Fig. 3: Differentially methylated transcripts in mouse cecum.
From: Impact of the gut microbiota on the m6A epitranscriptome of mouse cecum and liver
a Pathway analysis of “molecular and cellular function” and “diseases and disorders” of transcripts differentially methylated between GF and CONV mice was performed using Ingenuity pathway analysis (IPA). log -p of the 10 most enriched pathways are displayed. Lists of genes contained in each category and comparison are given in Supplementary Data 4; b Expression log ratio of transcripts differentially methylated between GF and CONV mice related to lipid metabolism as defined in IPA. c Expression log ratio of transcripts differentially methylated between GF and CONV mice related to glycoslylation of proteins as defined in IPA. d Representation of Fut2 m6A peak (mean of read per million normalized coverage (RPM) in detected methylation peaks) from anti-m6A immunoprecipitates and input in the 3′UTR of the Fut2 transcript in cecum. Peaks were visualized for the indicated mouse models using IGV; e quantification of m6A peak on the fucosyltransferase 2 transcript (Fut2); CONV (n = 15), GF, germ-free mouse (n = 12); ex-GF (n = 4); abx (n = 9); vanco (n = 8); Am (n = 11), Lp (n = 3); data were derived from two independent sequencing experiments; data are presented as mean values ±SEM; **p-value < 0.01; ***p-value < 0.005; p-values (all compared to CONV): ex-GF: 0.8402; GF: 0.0002; abx: 0.0019; vanco: 0.7800; Am: 0.3569; Lp: 0.0070; details for statistical analysis are given in the source data file associated to this manuscript. f, g Pathway analysis of “molecular and cellular function” and “diseases and disorders” of transcripts differentially methylated between Am and GF mice (f), and LP and GF mice (g) was performed using Ingenuity pathway analysis (IPA). log -p of the 10 most enriched pathways are displayed. Lists of genes contained in each category and comparison are given in Supplementary Data 4.
