ST002512 Gnotobiotic mice: Metabolites in intestinal contents of germ-free mice colonized with strains of gut bacterium Eggerthella lenta
List of human metabolic pathways and metabolites (REACTOME)

Pathway name (# of metabolites detected in study)Reactome pathway
Abacavir metabolism (2) REACT_121388
ABH2 mediated Reversal of Alkylation Damage (1) REACT_526
ABH3 mediated Reversal of Alkylation Damage (1) REACT_1662
Abnormal metabolism in phenylketonuria (4) REACT_121117
Acetylcholine Neurotransmitter Release Cycle (1) REACT_15309
Activation of AMPA receptors (1) REACT_18338
Activation of Ca-permeable Kainate Receptor (1) REACT_21346
Activation of G protein gated Potassium channels (1) REACT_75831
Activation of Na-permeable Kainate Receptors (1) REACT_21343
Adenosine P1 receptors (1) REACT_18288
Aflatoxin activation and detoxification (1) REACT_228214
Agmatine biosynthesis (4) REACT_14800
alpha-linolenic acid (ALA) metabolism (1) REACT_121147
Alpha-oxidation of phytanate (1) REACT_17003
Amino acid synthesis and interconversion (transamination) (7) REACT_238
Amino acid transport across the plasma membrane (22) REACT_13796
Antigen Presentation: Folding, assembly and peptide loading of class I MHC (18) REACT_75795
Antigen processing: Ubiquitination & Proteasome degradation (18) REACT_75842
Astrocytic Glutamate-Glutamine Uptake And Metabolism (2) REACT_13639
Biogenic amines are oxidatively deaminated to aldehydes by MAOA and MAOB (1) REACT_416
Biotin transport and metabolism (1) REACT_11153
Branched-chain amino acid catabolism (4) REACT_197
Carnitine synthesis (3) REACT_2125
Catecholamine biosynthesis (2) REACT_15551
Citric acid cycle (TCA cycle) (4) REACT_1785
Class A/1 (Rhodopsin-like receptors) (4) REACT_14828
Class C/3 (Metabotropic glutamate/pheromone receptors) (6) REACT_18319
Cleavage of the damaged purine (1) REACT_1729
Cleavage of the damaged pyrimidine (2) REACT_2156
Cobalamin (Cbl, vitamin B12) transport and metabolism (2) REACT_163862
Collagen biosynthesis and modifying enzymes (1) REACT_121139
Condensation of Prophase Chromosomes (2) REACT_172744
Conjugation of phenylacetate with glutamine (2) REACT_6800
Creatine metabolism (5) REACT_813
CREB phosphorylation through the activation of CaMKII (1) REACT_20642
Cross-presentation of soluble exogenous antigens (endosomes) (18) REACT_111056
Cysteine formation from homocysteine (1) REACT_115589
Cytosolic sulfonation of small molecules (1) REACT_6913
Cytosolic tRNA aminoacylation (18) REACT_15306
Defective MTRR causes methylmalonic aciduria and homocystinuria type cblE (1) REACT_169439
degradation of AXIN (1) REACT_200766
Degradation of cysteine and homocysteine (4) REACT_115654
Degradation of GABA (3) REACT_23964
Digestion of dietary carbohydrate (2) REACT_9472
Digestion of dietary lipid (2) REACT_9518
DNA methylation (1) REACT_267652
Downregulation of SMAD2/3:SMAD4 transcriptional activity (1) REACT_121111
Endosomal/Vacuolar pathway (18) REACT_111168
eNOS activation (2) REACT_12477
Enzymatic degradation of dopamine by COMT (1) REACT_15548
Enzymatic degradation of Dopamine by monoamine oxidase (1) REACT_15511
EPHB-mediated forward signaling (1) REACT_228085
ER-Phagosome pathway (18) REACT_111178
ER Quality Control Compartment (ERQC) (1) REACT_25091
Fatty Acyl-CoA Biosynthesis (2) REACT_1319
FMO oxidises nucleophiles (1) REACT_13653
formation of the beta-catenin:TCF transactivating complex (1) REACT_200753
Free fatty acid receptors (1) REACT_21268
GABA A receptor activation (1) REACT_24987
GABA A (rho) receptor activation (1) REACT_25168
GABA B receptor activation (1) REACT_25031
GABA synthesis (2) REACT_24020
GABA synthesis, release, reuptake and degradation (1) REACT_23947
G alpha (i) signalling events (8) REACT_19231
G alpha (q) signalling events (5) REACT_18283
G alpha (s) signalling events (3) REACT_19327
Gluconeogenesis (4) REACT_1520
Glutamate Neurotransmitter Release Cycle (2) REACT_12591
Glutathione synthesis and recycling (18) REACT_6960
Glycolysis (1) REACT_1383
Glyoxylate metabolism (1) REACT_16925
HDMs demethylate histones (1) REACT_228178
Heme degradation (1) REACT_22297
Histamine receptors (1) REACT_16903
Histidine catabolism (4) REACT_1249
HS-GAG degradation (1) REACT_120752
Hydrolysis of LPC (1) REACT_120977
Hydrolysis of LPE (1) REACT_120785
Hydroxycarboxylic acid-binding receptors (3) REACT_163785
Import of palmitoyl-CoA into the mitochondrial matrix (1) REACT_11082
Inactivation, recovery and regulation of the phototransduction cascade (1) REACT_163919
Inhibition of voltage gated Ca2+ channels via Gbeta/gamma subunits (1) REACT_25004
Interconversion of polyamines (2) REACT_14805
Iron uptake and transport (2) REACT_25060
Ligand-gated ion channel transport (1) REACT_25387
