Table 2:
Imputed metagenomic pathways shared among (MRL vs. B6) and (MRL-into-B6 vs. B6) comparisons. FDR correction by Benjamini-Hochberg procedure (q values) presented.
| Metagenomic Pathway | q transpl vs b6 | q mrl vs b6 | B6 mean±SEM | MRL mean±SEM | MRL-into-B6 transpl mean±SEM | MRL-into-B6:B6 ratio | MRL:B6 ratio | Concordance between group comparisons |
|---|---|---|---|---|---|---|---|---|
| TCA cycle VII (acetate-producers) | 0.02 | 0.0005 | 140±21 | 5100±900 | 3500±1200 | 25.7 | 37.3 | Y |
| ADP-L-glycero-β-D-manno-heptose biosynthesis | 0.04 | 0.02 | 250±30 | 740±130 | 2800±1000 | 11.3 | 3.0 | Y |
| superpathway of glycolysis and Entner-Doudoroff | 0.02 | 0.03 | 10000±1300 | 19000±2400 | 41000±11000 | 4.0 | 1.9 | Y |
| GDP-D-glycero-α-D-manno-heptose biosynthesis | 0.04 | 0.03 | 3800±440 | 1920±310 | 13000±3800 | 3.5 | 0.5 | N |
| preQ0 biosynthesis | 0.008 | 0.005 | 14000±810 | 20000±1200 | 44000±8200 | 3.2 | 1.5 | Y |
| tetrapyrrole biosynthesis II (from glycine) | 0.007 | 0.0005 | 13000±1000 | 22000±1100 | 42000±6500 | 3.2 | 1.7 | Y |
| S-adenosyl-L-methionine cycle I | 0.007 | 0.02 | 34000±2600 | 50000±3700 | 61000±6200 | 3.1 | 1.7 | Y |
| thiazole biosynthesis I (E. coli) | 0.007 | 0.001 | 15000±735 | 23000±1500 | 41000±6500 | 2.8 | 1.6 | Y |
| adenosylcobalamin salvage from cobinamide I | 0.0001 | 0.02 | 12000±790 | 21000±2600 | 33000±2900 | 2.7 | 1.8 | Y |
| adenosylcobalamin salvage from cobinamide II | 0.0001 | 0.03 | 11000±740 | 20000±2700 | 31000±2800 | 2.7 | 1.8 | Y |
| adenosylcobalamin biosynthesis from cobyrinate a,c-diamide I | 0.0001 | 0.03 | 11500±731 | 20000±2700 | 31000±2800 | 2.7 | 1.7 | Y |
| superpathway of arginine and polyamine biosynthesis | 0.02 | 0.05 | 4100±460 | 7000±870 | 11000±2300 | 2.6 | 1.7 | Y |
| peptidoglycan biosynthesis IV (Enterococcus faecium) | 0.02 | 0.0003 | 18000±1600 | 35000±2000 | 46000±9200 | 2.6 | 2.0 | Y |
| superpathway of tetrahydrofolate biosynthesis | 0.02 | 0.008 | 22000±1700 | 31000±1400 | 54000±11000 | 2.5 | 1.4 | Y |
| superpathway of tetrahydrofolate biosynthesis and salvage | 0.02 | 0.02 | 27000±2100 | 37000±1700 | 64000±12000 | 2.4 | 1.4 | Y |
| purine nucleobases degradation I (anaerobic) | 0.02 | 0.002 | 5300±570 | 20000±3200 | 13000±2500 | 2.4 | 3.8 | Y |
| peptidoglycan maturation (meso-diaminopimelate containing) | 0.004 | 0.04 | 29000±2500 | 41000±2800 | 65000±6900 | 2.3 | 1.4 | Y |
| purine nucleotides degradation II (aerobic) | 0.02 | 0.03 | 15000±1200 | 26000±2900 | 35000±6200 | 2.3 | 1.7 | Y |
| glycolysis II (from fructose 6-phosphate) | 0.01 | 0.05 | 42000±4600 | 60000±3300 | 94000±14000 | 2.2 | 1.4 | Y |
| glycerol degradation to butanol | 0.05 | 0.02 | 3700±740 | 11000±1900 | 8200±1700 | 2.2 | 2.9 | Y |
| homolactic fermentation | 0.008 | 0.02 | 42000±4000 | 61000±3400 | 92000±14000 | 2.2 | 1.4 | Y |
| glycolysis I (from glucose 6-phosphate) | 0.008 | 0.04 | 46000±4000 | 64000±3700 | 100000±14000 | 2.2 | 1.4 | Y |
| methanogenesis from acetate | 0.02 | 0.004 | 1700±360 | 8100±1400 | 3600±590 | 2.2 | 4.8 | Y |
| acetylene degradation | 0.01 | 0.02 | 29000±2900 | 47000±3900 | 58000±9000 | 2.0 | 1.6 | Y |
| pyruvate fermentation to acetate and lactate II | 0.008 | 0.01 | 49000±3200 | 72000±4800 | 99000±13000 | 2.0 | 1.5 | Y |
| superpathway of glucose and xylose degradation | 0.02 | 0.02 | 23000±4200 | 6300±1100 | 44000±6200 | 1.9 | 0.3 | N |
| 4-aminobutanoate degradation V | 0.04 | 0.01 | 1400±220 | 4900±890 | 2600±430 | 1.8 | 3.5 | Y |
| tetrapyrrole biosynthesis I (from glutamate) | 0.007 | 0.0005 | 14000±1000 | 23000±1100 | 43000±7300 | 1.8 | 1.5 | Y |