Corrected Genome Annotations Reveal Gene Loss and Antibiotic Resistance as Drivers in the Fitness Evolution of Salmonella enterica Serovar Typhimurium

Supplemental material

• Supplemental file 1 -

  Fig. S1, maximum likelihood tree of Salmonella housekeeping genes

  Fig. S2, correlation between genome size and number of protein-encoding genes

  Fig. S3, distribution of seven mosaic deleted regions

  Table S1, list of reannotated genes for eight Salmonella Typhimurium strains analyzed

  Table S2, numbers of reannotated genes and range of gene lengths

  Table S3, list of PHAST-identified prophage regions

  Table S4, list of mosaic genes identified

  Table S5, list of 12 additional Salmonella Typhimurium strains analyzed

  Table S6, functional classification analysis of genes in genomic island GI-DT12

  Table S7, list of genes found to be completely or partially lost from some of the genomes analyzed

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