262, 264, and 266. The most stable of them is 266Lr with a half life of 11 hours.
Among all of these, the only isotopes that occur in sufficient quantities in nature to be detected in anything more than traces and have a measurable contribution to the atomic weights of the actinides are the primordial 232Th, 235U, and 238U, and three long-lived decay products of natural uranium, 230Th, 231Pa, and 234U. Natural thorium consists of 0.02(2)% 230Th and 99.98(2)% 232Th; natural protactinium consists of 100% 231Pa; and natural uranium consists of 0.0054(5)% 234U, 0.7204(6)% 235U, and 99.2742(10)% 238U.
Formation in nuclear reactors
The figure buildup of actinides is a table of nuclides with the number of neutrons on the horizontal axis (isotopes) and the number of protons on the vertical axis (elements). The red dot divides the nuclides in two groups, so the figure is more compact. Each nuclide is represented by a square with the mass number of the element and its half-life. Naturally existing actinide isotopes (Th, U) are marked with a bold border, alpha emitters have a yellow colour, and beta emitters have a blue colour. Pink indicates electron capture (236Np), whereas white stands for a long-lasting metastable state (242Am). | Actinide | Wikipedia | 445 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
The formation of actinide nuclides is primarily characterised by:
Neutron capture reactions (n,γ), which are represented in the figure by a short right arrow.
The (n,2n) reactions and the less frequently occurring (γ,n) reactions are also taken into account, both of which are marked by a short left arrow.
Even more rarely and only triggered by fast neutrons, the (n,3n) reaction occurs, which is represented in the figure with one example, marked by a long left arrow.
In addition to these neutron- or gamma-induced nuclear reactions, the radioactive conversion of actinide nuclides also affects the nuclide inventory in a reactor. These decay types are marked in the figure by diagonal arrows. The beta-minus decay, marked with an arrow pointing up-left, plays a major role for the balance of the particle densities of the nuclides. Nuclides decaying by positron emission (beta-plus decay) or electron capture (ϵ) do not occur in a nuclear reactor except as products of knockout reactions; their decays are marked with arrows pointing down-right. Due to the long half-lives of the given nuclides, alpha decay plays almost no role in the formation and decay of the actinides in a power reactor, as the residence time of the nuclear fuel in the reactor core is rather short (a few years). Exceptions are the two relatively short-lived nuclides 242Cm (T1/2 = 163 d) and 236Pu (T1/2 = 2.9 y). Only for these two cases, the α decay is marked on the nuclide map by a long arrow pointing down-left. A few long-lived actinide isotopes, such as 244Pu and 250Cm, cannot be produced in reactors because neutron capture does not happen quickly enough to bypass the short-lived beta-decaying nuclides 243Pu and 249Cm; they can however be generated in nuclear explosions, which have much higher neutron fluxes.
Distribution in nature | Actinide | Wikipedia | 426 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Thorium and uranium are the most abundant actinides in nature with the respective mass concentrations of 16 ppm and 4 ppm. Uranium mostly occurs in the Earth's crust as a mixture of its oxides in the mineral uraninite, which is also called pitchblende because of its black color. There are several dozens of other uranium minerals such as carnotite (KUO2VO4·3H2O) and autunite (Ca(UO2)2(PO4)2·nH2O). The isotopic composition of natural uranium is 238U (relative abundance 99.2742%), 235U (0.7204%) and 234U (0.0054%); of these 238U has the largest half-life of 4.51 years. The worldwide production of uranium in 2009 amounted to 50,572 tonnes, of which 27.3% was mined in Kazakhstan. Other important uranium mining countries are Canada (20.1%), Australia (15.7%), Namibia (9.1%), Russia (7.0%), and Niger (6.4%).
The most abundant thorium minerals are thorianite (), thorite () and monazite, (). Most thorium minerals contain uranium and vice versa; and they all have significant fraction of lanthanides. Rich deposits of thorium minerals are located in the United States (440,000 tonnes), Australia and India (~300,000 tonnes each) and Canada (~100,000 tonnes).
The abundance of actinium in the Earth's crust is only about 5%. Actinium is mostly present in uranium-containing, but also in other minerals, though in much smaller quantities. The content of actinium in most natural objects corresponds to the isotopic equilibrium of parent isotope 235U, and it is not affected by the weak Ac migration. Protactinium is more abundant (10−12%) in the Earth's crust than actinium. It was discovered in uranium ore in 1913 by Fajans and Göhring. As actinium, the distribution of protactinium follows that of 235U. | Actinide | Wikipedia | 458 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
The half-life of the longest-lived isotope of neptunium, 237Np, is negligible compared to the age of the Earth. Thus neptunium is present in nature in negligible amounts produced as intermediate decay products of other isotopes. Traces of plutonium in uranium minerals were first found in 1942, and the more systematic results on 239Pu are summarized in the table (no other plutonium isotopes could be detected in those samples). The upper limit of abundance of the longest-living isotope of plutonium, 244Pu, is 3%. Plutonium could not be detected in samples of lunar soil. Owing to its scarcity in nature, most plutonium is produced synthetically.
Extraction
Owing to the low abundance of actinides, their extraction is a complex, multistep process. Fluorides of actinides are usually used because they are insoluble in water and can be easily separated with redox reactions. Fluorides are reduced with calcium, magnesium or barium:
Among the actinides, thorium and uranium are the easiest to isolate. Thorium is extracted mostly from monazite: thorium pyrophosphate (ThP2O7) is reacted with nitric acid, and the produced thorium nitrate treated with tributyl phosphate. Rare-earth impurities are separated by increasing the pH in sulfate solution.
In another extraction method, monazite is decomposed with a 45% aqueous solution of sodium hydroxide at 140 °C. Mixed metal hydroxides are extracted first, filtered at 80 °C, washed with water and dissolved with concentrated hydrochloric acid. Next, the acidic solution is neutralized with hydroxides to pH = 5.8 that results in precipitation of thorium hydroxide (Th(OH)4) contaminated with ~3% of rare-earth hydroxides; the rest of rare-earth hydroxides remains in solution. Thorium hydroxide is dissolved in an inorganic acid and then purified from the rare earth elements. An efficient method is the dissolution of thorium hydroxide in nitric acid, because the resulting solution can be purified by extraction with organic solvents:
Th(OH)4 + 4 HNO3 → Th(NO3)4 + 4 H2O
Metallic thorium is separated from the anhydrous oxide, chloride or fluoride by reacting it with calcium in an inert atmosphere: | Actinide | Wikipedia | 503 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
ThO2 + 2 Ca → 2 CaO + Th
Sometimes thorium is extracted by electrolysis of a fluoride in a mixture of sodium and potassium chloride at 700–800 °C in a graphite crucible. Highly pure thorium can be extracted from its iodide with the crystal bar process.
Uranium is extracted from its ores in various ways. In one method, the ore is burned and then reacted with nitric acid to convert uranium into a dissolved state. Treating the solution with a solution of tributyl phosphate (TBP) in kerosene transforms uranium into an organic form UO2(NO3)2(TBP)2. The insoluble impurities are filtered and the uranium is extracted by reaction with hydroxides as (NH4)2U2O7 or with hydrogen peroxide as UO4·2H2O.
When the uranium ore is rich in such minerals as dolomite, magnesite, etc., those minerals consume much acid. In this case, the carbonate method is used for uranium extraction. Its main component is an aqueous solution of sodium carbonate, which converts uranium into a complex [UO2(CO3)3]4−, which is stable in aqueous solutions at low concentrations of hydroxide ions. The advantages of the sodium carbonate method are that the chemicals have low corrosivity (compared to nitrates) and that most non-uranium metals precipitate from the solution. The disadvantage is that tetravalent uranium compounds precipitate as well. Therefore, the uranium ore is treated with sodium carbonate at elevated temperature and under oxygen pressure:
2 UO2 + O2 + 6 → 2 [UO2(CO3)3]4−
This equation suggests that the best solvent for the uranyl carbonate processing is a mixture of carbonate with bicarbonate. At high pH, this results in precipitation of diuranate, which is treated with hydrogen in the presence of nickel yielding an insoluble uranium tetracarbonate. | Actinide | Wikipedia | 422 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Another separation method uses polymeric resins as a polyelectrolyte. Ion exchange processes in the resins result in separation of uranium. Uranium from resins is washed with a solution of ammonium nitrate or nitric acid that yields uranyl nitrate, UO2(NO3)2·6H2O. When heated, it turns into UO3, which is converted to UO2 with hydrogen:
UO3 + H2 → UO2 + H2O
Reacting uranium dioxide with hydrofluoric acid changes it to uranium tetrafluoride, which yields uranium metal upon reaction with magnesium metal:
4 HF + UO2 → UF4 + 2 H2O
To extract plutonium, neutron-irradiated uranium is dissolved in nitric acid, and a reducing agent (FeSO4, or H2O2) is added to the resulting solution. This addition changes the oxidation state of plutonium from +6 to +4, while uranium remains in the form of uranyl nitrate (UO2(NO3)2). The solution is treated with a reducing agent and neutralized with ammonium carbonate to pH = 8 that results in precipitation of Pu4+ compounds.
In another method, Pu4+ and are first extracted with tributyl phosphate, then reacted with hydrazine washing out the recovered plutonium.
The major difficulty in separation of actinium is the similarity of its properties with those of lanthanum. Thus actinium is either synthesized in nuclear reactions from isotopes of radium or separated using ion-exchange procedures. | Actinide | Wikipedia | 327 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Properties
Actinides have similar properties to lanthanides. Just as the 4f electron shells are filled in the lanthanides, the 5f electron shells are filled in the actinides. Because the 5f, 6d, 7s, and 7p shells are close in energy, many irregular configurations arise; thus, in gas-phase atoms, just as the first 4f electron only appears in cerium, so the first 5f electron appears even later, in protactinium. However, just as lanthanum is the first element to use the 4f shell in compounds, so actinium is the first element to use the 5f shell in compounds. The f-shells complete their filling together, at ytterbium and nobelium. The first experimental evidence for the filling of the 5f shell in actinides was obtained by McMillan and Abelson in 1940. As in lanthanides (see lanthanide contraction), the ionic radius of actinides monotonically decreases with atomic number (see also actinoid contraction).
The shift of electron configurations in the gas phase does not always match the chemical behaviour. For example, the early-transition-metal-like prominence of the highest oxidation state, corresponding to removal of all valence electrons, extends up to uranium even though the 5f shells begin filling before that. On the other hand, electron configurations resembling the lanthanide congeners already begin at plutonium, even though lanthanide-like behaviour does not become dominant until the second half of the series begins at curium. The elements between uranium and curium form a transition between these two kinds of behaviour, where higher oxidation states continue to exist, but lose stability with respect to the +3 state. The +2 state becomes more important near the end of the series, and is the most stable oxidation state for nobelium, the last 5f element. Oxidation states rise again only after nobelium, showing that a new series of 6d transition metals has begun: lawrencium shows only the +3 oxidation state, and rutherfordium only the +4 state, making them respectively congeners of lutetium and hafnium in the 5d row.
Physical properties | Actinide | Wikipedia | 454 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Actinides are typical metals. All of them are soft and have a silvery color (but tarnish in air), relatively high density and plasticity. Some of them can be cut with a knife. Their electrical resistivity varies between 15 and 150 μΩ·cm. The hardness of thorium is similar to that of soft steel, so heated pure thorium can be rolled in sheets and pulled into wire. Thorium is nearly half as dense as uranium and plutonium, but is harder than either of them. All actinides are radioactive, paramagnetic, and, with the exception of actinium, have several crystalline phases: plutonium has seven, and uranium, neptunium and californium three. The crystal structures of protactinium, uranium, neptunium and plutonium do not have clear analogs among the lanthanides and are more similar to those of the 3d-transition metals.
All actinides are pyrophoric, especially when finely divided, that is, they spontaneously ignite upon reaction with air at room temperature. The melting point of actinides does not have a clear dependence on the number of f-electrons. The unusually low melting point of neptunium and plutonium (~640 °C) is explained by hybridization of 5f and 6d orbitals and the formation of directional bonds in these metals.
Chemical properties
Like the lanthanides, all actinides are highly reactive with halogens and chalcogens; however, the actinides react more easily. Actinides, especially those with a small number of 5f-electrons, are prone to hybridization. This is explained by the similarity of the electron energies at the 5f, 7s and 6d shells. Most actinides exhibit a larger variety of valence states, and the most stable are +6 for uranium, +5 for protactinium and neptunium, +4 for thorium and plutonium and +3 for actinium and other actinides.
Actinium is chemically similar to lanthanum, which is explained by their similar ionic radii and electronic structures. Like lanthanum, actinium almost always has an oxidation state of +3 in compounds, but it is less reactive and has more pronounced basic properties. Among other trivalent actinides Ac3+ is least acidic, i.e. has the weakest tendency to hydrolyze in aqueous solutions. | Actinide | Wikipedia | 507 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Thorium is rather active chemically. Owing to lack of electrons on 6d and 5f orbitals, tetravalent thorium compounds are colorless. At pH < 3, solutions of thorium salts are dominated by the cations [Th(H2O)8]4+. The Th4+ ion is relatively large, and depending on the coordination number can have a radius between 0.95 and 1.14 Å. As a result, thorium salts have a weak tendency to hydrolyse. The distinctive ability of thorium salts is their high solubility both in water and polar organic solvents.
Protactinium exhibits two valence states; the +5 is stable, and the +4 state easily oxidizes to protactinium(V). Thus tetravalent protactinium in solutions is obtained by the action of strong reducing agents in a hydrogen atmosphere. Tetravalent protactinium is chemically similar to uranium(IV) and thorium(IV). Fluorides, phosphates, hypophosphates, iodates and phenylarsonates of protactinium(IV) are insoluble in water and dilute acids. Protactinium forms soluble carbonates. The hydrolytic properties of pentavalent protactinium are close to those of tantalum(V) and niobium(V). The complex chemical behavior of protactinium is a consequence of the start of the filling of the 5f shell in this element. | Actinide | Wikipedia | 318 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Uranium has a valence from 3 to 6, the last being most stable. In the hexavalent state, uranium is very similar to the group 6 elements. Many compounds of uranium(IV) and uranium(VI) are non-stoichiometric, i.e. have variable composition. For example, the actual chemical formula of uranium dioxide is UO2+x, where x varies between −0.4 and 0.32. Uranium(VI) compounds are weak oxidants. Most of them contain the linear "uranyl" group, . Between 4 and 6 ligands can be accommodated in an equatorial plane perpendicular to the uranyl group. The uranyl group acts as a hard acid and forms stronger complexes with oxygen-donor ligands than with nitrogen-donor ligands. and are also the common form of Np and Pu in the +6 oxidation state. Uranium(IV) compounds exhibit reducing properties, e.g., they are easily oxidized by atmospheric oxygen. Uranium(III) is a very strong reducing agent. Owing to the presence of d-shell, uranium (as well as many other actinides) forms organometallic compounds, such as UIII(C5H5)3 and UIV(C5H5)4.
Neptunium has valence states from 3 to 7, which can be simultaneously observed in solutions. The most stable state in solution is +5, but the valence +4 is preferred in solid neptunium compounds. Neptunium metal is very reactive. Ions of neptunium are prone to hydrolysis and formation of coordination compounds.
Plutonium also exhibits valence states between 3 and 7 inclusive, and thus is chemically similar to neptunium and uranium. It is highly reactive, and quickly forms an oxide film in air. Plutonium reacts with hydrogen even at temperatures as low as 25–50 °C; it also easily forms halides and intermetallic compounds. Hydrolysis reactions of plutonium ions of different oxidation states are quite diverse. Plutonium(V) can enter polymerization reactions. | Actinide | Wikipedia | 435 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
The largest chemical diversity among actinides is observed in americium, which can have valence between 2 and 6. Divalent americium is obtained only in dry compounds and non-aqueous solutions (acetonitrile). Oxidation states +3, +5 and +6 are typical for aqueous solutions, but also in the solid state. Tetravalent americium forms stable solid compounds (dioxide, fluoride and hydroxide) as well as complexes in aqueous solutions. It was reported that in alkaline solution americium can be oxidized to the heptavalent state, but these data proved erroneous. The most stable valence of americium is 3 in aqueous solution and 3 or 4 in solid compounds.
Valence 3 is dominant in all subsequent elements up to lawrencium (with the exception of nobelium). Curium can be tetravalent in solids (fluoride, dioxide). Berkelium, along with a valence of +3, also shows the valence of +4, more stable than that of curium; the valence 4 is observed in solid fluoride and dioxide. The stability of Bk4+ in aqueous solution is close to that of Ce4+. Only valence 3 was observed for californium, einsteinium and fermium. The divalent state is proven for mendelevium and nobelium, and in nobelium it is more stable than the trivalent state. Lawrencium shows valence 3 both in solutions and solids.
The redox potential \mathit E_\frac{M^4+}{AnO2^2+} increases from −0.32 V in uranium, through 0.34 V (Np) and 1.04 V (Pu) to 1.34 V in americium revealing the increasing reduction ability of the An4+ ion from americium to uranium. All actinides form AnH3 hydrides of black color with salt-like properties. Actinides also produce carbides with the general formula of AnC or AnC2 (U2C3 for uranium) as well as sulfides An2S3 and AnS2.
Compounds
Oxides and hydroxides
An – actinide **Depending on the isotopes | Actinide | Wikipedia | 489 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Some actinides can exist in several oxide forms such as An2O3, AnO2, An2O5 and AnO3. For all actinides, oxides AnO3 are amphoteric and An2O3, AnO2 and An2O5 are basic, they easily react with water, forming bases:
An2O3 + 3 H2O → 2 An(OH)3.
These bases are poorly soluble in water and by their activity are close to the hydroxides of rare-earth metals.
