Cysteine dependence of Lactobacillus iners is a potential therapeutic target for vaginal microbiota modulation

Compressed directories containing code and data files sufficient to reproduce analysis from Bloom et al paper on <em>Lactobacillus iners</em> (<em>Nature Microbiology</em>). An earlier, non-peer-reviewed manuscript version containing largely the same analysis was posted as a pre-print in <em>bioRxiv</em> at (https://doi.org/10.1101/2021.06.12.448098). Three compressed directory for analyses of: Vaginal <em>Lactobacillus </em>genome catalog characterization and gene content analysis. Analysis of relationship between cervicovaginal microbiota composition and cysteine concentrations in vaginal fluid from a South African cohort Analysis of results of <em>in vitro </em>mixed culture competition assays including: Pairwise competition between <em>L. iners</em> and <em>Lactobacillus crispatus</em> in <em>Lactobacillus</em> MRS broth containing L-cysteine +/- S-methyl-L-cysteine (SMC) Defined bacterial-vaginosis (BV)-like communities including <em>L. iners</em>, <em>L. crispatus</em>, and BV-associated species <em>Gardnerella vaginalis</em>, <em>Prevotella bivia</em>, and <em>Atopobium (Fannyhessea) vaginae</em> cultured in S-broth with or without SMC and/or metronidazole.