Position of single-base mutations and IS-mediated chromosomal deletions reported for the 40 resequenced L. rhamnosus isolates (Fig. S1); Sanger sequence analysis of the SNP of L. rhamnosus ATCC 53103 (GG), B8, and B9 (Fig. S2); rifampin resistance assay performed on L. rhamnosus GG, C1, C9, and C10 (Fig. S3); mucus adhesion assay of L. rhamnosus GG, N1, N3, and N8 (Fig. S4); measurements of the generation time of L. rhamnosus GG for the four conditions tested (Table S1); list of regions that were excluded from the genomic analysis of the resequenced isolates (Table S2); general information relative to the genome resequencing of L. rhamnosus isolates (Table S3); list of SNPs and Dels reported for the 40 resequenced isolates (Table S4).
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