Additional file 3: of The essential genome of Streptococcus agalactiae

Dataset S2. Detailed Gene Fitness Data. Tab 1 (A909 Final Fitness Assignments) lists A909 genes alongside fitness classification as outlined in the main text. Tabs 2–4 (T0-3 ESSENTIALS Output) show raw data from ESSENTIALS analysis of sequencing data from pooled reads at each of three time points. The columns list (from left to right) gene loci, TA sites per locus, the expected insertion number given the null hypothesis that the gene is nonessential, the log2 FC value for that gene’s experimental vs. expected insertion count, the p value for the FC (generalized linear model likelihood ratio test, corrected for multiple comparisons), start and stop base pair positions for the gene’s ORF, the strand on which the ORF is read, the gene length, its name (if named), and the protein product (if known). Tab 5 (RegPrecise Regulons) lists predicted GBS regulon gene participants. Gene loci are provided for the GBS reference strain 2603 V/R and the A909 homolog. Final fitness category assignments are provided for each gene. Tab 6 (2-Component Systems) shows predicted gene participation in two-component systems identified by P2CS. Columns (from left to right) list GBS gene loci, the original literature description of the gene product function (not necessarily in GBS), the gene’s fitness category assignment, the functional class predicted by domain architecture (either response regulator [RR] or sensor histidine kinase [HK]), and whether the function of the gene or its homolog has been validated experimentally. (XLSX 815 kb)