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

Metzler-Zebeli, Barbara U.; Newman, Monica A.; Grüll, Dietmar; Zebeli, Qendrim

doi:10.1186/s12866-019-1462-2

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	Mean^a	log₂ fold change	SE^b	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

^‡ False discovery rate (Benjamini-Hochberg) corrected p value
^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)
^bStandard error of the log₂fold change

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ISSN: 1471-2180

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