Np(OH)3 has not yet been synthesized, Pu(OH)3 has a blue color while Am(OH)3 is pink and Cm(OH)3 is colorless. Bk(OH)3 and Cf(OH)3 are also known, as are tetravalent hydroxides for Np, Pu and Am and pentavalent for Np and Am.
The strongest base is of actinium. All compounds of actinium are colorless, except for black actinium sulfide (Ac2S3). Dioxides of tetravalent actinides crystallize in the cubic system, same as in calcium fluoride.
Thorium reacting with oxygen exclusively forms the dioxide:
Th{} + O2 ->[\ce{1000^\circ C}] \overbrace{ThO2}^{Thorium~dioxide}
Thorium dioxide is a refractory material with the highest melting point among any known oxide (3390 °C). Adding 0.8–1% ThO2 to tungsten stabilizes its structure, so the doped filaments have better mechanical stability to vibrations. To dissolve ThO2 in acids, it is heated to 500–600 °C; heating above 600 °C produces a very resistant to acids and other reagents form of ThO2. Small addition of fluoride ions catalyses dissolution of thorium dioxide in acids.
Two protactinium oxides have been obtained: PaO2 (black) and Pa2O5 (white); the former is isomorphic with ThO2 and the latter is easier to obtain. Both oxides are basic, and Pa(OH)5 is a weak, poorly soluble base. | Actinide | Wikipedia | 460 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Decomposition of certain salts of uranium, for example UO2(NO3)·6H2O in air at 400 °C, yields orange or yellow UO3. This oxide is amphoteric and forms several hydroxides, the most stable being uranyl hydroxide UO2(OH)2. Reaction of uranium(VI) oxide with hydrogen results in uranium dioxide, which is similar in its properties with ThO2. This oxide is also basic and corresponds to the uranium hydroxide U(OH)4.
Plutonium, neptunium and americium form two basic oxides: An2O3 and AnO2. Neptunium trioxide is unstable; thus, only Np3O8 could be obtained so far. However, the oxides of plutonium and neptunium with the chemical formula AnO2 and An2O3 are well characterized.
Salts
*An – actinide **Depending on the isotopes
Actinides easily react with halogens forming salts with the formulas MX3 and MX4 (X = halogen). So the first berkelium compound, BkCl3, was synthesized in 1962 with an amount of 3 nanograms. Like the halogens of rare earth elements, actinide chlorides, bromides, and iodides are water-soluble, and fluorides are insoluble. Uranium easily yields a colorless hexafluoride, which sublimates at a temperature of 56.5 °C; because of its volatility, it is used in the separation of uranium isotopes with gas centrifuge or gaseous diffusion. Actinide hexafluorides have properties close to anhydrides. They are very sensitive to moisture and hydrolyze forming AnO2F2. The pentachloride and black hexachloride of uranium were synthesized, but they are both unstable.
Action of acids on actinides yields salts, and if the acids are non-oxidizing then the actinide in the salt is in low-valence state:
U + 2 H2SO4 → U(SO4)2 + 2 H2
2 Pu + 6 HCl → 2 PuCl3 + 3 H2
However, in these reactions the regenerating hydrogen can react with the metal, forming the corresponding hydride. Uranium reacts with acids and water much more easily than thorium. | Actinide | Wikipedia | 503 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Actinide salts can also be obtained by dissolving the corresponding hydroxides in acids. Nitrates, chlorides, sulfates and perchlorates of actinides are water-soluble. When crystallizing from aqueous solutions, these salts form hydrates, such as Th(NO3)4·6H2O, Th(SO4)2·9H2O and Pu2(SO4)3·7H2O. Salts of high-valence actinides easily hydrolyze. So, colorless sulfate, chloride, perchlorate and nitrate of thorium transform into basic salts with formulas Th(OH)2SO4 and Th(OH)3NO3. The solubility and insolubility of trivalent and tetravalent actinides is like that of lanthanide salts. So phosphates, fluorides, oxalates, iodates and carbonates of actinides are weakly soluble in water; they precipitate as hydrates, such as ThF4·3H2O and Th(CrO4)2·3H2O. | Actinide | Wikipedia | 236 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Actinides with oxidation state +6, except for the AnO22+-type cations, form [AnO4]2−, [An2O7]2− and other complex anions. For example, uranium, neptunium and plutonium form salts of the Na2UO4 (uranate) and (NH4)2U2O7 (diuranate) types. In comparison with lanthanides, actinides more easily form coordination compounds, and this ability increases with the actinide valence. Trivalent actinides do not form fluoride coordination compounds, whereas tetravalent thorium forms K2ThF6, KThF5, and even K5ThF9 complexes. Thorium also forms the corresponding sulfates (for example Na2SO4·Th(SO4)2·5H2O), nitrates and thiocyanates. Salts with the general formula An2Th(NO3)6·nH2O are of coordination nature, with the coordination number of thorium equal to 12. Even easier is to produce complex salts of pentavalent and hexavalent actinides. The most stable coordination compounds of actinides – tetravalent thorium and uranium – are obtained in reactions with diketones, e.g. acetylacetone.
Applications
While actinides have some established daily-life applications, such as in smoke detectors (americium) and gas mantles (thorium), they are mostly used in nuclear weapons and as fuel in nuclear reactors. The last two areas exploit the property of actinides to release enormous energy in nuclear reactions, which under certain conditions may become self-sustaining chain reactions.
The most important isotope for nuclear power applications is uranium-235. It is used in the thermal reactor, and its concentration in natural uranium does not exceed 0.72%. This isotope strongly absorbs thermal neutrons releasing much energy. One fission act of 1 gram of 235U converts into about 1 MW·day. Of importance, is that emits more neutrons than it absorbs; upon reaching the critical mass, enters into a self-sustaining chain reaction. Typically, uranium nucleus is divided into two fragments with the release of 2–3 neutrons, for example:
+ ⟶ + + 3
Other promising actinide isotopes for nuclear power are thorium-232 and its product from the thorium fuel cycle, uranium-233. | Actinide | Wikipedia | 508 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Emission of neutrons during the fission of uranium is important not only for maintaining the nuclear chain reaction, but also for the synthesis of the heavier actinides. Uranium-239 converts via β-decay into plutonium-239, which, like uranium-235, is capable of spontaneous fission. The world's first nuclear reactors were built not for energy, but for producing plutonium-239 for nuclear weapons.
About half of produced thorium is used as the light-emitting material of gas mantles. Thorium is also added into multicomponent alloys of magnesium and zinc. Mg-Th alloys are light and strong, but also have high melting point and ductility and thus are widely used in the aviation industry and in the production of missiles. Thorium also has good electron emission properties, with long lifetime and low potential barrier for the emission. The relative content of thorium and uranium isotopes is widely used to estimate the age of various objects, including stars (see radiometric dating).
The major application of plutonium has been in nuclear weapons, where the isotope plutonium-239 was a key component due to its ease of fission and availability. Plutonium-based designs allow reducing the critical mass to about a third of that for uranium-235. The "Fat Man"-type plutonium bombs produced during the Manhattan Project used explosive compression of plutonium to obtain significantly higher densities than normal, combined with a central neutron source to begin the reaction and increase efficiency. Thus only 6.2 kg of plutonium was needed for an explosive yield equivalent to 20 kilotons of TNT. ( | Actinide | Wikipedia | 325 | 2308 | https://en.wikipedia.org/wiki/Actinide | Physical sciences | Chemical element groups | null |
Alkaloids are a broad class of naturally occurring organic compounds that contain at least one nitrogen atom. Some synthetic compounds of similar structure may also be termed alkaloids.
Alkaloids are produced by a large variety of organisms including bacteria, fungi, plants, and animals. They can be purified from crude extracts of these organisms by acid-base extraction, or solvent extractions followed by silica-gel column chromatography. Alkaloids have a wide range of pharmacological activities including antimalarial (e.g. quinine), antiasthma (e.g. ephedrine), anticancer (e.g. homoharringtonine), cholinomimetic (e.g. galantamine), vasodilatory (e.g. vincamine), antiarrhythmic (e.g. quinidine), analgesic (e.g. morphine), antibacterial (e.g. chelerythrine), and antihyperglycemic activities (e.g. berberine). Many have found use in traditional or modern medicine, or as starting points for drug discovery. Other alkaloids possess psychotropic (e.g. psilocin) and stimulant activities (e.g. cocaine, caffeine, nicotine, theobromine), and have been used in entheogenic rituals or as recreational drugs. Alkaloids can be toxic too (e.g. atropine, tubocurarine). Although alkaloids act on a diversity of metabolic systems in humans and other animals, they almost uniformly evoke a bitter taste. | Alkaloid | Wikipedia | 355 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
The boundary between alkaloids and other nitrogen-containing natural compounds is not clear-cut. Most alkaloids are basic, although some have neutral and even weakly acidic properties. In addition to carbon, hydrogen and nitrogen, alkaloids may also contain oxygen or sulfur. Rarer still, they may contain elements such as phosphorus, chlorine, and bromine. Compounds like amino acid peptides, proteins, nucleotides, nucleic acid, amines, and antibiotics are usually not called alkaloids. Natural compounds containing nitrogen in the exocyclic position (mescaline, serotonin, dopamine, etc.) are usually classified as amines rather than as alkaloids. Some authors, however, consider alkaloids a special case of amines.
Naming
The name "alkaloids" () was introduced in 1819 by German chemist Carl Friedrich Wilhelm Meissner, and is derived from late Latin root and the Greek-language suffix -('like'). However, the term came into wide use only after the publication of a review article, by Oscar Jacobsen in the chemical dictionary of Albert Ladenburg in the 1880s.
There is no unique method for naming alkaloids. Many individual names are formed by adding the suffix "ine" to the species or genus name. For example, atropine is isolated from the plant Atropa belladonna; strychnine is obtained from the seed of the Strychnine tree (Strychnos nux-vomica L.). Where several alkaloids are extracted from one plant their names are often distinguished by variations in the suffix: "idine", "anine", "aline", "inine" etc. There are also at least 86 alkaloids whose names contain the root "vin" because they are extracted from vinca plants such as Vinca rosea (Catharanthus roseus); these are called vinca alkaloids.
History | Alkaloid | Wikipedia | 412 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
Alkaloid-containing plants have been used by humans since ancient times for therapeutic and recreational purposes. For example, medicinal plants have been known in Mesopotamia from about 2000 BC. The Odyssey of Homer referred to a gift given to Helen by the Egyptian queen, a drug bringing oblivion. It is believed that the gift was an opium-containing drug. A Chinese book on houseplants written in 1st–3rd centuries BC mentioned a medical use of ephedra and opium poppies. Also, coca leaves have been used by Indigenous South Americans since ancient times.
Extracts from plants containing toxic alkaloids, such as aconitine and tubocurarine, were used since antiquity for poisoning arrows.
Studies of alkaloids began in the 19th century. In 1804, the German chemist Friedrich Sertürner isolated from opium a "soporific principle" (), which he called "morphium", referring to Morpheus, the Greek god of dreams; in German and some other Central-European languages, this is still the name of the drug. The term "morphine", used in English and French, was given by the French physicist Joseph Louis Gay-Lussac.
A significant contribution to the chemistry of alkaloids in the early years of its development was made by the French researchers Pierre Joseph Pelletier and Joseph Bienaimé Caventou, who discovered quinine (1820) and strychnine (1818). Several other alkaloids were discovered around that time, including xanthine (1817), atropine (1819), caffeine (1820), coniine (1827), nicotine (1828), colchicine (1833), sparteine (1851), and cocaine (1860). The development of the chemistry of alkaloids was accelerated by the emergence of spectroscopic and chromatographic methods in the 20th century, so that by 2008 more than 12,000 alkaloids had been identified.
The first complete synthesis of an alkaloid was achieved in 1886 by the German chemist Albert Ladenburg. He produced coniine by reacting 2-methylpyridine with acetaldehyde and reducing the resulting 2-propenyl pyridine with sodium.
Classifications
Compared with most other classes of natural compounds, alkaloids are characterized by a great structural diversity. There is no uniform classification. Initially, when knowledge of chemical structures was lacking, botanical classification of the source plants was relied on. This classification is now considered obsolete. | Alkaloid | Wikipedia | 512 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
More recent classifications are based on similarity of the carbon skeleton (e.g., indole-, isoquinoline-, and pyridine-like) or biochemical precursor (ornithine, lysine, tyrosine, tryptophan, etc.). However, they require compromises in borderline cases; for example, nicotine contains a pyridine fragment from nicotinamide and a pyrrolidine part from ornithine and therefore can be assigned to both classes.
Alkaloids are often divided into the following major groups:
"True alkaloids" contain nitrogen in the heterocycle and originate from amino acids. Their characteristic examples are atropine, nicotine, and morphine. This group also includes some alkaloids that besides the nitrogen heterocycle contain terpene (e.g., evonine) or peptide fragments (e.g. ergotamine). The piperidine alkaloids coniine and coniceine may be regarded as true alkaloids (rather than pseudoalkaloids: see below) although they do not originate from amino acids.
"Protoalkaloids", which contain nitrogen (but not the nitrogen heterocycle) and also originate from amino acids. Examples include mescaline, adrenaline and ephedrine.
Polyamine alkaloids – derivatives of putrescine, spermidine, and spermine.
Peptide and cyclopeptide alkaloids.
Pseudoalkaloids – alkaloid-like compounds that do not originate from amino acids. This group includes terpene-like and steroid-like alkaloids, as well as purine-like alkaloids such as caffeine, theobromine, theacrine and theophylline. Some authors classify ephedrine and cathinone as pseudoalkaloids. Those originate from the amino acid phenylalanine, but acquire their nitrogen atom not from the amino acid but through transamination.
Some alkaloids do not have the carbon skeleton characteristic of their group. So, galanthamine and homoaporphines do not contain isoquinoline fragment, but are, in general, attributed to isoquinoline alkaloids.
Main classes of monomeric alkaloids are listed in the table below: | Alkaloid | Wikipedia | 487 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
Properties
Most alkaloids contain oxygen in their molecular structure; those compounds are usually colorless crystals at ambient conditions. Oxygen-free alkaloids, such as nicotine or coniine, are typically volatile, colorless, oily liquids. Some alkaloids are colored, like berberine (yellow) and sanguinarine (orange).
Most alkaloids are weak bases, but some, such as theobromine and theophylline, are amphoteric. Many alkaloids dissolve poorly in water but readily dissolve in organic solvents, such as diethyl ether, chloroform or 1,2-dichloroethane. Caffeine, cocaine, codeine and nicotine are slightly soluble in water (with a solubility of ≥1g/L), whereas others, including morphine and yohimbine are very slightly water-soluble (0.1–1 g/L). Alkaloids and acids form salts of various strengths. These salts are usually freely soluble in water and ethanol and poorly soluble in most organic solvents. Exceptions include scopolamine hydrobromide, which is soluble in organic solvents, and the water-soluble quinine sulfate.
Most alkaloids have a bitter taste or are poisonous when ingested. Alkaloid production in plants appeared to have evolved in response to feeding by herbivorous animals; however, some animals have evolved the ability to detoxify alkaloids. Some alkaloids can produce developmental defects in the offspring of animals that consume but cannot detoxify the alkaloids. One example is the alkaloid cyclopamine, produced in the leaves of corn lily. During the 1950s, up to 25% of lambs born by sheep that had grazed on corn lily had serious facial deformations. These ranged from deformed jaws to cyclopia. After decades of research, in the 1980s, the compound responsible for these deformities was identified as the alkaloid 11-deoxyjervine, later renamed to cyclopamine.
Distribution in nature
Alkaloids are generated by various living organisms, especially by higher plants – about 10 to 25% of those contain alkaloids. Therefore, in the past the term "alkaloid" was associated with plants. | Alkaloid | Wikipedia | 475 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
The alkaloids content in plants is usually within a few percent and is inhomogeneous over the plant tissues. Depending on the type of plants, the maximum concentration is observed in the leaves (for example, black henbane), fruits or seeds (Strychnine tree), root (Rauvolfia serpentina) or bark (cinchona). Furthermore, different tissues of the same plants may contain different alkaloids.
Beside plants, alkaloids are found in certain types of fungus, such as psilocybin in the fruiting bodies of the genus Psilocybe, and in animals, such as bufotenin in the skin of some toads and a number of insects, markedly ants. Many marine organisms also contain alkaloids. Some amines, such as adrenaline and serotonin, which play an important role in higher animals, are similar to alkaloids in their structure and biosynthesis and are sometimes called alkaloids.
Extraction
Because of the structural diversity of alkaloids, there is no single method of their extraction from natural raw materials. Most methods exploit the property of most alkaloids to be soluble in organic solvents but not in water, and the opposite tendency of their salts.
Most plants contain several alkaloids. Their mixture is extracted first and then individual alkaloids are separated. Plants are thoroughly ground before extraction. Most alkaloids are present in the raw plants in the form of salts of organic acids. The extracted alkaloids may remain salts or change into bases. Base extraction is achieved by processing the raw material with alkaline solutions and extracting the alkaloid bases with organic solvents, such as 1,2-dichloroethane, chloroform, diethyl ether or benzene. Then, the impurities are dissolved by weak acids; this converts alkaloid bases into salts that are washed away with water. If necessary, an aqueous solution of alkaloid salts is again made alkaline and treated with an organic solvent. The process is repeated until the desired purity is achieved. | Alkaloid | Wikipedia | 434 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
In the acidic extraction, the raw plant material is processed by a weak acidic solution (e.g., acetic acid in water, ethanol, or methanol). A base is then added to convert alkaloids to basic forms that are extracted with organic solvent (if the extraction was performed with alcohol, it is removed first, and the remainder is dissolved in water). The solution is purified as described above.
Alkaloids are separated from their mixture using their different solubility in certain solvents and different reactivity with certain reagents or by distillation.
A number of alkaloids are identified from insects, among which the fire ant venom alkaloids known as solenopsins have received greater attention from researchers. These insect alkaloids can be efficiently extracted by solvent immersion of live fire ants or by centrifugation of live ants followed by silica-gel chromatography purification. Tracking and dosing the extracted solenopsin ant alkaloids has been described as possible based on their absorbance peak around 232 nanometers.
