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Table 3 Selected KEGG pathways (KEGG orthology level 3) in colonic samples being differently enriched in CON- and TGS-fed pigs

From: Functional adaptations in the cecal and colonic metagenomes associated with the consumption of transglycosylated starch in a pig model

KEGG pathway Meana log2 fold change SEb p value q value
00633 Nitrotoluene degradation [PATH:ko00633] 661 2.575 0.351 < 0.001 < 0.001
00983 Drug metabolism - other enzymes [PATH:ko00983] 818 1.910 0.160 < 0.001 < 0.001
00531 Glycosaminoglycan degradation [PATH:ko00531] 397 1.868 0.276 < 0.001 < 0.001
02060 Phosphotransferase system (PTS) [PATH:ko02060] 9299 1.739 0.228 < 0.001 < 0.001
00940 Phenylpropanoid biosynthesis [PATH:ko00940] 8963 1.542 0.148 < 0.001 < 0.001
00130 Ubiquinone and other terpenoid-quinone biosynthesis [PATH:ko00130] 3636 1.510 0.145 < 0.001 < 0.001
00710 Carbon fixation in photosynthetic organisms [PATH:ko00710] 202 1.422 0.373 < 0.001 < 0.001
00590 Arachidonic acid metabolism [PATH:ko00590] 922 1.336 0.321 < 0.001 < 0.001
00910 Nitrogen metabolism [PATH:ko00910] 1675 1.152 0.262 < 0.001 < 0.001
00740 Riboflavin metabolism [PATH:ko00740] 4762 1.040 0.199 < 0.001 < 0.001
00511 Other glycan degradation [PATH:ko00511] 2787 1.016 0.174 < 0.001 < 0.001
00051 Fructose and mannose metabolism [PATH:ko00051] 16,391 0.746 0.089 < 0.001 < 0.001
04141 Protein processing in endoplasmic reticulum [PATH:ko04141] 784 0.728 0.143 < 0.001 < 0.001
00052 Galactose metabolism [PATH:ko00052] 21,809 0.713 0.091 < 0.001 < 0.001
04142 Lysosome [PATH:ko04142] 2980 0.683 0.153 < 0.001 < 0.001
00860 Porphyrin and chlorophyll metabolism [PATH:ko00860] 10,480 0.647 0.102 < 0.001 < 0.001
00040 Pentose and glucuronate interconversions [PATH:ko00040] 13,379 0.593 0.101 < 0.001 < 0.001
00750 Vitamin B6 metabolism [PATH:ko00750] 3823 0.559 0.127 < 0.001 < 0.001
00281 Geraniol degradation [PATH:ko00281] 614 0.549 0.144 < 0.001 < 0.001
00020 Citrate cycle (TCA cycle) [PATH:ko00020] 16,331 0.533 0.089 < 0.001 < 0.001
00730 Thiamine metabolism [PATH:ko00730] 8664 0.522 0.097 < 0.001 < 0.001
00790 Folate biosynthesis [PATH:ko00790] 3122 0.507 0.124 < 0.001 < 0.001
00400 Phenylalanine tyrosine and tryptophan biosynthesis [PATH:ko00400] 17,524 0.386 0.094 < 0.001 < 0.001
00330 Arginine and proline metabolism [PATH:ko00330] 27,975 0.296 0.058 < 0.001 < 0.001
00340 Histidine metabolism [PATH:ko00340] 15,847 0.252 0.048 < 0.001 < 0.001
03018 RNA degradation [PATH:ko03018] 31,058 −0.206 0.052 < 0.001 < 0.001
03010 Ribosome [PATH:ko03010] 59,767 −0.279 0.066 < 0.001 < 0.001
00010 Glycolysis / Gluconeogenesis [PATH:ko00010] 25,589 −0.307 0.043 < 0.001 < 0.001
00970 Aminoacyl-tRNA biosynthesis [PATH:ko00970] 96,501 −0.377 0.066 < 0.001 < 0.001
03070 Bacterial secretion system [PATH:ko03070] 26,474 −0.429 0.079 < 0.001 < 0.001
03020 RNA polymerase [PATH:ko03020] 30,568 −0.656 0.072 < 0.001 < 0.001
00310 Lysine degradation [PATH:ko00310] 788 −0.991 0.220 < 0.001 < 0.001
04151 PI3K-Akt signaling pathway [PATH:ko04151] 4509 −1.058 0.083 < 0.001 < 0.001
00360 Phenylalanine metabolism [PATH:ko00360] 2719 −1.103 0.149 < 0.001 < 0.001
