Bulk RNA-seq of mouse ileum of Lactobacillus rhamnosus GG or Ruminococcus gnavus monoassociated mice.

Lacticaseibacillus rhamnosus GG (LGG) is a widely consumed probiotic whose potential beneficial effects in humans have been examined in over 250 clinical trials. However, the mechanisms by which LGG modulates host gut physiology remains unknown. R. gnavus is a pathobiont that is strongly associated with inflammatory bowel diseases. Germ free mice were mono-associated with L. rhamonosus (LGG) or R. gnavus (RG) for 21 days, ileum bulk RNA-seq were performed to compare the transcriptomic profiles of LGG or RG associated mice with the transcriptome of germ-free mouse ileum. Adult C57B/L6 germ-free mice were innoculated with LGG, RG or sterile PBS (as control). Successful colonization was confirmed by genomic PCR of fecal DNA using species specific primers. Twenty one days after inoculation, ilea were dissected from PBS (n=5), LGG (n=5) and RG (n=5) colonized mice. Bulk RNA-seq was performed to compare the transcriptomic profiles between germ-free (PBS) and LGG or RG colonized mice.