Biosynthesis
Biological precursors of most alkaloids are amino acids, such as ornithine, lysine, phenylalanine, tyrosine, tryptophan, histidine, aspartic acid, and anthranilic acid. Nicotinic acid can be synthesized from tryptophan or aspartic acid. Ways of alkaloid biosynthesis are too numerous and cannot be easily classified. However, there are a few typical reactions involved in the biosynthesis of various classes of alkaloids, including synthesis of Schiff bases and Mannich reaction.
Synthesis of Schiff bases
Schiff bases can be obtained by reacting amines with ketones or aldehydes. These reactions are a common method of producing C=N bonds.
In the biosynthesis of alkaloids, such reactions may take place within a molecule, such as in the synthesis of piperidine:
Mannich reaction
An integral component of the Mannich reaction, in addition to an amine and a carbonyl compound, is a carbanion, which plays the role of the nucleophile in the nucleophilic addition to the ion formed by the reaction of the amine and the carbonyl.
The Mannich reaction can proceed both intermolecularly and intramolecularly: | Alkaloid | Wikipedia | 500 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
Dimer alkaloids
In addition to the described above monomeric alkaloids, there are also dimeric, and even trimeric and tetrameric alkaloids formed upon condensation of two, three, and four monomeric alkaloids. Dimeric alkaloids are usually formed from monomers of the same type through the following mechanisms:
Mannich reaction, resulting in, e.g., voacamine
Michael reaction (villalstonine)
Condensation of aldehydes with amines (toxiferine)
Oxidative addition of phenols (dauricine, tubocurarine)
Lactonization (carpaine).
There are also dimeric alkaloids formed from two distinct monomers, such as the vinca alkaloids vinblastine and vincristine, which are formed from the coupling of catharanthine and vindoline. The newer semi-synthetic chemotherapeutic agent vinorelbine is used in the treatment of non-small-cell lung cancer. It is another derivative dimer of vindoline and catharanthine and is synthesised from anhydrovinblastine, starting either from leurosine or the monomers themselves.
Biological role
Alkaloids are among the most important and best-known secondary metabolites, i.e. biogenic substances not directly involved in the normal growth, development, or reproduction of the organism. Instead, they generally mediate ecological interactions, which may produce a selective advantage for the organism by increasing its survivability or fecundity. In some cases their function, if any, remains unclear. An early hypothesis, that alkaloids are the final products of nitrogen metabolism in plants, as urea and uric acid are in mammals, was refuted by the finding that their concentration fluctuates rather than steadily increasing. | Alkaloid | Wikipedia | 389 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
Most of the known functions of alkaloids are related to protection. For example, aporphine alkaloid liriodenine produced by the tulip tree protects it from parasitic mushrooms. In addition, the presence of alkaloids in the plant prevents insects and chordate animals from eating it. However, some animals are adapted to alkaloids and even use them in their own metabolism. Such alkaloid-related substances as serotonin, dopamine and histamine are important neurotransmitters in animals. Alkaloids are also known to regulate plant growth. One example of an organism that uses alkaloids for protection is the Utetheisa ornatrix, more commonly known as the ornate moth. Pyrrolizidine alkaloids render these larvae and adult moths unpalatable to many of their natural enemies like coccinelid beetles, green lacewings, insectivorous hemiptera and insectivorous bats. Another example of alkaloids being utilized occurs in the poison hemlock moth (Agonopterix alstroemeriana). This moth feeds on its highly toxic and alkaloid-rich host plant poison hemlock (Conium maculatum) during its larval stage. A. alstroemeriana may benefit twofold from the toxicity of the naturally-occurring alkaloids, both through the unpalatability of the species to predators and through the ability of A. alstroemeriana to recognize Conium maculatum as the correct location for oviposition. A fire ant venom alkaloid known as solenopsin has been demonstrated to protect queens of invasive fire ants during the foundation of new nests, thus playing a central role in the spread of this pest ant species around the world.
Applications
In medicine
Medical use of alkaloid-containing plants has a long history, and, thus, when the first alkaloids were isolated in the 19th century, they immediately found application in clinical practice. Many alkaloids are still used in medicine, usually in the form of salts widely used including the following:
Many synthetic and semisynthetic drugs are structural modifications of the alkaloids, which were designed to enhance or change the primary effect of the drug and reduce unwanted side-effects. For example, naloxone, an opioid receptor antagonist, is a derivative of thebaine that is present in opium. | Alkaloid | Wikipedia | 497 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
In agriculture
Prior to the development of a wide range of relatively low-toxic synthetic pesticides, some alkaloids, such as salts of nicotine and anabasine, were used as insecticides. Their use was limited by their high toxicity to humans.
Use as psychoactive drugs
Preparations of plants and fungi containing alkaloids and their extracts, and later pure alkaloids, have long been used as psychoactive substances. Cocaine, caffeine, and cathinone are stimulants of the central nervous system. Mescaline and many indole alkaloids (such as psilocybin, dimethyltryptamine and ibogaine) have hallucinogenic effect. Morphine and codeine are strong narcotic pain killers.
There are alkaloids that do not have strong psychoactive effect themselves, but are precursors for semi-synthetic psychoactive drugs. For example, ephedrine and pseudoephedrine are used to produce methcathinone and methamphetamine. Thebaine is used in the synthesis of many painkillers such as oxycodone. | Alkaloid | Wikipedia | 231 | 2341 | https://en.wikipedia.org/wiki/Alkaloid | Biology and health sciences | Biochemistry and molecular biology | null |
In computer science, an abstract data type (ADT) is a mathematical model for data types, defined by its behavior (semantics) from the point of view of a user of the data, specifically in terms of possible values, possible operations on data of this type, and the behavior of these operations. This mathematical model contrasts with data structures, which are concrete representations of data, and are the point of view of an implementer, not a user. For example, a stack has push/pop operations that follow a Last-In-First-Out rule, and can be concretely implemented using either a list or an array. Another example is a set which stores values, without any particular order, and no repeated values. Values themselves are not retrieved from sets; rather, one tests a value for membership to obtain a Boolean "in" or "not in".
ADTs are a theoretical concept, used in formal semantics and program verification and, less strictly, in the design and analysis of algorithms, data structures, and software systems. Most mainstream computer languages do not directly support formally specifying ADTs. However, various language features correspond to certain aspects of implementing ADTs, and are easily confused with ADTs proper; these include abstract types, opaque data types, protocols, and design by contract. For example, in modular programming, the module declares procedures that correspond to the ADT operations, often with comments that describe the constraints. This information hiding strategy allows the implementation of the module to be changed without disturbing the client programs, but the module only informally defines an ADT. The notion of abstract data types is related to the concept of data abstraction, important in object-oriented programming and design by contract methodologies for software engineering.
History
ADTs were first proposed by Barbara Liskov and Stephen N. Zilles in 1974, as part of the development of the CLU language. Algebraic specification was an important subject of research in CS around 1980 and almost a synonym for abstract data types at that time. It has a mathematical foundation in universal algebra.
Definition | Abstract data type | Wikipedia | 416 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
Formally, an ADT is analogous to an algebraic structure in mathematics, consisting of a domain, a collection of operations, and a set of constraints the operations must satisfy. The domain is often defined implicitly, for example the free object over the set of ADT operations. The interface of the ADT typically refers only to the domain and operations, and perhaps some of the constraints on the operations, such as pre-conditions and post-conditions; but not to other constraints, such as relations between the operations, which are considered behavior. There are two main styles of formal specifications for behavior, axiomatic semantics and operational semantics.
Despite not being part of the interface, the constraints are still important to the definition of the ADT; for example a stack and a queue have similar add element/remove element interfaces, but it is the constraints that distinguish last-in-first-out from first-in-first-out behavior. The constraints do not consist only of equations such as but also logical formulas.
Axiomatic semantics
In the spirit of functional programming, each state of an abstract data structure is a separate entity or value. In this view, each operation is modelled as a mathematical function with no side effects. Operations that modify the ADT are modeled as functions that take the old state as an argument and returns the new state as part of the result. The order in which operations are evaluated is immaterial, and the same operation applied to the same arguments (including the same input states) will always return the same results (and output states). The constraints are specified as axioms or algebraic laws that the operations must satisfy.
Operational semantics
In the spirit of imperative programming, an abstract data structure is conceived as an entity that is mutable—meaning that there is a notion of time and the ADT may be in different states at different times. Operations then change the state of the ADT over time; therefore, the order in which operations are evaluated is important, and the same operation on the same entities may have different effects if executed at different times. This is analogous to the instructions of a computer or the commands and procedures of an imperative language. To underscore this view, it is customary to say that the operations are executed or applied, rather than evaluated, similar to the imperative style often used when describing abstract algorithms. The constraints are typically specified in prose.
Auxiliary operations | Abstract data type | Wikipedia | 481 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
Presentations of ADTs are often limited in scope to only key operations. More thorough presentations often specify auxiliary operations on ADTs, such as:
(), that yields a new instance of the ADT;
(s, t), that tests whether two instances' states are equivalent in some sense;
(s), that computes some standard hash function from the instance's state;
(s) or (s), that produces a human-readable representation of the instance's state.
These names are illustrative and may vary between authors. In imperative-style ADT definitions, one often finds also:
(s), that prepares a newly created instance s for further operations, or resets it to some "initial state";
(s, t), that puts instance s in a state equivalent to that of t;
(t), that performs s ← (), (s, t), and returns s;
(s) or (s), that reclaims the memory and other resources used by s.
The operation is not normally relevant or meaningful, since ADTs are theoretical entities that do not "use memory". However, it may be necessary when one needs to analyze the storage used by an algorithm that uses the ADT. In that case, one needs additional axioms that specify how much memory each ADT instance uses, as a function of its state, and how much of it is returned to the pool by .
Restricted types
The definition of an ADT often restricts the stored value(s) for its instances, to members of a specific set X called the range of those variables. For example, an abstract variable may be constrained to only store integers. As in programming languages, such restrictions may simplify the description and analysis of algorithms, and improve its readability.
Aliasing | Abstract data type | Wikipedia | 371 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
In the operational style, it is often unclear how multiple instances are handled and if modifying one instance may affect others. A common style of defining ADTs writes the operations as if only one instance exists during the execution of the algorithm, and all operations are applied to that instance. For example, a stack may have operations (x) and (), that operate on the only existing stack. ADT definitions in this style can be easily rewritten to admit multiple coexisting instances of the ADT, by adding an explicit instance parameter (like S in the stack example below) to every operation that uses or modifies the implicit instance. Some ADTs cannot be meaningfully defined without allowing multiple instances, for example when a single operation takes two distinct instances of the ADT as parameters, such as a operation on sets or a operation on lists.
The multiple instance style is sometimes combined with an aliasing axiom, namely that the result of () is distinct from any instance already in use by the algorithm. Implementations of ADTs may still reuse memory and allow implementations of () to yield a previously created instance; however, defining that such an instance even is "reused" is difficult in the ADT formalism.
More generally, this axiom may be strengthened to exclude also partial aliasing with other instances, so that composite ADTs (such as trees or records) and reference-style ADTs (such as pointers) may be assumed to be completely disjoint. For example, when extending the definition of an abstract variable to include abstract records, operations upon a field F of a record variable R, clearly involve F, which is distinct from, but also a part of, R. A partial aliasing axiom would state that changing a field of one record variable does not affect any other records.
Complexity analysis
Some authors also include the computational complexity ("cost") of each operation, both in terms of time (for computing operations) and space (for representing values), to aid in analysis of algorithms. For example, one may specify that each operation takes the same time and each value takes the same space regardless of the state of the ADT, or that there is a "size" of the ADT and the operations are linear, quadratic, etc. in the size of the ADT. Alexander Stepanov, designer of the C++ Standard Template Library, included complexity guarantees in the STL specification, arguing: | Abstract data type | Wikipedia | 496 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
Other authors disagree, arguing that a stack ADT is the same whether it is implemented with a linked list or an array, despite the difference in operation costs, and that an ADT specification should be independent of implementation.
Examples
Abstract variable
An abstract variable may be regarded as the simplest non-trivial ADT, with the semantics of an imperative variable. It admits two operations, and . Operational definitions are often written in terms of abstract variables. In the axiomatic semantics, letting be the type of the abstract variable and be the type of its contents, is a function and is a function of type . The main constraint is that always returns the value x used in the most recent operation on the same variable V, i.e. . We may also require that overwrites the value fully, .
In the operational semantics, (V) is a procedure that returns the current value in the location V, and (V, x) is a procedure with return type that stores the value x in the location V. The constraints are described informally as that reads are consistent with writes. As in many programming languages, the operation (V, x) is often written V ← x (or some similar notation), and (V) is implied whenever a variable V is used in a context where a value is required. Thus, for example, V ← V + 1 is commonly understood to be a shorthand for (V,(V) + 1).
In this definition, it is implicitly assumed that names are always distinct: storing a value into a variable U has no effect on the state of a distinct variable V. To make this assumption explicit, one could add the constraint that:
if U and V are distinct variables, the sequence { (U, x); (V, y) } is equivalent to { (V, y); (U, x) }.
This definition does not say anything about the result of evaluating (V) when V is un-initialized, that is, before performing any operation on V. Fetching before storing can be disallowed, defined to have a certain result, or left unspecified. There are some algorithms whose efficiency depends on the assumption that such a is legal, and returns some arbitrary value in the variable's range. | Abstract data type | Wikipedia | 462 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
Abstract stack
An abstract stack is a last-in-first-out structure, It is generally defined by three key operations: , that inserts a data item onto the stack; , that removes a data item from it; and or , that accesses a data item on top of the stack without removal. A complete abstract stack definition includes also a Boolean-valued function (S) and a () operation that returns an initial stack instance.
In the axiomatic semantics, letting be the type of stack states and be the type of values contained in the stack, these could have the types , , , , and . In the axiomatic semantics, creating the initial stack is a "trivial" operation, and always returns the same distinguished state. Therefore, it is often designated by a special symbol like Λ or "()". The operation predicate can then be written simply as or .
The constraints are then , , () = T (a newly created stack is empty), ((S, x)) = F (pushing something into a stack makes it non-empty). These axioms do not define the effect of (s) or (s), unless s is a stack state returned by a . Since leaves the stack non-empty, those two operations can be defined to be invalid when s = Λ. From these axioms (and the lack of side effects), it can be deduced that (Λ, x) ≠ Λ. Also, (s, x) = (t, y) if and only if x = y and s = t.
As in some other branches of mathematics, it is customary to assume also that the stack states are only those whose existence can be proved from the axioms in a finite number of steps. In this case, it means that every stack is a finite sequence of values, that becomes the empty stack (Λ) after a finite number of s. By themselves, the axioms above do not exclude the existence of infinite stacks (that can be ped forever, each time yielding a different state) or circular stacks (that return to the same state after a finite number of s). In particular, they do not exclude states s such that (s) = s or (s, x) = s for some x. However, since one cannot obtain such stack states from the initial stack state with the given operations, they are assumed "not to exist". | Abstract data type | Wikipedia | 496 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
In the operational definition of an abstract stack, (S, x) returns nothing and (S) yields the value as the result but not the new state of the stack. There is then the constraint that, for any value x and any abstract variable V, the sequence of operations { (S, x); V ← (S) } is equivalent to V ← x. Since the assignment V ← x, by definition, cannot change the state of S, this condition implies that V ← (S) restores S to the state it had before the (S, x). From this condition and from the properties of abstract variables, it follows, for example, that the sequence:
{ (S, x); (S, y); U ← (S); (S, z); V ← (S); W ← (S) }
where x, y, and z are any values, and U, V, W are pairwise distinct variables, is equivalent to:
{ U ← y; V ← z; W ← x }
Unlike the axiomatic semantics, the operational semantics can suffer from aliasing. Here it is implicitly assumed that operations on a stack instance do not modify the state of any other ADT instance, including other stacks; that is:
For any values x, y, and any distinct stacks S and T, the sequence { (S, x); (T, y) } is equivalent to { (T, y); (S, x) }.
Boom hierarchy
A more involved example is the Boom hierarchy of the binary tree, list, bag and set abstract data types. All these data types can be declared by three operations: null, which constructs the empty container, single, which constructs a container from a single element and append, which combines two containers of the same type. The complete specification for the four data types can then be given by successively adding the following rules over these operations:
Access to the data can be specified by pattern-matching over the three operations, e.g. a member function for these containers by:
Care must be taken to ensure that the function is invariant under the relevant rules for the data type. Within each of the equivalence classes implied by the chosen subset of equations, it has to yield the same result for all of its members.
Common ADTs
Some common ADTs, which have proved useful in a great variety of applications, are | Abstract data type | Wikipedia | 495 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
Collection
Container
List
String
Set
Multiset
Map
Multimap
Graph
Tree
Stack
Queue
Priority queue
Double-ended queue
Double-ended priority queue
Each of these ADTs may be defined in many ways and variants, not necessarily equivalent. For example, an abstract stack may or may not have a operation that tells how many items have been pushed and not yet popped. This choice makes a difference not only for its clients but also for the implementation.
Abstract graphical data type
An extension of ADT for computer graphics was proposed in 1979: an abstract graphical data type (AGDT). It was introduced by Nadia Magnenat Thalmann, and Daniel Thalmann. AGDTs provide the advantages of ADTs with facilities to build graphical objects in a structured way.
Implementation
Abstract data types are theoretical entities, used (among other things) to simplify the description of abstract algorithms, to classify and evaluate data structures, and to formally describe the type systems of programming languages. However, an ADT may be implemented. This means each ADT instance or state is represented by some concrete data type or data structure, and for each abstract operation there is a corresponding procedure or function, and these implemented procedures satisfy the ADT's specifications and axioms up to some standard. In practice, the implementation is not perfect, and users must be aware of issues due to limitations of the representation and implemented procedures.
