Comparison of Tn5 directed reads from library replicate 1 and 2 host samples to inoculum.

Tn5 directed reads from library replicate 1 and 2 host samples were compared to the inoculum by EdgeR analysis implemented in the Bio-Tradis pipeline. Genes listed met significance criteria (logFC 1, q in vitro fitness defect (those ORFs with lower than anticipated gene insertion indices by tradis_essentiality.R analysis) were removed to reduce potential false positives. KEGG pathway and COG category was predicted by analysis of the N.musculi Genbank annotation using eggNOG Mapper-v2. (XLSX)