Table 2.

Bacterial species that are significantly increased or decreased as a proportion of all detected bacteria in Smad4^ΔLrig1 vs. control mice

	Stool Pellets			Colon Mucosal Scrapings
Species Name	% Detected Species (SMAD4+)	% Detected Species (Smad4ΔLrig1)	P Value	% Detected Species (SMAD4+)	% Detected Species (Smad4ΔLrig1)	P Value
Firmicutes; Clostridia; Clostridiales; Peptostreptococcaceae; Romboutsia; ilealis	0.8379	2.0481	0.095	0.1991	1.0541	0.016
Bacteroidetes; Bacteroidia; Bacteroidales; Bacteroidaceae; Bacteroides; oleiciplenus-rodentium	0.5212	1.2221	0.032	0.2307	0.6080	0.095
Firmicutes; Clostridia; Clostridiales; Family XIII; NA; sp31521	0.0135	0.0462	0.036	0.0076	0.0188	0.265
Bacteroidetes; Bacteroidia; Bacteroidales; Porphyromonadaceae; Parabacteroides; sp13265	0.1112	0.2483	0.016	0.0485	0.1046	0.151
Bacteroidetes; Bacteroidia; Bacteroidales; Bacteroidaceae; Bacteroides; sartorii	1.3250	3.8431	0.016	0.6562	1.3833	0.095
Bacteroidetes; Bacteroidia; Bacteroidales; NA; NA; sp12520	0.1155	0.2571	0.008	0.0662	0.1035	0.056
Bacteroidetes; Bacteroidia; Bacteroidales; Prevotellaceae; NA; sp14206	10.8367	18.3292	0.032	6.0529	8.0463	0.222
Firmicutes; Bacilli; Lactobacillales; Lactobacillaceae; Lactobacillus; johnsonii	21.3527	9.8224	0.032	9.6831	8.9486	1.000
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; NA; sp32746-sp32777	0.4938	0.2613	0.008	1.2803	1.0871	0.691
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; NA; sp32655	0.1455	0.0452	0.016	0.2828	0.2337	0.691
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; Roseburia; sp33136	0.0388	0.0050	0.011	0.1075	0.0883	0.548
Actinobacteria; Coriobacteriia; Coriobacteriales; Coriobacteriaceae; Enterorhabdus; caecimuris	0.3641	0.2244	0.008	0.4050	0.2743	0.095
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; NA; sp33577	0.1223	0.0576	0.095	0.3545	0.2342	0.016
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; Tyzzerella; sp33289-sp33291	0.0167	0.0000	0.025	0.0289	0.0186	0.672
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; NA; sp33451-sp33593	0.1123	0.0221	0.036	0.2692	0.1586	0.151
Bacteroidetes; Bacteroidia; Bacteroidales; NA; NA; sp12597-sp12621	0.2880	0.2173	0.421	0.2329	0.1312	0.008
Firmicutes; Erysipelotrichia; Erysipelotrichales; Erysipelotrichaceae; NA; sp36777	0.4539	0.1368	0.032	0.3133	0.1547	0.222
Actinobacteria; Coriobacteriia; Coriobacteriales; Coriobacteriaceae; Paraeggerthella; hongkongensis	0.0872	0.0235	0.008	0.1238	0.0595	0.095
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; Roseburia; sp33168	0.2563	0.0244	0.012	0.5081	0.2373	0.095
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; NA; sp32623	0.0563	0.0040	0.045	0.0862	0.0321	0.094
Firmicutes; Bacilli; Lactobacillales; Streptococcaceae; Streptococcus; danieliae	0.0394	0.0053	0.045	0.0392	0.0098	0.020
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; NA; sp33625	0.0490	0.0000	0.008	0.1880	0.0426	0.020
Firmicutes; Clostridia; Clostridiales; Ruminococcaceae; NA; sp35382-sp35403-sp35432	0.0966	0.0105	0.045	0.0643	0.0120	0.045
Firmicutes; Clostridia; Clostridiales; Lachnospiraceae; NA; sp32758	0.0698	0.0000	0.026	0.1215	0.0044	0.045
Firmicutes; Erysipelotrichia; Erysipelotrichales; Erysipelotrichaceae; *Stoquefichus; sp36592-sp36804	0.0178	0.0028	0.045	0.0047	0.000	0.424

Bolded species are bacterial species that are significantly altered (P < 0.05) in both stool pellet and colon mucosal scraping samples. All species listed are from the kingdom Bacteria. Species name are listed as Phylum; Class; Order; Family; Genus; Species. NA = not applicable. Data represent five Smad4^ΔLrig1 and five control mice. Genotypes were split evenly between male and female male. All mice were littermates. All female mice were housed together while all male mice were housed together. Bedding was mixed between male/female cages weekly.