For example, integers may be specified as an ADT, defined by the distinguished values 0 and 1, the operations of addition, subtraction, multiplication, division (with care for division by zero), comparison, etc., behaving according to the familiar mathematical axioms in abstract algebra such as associativity, commutativity, and so on. However, in a computer, integers are most commonly represented as fixed-width 32-bit or 64-bit binary numbers. Users must be aware of issues with this representation, such as arithmetic overflow, where the ADT specifies a valid result but the representation is unable to accommodate this value. Nonetheless, for many purposes, the user can ignore these infidelities and simply use the implementation as if it were the abstract data type. | Abstract data type | Wikipedia | 443 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
Usually, there are many ways to implement the same ADT, using several different concrete data structures. Thus, for example, an abstract stack can be implemented by a linked list or by an array. Different implementations of the ADT, having all the same properties and abilities, can be considered semantically equivalent and may be used somewhat interchangeably in code that uses the ADT. This provides a form of abstraction or encapsulation, and gives a great deal of flexibility when using ADT objects in different situations. For example, different implementations of the ADT may be more efficient in different situations; it is possible to use each in the situation where they are preferable, thus increasing overall efficiency. Code that uses an ADT implementation according to its interface will continue working even if the implementation of the ADT is changed.
In order to prevent clients from depending on the implementation, an ADT is often packaged as an opaque data type or handle of some sort, in one or more modules, whose interface contains only the signature (number and types of the parameters and results) of the operations. The implementation of the module—namely, the bodies of the procedures and the concrete data structure used—can then be hidden from most clients of the module. This makes it possible to change the implementation without affecting the clients. If the implementation is exposed, it is known instead as a transparent data type.
Modern object-oriented languages, such as C++ and Java, support a form of abstract data types. When a class is used as a type, it is an abstract type that refers to a hidden representation. In this model, an ADT is typically implemented as a class, and each instance of the ADT is usually an object of that class. The module's interface typically declares the constructors as ordinary procedures, and most of the other ADT operations as methods of that class. Many modern programming languages, such as C++ and Java, come with standard libraries that implement numerous ADTs in this style. However, such an approach does not easily encapsulate multiple representational variants found in an ADT. It also can undermine the extensibility of object-oriented programs. In a pure object-oriented program that uses interfaces as types, types refer to behaviours, not representations. | Abstract data type | Wikipedia | 464 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
The specification of some programming languages is intentionally vague about the representation of certain built-in data types, defining only the operations that can be done on them. Therefore, those types can be viewed as "built-in ADTs". Examples are the arrays in many scripting languages, such as Awk, Lua, and Perl, which can be regarded as an implementation of the abstract list.
In a formal specification language, ADTs may be defined axiomatically, and the language then allows manipulating values of these ADTs, thus providing a straightforward and immediate implementation. The OBJ family of programming languages for instance allows defining equations for specification and rewriting to run them. Such automatic implementations are usually not as efficient as dedicated implementations, however.
Example: implementation of the abstract stack
As an example, here is an implementation of the abstract stack above in the C programming language.
Imperative-style interface
An imperative-style interface might be:
typedef struct stack_Rep stack_Rep; // type: stack instance representation (opaque record)
typedef stack_Rep* stack_T; // type: handle to a stack instance (opaque pointer)
typedef void* stack_Item; // type: value stored in stack instance (arbitrary address)
stack_T stack_create(void); // creates a new empty stack instance
void stack_push(stack_T s, stack_Item x); // adds an item at the top of the stack
stack_Item stack_pop(stack_T s); // removes the top item from the stack and returns it
bool stack_empty(stack_T s); // checks whether stack is empty
This interface could be used in the following manner:
#include <stack.h> // includes the stack interface
stack_T s = stack_create(); // creates a new empty stack instance
int x = 17;
stack_push(s, &x); // adds the address of x at the top of the stack
void* y = stack_pop(s); // removes the address of x from the stack and returns it
if (stack_empty(s)) { } // does something if stack is empty | Abstract data type | Wikipedia | 459 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
This interface can be implemented in many ways. The implementation may be arbitrarily inefficient, since the formal definition of the ADT, above, does not specify how much space the stack may use, nor how long each operation should take. It also does not specify whether the stack state s continues to exist after a call x ← (s).
In practice the formal definition should specify that the space is proportional to the number of items pushed and not yet popped; and that every one of the operations above must finish in a constant amount of time, independently of that number. To comply with these additional specifications, the implementation could use a linked list, or an array (with dynamic resizing) together with two integers (an item count and the array size).
Functional-style interface
Functional-style ADT definitions are more appropriate for functional programming languages, and vice versa. However, one can provide a functional-style interface even in an imperative language like C. For example:
typedef struct stack_Rep stack_Rep; // type: stack state representation (opaque record)
typedef stack_Rep* stack_T; // type: handle to a stack state (opaque pointer)
typedef void* stack_Item; // type: value of a stack state (arbitrary address)
stack_T stack_empty(void); // returns the empty stack state
stack_T stack_push(stack_T s, stack_Item x); // adds an item at the top of the stack state and returns the resulting stack state
stack_T stack_pop(stack_T s); // removes the top item from the stack state and returns the resulting stack state
stack_Item stack_top(stack_T s); // returns the top item of the stack state | Abstract data type | Wikipedia | 373 | 2349 | https://en.wikipedia.org/wiki/Abstract%20data%20type | Mathematics | Data structures and types | null |
An antibody (Ab) or immunoglobulin (Ig) is a large, Y-shaped protein belonging to the immunoglobulin superfamily which is used by the immune system to identify and neutralize antigens such as bacteria and viruses, including those that cause disease. Antibodies can recognize virtually any size antigen, able to perceive diverse chemical compositions. Each antibody recognizes one or more specific antigens. Antigen literally means "antibody generator", as it is the presence of an antigen that drives the formation of an antigen-specific antibody. Each tip of the "Y" of an antibody contains a paratope that specifically binds to one particular epitope on an antigen, allowing the two molecules to bind together with precision. Using this mechanism, antibodies can effectively "tag" a microbe or an infected cell for attack by other parts of the immune system, or can neutralize it directly (for example, by blocking a part of a virus that is essential for its invasion).
More narrowly, an antibody (Ab) can refer to the free (secreted) form of these proteins, as opposed to the membrane-bound form found in a B cell receptor. The term immunoglobulin can then refer to both forms. Since they are, broadly speaking, the same protein, the terms are often treated as synonymous.
To allow the immune system to recognize millions of different antigens, the antigen-binding sites at both tips of the antibody come in an equally wide variety. The rest of the antibody structure is much less variable; in humans, antibodies occur in five classes, sometimes called isotypes: IgA, IgD, IgE, IgG, and IgM. Human IgG and IgA antibodies are also divided into discrete subclasses (IgG1, IgG2, IgG3, IgG4; IgA1 and IgA2). The class refers to the functions triggered by the antibody (also known as effector functions), in addition to some other structural features. Antibodies from different classes also differ in where they are released in the body and at what stage of an immune response. Between species, while classes and subclasses of antibodies may be shared (at least in name), their functions and distribution throughout the body may be different. For example, mouse IgG1 is closer to human IgG2 than human IgG1 in terms of its function. | Antibody | Wikipedia | 495 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
The term humoral immunity is often treated as synonymous with the antibody response, describing the function of the immune system that exists in the body's humors (fluids) in the form of soluble proteins, as distinct from cell-mediated immunity, which generally describes the responses of T cells (especially cytotoxic T cells). In general, antibodies are considered part of the adaptive immune system, though this classification can become complicated. For example, natural IgM, which are made by B-1 lineage cells that have properties more similar to innate immune cells than adaptive, refers to IgM antibodies made independently of an immune response that demonstrate polyreactivity- they recognize multiple distinct (unrelated) antigens. These can work with the complement system in the earliest phases of an immune response to help facilitate clearance of the offending antigen and delivery of the resulting immune complexes to the lymph nodes or spleen for initiation of an immune response. Hence in this capacity, the function of antibodies is more akin to that of innate immunity than adaptive. Nonetheless, in general antibodies are regarded as part of the adaptive immune system because they demonstrate exceptional specificity (with some exception), are produced through genetic rearrangements (rather than being encoded directly in germline), and are a manifestation of immunological memory. | Antibody | Wikipedia | 267 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
In the course of an immune response, B cells can progressively differentiate into antibody-secreting cells or into memory B cells. Antibody-secreting cells comprise plasmablasts and plasma cells, which differ mainly in the degree to which they secrete antibody, their lifespan, metabolic adaptations, and surface markers. Plasmablasts are rapidly proliferating, short-lived cells produced in the early phases of the immune response (classically described as arising extrafollicularly rather than from the germinal center) which have the potential to differentiate further into plasma cells. Occasionally plasmablasts are described as short-lived plasma cells, formally this is incorrect. Plasma cells, in contrast, do not divide (they are terminally differentiated), and rely on survival niches comprising specific cell types and cytokines to persist. Plasma cells will secrete huge quantities of antibody regardless of whether or not their cognate antigen is present, ensuring that antibody levels to the antigen in question do not fall to 0, provided the plasma cell stays alive. The rate of antibody secretion, however, can be regulated, for example, by the presence of adjuvant molecules that stimulate the immune response such as TLR ligands. Long-lived plasma cells can live for potentially the entire lifetime of the organism. Classically, the survival niches that house long-lived plasma cells reside in the bone marrow, though it cannot be assumed that any given plasma cell in the bone marrow will be long-lived. However, other work indicates that survival niches can readily be established within the mucosal tissues- though the classes of antibodies involved show a different hierarchy from those in the bone marrow. B cells can also differentiate into memory B cells which can persist for decades similarly to long-lived plasma cells. These cells can be rapidly recalled in a secondary immune response, undergoing class switching, affinity maturation, and differentiating into antibody-secreting cells. | Antibody | Wikipedia | 391 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Antibodies are central to the immune protection elicited by most vaccines and infections (although other components of the immune system certainly participate and for some diseases are considerably more important than antibodies in generating an immune response, e.g. herpes zoster). Durable protection from infections caused by a given microbe – that is, the ability of the microbe to enter the body and begin to replicate (not necessarily to cause disease) – depends on sustained production of large quantities of antibodies, meaning that effective vaccines ideally elicit persistent high levels of antibody, which relies on long-lived plasma cells. At the same time, many microbes of medical importance have the ability to mutate to escape antibodies elicited by prior infections, and long-lived plasma cells cannot undergo affinity maturation or class switching. This is compensated for through memory B cells: novel variants of a microbe that still retain structural features of previously encountered antigens can elicit memory B cell responses that adapt to those changes. It has been suggested that long-lived plasma cells secrete B cell receptors with higher affinity than those on the surfaces of memory B cells, but findings are not entirely consistent on this point.
Structure
Antibodies are heavy (~150 kDa) proteins of about 10 nm in size,
arranged in three globular regions that roughly form a Y shape.
In humans and most other mammals, an antibody unit consists of four polypeptide chains; two identical heavy chains and two identical light chains connected by disulfide bonds.
Each chain is a series of domains: somewhat similar sequences of about 110 amino acids each.
These domains are usually represented in simplified schematics as rectangles.
Light chains consist of one variable domain VL and one constant domain CL, while heavy chains contain one variable domain VH and three to four constant domains CH1, CH2, ...
Structurally an antibody is also partitioned into two antigen-binding fragments (Fab), containing one VL, VH, CL, and CH1 domain each, as well as the crystallisable fragment (Fc), forming the trunk of the Y shape.
In between them is a hinge region of the heavy chains, whose flexibility allows antibodies to bind to pairs of epitopes at various distances, to form complexes (dimers, trimers, etc.), and to bind effector molecules more easily. | Antibody | Wikipedia | 483 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
In an electrophoresis test of blood proteins, antibodies mostly migrate to the last, gamma globulin fraction.
Conversely, most gamma-globulins are antibodies, which is why the two terms were historically used as synonyms, as were the symbols Ig and γ.
This variant terminology fell out of use due to the correspondence being inexact and due to confusion with γ (gamma) heavy chains which characterize the IgG class of antibodies.
Antigen-binding site
The variable domains can also be referred to as the FV region. It is the subregion of Fab that binds to an antigen.
More specifically, each variable domain contains three hypervariable regions – the amino acids seen there vary the most from antibody to antibody.
When the protein folds, these regions give rise to three loops of β-strands, localized near one another on the surface of the antibody.
These loops are referred to as the complementarity-determining regions (CDRs), since their shape complements that of an antigen.
Three CDRs from each of the heavy and light chains together form an antibody-binding site whose shape can be anything from a pocket to which a smaller antigen binds, to a larger surface, to a protrusion that sticks out into a groove in an antigen.
Typically though, only a few residues contribute to most of the binding energy.
The existence of two identical antibody-binding sites allows antibody molecules to bind strongly to multivalent antigen (repeating sites such as polysaccharides in bacterial cell walls, or other sites at some distance apart), as well as to form antibody complexes and larger antigen-antibody complexes.
The structures of CDRs have been clustered and classified by Chothia et al.
and more recently by North et al.
and Nikoloudis et al. However, describing an antibody's binding site using only one single static structure limits the understanding and characterization of the antibody's function and properties. To improve antibody structure prediction and to take the strongly correlated CDR loop and interface movements into account, antibody paratopes should be described as interconverting states in solution with varying probabilities.
In the framework of the immune network theory, CDRs are also called idiotypes. According to immune network theory, the adaptive immune system is regulated by interactions between idiotypes.
Fc region | Antibody | Wikipedia | 476 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
The Fc region (the trunk of the Y shape) is composed of constant domains from the heavy chains. Its role is in modulating immune cell activity: it is where effector molecules bind to, triggering various effects after the antibody Fab region binds to an antigen.
Effector cells (such as macrophages or natural killer cells) bind via their Fc receptors (FcR) to the Fc region of an antibody, while the complement system is activated by binding the C1q protein complex. IgG or IgM can bind to C1q, but IgA cannot, therefore IgA does not activate the classical complement pathway.
Another role of the Fc region is to selectively distribute different antibody classes across the body. In particular, the neonatal Fc receptor (FcRn) binds to the Fc region of IgG antibodies to transport it across the placenta, from the mother to the fetus. In addition to this, binding to FcRn endows IgG with an exceptionally long half-life relative to other plasma proteins of 3-4 weeks. IgG3 in most cases (depending on allotype) has mutations at the FcRn binding site which lower affinity for FcRn, which are thought to have evolved to limit the highly inflammatory effects of this subclass.
Antibodies are glycoproteins, that is, they have carbohydrates (glycans) added to conserved amino acid residues.
These conserved glycosylation sites occur in the Fc region and influence interactions with effector molecules.
Protein structure
The N-terminus of each chain is situated at the tip.
Each immunoglobulin domain has a similar structure, characteristic of all the members of the immunoglobulin superfamily:
it is composed of between 7 (for constant domains) and 9 (for variable domains) β-strands, forming two beta sheets in a Greek key motif.
The sheets create a "sandwich" shape, the immunoglobulin fold, held together by a disulfide bond.
Antibody complexes | Antibody | Wikipedia | 412 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Secreted antibodies can occur as a single Y-shaped unit, a monomer.
However, some antibody classes also form dimers with two Ig units (as with IgA), tetramers with four Ig units (like teleost fish IgM), or pentamers with five Ig units (like shark IgW or mammalian IgM, which occasionally forms hexamers as well, with six units). IgG can also form hexamers, though no J chain is required. IgA tetramers and pentamers have also been reported.
Antibodies also form complexes by binding to antigen: this is called an antigen-antibody complex or immune complex.
Small antigens can cross-link two antibodies, also leading to the formation of antibody dimers, trimers, tetramers, etc.
Multivalent antigens (e.g., cells with multiple epitopes) can form larger complexes with antibodies.
An extreme example is the clumping, or agglutination, of red blood cells with antibodies in blood typing to determine blood groups: the large clumps become insoluble, leading to visually apparent precipitation.
B cell receptors
The membrane-bound form of an antibody may be called a surface immunoglobulin (sIg) or a membrane immunoglobulin (mIg). It is part of the B cell receptor (BCR), which allows a B cell to detect when a specific antigen is present in the body and triggers B cell activation. The BCR is composed of surface-bound IgD or IgM antibodies and associated Ig-α and Ig-β heterodimers, which are capable of signal transduction. A typical human B cell will have 50,000 to 100,000 antibodies bound to its surface. Upon antigen binding, they cluster in large patches, which can exceed 1 micrometer in diameter, on lipid rafts that isolate the BCRs from most other cell signaling receptors.
These patches may improve the efficiency of the cellular immune response. In humans, the cell surface is bare around the B cell receptors for several hundred nanometers, which further isolates the BCRs from competing influences. | Antibody | Wikipedia | 453 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Classes
Antibodies can come in different varieties known as isotypes or classes. In humans there are five antibody classes known as IgA, IgD, IgE, IgG, and IgM, which are further subdivided into subclasses such as IgA1, IgA2.
The prefix "Ig" stands for immunoglobulin, while the suffix denotes the type of heavy chain the antibody contains: the heavy chain types α (alpha), γ (gamma), δ (delta), ε (epsilon), μ (mu) give rise to IgA, IgG, IgD, IgE, IgM, respectively.
The distinctive features of each class are determined by the part of the heavy chain within the hinge and Fc region.
The classes differ in their biological properties, functional locations and ability to deal with different antigens, as depicted in the table.
