Table S3.

Comparisons of taxa relative abundances between samples of day 1 and day 8 and between day 1 and day 15

Days 1–8		Days 1–15
Genus	Bonferroni P values†	Genus	Bonferroni P values
Vehicle/SHC		Vehicle/SHC
o__RF39; f__; g__	0.0218*	o__RF39; f__; g__	0.0077**
M. vaccae/SHC		M. vaccae/SHC
o__RF39; f__; g__	0.0284*	o__RF39; f__; g__	0.4413
Vehicle/CSC		Vehicle/CSC
Allobaculum	0.2939	Allobaculum	0.1348
Blautia	0.0092**	Blautia	0.0078**
Candidatus Arthromitus	0.5377	Candidatus Arthromitus	0.0022**
Clostridium	0.1075	Clostridium	0.1348
[Eubacterium]	0.2694	[Eubacterium]	0.0221*
f__Desulfovibrionaceae; g__	0.0190*	f__Desulfovibrionaceae; g__	0.0050**
f__Enterobacteriaceae; g__	0.0847	f__Enterobacteriaceae; g__	0.0056**
f__Erysipelotrichaceae; g__	0.0234*	f__Erysipelotrichaceae; g__	0.4280
f__Helicobacteraceae	0.0020**	f__Helicobacteraceae	0.0029**
f__Helicobacteraceae; g__	0.0005***	f__Helicobacteraceae; g__	0.0004***
Helicobacter	0.0005***	Helicobacter	0.0005***
k__Bacteria	0.0029**	k__Bacteria	0.0020 **
Mucispirillum	0.0099**	Mucispirillum	0.0008***
Mycoplasma	0.1153	Mycoplasma	0.0098**
Paraprevotella	0.0006***	Paraprevotella	0.0018**
M. vaccae/CSC		M. vaccae/CSC
[Eubacterium]	0.4986	[Eubacterium]	0.1988
f__Desulfovibrionaceae; g__	0.0059**	f__Desulfovibrionaceae; g__	0.0005***
f__Helicobacteraceae	0.0020**	f__Helicobacteraceae	0.0009***
f__Helicobacteraceae; g__	0.0005***	f__Helicobacteraceae; g__	0.0003***
Helicobacter	0.0003***	Helicobacter	0.0003***
k__Bacteria	0.0004***	k__Bacteria	0.0004***
Mucispirillum	0.0047**	Mucispirillum	0.0009***
Mycoplasma	0.1796	Mycoplasma	0.0147*
o__RF39; f__; g__	0.3081	o__RF39; f__; g__	0.0126*
Paraprevotella	0.0005***	Paraprevotella	0.0004***

^†Wilcoxon signed-rank test, following significant effects of time based on ANCOM analysis, of time effects within each treatment group; *P < 0.05, **P < 0.01, ***P < 0.001.