Lysine catabolism (3) REACT_1298
Meiotic recombination (1) REACT_27271
Metabolism of folate and pterines (2) REACT_11167
Metabolism of polyamines (5) REACT_14820
Metabolism of serotonin (1) REACT_15532
Methionine salvage pathway (3) REACT_75881
Methylation (3) REACT_6946
Mitochondrial iron-sulfur cluster biogenesis (1) REACT_150353
Mitochondrial tRNA aminoacylation (18) REACT_15302
Molybdenum cofactor biosynthesis (3) REACT_25073
mRNA Capping (1) REACT_1470
Na+/Cl- dependent neurotransmitter transporters (20) REACT_20506
Na+-dependent glucose transporters (1) REACT_19165
Neurotransmitter Clearance In The Synaptic Cleft (1) REACT_13583
NGF-independant TRKA activation (1) REACT_11046
Nicotinamide salvaging (3) REACT_11213
Nicotinate metabolism (2) REACT_11088
Nitric oxide stimulates guanylate cyclase (2) REACT_23862
NoRC negatively regulates rRNA expression (1) REACT_200856
Organic anion transport (1) REACT_22310
Organic anion transporters (3) REACT_19372
Organic cation transport (7) REACT_22357
Orphan transporters (4) REACT_267716
Oxidative Stress Induced Senescence (2) REACT_169436
Oxygen-dependent asparagine hydroxylation of Hypoxia-inducible Factor Alpha (1) REACT_121226
Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha (1) REACT_120916
PAOs oxidise polyamines to amines (2) REACT_505
Passive transport by Aquaporins (1) REACT_23826
Phagosomal maturation (early endosomal stage) (2) REACT_121256
Phenylalanine and tyrosine catabolism (5) REACT_1786
PRC2 methylates histones and DNA (1) REACT_200808
Presynaptic function of Kainate receptors (1) REACT_21254
Progressive trimming of alpha-1,2-linked mannose residues from Man9/8/7GlcNAc2 to produce Man5GlcNAc2 (1) REACT_25396
Proline catabolism (2) REACT_1002
Proton-coupled monocarboxylate transport (1) REACT_20515
Proton-coupled neutral amino acid transporters (2) REACT_19348
Proton/oligonucleotide cotransporters (18) REACT_19328
Purine catabolism (9) REACT_2086
Purine ribonucleoside monophosphate biosynthesis (3) REACT_1776
Purine salvage (9) REACT_1923
Pyrimidine biosynthesis (4) REACT_21376
Pyrimidine catabolism (8) REACT_1023
Pyrimidine salvage reactions (7) REACT_655
Pyruvate metabolism (1) REACT_2071
Ras activation uopn Ca2+ infux through NMDA receptor (1) REACT_20546
Reactions specific to the complex N-glycan synthesis pathway (1) REACT_25302
Recycling of bile acids and salts (3) REACT_11042
Regulation of HSF1-mediated heat shock response (1) REACT_200780
Reuptake of GABA (2) REACT_23910
RMTs methylate histone arginines (1) REACT_228108
Role of phospholipids in phagocytosis (1) REACT_160158
Scavenging by Class A Receptors (1) REACT_163699
Senescence-Associated Secretory Phenotype (SASP) (1) REACT_169168
Serine biosynthesis (2) REACT_115789
Serotonin and melatonin biosynthesis (2) REACT_15439
SIRT1 negatively regulates rRNA Expression (2) REACT_200827
snRNP Assembly (1) REACT_11066
Sodium-coupled sulphate, di- and tri-carboxylate transporters (2) REACT_20646
Sphingolipid de novo biosynthesis (2) REACT_115810
Sulfide oxidation to sulfate (1) REACT_116010
Sulfur amino acid metabolism (5) REACT_115639
Synthesis and interconversion of nucleotide di- and triphosphates (2) REACT_21330
Synthesis of 12-eicosatetraenoic acid derivatives (1) REACT_150201
Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol (3) REACT_11041
Synthesis of Leukotrienes (LT) and Eoxins (EX) (1) REACT_150420
Synthesis of PA (1) REACT_120906
Synthesis of PC (2) REACT_121238
Synthesis of PE (1) REACT_120919
Synthesis of PG (1) REACT_121280
Synthesis of Prostaglandins (PG) and Thromboxanes (TX) (1) REACT_150149
Synthesis of PS (3) REACT_120823
Synthesis of UDP-N-acetyl-glucosamine (2) REACT_22394
Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) (1) REACT_24019
TET1,2,3 and TDG demethylate DNA (1) REACT_200682
Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation (1) REACT_111176
Thyroxine biosynthesis (2) REACT_15292
Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds (3) REACT_19305
Transport of inorganic cations/anions and amino acids/oligopeptides (3) REACT_19397
Transport of nucleosides and free purine and pyrimidine bases across the plasma membrane (13) REACT_1206
Transport of organic anions (2) REACT_23988
Tryptophan catabolism (5) REACT_916
Ubiquinol biosynthesis (1) REACT_160111
Unblocking of NMDA receptor, glutamate binding and activation (1) REACT_20594
Urea cycle (7) REACT_847
Utilization of Ketone Bodies (1) REACT_59
VEGFR2 mediated vascular permeability (2) REACT_228016
Vitamin B1 (thiamin) metabolism (1) REACT_11117
Vitamin B2 (riboflavin) metabolism (1) REACT_11070
Vitamins B6 activation to pyridoxal phosphate (4) REACT_25012
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