For example, IgE antibodies are responsible for an allergic response consisting of histamine release from mast cells, often a sole contributor to asthma (though other pathways exist as do exist symptoms very similar to yet not technically asthma). The antibody's variable region binds to allergic antigen, for example house dust mite particles, while its Fc region (in the ε heavy chains) binds to Fc receptor ε on a mast cell, triggering its degranulation: the release of molecules stored in its granules. | Antibody | Wikipedia | 287 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
The antibody isotype of a B cell changes during cell development and activation. Immature B cells, which have never been exposed to an antigen, express only the IgM isotype in a cell surface bound form. The B lymphocyte, in this ready-to-respond form, is known as a "naive B lymphocyte." The naive B lymphocyte expresses both surface IgM and IgD. The co-expression of both of these immunoglobulin isotypes renders the B cell ready to respond to antigen. B cell activation follows engagement of the cell-bound antibody molecule with an antigen, causing the cell to divide and differentiate into an antibody-producing cell called a plasma cell. In this activated form, the B cell starts to produce antibody in a secreted form rather than a membrane-bound form. Some daughter cells of the activated B cells undergo isotype switching, a mechanism that causes the production of antibodies to change from IgM or IgD to the other antibody isotypes, IgE, IgA, or IgG, that have defined roles in the immune system.
Light chain types
In mammals there are two types of immunoglobulin light chain, which are called lambda (λ) and kappa (κ). However, there is no known functional difference between them, and both can occur with any of the five major types of heavy chains. Each antibody contains two identical light chains: both κ or both λ. Proportions of κ and λ types vary by species and can be used to detect abnormal proliferation of B cell clones. Other types of light chains, such as the iota (ι) chain, are found in other vertebrates like sharks (Chondrichthyes) and bony fishes (Teleostei).
In non-mammalian animals
In most placental mammals, the structure of antibodies is generally the same.
Jawed fish appear to be the most primitive animals that are able to make antibodies similar to those of mammals, although many features of their adaptive immunity appeared somewhat earlier.
Cartilaginous fish (such as sharks) produce heavy-chain-only antibodies (i.e., lacking light chains) which moreover feature longer chain pentamers (with five constant units per molecule). Camelids (such as camels, llamas, alpacas) are also notable for producing heavy-chain-only antibodies. | Antibody | Wikipedia | 496 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Antibody–antigen interactions
The antibody's paratope interacts with the antigen's epitope. An antigen usually contains different epitopes along its surface arranged discontinuously, and dominant epitopes on a given antigen are called determinants.
Antibody and antigen interact by spatial complementarity (lock and key). The molecular forces involved in the Fab-epitope interaction are weak and non-specific – for example electrostatic forces, hydrogen bonds, hydrophobic interactions, and van der Waals forces. This means binding between antibody and antigen is reversible, and the antibody's affinity towards an antigen is relative rather than absolute. Relatively weak binding also means it is possible for an antibody to cross-react with different antigens of different relative affinities.
Function
The main categories of antibody action include the following:
Neutralisation, in which neutralizing antibodies block parts of the surface of a bacterial cell or virion to render its attack ineffective
Agglutination, in which antibodies "glue together" foreign cells into clumps that are attractive targets for phagocytosis
Precipitation, in which antibodies "glue together" serum-soluble antigens, forcing them to precipitate out of solution in clumps that are attractive targets for phagocytosis
Complement activation (fixation), in which antibodies that are latched onto a foreign cell encourage complement to attack it with a membrane attack complex, which leads to the following:
Lysis of the foreign cell
Encouragement of inflammation by chemotactically attracting inflammatory cells
More indirectly, an antibody can signal immune cells to present antibody fragments to T cells, or downregulate other immune cells to avoid autoimmunity.
Activated B cells differentiate into either antibody-producing cells called plasma cells that secrete soluble antibody or memory cells that survive in the body for years afterward in order to allow the immune system to remember an antigen and respond faster upon future exposures. | Antibody | Wikipedia | 395 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
At the prenatal and neonatal stages of life, the presence of antibodies is provided by passive immunization from the mother. Early endogenous antibody production varies for different kinds of antibodies, and usually appear within the first years of life. Since antibodies exist freely in the bloodstream, they are said to be part of the humoral immune system. Circulating antibodies are produced by clonal B cells that specifically respond to only one antigen (an example is a virus capsid protein fragment). Antibodies contribute to immunity in three ways: They prevent pathogens from entering or damaging cells by binding to them; they stimulate removal of pathogens by macrophages and other cells by coating the pathogen; and they trigger destruction of pathogens by stimulating other immune responses such as the complement pathway. Antibodies will also trigger vasoactive amine degranulation to contribute to immunity against certain types of antigens (helminths, allergens).
Activation of complement
Antibodies that bind to surface antigens (for example, on bacteria) will attract the first component of the complement cascade with their Fc region and initiate activation of the "classical" complement system. This results in the killing of bacteria in two ways. First, the binding of the antibody and complement molecules marks the microbe for ingestion by phagocytes in a process called opsonization; these phagocytes are attracted by certain complement molecules generated in the complement cascade. Second, some complement system components form a membrane attack complex to assist antibodies to kill the bacterium directly (bacteriolysis).
Activation of effector cells
To combat pathogens that replicate outside cells, antibodies bind to pathogens to link them together, causing them to agglutinate. Since an antibody has at least two paratopes, it can bind more than one antigen by binding identical epitopes carried on the surfaces of these antigens. By coating the pathogen, antibodies stimulate effector functions against the pathogen in cells that recognize their Fc region. | Antibody | Wikipedia | 401 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Those cells that recognize coated pathogens have Fc receptors, which, as the name suggests, interact with the Fc region of IgA, IgG, and IgE antibodies. The engagement of a particular antibody with the Fc receptor on a particular cell triggers an effector function of that cell; phagocytes will phagocytose, mast cells and neutrophils will degranulate, natural killer cells will release cytokines and cytotoxic molecules; that will ultimately result in destruction of the invading microbe. The activation of natural killer cells by antibodies initiates a cytotoxic mechanism known as antibody-dependent cell-mediated cytotoxicity (ADCC) – this process may explain the efficacy of monoclonal antibodies used in biological therapies against cancer. The Fc receptors are isotype-specific, which gives greater flexibility to the immune system, invoking only the appropriate immune mechanisms for distinct pathogens.
Natural antibodies
Humans and higher primates also produce "natural antibodies" that are present in serum before viral infection. Natural antibodies have been defined as antibodies that are produced without any previous infection, vaccination, other foreign antigen exposure or passive immunization. These antibodies can activate the classical complement pathway leading to lysis of enveloped virus particles long before the adaptive immune response is activated. Antibodies are produced exclusively by B cells in response to antigens where initially, antibodies are formed as membrane-bound receptors, but upon activation by antigens and helper T cells, B cells differentiate to produce soluble antibodies. Many natural antibodies are directed against the disaccharide galactose α(1,3)-galactose (α-Gal), which is found as a terminal sugar on glycosylated cell surface proteins, and generated in response to production of this sugar by bacteria contained in the human gut. These antibodies undergo quality checks in the endoplasmic reticulum (ER), which contains proteins that assist in proper folding and assembly. Rejection of xenotransplantated organs is thought to be, in part, the result of natural antibodies circulating in the serum of the recipient binding to α-Gal antigens expressed on the donor tissue. | Antibody | Wikipedia | 451 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Immunoglobulin diversity
Virtually all microbes can trigger an antibody response. Successful recognition and eradication of many different types of microbes requires diversity among antibodies; their amino acid composition varies allowing them to interact with many different antigens. It has been estimated that humans generate about 10 billion different antibodies, each capable of binding a distinct epitope of an antigen. Although a huge repertoire of different antibodies is generated in a single individual, the number of genes available to make these proteins is limited by the size of the human genome. Several complex genetic mechanisms have evolved that allow vertebrate B cells to generate a diverse pool of antibodies from a relatively small number of antibody genes.
Domain variability
The chromosomal region that encodes an antibody is large and contains several distinct gene loci for each domain of the antibody—the chromosome region containing heavy chain genes (IGH@) is found on chromosome 14, and the loci containing lambda and kappa light chain genes (IGL@ and IGK@) are found on chromosomes 22 and 2 in humans. One of these domains is called the variable domain, which is present in each heavy and light chain of every antibody, but can differ in different antibodies generated from distinct B cells. Differences between the variable domains are located on three loops known as hypervariable regions (HV-1, HV-2 and HV-3) or complementarity-determining regions (CDR1, CDR2 and CDR3). CDRs are supported within the variable domains by conserved framework regions. The heavy chain locus contains about 65 different variable domain genes that all differ in their CDRs. Combining these genes with an array of genes for other domains of the antibody generates a large cavalry of antibodies with a high degree of variability. This combination is called V(D)J recombination discussed below.
V(D)J recombination | Antibody | Wikipedia | 386 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Somatic recombination of immunoglobulins, also known as V(D)J recombination, involves the generation of a unique immunoglobulin variable region. The variable region of each immunoglobulin heavy or light chain is encoded in several pieces—known as gene segments (subgenes). These segments are called variable (V), diversity (D) and joining (J) segments. V, D and J segments are found in Ig heavy chains, but only V and J segments are found in Ig light chains. Multiple copies of the V, D and J gene segments exist, and are tandemly arranged in the genomes of mammals. In the bone marrow, each developing B cell will assemble an immunoglobulin variable region by randomly selecting and combining one V, one D and one J gene segment (or one V and one J segment in the light chain). As there are multiple copies of each type of gene segment, and different combinations of gene segments can be used to generate each immunoglobulin variable region, this process generates a huge number of antibodies, each with different paratopes, and thus different antigen specificities. The rearrangement of several subgenes (i.e. V2 family) for lambda light chain immunoglobulin is coupled with the activation of microRNA miR-650, which further influences biology of B-cells.
RAG proteins play an important role with V(D)J recombination in cutting DNA at a particular region. Without the presence of these proteins, V(D)J recombination would not occur.
After a B cell produces a functional immunoglobulin gene during V(D)J recombination, it cannot express any other variable region (a process known as allelic exclusion) thus each B cell can produce antibodies containing only one kind of variable chain.
Somatic hypermutation and affinity maturation
Following activation with antigen, B cells begin to proliferate rapidly. In these rapidly dividing cells, the genes encoding the variable domains of the heavy and light chains undergo a high rate of point mutation, by a process called somatic hypermutation (SHM). SHM results in approximately one nucleotide change per variable gene, per cell division. As a consequence, any daughter B cells will acquire slight amino acid differences in the variable domains of their antibody chains. | Antibody | Wikipedia | 505 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
This serves to increase the diversity of the antibody pool and impacts the antibody's antigen-binding affinity. Some point mutations will result in the production of antibodies that have a weaker interaction (low affinity) with their antigen than the original antibody, and some mutations will generate antibodies with a stronger interaction (high affinity). B cells that express high affinity antibodies on their surface will receive a strong survival signal during interactions with other cells, whereas those with low affinity antibodies will not, and will die by apoptosis. Thus, B cells expressing antibodies with a higher affinity for the antigen will outcompete those with weaker affinities for function and survival allowing the average affinity of antibodies to increase over time. The process of generating antibodies with increased binding affinities is called affinity maturation. Affinity maturation occurs in mature B cells after V(D)J recombination, and is dependent on help from helper T cells.
Class switching
Isotype or class switching is a biological process occurring after activation of the B cell, which allows the cell to produce different classes of antibody (IgA, IgE, or IgG). The different classes of antibody, and thus effector functions, are defined by the constant (C) regions of the immunoglobulin heavy chain. Initially, naive B cells express only cell-surface IgM and IgD with identical antigen binding regions. Each isotype is adapted for a distinct function; therefore, after activation, an antibody with an IgG, IgA, or IgE effector function might be required to effectively eliminate an antigen. Class switching allows different daughter cells from the same activated B cell to produce antibodies of different isotypes. Only the constant region of the antibody heavy chain changes during class switching; the variable regions, and therefore antigen specificity, remain unchanged. Thus the progeny of a single B cell can produce antibodies, all specific for the same antigen, but with the ability to produce the effector function appropriate for each antigenic challenge. Class switching is triggered by cytokines; the isotype generated depends on which cytokines are present in the B cell environment. | Antibody | Wikipedia | 435 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Class switching occurs in the heavy chain gene locus by a mechanism called class switch recombination (CSR). This mechanism relies on conserved nucleotide motifs, called switch (S) regions, found in DNA upstream of each constant region gene (except in the δ-chain). The DNA strand is broken by the activity of a series of enzymes at two selected S-regions. The variable domain exon is rejoined through a process called non-homologous end joining (NHEJ) to the desired constant region (γ, α or ε). This process results in an immunoglobulin gene that encodes an antibody of a different isotype.
Specificity designations
An antibody can be called monospecific if it has specificity for a single antigen or epitope, or bispecific if it has affinity for two different antigens or two different epitopes on the same antigen. A group of antibodies can be called polyvalent (or unspecific) if they have affinity for various antigens or microorganisms. Intravenous immunoglobulin, if not otherwise noted, consists of a variety of different IgG (polyclonal IgG). In contrast, monoclonal antibodies are identical antibodies produced by a single B cell. | Antibody | Wikipedia | 267 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Asymmetrical antibodies
Heterodimeric antibodies, which are also asymmetrical antibodies, allow for greater flexibility and new formats for attaching a variety of drugs to the antibody arms. One of the general formats for a heterodimeric antibody is the "knobs-into-holes" format. This format is specific to the heavy chain part of the constant region in antibodies. The "knobs" part is engineered by replacing a small amino acid with a larger one. It fits into the "hole", which is engineered by replacing a large amino acid with a smaller one. What connects the "knobs" to the "holes" are the disulfide bonds between each chain. The "knobs-into-holes" shape facilitates antibody dependent cell mediated cytotoxicity. Single-chain variable fragments (scFv) are connected to the variable domain of the heavy and light chain via a short linker peptide. The linker is rich in glycine, which gives it more flexibility, and serine/threonine, which gives it specificity. Two different scFv fragments can be connected together, via a hinge region, to the constant domain of the heavy chain or the constant domain of the light chain. This gives the antibody bispecificity, allowing for the binding specificities of two different antigens. The "knobs-into-holes" format enhances heterodimer formation but does not suppress homodimer formation.
To further improve the function of heterodimeric antibodies, many scientists are looking towards artificial constructs. Artificial antibodies are largely diverse protein motifs that use the functional strategy of the antibody molecule, but are not limited by the loop and framework structural constraints of the natural antibody. Being able to control the combinational design of the sequence and three-dimensional space could transcend the natural design and allow for the attachment of different combinations of drugs to the arms.
Heterodimeric antibodies have a greater range in shapes they can take and the drugs that are attached to the arms do not have to be the same on each arm, allowing for different combinations of drugs to be used in cancer treatment. Pharmaceuticals are able to produce highly functional bispecific, and even multispecific, antibodies. The degree to which they can function is impressive given that such a change of shape from the natural form should lead to decreased functionality. | Antibody | Wikipedia | 490 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Interchromosomal DNA Transposition
Antibody diversification typically occurs through somatic hypermutation, class switching, and affinity maturation targeting the BCR gene loci, but on occasion more unconventional forms of diversification have been documented. For example, in the case of malaria caused by Plasmodium falciparum, some antibodies from those who had been infected demonstrated an insertion from chromosome 19 containing a 98-amino acid stretch from leukocyte-associated immunoglobulin-like receptor 1, LAIR1, in the elbow joint. This represents a form of interchromosomal transposition. LAIR1 normally binds collagen, but can recognize repetitive interspersed families of polypeptides (RIFIN) family members that are highly expressed on the surface of P. falciparum-infected red blood cells. In fact, these antibodies underwent affinity maturation that enhanced affinity for RIFIN but abolished affinity for collagen. These "LAIR1-containing" antibodies have been found in 5-10% of donors from Tanzania and Mali, though not in European donors. European donors did show 100-1000 nucleotide stretches inside the elbow joints as well, however. This particular phenomenon may be specific to malaria, as infection is known to induce genomic instability.
History
The first use of the term "antibody" occurred in a text by Paul Ehrlich. The term Antikörper (the German word for antibody) appears in the conclusion of his article "Experimental Studies on Immunity", published in October 1891, which states that, "if two substances give rise to two different Antikörper, then they themselves must be different". However, the term was not accepted immediately and several other terms for antibody were proposed; these included Immunkörper, Amboceptor, Zwischenkörper, substance sensibilisatrice, copula, Desmon, philocytase, fixateur, and Immunisin. The word antibody has formal analogy to the word antitoxin and a similar concept to Immunkörper (immune body in English). As such, the original construction of the word contains a logical flaw; the antitoxin is something directed against a toxin, while the antibody is a body directed against something. | Antibody | Wikipedia | 466 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
The study of antibodies began in 1890 when Emil von Behring and Kitasato Shibasaburō described antibody activity against diphtheria and tetanus toxins. Von Behring and Kitasato put forward the theory of humoral immunity, proposing that a mediator in serum could react with a foreign antigen. His idea prompted Paul Ehrlich to propose the side-chain theory for antibody and antigen interaction in 1897, when he hypothesized that receptors (described as "side-chains") on the surface of cells could bind specifically to toxins – in a "lock-and-key" interaction – and that this binding reaction is the trigger for the production of antibodies. Other researchers believed that antibodies existed freely in the blood and, in 1904, Almroth Wright suggested that soluble antibodies coated bacteria to label them for phagocytosis and killing; a process that he named opsoninization.
