chlange/tg_raman_ecoli_fermentation_supernatant

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

Dataset Summary

This dataset contains offline Raman spectra collected from cell-free supernatant 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).
• Sampling: Offline cell-free supernatant (separated via 0.22 µm membrane).
• Reference Analytics:
  • Glucose: Enzymatic hexokinase kit.
    • Metabolites: HPLC with Refractive Index and Fluorescence detection.

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}
}