chlange/tg_raman_ecoli_fermentation

Dataset Card for TG-Raman Spectra from E. coli Cultivation

Dataset Summary

This dataset contains offline Raman spectra collected from the cell containing samples during the cultivation of Escherichia coli W3110. Measurements were performed using Time-Gated Raman Spectroscopy (TG-Raman) to suppress background fluorescence from the complex cultivation media via temporal separation.

The dataset corresponds to a bioreactor cultivation involving a 10-hour batch phase followed by a pulse-based fed-batch phase to induce metabolic transients.

Dataset Structure

Data Points

Each entry consists of a Raman spectrum (intensity vs. Raman shift) paired with the following quantitative annotations:

• Glucose [g/L]: Primary carbon source.
• Acetate [g/L]: Primary metabolic byproduct.
• OD600: Reference optical density of the culture at the time of sampling.

Technical Specifications

Cultivation Parameters

• Organism: Escherichia coli W3110.
• Cultivation Mode: Batch and Fed-batch (pulse-feeding).
• Vessel: 3.7 L stirred-tank bioreactor.
• Duration: ~22 hours.

Measurement Setup

• Spectrometer: TimeGate Instruments TGMI.
• Technology: Time-Gated Raman Spectroscopy (532 nm pulsed laser, 100 ps pulse width).
• Reference Analytics:
  • Glucose: Enzymatic hexokinase kit.
  • Acetate: HPLC with Refractive Index and Fluorescence detection
  • OD600: UV-Vis

Citation

If you use this dataset in your research, please cite the following paper:

BibTeX:

@article{kogler2018comparison,
  title={Comparison of time-gated surface-enhanced raman spectroscopy (TG-SERS) and classical SERS based monitoring of Escherichia coli cultivation samples},
  author={K{\"o}gler, Martin and Paul, Andrea and Anane, Emmanuel and Birkholz, Mario and Bunker, Alex and Viitala, Tapani and Maiwald, Michael and Junne, Stefan and Neubauer, Peter},
  journal={Biotechnology progress},
  volume={34},
  number={6},
  pages={1533--1542},
  year={2018},
  publisher={Wiley Online Library}
}
```