In the 1920s, Michael Heidelberger and Oswald Avery observed that antigens could be precipitated by antibodies and went on to show that antibodies are made of protein. The biochemical properties of antigen-antibody-binding interactions were examined in more detail in the late 1930s by John Marrack. The next major advance was in the 1940s, when Linus Pauling confirmed the lock-and-key theory proposed by Ehrlich by showing that the interactions between antibodies and antigens depend more on their shape than their chemical composition. In 1948, Astrid Fagraeus discovered that B cells, in the form of plasma cells, were responsible for generating antibodies. | Antibody | Wikipedia | 323 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Further work concentrated on characterizing the structures of the antibody proteins. A major advance in these structural studies was the discovery in the early 1960s by Gerald Edelman and Joseph Gally of the antibody light chain, and their realization that this protein is the same as the Bence-Jones protein described in 1845 by Henry Bence Jones. Edelman went on to discover that antibodies are composed of disulfide bond-linked heavy and light chains. Around the same time, antibody-binding (Fab) and antibody tail (Fc) regions of IgG were characterized by Rodney Porter. Together, these scientists deduced the structure and complete amino acid sequence of IgG, a feat for which they were jointly awarded the 1972 Nobel Prize in Physiology or Medicine. The Fv fragment was prepared and characterized by David Givol. While most of these early studies focused on IgM and IgG, other immunoglobulin isotypes were identified in the 1960s: Thomas Tomasi discovered secretory antibody (IgA); David S. Rowe and John L. Fahey discovered IgD; and Kimishige Ishizaka and Teruko Ishizaka discovered IgE and showed it was a class of antibodies involved in allergic reactions. In a landmark series of experiments beginning in 1976, Susumu Tonegawa showed that genetic material can rearrange itself to form the vast array of available antibodies.
Medical applications
Disease diagnosis
Detection of particular antibodies is a very common form of medical diagnostics, and applications such as serology depend on these methods. For example, in biochemical assays for disease diagnosis, a titer of antibodies directed against Epstein-Barr virus or Lyme disease is estimated from the blood. If those antibodies are not present, either the person is not infected or the infection occurred a very long time ago, and the B cells generating these specific antibodies have naturally decayed.
In clinical immunology, levels of individual classes of immunoglobulins are measured by nephelometry (or turbidimetry) to characterize the antibody profile of patient. Elevations in different classes of immunoglobulins are sometimes useful in determining the cause of liver damage in patients for whom the diagnosis is unclear. For example, elevated IgA indicates alcoholic cirrhosis, elevated IgM indicates viral hepatitis and primary biliary cirrhosis, while IgG is elevated in viral hepatitis, autoimmune hepatitis and cirrhosis. | Antibody | Wikipedia | 500 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Autoimmune disorders can often be traced to antibodies that bind the body's own epitopes; many can be detected through blood tests. Antibodies directed against red blood cell surface antigens in immune mediated hemolytic anemia are detected with the Coombs test. The Coombs test is also used for antibody screening in blood transfusion preparation and also for antibody screening in antenatal women.
Practically, several immunodiagnostic methods based on detection of complex antigen-antibody are used to diagnose infectious diseases, for example ELISA, immunofluorescence, Western blot, immunodiffusion, immunoelectrophoresis, and magnetic immunoassay. Antibodies raised against human chorionic gonadotropin are used in over the counter pregnancy tests.
New dioxaborolane chemistry enables radioactive fluoride (18F) labeling of antibodies, which allows for positron emission tomography (PET) imaging of cancer.
Disease therapy
Targeted monoclonal antibody therapy is employed to treat diseases such as rheumatoid arthritis, multiple sclerosis, psoriasis, and many forms of cancer including non-Hodgkin's lymphoma, colorectal cancer, head and neck cancer and breast cancer.
Some immune deficiencies, such as X-linked agammaglobulinemia and hypogammaglobulinemia, result in partial or complete lack of antibodies. These diseases are often treated by inducing a short-term form of immunity called passive immunity. Passive immunity is achieved through the transfer of ready-made antibodies in the form of human or animal serum, pooled immunoglobulin or monoclonal antibodies, into the affected individual. | Antibody | Wikipedia | 361 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Prenatal therapy
Rh factor, also known as Rh D antigen, is an antigen found on red blood cells; individuals that are Rh-positive (Rh+) have this antigen on their red blood cells and individuals that are Rh-negative (Rh–) do not. During normal childbirth, delivery trauma or complications during pregnancy, blood from a fetus can enter the mother's system. In the case of an Rh-incompatible mother and child, consequential blood mixing may sensitize an Rh- mother to the Rh antigen on the blood cells of the Rh+ child, putting the remainder of the pregnancy, and any subsequent pregnancies, at risk for hemolytic disease of the newborn.
Rho(D) immune globulin antibodies are specific for human RhD antigen. Anti-RhD antibodies are administered as part of a prenatal treatment regimen to prevent sensitization that may occur when a Rh-negative mother has a Rh-positive fetus. Treatment of a mother with Anti-RhD antibodies prior to and immediately after trauma and delivery destroys Rh antigen in the mother's system from the fetus. This occurs before the antigen can stimulate maternal B cells to "remember" Rh antigen by generating memory B cells. Therefore, her humoral immune system will not make anti-Rh antibodies, and will not attack the Rh antigens of the current or subsequent babies. Rho(D) Immune Globulin treatment prevents sensitization that can lead to Rh disease, but does not prevent or treat the underlying disease itself.
Research applications | Antibody | Wikipedia | 338 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Specific antibodies are produced by injecting an antigen into a mammal, such as a mouse, rat, rabbit, goat, sheep, or horse for large quantities of antibody. Blood isolated from these animals contains polyclonal antibodies—multiple antibodies that bind to the same antigen—in the serum, which can now be called antiserum. Antigens are also injected into chickens for generation of polyclonal antibodies in egg yolk. To obtain antibody that is specific for a single epitope of an antigen, antibody-secreting lymphocytes are isolated from the animal and immortalized by fusing them with a cancer cell line. The fused cells are called hybridomas, and will continually grow and secrete antibody in culture. Single hybridoma cells are isolated by dilution cloning to generate cell clones that all produce the same antibody; these antibodies are called monoclonal antibodies. Polyclonal and monoclonal antibodies are often purified using Protein A/G or antigen-affinity chromatography.
In research, purified antibodies are used in many applications. Antibodies for research applications can be found directly from antibody suppliers, or through use of a specialist search engine. Research antibodies are most commonly used to identify and locate intracellular and extracellular proteins. Antibodies are used in flow cytometry to differentiate cell types by the proteins they express; different types of cells express different combinations of cluster of differentiation molecules on their surface, and produce different intracellular and secretable proteins. They are also used in immunoprecipitation to separate proteins and anything bound to them (co-immunoprecipitation) from other molecules in a cell lysate, in Western blot analyses to identify proteins separated by electrophoresis, and in immunohistochemistry or immunofluorescence to examine protein expression in tissue sections or to locate proteins within cells with the assistance of a microscope. Proteins can also be detected and quantified with antibodies, using ELISA and ELISpot techniques. | Antibody | Wikipedia | 411 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Antibodies used in research are some of the most powerful, yet most problematic reagents with a tremendous number of factors that must be controlled in any experiment including cross reactivity, or the antibody recognizing multiple epitopes and affinity, which can vary widely depending on experimental conditions such as pH, solvent, state of tissue etc. Multiple attempts have been made to improve both the way that researchers validate antibodies and ways in which they report on antibodies. Researchers using antibodies in their work need to record them correctly in order to allow their research to be reproducible (and therefore tested, and qualified by other researchers). Less than half of research antibodies referenced in academic papers can be easily identified. Papers published in F1000 in 2014 and 2015 provide researchers with a guide for reporting research antibody use. The RRID paper, is co-published in 4 journals that implemented the RRIDs Standard for research resource citation, which draws data from the antibodyregistry.org as the source of antibody identifiers (see also group at Force11).
Antibody regions can be used to further biomedical research by acting as a guide for drugs to reach their target. Several application involve using bacterial plasmids to tag plasmids with the Fc region of the antibody such as pFUSE-Fc plasmid.
Regulations
Production and testing
There are several ways to obtain antibodies, including in vivo techniques like animal immunization and various in vitro approaches, such as the phage display method. Traditionally, most antibodies are produced by hybridoma cell lines through immortalization of antibody-producing cells by chemically induced fusion with myeloma cells. In some cases, additional fusions with other lines have created "triomas" and "quadromas". The manufacturing process should be appropriately described and validated. Validation studies should at least include:
The demonstration that the process is able to produce in good quality (the process should be validated)
The efficiency of the antibody purification (all impurities and virus must be eliminated)
The characterization of purified antibody (physicochemical characterization, immunological properties, biological activities, contaminants, ...)
Determination of the virus clearance studies | Antibody | Wikipedia | 443 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Before clinical trials
Product safety testing: Sterility (bacteria and fungi), in vitro and in vivo testing for adventitious viruses, murine retrovirus testing..., product safety data needed before the initiation of feasibility trials in serious or immediately life-threatening conditions, it serves to evaluate dangerous potential of the product.
Feasibility testing: These are pilot studies whose objectives include, among others, early characterization of safety and initial proof of concept in a small specific patient population (in vitro or in vivo testing).
Preclinical studies
Testing cross-reactivity of antibody: to highlight unwanted interactions (toxicity) of antibodies with previously characterized tissues. This study can be performed in vitro (reactivity of the antibody or immunoconjugate should be determined with a quick-frozen adult tissues) or in vivo (with appropriates animal models).
Preclinical pharmacology and toxicity testing: preclinical safety testing of antibody is designed to identify possible toxicity in humans, to estimate the likelihood and severity of potential adverse events in humans, and to identify a safe starting dose and dose escalation, when possible.
Animal toxicity studies: Acute toxicity testing, repeat-dose toxicity testing, long-term toxicity testing
Pharmacokinetics and pharmacodynamics testing: Use for determinate clinical dosages, antibody activities, evaluation of the potential clinical effects | Antibody | Wikipedia | 282 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Structure prediction and computational antibody design
The importance of antibodies in health care and the biotechnology industry demands knowledge of their structures at high resolution. This information is used for protein engineering, modifying the antigen binding affinity, and identifying an epitope, of a given antibody. X-ray crystallography is one commonly used method for determining antibody structures. However, crystallizing an antibody is often laborious and time-consuming. Computational approaches provide a cheaper and faster alternative to crystallography, but their results are more equivocal, since they do not produce empirical structures. Online web servers such as Web Antibody Modeling (WAM) and Prediction of Immunoglobulin Structure (PIGS) enable computational modeling of antibody variable regions. Rosetta Antibody is a novel antibody FV region structure prediction server, which incorporates sophisticated techniques to minimize CDR loops and optimize the relative orientation of the light and heavy chains, as well as homology models that predict successful docking of antibodies with their unique antigen. However, describing an antibody's binding site using only one single static structure limits the understanding and characterization of the antibody's function and properties. To improve antibody structure prediction and to take the strongly correlated CDR loop and interface movements into account, antibody paratopes should be described as interconverting states in solution with varying probabilities.
The ability to describe the antibody through binding affinity to the antigen is supplemented by information on antibody structure and amino acid sequences for the purpose of patent claims. Several methods have been presented for computational design of antibodies based on the structural bioinformatics studies of antibody CDRs. | Antibody | Wikipedia | 326 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
There are a variety of methods used to sequence an antibody including Edman degradation, cDNA, etc.; albeit one of the most common modern uses for peptide/protein identification is liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS). High volume antibody sequencing methods require computational approaches for the data analysis, including de novo sequencing directly from tandem mass spectra and database search methods that use existing protein sequence databases. Many versions of shotgun protein sequencing are able to increase the coverage by utilizing CID/HCD/ETD fragmentation methods and other techniques, and they have achieved substantial progress in attempt to fully sequence proteins, especially antibodies. Other methods have assumed the existence of similar proteins, a known genome sequence, or combined top-down and bottom up approaches. Current technologies have the ability to assemble protein sequences with high accuracy by integrating de novo sequencing peptides, intensity, and positional confidence scores from database and homology searches.
Antibody mimetic
Antibody mimetics are organic compounds, like antibodies, that can specifically bind antigens. They consist of artificial peptides or proteins, or aptamer-based nucleic acid molecules with a molar mass of about 3 to 20 kDa. Antibody fragments, such as Fab and nanobodies are not considered as antibody mimetics. Common advantages over antibodies are better solubility, tissue penetration, stability towards heat and enzymes, and comparatively low production costs. Antibody mimetics have been developed and commercialized as research, diagnostic and therapeutic agents.
Binding antibody unit
BAU (binding antibody unit, often as BAU/mL) is a measurement unit defined by the WHO for the comparison of assays detecting the same class of immunoglobulins with the same specificity. | Antibody | Wikipedia | 357 | 2362 | https://en.wikipedia.org/wiki/Antibody | Biology and health sciences | Animal: General | null |
Antidepressants are a class of medications used to treat major depressive disorder, anxiety disorders, chronic pain, and addiction.
Common side effects of antidepressants include dry mouth, weight gain, dizziness, headaches, akathisia, sexual dysfunction, and emotional blunting. There is an increased risk of suicidal thinking and behavior when taken by children, adolescents, and young adults. Discontinuation syndrome, which resembles recurrent depression in the case of the SSRI class, may occur after stopping the intake of any antidepressant, having effects which may be permanent and irreversible.
Research regarding the effectiveness of antidepressants for depression in adults is controversial and has found both benefits and drawbacks. Meanwhile, evidence of benefit in children and adolescents is unclear, even though antidepressant use has considerably increased in children and adolescents in the 2000s. While a 2018 study found that the 21 most commonly prescribed antidepressant medications were slightly more effective than placebos for the short-term (acute) treatments of adults with major depressive disorder, other research has found that the placebo effect may account for most or all of the drugs' observed efficacy.
Research on the effectiveness of antidepressants is generally done on people who have severe symptoms, a population that exhibits much weaker placebo responses, meaning that the results may not be extrapolated to the general population that has not (or has not yet) been diagnosed with anxiety or depression.
Medical uses
Antidepressants are prescribed to treat major depressive disorder (MDD), anxiety disorders, chronic pain, and some addictions. Antidepressants are often used in combination with one another.
Despite its longstanding prominence in pharmaceutical advertising, the idea that low serotonin levels cause depression is not supported by scientific evidence. Proponents of the monoamine hypothesis of depression recommend choosing an antidepressant which impacts the most prominent symptoms. Under this practice, for example, a person with MDD who is also anxious or irritable would be treated with selective serotonin reuptake inhibitors (SSRIs) or norepinephrine reuptake inhibitors, while a person suffering from loss of energy and enjoyment of life would take a norepinephrine–dopamine reuptake inhibitor. | Antidepressant | Wikipedia | 467 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Major depressive disorder
The UK National Institute for Health and Care Excellence (NICE)'s 2022 guidelines indicate that antidepressants should not be routinely used for the initial treatment of mild depression, "unless that is the person's preference". The guidelines recommended that antidepressant treatment be considered:
For people with a history of moderate or severe depression.
For people with mild depression that has been present for an extended period.
As a first-line treatment for moderate to severe depression.
As a second-line treatment for mild depression that persists after other interventions.
The guidelines further note that in most cases, antidepressants should be used in combination with psychosocial interventions and should be continued for at least six months to reduce the risk of relapse and that SSRIs are typically better tolerated than other antidepressants.
American Psychiatric Association (APA) treatment guidelines recommend that initial treatment be individually tailored based on factors including the severity of symptoms, co-existing disorders, prior treatment experience, and the person's preference. Options may include antidepressants, psychotherapy, electroconvulsive therapy (ECT), transcranial magnetic stimulation (TMS), or light therapy. The APA recommends antidepressant medication as an initial treatment choice in people with mild, moderate, or severe major depression, and that should be given to all people with severe depression unless ECT is planned.
Reviews of antidepressants generally find that they benefit adults with depression. On the other hand, some contend that most studies on antidepressant medication are confounded by several biases: the lack of an active placebo, which means that many people in the placebo arm of a double-blind study may deduce that they are not getting any true treatment, thus destroying double-blindness; a short follow up after termination of treatment; non-systematic recording of adverse effects; very strict exclusion criteria in samples of patients; studies being paid for by the industry; selective publication of results. This means that the small beneficial effects that are found may not be statistically significant. | Antidepressant | Wikipedia | 429 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Among the 21 most commonly prescribed antidepressants, the most effective and well-tolerated are escitalopram, paroxetine, sertraline, agomelatine, and mirtazapine. For children and adolescents with moderate to severe depressive disorder, some evidence suggests fluoxetine (either with or without cognitive behavioral therapy) is the best treatment, but more research is needed to be certain. Sertraline, escitalopram, and duloxetine may also help reduce symptoms.
A 2023 systematic review and meta-analysis of randomized controlled trials of antidepressants for major depressive disorder found that the medications provided only small or doubtful benefits in terms of quality of life. Likewise, a 2022 systematic review and meta-analysis of randomized controlled trials of antidepressants for major depressive disorder in children and adolescents found small improvements in quality of life. Quality of life as an outcome measure is often selectively reported in trials of antidepressants.
Anxiety disorders
For children and adolescents, fluvoxamine is effective in treating a range of anxiety disorders. Fluoxetine, sertraline, and paroxetine can also help with managing various forms of anxiety in children and adolescents.
Meta-analyses of published and unpublished trials have found that antidepressants have a placebo-subtracted effect size (standardized mean difference or SMD) in the treatment of anxiety disorders of around 0.3, which equates to a small improvement and is roughly the same magnitude of benefit as their effectiveness in the treatment of depression. The effect size (SMD) for improvement with placebo in trials of antidepressants for anxiety disorders is approximately 1.0, which is a large improvement in terms of effect size definitions. In relation to this, most of the benefit of antidepressants for anxiety disorders is attributable to placebo responses rather than to the effects of the antidepressants themselves.
Generalized anxiety disorder
Antidepressants are recommended by the National Institute for Health and Care Excellence (NICE) for the treatment of generalized anxiety disorder (GAD) that has failed to respond to conservative measures such as education and self-help activities. GAD is a common disorder in which the central feature is excessively worrying about numerous events. Key symptoms include excessive anxiety about events and issues going on around them and difficulty controlling worrisome thoughts that persists for at least 6 months. | Antidepressant | Wikipedia | 502 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Antidepressants provide a modest to moderate reduction in anxiety in GAD. The efficacy of different antidepressants is similar.
