Fig 1.
TNBS treatment induces significantly more inflammation than SHAM treatment in both WT and Tnf-/- mice and WT mice have a significantly more severe inflammatory infiltrate than Tnf-/- mice.
Representative photomicrographs of the colons of TNBS treated Tnf-/- (A) and WT mice (B) and SHAM treated Tnf-/- (C) and WT mice (D). Histopathological semi-quantitative scores are presented as the mean score ± SE (E). Severity of infiltrate criterion is presented as the mean score ± SE (F). *, p.05 (n = 10 mice per group)
Fig 2.
Bacteroidetes and Firmicutes are the predominant relative proportions of phyla in the feces of WT and Tnf-/- mice prior to colitis (F0) and post colitis (F10) in SHAM and TNBS treated mice.
ANOVA indicates significant differences between Bacteroidetes and Firmicutes.
Fig 3.
Tnf-/- mice had significantly less α-diversity (e.g. Observed Species) than WT mice.
Differences significant (p = 0.001) using non-parametric t-test with 999 Monte Carlo permutations and Bonferroni correction. Data rarefied (10 iterations) to a maximum depth of 30330 reads per sample.
Fig 4.
PCoA of β-diversity comparison using Bray Curtis distances revealed significant separation of microbial communities based on genotype.
p<0.001, using perMANOVA, additional analysis using PERMDISP indicates dispersion does not contributes significantly to these differences.
Table 1.
Relative proportion (%) of bacterial genera that significantly differed between the two mouse genotypes on day 0.
Table 2.
Relative proportions of significantly different bacterial genera in WT mice.
Table 3.
Relative proportions of significantly different bacterial genera in Tnf-/- mice.
Table 4.
Change from day 0 to day 10 of proportions of significantly different bacterial genera in WT mice.
Fig 5.
Canonical correspondence analysis (CCA) of fecal bacterial composition, mouse genotype, treatment, sampling date and weight of mice.
Fecal sample collected from WT and Tnf-/- mice treated with TNBS or SHAM at the beginning (F0) versus end (F10) of acute treatment. Variation explained in horizontal axis is 7.7% and the vertical axis is 2.7%.
Fig 6.
Canonical correspondence analysis (CCA) of fecal bacterial composition, mouse genotype, treatment, and histopathology criterion of mice on day 10 revealed more close associations between genotype and erosions in TNBS treated WT mice.
Variation explained in horizontal axis is 7.9% and the vertical axis is 6.8%.