Putative mutations associated with tetracycline resistance detected in Treponema spp.- an analysis of 4,355 Spirochaetales genomes

<p>Supplementary Table 1&ndash;4, , as well as multiple sequence alignment files for&nbsp;16S rRNA, rpsC, and rpsJ loci, have been deposited.</p> <p>Additionally, the archive contains a <code>scripts.txt</code> file that includes all custom Bash scripts used for:</p> <ul> <li> <p>rRNA gene detection and quantification using <em>Barrnap</em></p> </li> <li> <p>Genome quality assessment using <em>CheckM</em></p> </li> <li> <p>Gene-by-gene schema creation, allele calling, and cgMLST extraction using <em>chewBBACA</em></p> </li> <li> <p>GFF merging and wide-format transformation for summarizing rRNA copy number per genome</p> </li> </ul> <p>These materials are provided to ensure reproducibility of the analyses and to support further investigations into antimicrobial resistance in <em>Spirochaetales</em>.</p>