Social anxiety disorder
Some antidepressants are used as a treatment for social anxiety disorder, but their efficacy is not entirely convincing, as only a small proportion of antidepressants showed some effectiveness for this condition. Paroxetine was the first drug to be FDA-approved for this disorder. Its efficacy is considered beneficial, although not everyone responds favorably to the drug. Sertraline and fluvoxamine extended-release were later approved for it as well, while escitalopram is used off-label with acceptable efficiency. However, there is not enough evidence to support Citalopram for treating social anxiety disorder, and fluoxetine was no better than a placebo in clinical trials. SSRIs are used as a first-line treatment for social anxiety, but they do not work for everyone. One alternative would be venlafaxine, an SNRI, which has shown benefits for social phobia in five clinical trials against a placebo, while the other SNRIs are not considered particularly useful for this disorder as many of them did not undergo testing for it. , it is unclear if duloxetine and desvenlafaxine can provide benefits for people with social anxiety. However, another class of antidepressants called MAOIs are considered effective for social anxiety, but they come with many unwanted side effects and are rarely used. Phenelzine was shown to be a good treatment option, but its use is limited by dietary restrictions. Moclobemide is a RIMA and showed mixed results, but still received approval in some European countries for social anxiety disorder. TCA antidepressants, such as clomipramine and imipramine, are not considered effective for this anxiety disorder in particular. This leaves out SSRIs such as paroxetine, sertraline, and fluvoxamine CR as acceptable and tolerated treatment options for this disorder.
Obsessive–compulsive disorder
SSRIs are a second-line treatment for adult obsessive–compulsive disorder (OCD) with mild functional impairment, and a first-line treatment for those with moderate or severe impairment. | Antidepressant | Wikipedia | 470 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
In children, SSRIs are considered as a second-line therapy in those with moderate-to-severe impairment, with close monitoring for psychiatric adverse effects. Sertraline and fluoxetine are effective in treating OCD for children and adolescents.
Clomipramine, a TCA drug, is considered effective and useful for OCD. However, it is used as a second-line treatment because it is less well-tolerated than SSRIs. Despite this, it has not shown superiority to fluvoxamine in trials. All SSRIs can be used effectively for OCD. SNRI use may also be attempted, though no SNRIs have been approved for the treatment of OCD. Despite these treatment options, many patients remain symptomatic after initiating the medication, and less than half achieve remission.
Placebo responses are a large component of the benefit of antidepressants in the treatment of depression and anxiety. However, placebo responses with antidepressants are lower in magnitude in the treatment of OCD compared to depression and anxiety. A 2019 meta-analysis found placebo improvement effect sizes (SMD) of about 1.2 for depression, 1.0 for anxiety disorders, and 0.6 for OCD with antidepressants. | Antidepressant | Wikipedia | 259 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Post–traumatic stress disorder
Antidepressants are one of the treatment options for PTSD. However, their efficacy is not well established. Paroxetine and sertraline have been FDA approved for the treatment of PTSD. Paroxetine has slightly higher response and remission rates than sertraline for this condition. However, neither drug is considered very helpful for a broad patient demographic. Fluoxetine and venlafaxine are used off-label. Fluoxetine has produced unsatisfactory mixed results. Venlafaxine showed response rates of 78%, which is significantly higher than what paroxetine and sertraline achieved. However, it did not address as many symptoms of PTSD as paroxetine and sertraline, in part due to the fact that venlafaxine is an SNRI. This class of drugs inhibits the reuptake of norepinephrine, which may cause anxiety in some patients. Fluvoxamine, escitalopram, and citalopram were not well-tested for this disorder. MAOIs, while some of them may be helpful, are not used much because of their unwanted side effects. This leaves paroxetine and sertraline as acceptable treatment options for some people, although more effective antidepressants are needed.
Panic disorder
Panic disorder is treated relatively well with medications compared to other disorders. Several classes of antidepressants have shown efficacy for this disorder, with SSRIs and SNRIs used first-line. Paroxetine, sertraline, and fluoxetine are FDA-approved for panic disorder, while fluvoxamine, escitalopram, and citalopram are also considered effective for them. SNRI venlafaxine is also approved for this condition. Unlike social anxiety and PTSD, some TCAs antidepressants, like clomipramine and imipramine, have shown efficacy for panic disorder. Moreover, the MAOI phenelzine is also considered useful. Panic disorder has many drugs for its treatment. However, the starting dose must be lower than the one used for major depressive disorder because people have reported an increase in anxiety as a result of starting the medication. In conclusion, while panic disorder's treatment options seem acceptable and useful for this condition, many people are still symptomatic after treatment with residual symptoms. | Antidepressant | Wikipedia | 501 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Eating disorders
Antidepressants are recommended as an alternative or additional first step to self-help programs in the treatment of bulimia nervosa. SSRIs (fluoxetine in particular) are preferred over other antidepressants due to their acceptability, tolerability, and superior reduction of symptoms in short-term trials. Long-term efficacy remains poorly characterized. Bupropion is not recommended for the treatment of eating disorders, due to an increased risk of seizure.
Similar recommendations apply to binge eating disorder. SSRIs provide short-term reductions in binge eating behavior, but have not been associated with significant weight loss.
Clinical trials have generated mostly negative results for the use of SSRIs in the treatment of anorexia nervosa. Treatment guidelines from the National Institute of Health and Care Excellence (NICE) recommend against the use of SSRIs in this disorder. Those from the American Psychiatric Association (APA) note that SSRIs confer no advantage regarding weight gain, but may be used for the treatment of co-existing depressive, anxiety, or obsessive–compulsive disorders.
Pain
Fibromyalgia
A 2012 meta-analysis concluded that antidepressant treatment favorably affects pain, health-related quality of life, depression, and sleep in fibromyalgia syndrome. Tricyclics appear to be the most effective class, with moderate effects on pain and sleep, and small effects on fatigue and health-related quality of life. The fraction of people experiencing a 30% pain reduction on tricyclics was 48%, versus 28% on placebo. For SSRIs and SNRIs, the fractions of people experiencing a 30% pain reduction were 36% (20% in the placebo comparator arms) and 42% (32% in the corresponding placebo comparator arms) respectively. Discontinuation of treatment due to side effects was common. Antidepressants including amitriptyline, fluoxetine, duloxetine, milnacipran, moclobemide, and pirlindole are recommended by the European League Against Rheumatism (EULAR) for the treatment of fibromyalgia based on "limited evidence". | Antidepressant | Wikipedia | 464 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Neuropathic pain
A 2014 meta-analysis from the Cochrane Collaboration found the antidepressant duloxetine to be effective for the treatment of pain resulting from diabetic neuropathy. The same group reviewed data for amitriptyline in the treatment of neuropathic pain and found limited useful randomized clinical trial data. They concluded that the long history of successful use in the community for the treatment of fibromyalgia and neuropathic pain justified its continued use. The group was concerned about the potential overestimation of the amount of pain relief provided by amitriptyline, and highlighted that only a small number of people will experience significant pain relief by taking this medication.
Other uses
Antidepressants may be modestly helpful for treating people who have both depression and alcohol dependence, however, the evidence supporting this association is of low quality. Bupropion is used to help people stop smoking. Antidepressants are also used to control some symptoms of narcolepsy. Antidepressants may be used to relieve pain in people with active rheumatoid arthritis. However, further research is required. Antidepressants have been shown to be superior to placebo in treating depression in individuals with physical illness, although reporting bias may have exaggerated this finding. Antidepressants have been shown to improve some parts of cognitive functioning for depressed users, such as memory, attention, and processing speed.
Certain antidepressants acting as serotonin 5-HT2A receptor antagonists, such as trazodone and mirtazapine, have been used as hallucinogen antidotes or "trip killers" to block the effects of serotonergic psychedelics like psilocybin and lysergic acid diethylamide (LSD). | Antidepressant | Wikipedia | 372 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Limitations and strategies
Among individuals treated with a given antidepressant, between 30% and 50% do not show a response. Approximately one-third of people achieve a full remission, one-third experience a response, and one-third are non-responders. Partial remission is characterized by the presence of poorly defined residual symptoms. These symptoms typically include depressed mood, anxiety, sleep disturbance, fatigue, and diminished interest or pleasure. It is currently unclear which factors predict partial remission. However, it is clear that residual symptoms are powerful predictors of relapse, with relapse rates three to six times higher in people with residual symptoms than in those, who experience full remission. In addition, antidepressant drugs tend to lose efficacy throughout long-term maintenance therapy. According to data from the Centers for Disease Control and Prevention, less than one-third of Americans taking one antidepressant medication have seen a mental health professional in the previous year. Several strategies are used in clinical practice to try to overcome these limits and variations. They include switching medication, augmentation, and combination. | Antidepressant | Wikipedia | 226 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
There is controversy amongst researchers regarding the efficacy and risk-benefit ratio of antidepressants. Although antidepressants consistently out-perform a placebo in meta-analyses, the difference is modest and it is not clear that their statistical superiority results in clinical efficacy. The aggregate effect of antidepressants typically results in changes below the threshold of clinical significance on depression rating scales. Proponents of antidepressants counter that the most common scale, the HDRS, is not suitable for assessing drug action, that the threshold for clinical significance is arbitrary, and that antidepressants consistently result in significantly raised scores on the mood item of the scale. Assessments of antidepressants using alternative, more sensitive scales, such as the MADRS, do not result in marked difference from the HDRS and likewise only find a marginal clinical benefit. Another hypothesis proposed to explain the poor performance of antidepressants in clinical trials is a high treatment response heterogeneity. Some patients, that differ strongly in their response to antidepressants, could influence the average response, while the heterogeneity could itself be obscured by the averaging. Studies have not supported this hypothesis, but it is very difficult to measure treatment effect heterogeneity. Poor and complex clinical trial design might also account for the small effects seen for antidepressants. The randomized controlled trials used to approve drugs are short, and may not capture the full effect of antidepressants. Additionally, the placebo effect might be inflated in these trials by frequent clinical consultation, lowering the comparative performance of antidepressants. Critics agree that current clinical trials are poorly-designed, which limits the knowledge on antidepressants. More naturalistic studies, such as STAR*D, have produced results, which suggest that antidepressants may be less effective in clinical practice than in randomized controlled trials. | Antidepressant | Wikipedia | 383 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Critics of antidepressants maintain that the superiority of antidepressants over placebo is the result of systemic flaws in clinical trials and the research literature. Trials conducted with industry involvement tend to produce more favorable results, and accordingly many of the trials included in meta-analyses are at high risk of bias. Additionally, meta-analyses co-authored by industry employees find more favorable results for antidepressants. The results of antidepressant trials are significantly more likely to be published if they are favorable, and unfavorable results are very often left unpublished or misreported, a phenomenon called publication bias or selective publication. Although this issue has diminished with time, it remains an obstacle to accurately assessing the efficacy of antidepressants. Misreporting of clinical trial outcomes and of serious adverse events, such as suicide, is common. Ghostwriting of antidepressant trials is widespread, a practice in which prominent researchers, or so-called key opinion leaders, attach their names to studies actually written by pharmaceutical company employees or consultants. A particular concern is that the psychoactive effects of antidepressants may lead to the unblinding of participants or researchers, enhancing the placebo effect and biasing results. Some have therefore maintained that antidepressants may only be active placebos. When these and other flaws in the research literature are not taken into account, meta-analyses may find inflated results on the basis of poor evidence.
Critics contend that antidepressants have not been proven sufficiently effective by RCTs or in clinical practice and that the widespread use of antidepressants is not evidence-based. They also note that adverse effects, including withdrawal difficulties, are likely underreported, skewing clinicians' ability to make risk-benefit judgements. Accordingly, they believe antidepressants are overused, particularly for non-severe depression and conditions in which they are not indicated. Critics charge that the widespread use and public acceptance of antidepressants is the result of pharmaceutical advertising, research manipulation, and misinformation.
Current mainstream psychiatric opinion recognizes the limitations of antidepressants but recommends their use in adults with more severe depression as a first-line treatment.
Switching antidepressants | Antidepressant | Wikipedia | 455 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
The American Psychiatric Association 2000 Practice Guideline advises that where no response is achieved within the following six to eight weeks of treatment with an antidepressant, switch to an antidepressant in the same class, and then to a different class. A 2006 meta-analysis review found wide variation in the findings of prior studies: for people who had failed to respond to an SSRI antidepressant, between 12% and 86% showed a response to a new drug. However, the more antidepressants an individual had previously tried, the less likely they were to benefit from a new antidepressant trial. However, a later meta-analysis found no difference between switching to a new drug and staying on the old medication: although 34% of treatment-resistant people responded when switched to the new drug, 40% responded without being switched.
Augmentation and combination
For a partial response, the American Psychiatric Association (APA) guidelines suggest augmentation or adding a drug from a different class. These include lithium and thyroid augmentation, dopamine agonists, sex steroids, NRIs, glucocorticoid-specific agents, or the newer anticonvulsants.
A combination strategy involves adding another antidepressant, usually from a different class to affect other mechanisms. Although this may be used in clinical practice, there is little evidence for the relative efficacy or adverse effects of this strategy. Other tests conducted include the use of psychostimulants as an augmentation therapy. Several studies have shown the efficacy of combining modafinil for treatment-resistant people. It has been used to help combat SSRI-associated fatigue.
Long-term use and stopping
The effects of antidepressants typically do not continue once the course of medication ends. This results in a high rate of relapse. In 2003, a meta-analysis found that 18% of people who had responded to an antidepressant relapsed while still taking it, compared to 41% whose antidepressant was switched for a placebo. | Antidepressant | Wikipedia | 423 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
A gradual loss of therapeutic benefit occurs in a minority of people during the course of treatment. A strategy involving the use of pharmacotherapy in the treatment of the acute episode, followed by psychotherapy in its residual phase, has been suggested by some studies. For patients who wish to stop their antidepressants, engaging in brief psychological interventions such as Preventive Cognitive Therapy or mindfulness-based cognitive therapy while tapering down has been found to diminish the risk for relapse.
Adverse effects
Antidepressants can cause various adverse effects, depending on the individual and the drug in question.
Almost any medication involved with serotonin regulation has the potential to cause serotonin toxicity (also known as serotonin syndrome) – an excess of serotonin that can induce mania, restlessness, agitation, emotional lability, insomnia, and confusion as its primary symptoms. Although the condition is serious, it is not particularly common, generally only appearing at high doses or while on other medications. Assuming proper medical intervention has been taken (within about 24 hours) it is rarely fatal. Antidepressants appear to increase the risk of diabetes by about 1.3-fold.
MAOIs tend to have pronounced (sometimes fatal) interactions with a wide variety of medications and over-the-counter drugs. If taken with foods that contain very high levels of tyramine (e.g., mature cheese, cured meats, or yeast extracts), they may cause a potentially lethal hypertensive crisis. At lower doses, the person may only experience a headache due to an increase in blood pressure.
In response to these adverse effects, a different type of MAOI, the class of reversible inhibitor of monoamine oxidase A (RIMA), has been developed. The primary advantage of RIMAs is that they do not require the person to follow a special diet while being purportedly effective as SSRIs and tricyclics in treating depressive disorders.
Tricyclics and SSRI can cause the so-called drug-induced QT prolongation, especially in older adults; this condition can degenerate into a specific type of abnormal heart rhythm called Torsades de points, which can potentially lead to sudden cardiac arrest.
Some antidepressants are also believed to increase thoughts of suicidal ideation.
Antidepressants have been associated with an increased risk of dementia in older adults. | Antidepressant | Wikipedia | 493 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Researchers have developed a tool that allows people to rate their concern about common side effects of antidepressants. The tool ranks potential treatment options in a visual display that highlights the drugs with side effects of least concern to an individual.
Pregnancy
SSRI use in pregnancy has been associated with a variety of risks with varying degrees of proof of causation. As depression is independently associated with negative pregnancy outcomes, determining the extent to which observed associations between antidepressant use and specific adverse outcomes reflect a causative relationship has been difficult in some cases. In other cases, the attribution of adverse outcomes to antidepressant exposure seems fairly clear.
SSRI use in pregnancy is associated with an increased risk of spontaneous abortion of about 1.7-fold, and is associated with preterm birth and low birth weight.
A systematic review of the risk of major birth defects in antidepressant-exposed pregnancies found a small increase (3% to 24%) in the risk of major malformations and a risk of cardiovascular birth defects that did not differ from non-exposed pregnancies. A study of fluoxetine-exposed pregnancies found a 12% increase in the risk of major malformations that did not reach statistical significance. Other studies have found an increased risk of cardiovascular birth defects among depressed mothers not undergoing SSRI treatment, suggesting the possibility of ascertainment bias, e.g. that worried mothers may pursue more aggressive testing of their infants. Another study found no increase in cardiovascular birth defects and a 27% increased risk of major malformations in SSRI exposed pregnancies. The FDA advises for the risk of birth defects with the use of paroxetine and the MAOI should be avoided.
A 2013 systematic review and meta-analysis found that antidepressant use during pregnancy was statistically significantly associated with some pregnancy outcomes, such as gestational age and preterm birth, but not with other outcomes. The same review cautioned that because differences between the exposed and unexposed groups were small, it was doubtful whether they were clinically significant.
A neonate (infant less than 28 days old) may experience a withdrawal syndrome from abrupt discontinuation of the antidepressant at birth. Antidepressants can be present in varying amounts in breast milk, but their effects on infants are currently unknown. | Antidepressant | Wikipedia | 483 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Moreover, SSRIs inhibit nitric oxide synthesis, which plays an important role in setting the vascular tone. Several studies have pointed to an increased risk of prematurity associated with SSRI use, and this association may be due to an increased risk of pre-eclampsia during pregnancy.
Antidepressant-induced mania
Another possible problem with antidepressants is the chance of antidepressant-induced mania or hypomania in people with or without a diagnosis of bipolar disorder. Many cases of bipolar depression are very similar to those of unipolar depression. Therefore, the person can be misdiagnosed with unipolar depression and be given antidepressants. Studies have shown that antidepressant-induced mania can occur in 20–40% of people with bipolar disorder. For bipolar depression, antidepressants (most frequently SSRIs) can exacerbate or trigger symptoms of hypomania and mania. Bupropion has been associated with a lower risk of mood switch than other antidepressants.