04122 Sulfur relay system [PATH:ko04122] 7389 −1.137 0.086 < 0.001 < 0.001
00350 Tyrosine metabolism [PATH:ko00350] 3212 − 1.404 0.164 < 0.001 < 0.001
00785 Lipoic acid metabolism [PATH:ko00785] 187 −1.562 0.244 < 0.001 < 0.001
00380 Tryptophan metabolism [PATH:ko00380] 304 −1.595 0.181 < 0.001 < 0.001
00791 Atrazine degradation [PATH:ko00791] 196 −2.087 0.374 < 0.001 < 0.001
03040 Spliceosome [PATH:ko03040] 203 −2.108 0.292 < 0.001 < 0.001
00660 C5-Branched dibasic acid metabolism [PATH:ko00660] 142 −4.390 0.563 < 0.001 < 0.001
00540 Lipopolysaccharide biosynthesis [PATH:ko00540] 9910 0.965 0.261 0.000 0.001
02010 ABC transporters [PATH:ko02010] 65,587 −0.243 0.070 0.001 0.001
00500 Starch and sucrose metabolism [PATH:ko00500] 22,311 −0.256 0.073 < 0.001 0.001
03420 Nucleotide excision repair [PATH:ko03420] 23,037 −0.270 0.078 0.001 0.001
00680 Methane metabolism [PATH:ko00680] 5869 −0.359 0.099 < 0.001 0.001
00071 Fatty acid metabolism [PATH:ko00071] 136 −1.551 0.426 < 0.001 0.001
00230 Purine metabolism [PATH:ko00230] 49,811 −0.134 0.040 0.001 0.002
00640 Propanoate metabolism [PATH:ko00640] 530 −0.546 0.165 0.001 0.002
00510 N-Glycan biosynthesis [PATH:ko00510] 785 0.460 0.148 0.002 0.004
00900 Terpenoid backbone biosynthesis [PATH:ko00900] 13,580 0.143 0.046 0.002 0.004
00620 Pyruvate metabolism [PATH:ko00620] 22,435 −0.192 0.063 0.002 0.005
03060 Protein export [PATH:ko03060] 1837 0.318 0.107 0.003 0.006
00250 Alanine aspartate and glutamate metabolism [PATH:ko00250] 69,446 0.133 0.045 0.003 0.007
00260 Glycine serine and threonine metabolism [PATH:ko00260] 42,580 −0.110 0.039 0.005 0.009
03013 RNA transport [PATH:ko03013] 1374 −0.285 0.111 0.010 0.020
00550 Peptidoglycan biosynthesis [PATH:ko00550] 17,416 −0.145 0.059 0.014 0.027
01040 Biosynthesis of unsaturated fatty acids [PATH:ko01040] 108 −1.247 0.512 0.015 0.028
00053 Ascorbate and aldarate metabolism [PATH:ko00053] 466 0.595 0.250 0.017 0.031
03030 DNA replication [PATH:ko03030] 31,056 −0.233 0.098 0.018 0.031
00300 Lysine biosynthesis [PATH:ko00300] 23,272 0.118 0.050 0.019 0.033
00520 Amino sugar and nucleotide sugar metabolism [PATH:ko00520] 20,592 0.107 0.046 0.020 0.035
00362 Benzoate degradation [PATH:ko00362] 479 0.797 0.368 0.030 0.051
03440 Homologous recombination [PATH:ko03440] 20,390 −0.127 0.060 0.035 0.058
00440 Phosphonate and phosphinate metabolism [PATH:ko00440] 788 0.628 0.307 0.041 0.065
00561 Glycerolipid metabolism [PATH:ko00561] 5347 0.269 0.135 0.046 0.071
00290 Valine leucine and isoleucine biosynthesis [PATH:ko00290] 23,041 0.159 0.080 0.046 0.071
00270 Cysteine and methionine metabolism [PATH:ko00270] 33,967 0.118 0.061 0.055 0.083
02030 Bacterial chemotaxis [PATH:ko02030] 8408 0.622 0.327 0.057 0.085
00030 Pentose phosphate pathway [PATH:ko00030] 14,947 −0.111 0.059 0.062 0.090
  1. False discovery rate (Benjamini-Hochberg) corrected p value
  2. aNormalized reads (hit counts). Only the most abundant KEGG pathways (> 0.01% of all reads) that were altered by the dietary starch source are presented (n = 8 per diet)
  3. bStandard error of the log2fold change