Table 2.

Pathways altered in injured conventional mice. Metabolite features identified by volcano plot analysis as significantly upregulated or downregulated in injured conventional mice compared with conventional naïve were mapped to KEGG metabolic pathways. Pathways are reported with directionality (upregulated or downregulated); the total number of metabolites in the pathway, total number of metabolite features detected in samples in that pathway, total number of significant metabolite features (significant by both FDR-corrected p-value and fold change), and p-value for enrichment. Most significant pathways are reported up until arbitrary p-value cut-off for upregulated (p-value < 0.05) and downregulated pathways (p-value < 0.05). Full enrichment analyses are reported in Supplemental Tables 4 and 5.

Pathway	Up/Down	Total metabolites in pathway	Total pathway hits	Significant pathway hits	P-value
Porphyrin and chlorophyll metabolism	↑	27	6	5	0.008626
Primary bile acid biosynthesis	↑	46	3	3	0.013698
Steroid biosynthesis	↑	41	6	4	0.022535
Citrate cycle (TCA cycle)	↑	16	4	3	0.025269
Alanine, aspartate and glutamate metabolism	↑	28	4	3	0.025269
alpha-Linolenic acid metabolism	↑	12	2	2	0.0321
Fatty acid degradation	↑	36	7	4	0.035143
Valine, leucine and isoleucine degradation	↑	35	5	3	0.041607
Cysteine and methionine metabolism	↓	33	5	5	0.008523
Inositol phosphate metabolism	↓	21	5	5	0.008523
Phosphatidylinositol signaling system	↓	17	4	4	0.012936
Purine metabolism	↓	66	9	7	0.013601
N-Glycan biosynthesis	↓	38	7	5	0.029627
Citrate cycle (TCA cycle)	↓	16	4	3	0.045722
Tyrosine metabolism	↓	42	6	4	0.046601
Glyoxylate and dicarboxylate metabolism	↓	31	6	4	0.046601
Porphyrin and chlorophyll metabolism	↓	27	6	4	0.046601
Taurine and hypotaurine metabolism	↓	8	2	2	0.048977
Glycosphingolipid biosynthesis	↓	15	2	2	0.048977
Pyruvate metabolism	↓	19	2	2	0.048977