Suicide
Studies have shown that the use of antidepressants is correlated with an increased risk of suicidal behavior and thinking (suicidality) in those aged under 25 years old. This problem has been serious enough to warrant government intervention by the US Food and Drug Administration (FDA) to warn of the increased risk of suicidality during antidepressant treatment. According to the FDA, the heightened risk of suicidality occurs within the first one to two months of treatment. The National Institute for Health and Care Excellence (NICE) places the excess risk in the "early stages of treatment". A meta-analysis suggests that the relationship between antidepressant use and suicidal behavior or thoughts is age-dependent. Compared with placebo, the use of antidepressants is associated with an increase in suicidal behavior or thoughts among those 25 years old or younger (OR=1.62). A review of RCTs and epidemiological studies by Healy and Whitaker found an increase in suicidal acts by a factor of 2.4. There is no effect or possibly a mild protective effect among those aged 25 to 64 (OR=0.79). Antidepressant treatment has a protective effect against suicidality among those aged 65 and over (OR=0.37). | Antidepressant | Wikipedia | 472 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Sexual dysfunction
Sexual side effects are also common with SSRIs, such as loss of sexual drive, failure to reach orgasm, and erectile dysfunction. Although usually reversible, these sexual side-effects can, in rare cases, continue after the drug has been completely withdrawn.
In a study of 1,022 outpatients, overall sexual dysfunction with all antidepressants averaged 59.1% with SSRI values between 57% and 73%, mirtazapine 24%, nefazodone 8%, amineptine 7%, and moclobemide 4%. Moclobemide, a selective reversible MAO-A inhibitor, does not cause sexual dysfunction and can lead to an improvement in all aspects of sexual function.
Biochemical mechanisms suggested as causative include increased serotonin, particularly affecting 5-HT2 and 5-HT3 receptors; decreased dopamine; decreased norepinephrine; blockade of cholinergic and α1adrenergic receptors; inhibition of nitric oxide synthetase; and elevation of prolactin levels. Mirtazapine is reported to have fewer sexual side effects, most likely because it antagonizes 5-HT2 and 5-HT3 receptors and may, in some cases, reverse sexual dysfunction induced by SSRIs by the same mechanism.
Bupropion, a weak NDRI and nicotinic antagonist, may be useful in treating reduced libido as a result of SSRI treatment.
Emotional blunting
Certain antidepressants may cause emotional blunting, characterized by a reduced intensity of both positive and negative emotions as well as symptoms of apathy, indifference, and amotivation. It may be experienced as either beneficial or detrimental depending on the situation. This side effect has been particularly associated with serotonergic antidepressants like SSRIs and SNRIs but may be less with atypical antidepressants like bupropion, agomelatine, and vortioxetine. Higher doses of antidepressants seem to be more likely to produce emotional blunting than lower doses. Emotional blunting can be decreased by reducing dosage, discontinuing the medication, or switching to a different antidepressant that may have less propensity for causing this side effect. | Antidepressant | Wikipedia | 480 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Changes in weight
Changes in appetite or weight are common among antidepressants but are largely drug-dependent and related to which neurotransmitters they affect. Mirtazapine and paroxetine, for example, may be associated with weight gain and/or increased appetite, while others (such as bupropion and venlafaxine) achieve the opposite effect.
The antihistaminic properties of certain TCA- and TeCA-class antidepressants have been shown to contribute to the common side effects of increased appetite and weight gain associated with these classes of medication.
Bone loss
A 2021 nationwide cohort study in South Korea observed a link between SSRI use and bone loss, particularly in recent users. The study also stressed the need of further research to better understand these effects. A 2012 review found that SSRIs along with tricyclic antidepressants were associated with a significant increase in the risk of osteoporotic fractures, peaking in the months after initiation, and moving back towards baseline during the year after treatment was stopped. These effects exhibited a dose–response relationship within SSRIs which varied between different drugs of that class. A 2018 meta-analysis of 11 small studies found a reduction in bone density of the lumbar spine in SSRI users which affected older people the most.
Risk of death
A 2017 meta-analysis found that antidepressants were associated with a significantly increased risk of death (+33%) and new cardiovascular complications (+14%) in the general population. Conversely, risks were not greater in people with existing cardiovascular disease.
Discontinuation syndrome
Antidepressant discontinuation syndrome, also called antidepressant withdrawal syndrome, is a condition that can occur following the interruption, reduction, or discontinuation of antidepressant medication. The symptoms may include flu-like symptoms, trouble sleeping, nausea, poor balance, sensory changes, and anxiety. The problem usually begins within three days and may last for several months. Rarely psychosis may occur. | Antidepressant | Wikipedia | 418 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
A discontinuation syndrome can occur after stopping any antidepressant including selective serotonin reuptake inhibitors (SSRIs), serotonin–norepinephrine reuptake inhibitors (SNRIs), and tricyclic antidepressants (TCAs). The risk is greater among those who have taken the medication for longer and when the medication in question has a short half-life. The underlying reason for its occurrence is unclear. The diagnosis is based on the symptoms.
Methods of prevention include gradually decreasing the dose among those who wish to stop, though it is possible for symptoms to occur with tapering. Treatment may include restarting the medication and slowly decreasing the dose. People may also be switched to the long-acting antidepressant fluoxetine, which can then be gradually decreased.
Approximately 20–50% of people who suddenly stop an antidepressant develop an antidepressant discontinuation syndrome. The condition is generally not serious. Though about half of people with symptoms describe them as severe. Some restart antidepressants due to the severity of the symptoms.
Pharmacology
Antidepressants act via a large number of different mechanisms of action. This includes serotonin reuptake inhibition (SSRIs, SNRIs, TCAs, vilazodone, vortioxetine), norepinephrine reuptake inhibition (NRIs, SNRIs, TCAs), dopamine reuptake inhibition (bupropion, amineptine, nomifensine), direct modulation of monoamine receptors (vilazodone, vortioxetine, SARIs, agomelatine, TCAs, TeCAs, antipsychotics), monoamine oxidase inhibition (MAOIs), and NMDA receptor antagonism (ketamine, esketamine, dextromethorphan), among others (e.g., brexanolone, tianeptine). Some antidepressants also have additional actions, like sigma receptor modulation (certain SSRIs, TCAs, dextromethorphan) and antagonism of histamine H1 and muscarinic acetylcholine receptors (TCAs, TeCAs). | Antidepressant | Wikipedia | 477 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
The earliest and most widely known scientific theory of antidepressant action is the monoamine hypothesis, which can be traced back to the 1950s and 1960s. This theory states that depression is due to an imbalance, most often a deficiency, of the monoamine neurotransmitters, namely serotonin, norepinephrine, and/or dopamine. However, serotonin in particular has been implicated, as in the serotonin hypothesis of depression. The monoamine hypothesis was originally proposed based on observations that reserpine, a drug which depletes the monoamine neurotransmitters, produced depressive effects in people, and that certain hydrazine antituberculosis agents like iproniazid, which prevent the breakdown of monoamine neurotransmitters, produced apparent antidepressant effects. Most currently marketed antidepressants, which are monoaminergic in their actions, are theoretically consistent with the monoamine hypothesis. Despite the widespread nature of the monoamine hypothesis, it has a number of limitations: for one, all monoaminergic antidepressants have a delayed onset of action of at least a week; and secondly, many people with depression do not respond to monoaminergic antidepressants. A number of alternative hypotheses have been proposed, including hypotheses involving glutamate, neurogenesis, epigenetics, cortisol hypersecretion, and inflammation, among others. | Antidepressant | Wikipedia | 310 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
In 2022, a major systematic umbrella review by Joanna Moncrieff and colleagues showed that the serotonin theory of depression was not supported by evidence from a wide variety of areas. The authors concluded that there is no association between serotonin and depression, and that there is no evidence that strongly supports the theory that depression is caused by low serotonin activity or concentrations. Other literature had described the lack of support for the theory previously. In many of the expert responses to the review, it was stated that the monoamine hypothesis had already long been abandoned by psychiatry. This is in spite of about 90% of the general public in Western countries believing the theory to be true and many in the field of psychiatry continuing to promote the theory up to recent times. In addition to the serotonin umbrella review, reviews have found that reserpine, a drug that depletes the monoamine neurotransmitters—including serotonin, norepinephrine, and dopamine—shows no consistent evidence of producing depressive effects. Instead, findings of reserpine and mood are highly mixed, with similar proportions of studies finding that it has no influence on mood, produces depressive effects, or actually has antidepressant effects. In relation to this, the general monoamine hypothesis, as opposed to only the serotonin theory of depression, likewise does not appear to be well-supported by evidence.
The serotonin and monoamine hypotheses of depression have been heavily promoted by the pharmaceutical industry (e.g., in advertisements) and by the psychiatric profession at large despite the lack of evidence in support of them. In the case of the pharmaceutical industry, this can be attributed to obvious financial incentives, with the theory creating a bias against non-pharmacological treatments for depression. | Antidepressant | Wikipedia | 371 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
An alternative theory for antidepressant action proposed by certain academics such as Irving Kirsch and Joanna Moncrieff is that they work largely or entirely via placebo mechanisms. This is supported by meta-analyses of randomized controlled trials of antidepressants for depression, which consistently show that placebo groups in trials improve about 80 to 90% as much as antidepressant groups on average and that antidepressants are only marginally more effective for depression than placebos. The difference between antidepressants and placebo corresponds to an effect size (SMD) of about 0.3, which in turn equates to about a 2- to 3-point additional improvement on the 0–52-point (HRSD) and 0–60-point (MADRS) depression rating scales used in trials. Differences in effectiveness between different antidepressants are small and not clinically meaningful. The small advantage of antidepressants over placebo is often statistically significant and is the basis for their regulatory approval, but is sufficiently modest that its clinical significance is doubtful. Moreover, the small advantage of antidepressants over placebo may simply be a methodological artifact caused by unblinding due to the psychoactive effects and side effects of antidepressants, in turn resulting in enhanced placebo effects and apparent antidepressant efficacy. Placebos have been found to modify the activity of several brain regions and to increase levels of dopamine and endogenous opioids in the reward pathways. It has been argued by Kirsch that although antidepressants may be used efficaciously for depression as active placebos, they are limited by significant pharmacological side effects and risks, and therefore non-pharmacological therapies, such as psychotherapy and lifestyle changes, which can have similar efficacy to antidepressants but do not have their adverse effects, ought to be preferred as treatments in people with depression. | Antidepressant | Wikipedia | 405 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
The placebo response, or the improvement in scores in the placebo group in clinical trials, is not only due to the placebo effect, but is also due to other phenomena such as spontaneous remission and regression to the mean. Depression tends to have an episodic course, with people eventually recovering even with no medical intervention, and people tend to seek treatment, as well as enroll in clinical trials, when they are feeling their worst. In meta-analyses of trials of depression therapies, Kirsch estimated based on improvement in untreated waiting-list controls that spontaneous remission and regression to the mean only account for about 25% of the improvement in depression scores with antidepressant therapy. However, another academic, Michael P. Hengartner, has argued and presented evidence that spontaneous remission and regression to the mean might actually account for most of the improvement in depression scores with antidepressants, and that the substantial placebo effect observed in clinical trials might largely be a methodological artifact. This suggests that antidepressants may be associated with much less genuine treatment benefit, whether due to the placebo effect or to the antidepressant itself, than has been traditionally assumed.
Types
Selective serotonin reuptake inhibitors
Selective serotonin reuptake inhibitors (SSRIs) are believed to increase the extracellular level of the neurotransmitter serotonin by limiting its reabsorption into the presynaptic cell, increasing the level of serotonin in the synaptic cleft available to bind to the postsynaptic receptor. They have varying degrees of selectivity for the other monoamine transporters, with pure SSRIs having only weak affinity for the norepinephrine and dopamine transporters.
SSRIs are the most widely prescribed antidepressants in many countries. The efficacy of SSRIs in mild or moderate cases of depression has been disputed.
Serotonin–norepinephrine reuptake inhibitors
Serotonin–norepinephrine reuptake inhibitors (SNRIs) are potent inhibitors of the reuptake of serotonin and norepinephrine. These neurotransmitters are known to play an important role in mood. SNRIs can be contrasted with the more widely used selective serotonin reuptake inhibitors (SSRIs), which act mostly upon serotonin alone. | Antidepressant | Wikipedia | 492 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
The human serotonin transporter (SERT) and norepinephrine transporter (NET) are membrane proteins that are responsible for the reuptake of serotonin and norepinephrine. Balanced dual inhibition of monoamine reuptake may offer advantages over other antidepressants drugs by treating a wider range of symptoms.
SNRIs are sometimes also used to treat anxiety disorders, obsessive–compulsive disorder (OCD), attention deficit hyperactivity disorder (ADHD), chronic neuropathic pain, and fibromyalgia syndrome (FMS), and for the relief of menopausal symptoms.
Serotonin modulators and stimulators
Serotonin modulator and stimulators (SMSs), sometimes referred to more simply as "serotonin modulators", are a type of drug with a multimodal action specific to the serotonin neurotransmitter system. To be precise, SMSs simultaneously modulate one or more serotonin receptors and inhibit the reuptake of serotonin. The term was coined in reference to the mechanism of action of the serotonergic antidepressant vortioxetine, which acts as a serotonin reuptake inhibitor (SRI), a partial agonist of the 5-HT1A receptor, and antagonist of the 5-HT3 and 5-HT7 receptors. However, it can also technically be applied to vilazodone, which is an antidepressant as well and acts as an SRI and 5-HT1A receptor partial agonist.
An alternative term is serotonin partial agonist/reuptake inhibitor (SPARI), which can be applied only to vilazodone.
Serotonin antagonists and reuptake inhibitors
Serotonin antagonist and reuptake inhibitors (SARIs) while mainly used as antidepressants are also anxiolytics and hypnotics. They act by antagonizing serotonin receptors such as 5-HT2A and inhibiting the reuptake of serotonin, norepinephrine, and/or dopamine. Additionally, most also act as α1-adrenergic receptor antagonists. The majority of the currently marketed SARIs belong to the phenylpiperazine class of compounds. They include trazodone and nefazodone. | Antidepressant | Wikipedia | 511 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
Tricyclic antidepressants
The majority of the tricyclic antidepressants (TCAs) act primarily as serotonin–norepinephrine reuptake inhibitors (SNRIs) by blocking the serotonin transporter (SERT) and the norepinephrine transporter (NET), respectively, which results in an elevation of the synaptic concentrations of these neurotransmitters, and therefore an enhancement of neurotransmission. Notably, with the sole exception of amineptine, the TCAs have weak affinity for the dopamine transporter (DAT), and therefore have low efficacy as dopamine reuptake inhibitors (DRIs).
Although TCAs are sometimes prescribed for depressive disorders, they have been largely replaced in clinical use in most parts of the world by newer antidepressants such as selective serotonin reuptake inhibitors (SSRIs), serotonin–norepinephrine reuptake inhibitors (SNRIs), and norepinephrine reuptake inhibitors (NRIs). Adverse effects have been found to be of a similar level between TCAs and SSRIs.
Tetracyclic antidepressants
Tetracyclic antidepressants (TeCAs) are a class of antidepressants that were first introduced in the 1970s. They are named after their chemical structure, which contains four rings of atoms, and are closely related to tricyclic antidepressants (TCAs), which contain three rings of atoms.
Monoamine oxidase inhibitors
Monoamine oxidase inhibitors (MAOIs) are chemicals that inhibit the activity of the monoamine oxidase enzyme family. They have a long history of use as medications prescribed for the treatment of depression. They are particularly effective in treating atypical depression. They are also used in the treatment of Parkinson's disease and several other disorders.
Because of potentially lethal dietary and drug interactions, MAOIs have historically been reserved as a last line of treatment, used only when other classes of antidepressant drugs (for example selective serotonin reuptake inhibitors and tricyclic antidepressants) have failed. | Antidepressant | Wikipedia | 458 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
MAOIs have been found to be effective in the treatment of panic disorder with agoraphobia, social phobia, atypical depression or mixed anxiety and depression, bulimia, and post-traumatic stress disorder, as well as borderline personality disorder. MAOIs appear to be particularly effective in the management of bipolar depression according to a retrospective-analysis. There are reports of MAOI efficacy in obsessive–compulsive disorder (OCD), trichotillomania, dysmorphophobia, and avoidant personality disorder, but these reports are from uncontrolled case reports.
MAOIs can also be used in the treatment of Parkinson's disease by targeting MAO-B in particular (therefore affecting dopaminergic neurons), as well as providing an alternative for migraine prophylaxis. Inhibition of both MAO-A and MAO-B is used in the treatment of clinical depression and anxiety disorders.
NMDA receptor antagonists
NMDA receptor antagonists like ketamine and esketamine are rapid-acting antidepressants and seem to work via blockade of the ionotropic glutamate NMDA receptor. Other NMDA antagonists may also play a role in treating depression. The combination medication dextromethorphan/bupropion (Auvelity), which contains the NMDA receptor antagonist dextromethorphan, was approved in the United States in 2022 for treating major depressive disorder.
Others
See the list of antidepressants and management of depression for other drugs that are not specifically characterized.
Adjuncts
Adjunct medications are an umbrella category of substances that increase the potency or "enhance" antidepressants. They work by affecting variables very close to the antidepressant, sometimes affecting a completely different mechanism of action. This may be attempted when depression treatments have not been successful in the past.
Common types of adjunct medication techniques generally fall into the following categories: | Antidepressant | Wikipedia | 404 | 2388 | https://en.wikipedia.org/wiki/Antidepressant | Biology and health sciences | Psychiatric drugs | Health |
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