title: High-throughput phenotyping of uropathogenic E. coli isolates with Fourier transform infrared spectroscopy.
abstract: Fourier transform infrared (FT-IR) spectroscopy is an established rapid whole-organism fingerprinting method that generates metabolic fingerprints from bacteria that reflect the phenotype of the microorganism under investigation. However, whilst FT-IR spectroscopy is fast (typically 10 s to 1 min per sample), the approaches for microbial sample preparation can be time consuming as plate culture or shake flasks are used for growth of the organism. We report a new approach that allows micro-cultivation of bacteria from low volumes (typically 200 μL) to be coupled with FT-IR spectroscopy. This approach is fast and easy to perform and gives equivalent data to the lengthier and more expensive shake flask cultivations (sample volume = 20 mL). With this micro-culture approach we also demonstrate high reproducibility of the metabolic fingerprints. The approach allowed separation of different isolates of Escherichia coli involved in urinary tract infection, including members of the globally disseminated ST131 clone, with respect to both genotype and resistance or otherwise to the antibiotic Ciprofloxacin.
authors: School of Chemistry and Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK.
authors: Haitham
authors: H
authors: AlRabiah
authors: Elon
authors: E
authors: Correa
authors: Mathew
authors: M
authors: Upton
authors: Royston
authors: R
authors: Goodacre
mesh_terms: D015373:Bacterial Typing Techniques / Q000191:economics / Q000379:methods*; D004926:Escherichia coli / Q000737:chemistry* / Q000145:classification*; D004927:Escherichia coli Infections / Q000382:microbiology*; D057166:High-Throughput Screening Assays / Q000191:economics / Q000379:methods*; D006801:Humans; D015203:Reproducibility of Results; D018401:Sample Size; D017550:Spectroscopy, Fourier Transform Infrared / Q000191:economics / Q000379:methods*; D013997:Time Factors