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Table 4 Microbial pathways with LDA effect > 3

From: Ectopic gut colonization: a metagenomic study of the oral and gut microbiome in Crohn’s disease

Most common in control group Most common in crohn's disease group
Pathway LDA effect P-value Pathway LDA effect P-value
Gut
 PWY 6151 S-adenosyl-L-methioninecycle I 3.550  < 0.001 ARGSYNBSUB PWY L-arginine biosynthesis II (acetylcycle) 3.162 0.001
 PWY 5097 L-lysine biosynthesis VI 3.471  < 0.001 GLUTORN PWY L-ornithine biosynthesis 3.084 0.001
 PWY 5686 UMP biosynthesis 3.434  < 0.001 ARGSYN PWY L-arginine biosynthesis I (via L-ornithine) 3.077 0.006
 PWY 2942 L-lysine biosynthesis III 3.421 0.001 PWY-7400 L-arginine biosynthesis IV (archaebacterial) 3.059 0.008
 PWY 6700 queuosine biosynthesis 3.414 0.002 PWY 6270 isoprene biosynthesis I 3.058  < 0.001
 NONMEVIPP PWY methylerythritol phosphate pathway I 3.414  < 0.001 PWY 7560 methylerythritol phosphate pathway II 3.042  < 0.001
 PWY 6737 starch degradation V 3.335 0.003 GLYCOLYSIS glycolysis I from glucose-6-phosphate 3.038  < 0.001
 PWY 7219 adenosine ribonucleotides de novo biosynthesis 3.296 0.001 PWY66 400 glycolysis VI (metazoan) 3.023 0.001
 PWY 6386 UDP N-acetylmuramoyl pentapeptide biosynthesis II (lysine containing) 3.234 0.003 PWY 5484 glycolysis II from fructose-6-phosphate 3.017 0.000
 PWY 7221 guanosine ribonucleotides de novo biosynthesis 3.219 0.004    
 PEPTIDOGLYCANSYN PWY peptidoglycan biosynthesis I (meso-diaminopimelate containing) 3.212 0.003    
 ILEUSYN PWY L-isoleucine biosynthesis I (from threonine) 3.212 0.006    
 VALSYN PWY L-valine biosynthesis 3.212 0.006    
 PWY 6387 UDP N-acetylmuramoyl pentapeptide biosynthesis I (meso-diaminopimelate containing) 3.170 0.003    
 BRANCHED CHAIN AA SYN PWY superpathway of branched aminoacid biosynthesis 3.132 0.008    
 GALACTUROCAT PWY D-galacturonate degradation I 3.113  < 0.001    
 PWY 6897 thiamin salvage II 3.104 0.001    
 PWY 7111 pyruvate fermentation to isobutanol engineered 3.098 0.015    
 PWY 5973 cis-vaccenate biosynthesis 3.096  < 0.001    
 GALACT GLUCUROCAT PWY superpathway of hexuronide and hexuronate degradation 3.087 0.001    
 GLUCUROCAT PWY superpathway of beta D-glucuronide and D-glucuronate degradation 3.078 0.001    
 PWY 5103 L-isoleucine biosynthesis III 3.062 0.012    
 PWY 6507 4-deoxy-L-threo-hex-4-enopyranuronate degradation 3.040 0.001    
 PWY 7242 D-fructuronate degradation 3.019 0.003    
Saliva
 FASYN INITIAL PWY superpathway of fatty acid biosynthesis initiation (E-coli) 3.036 0.002 PWY66 409 superpathway of purine nucleotide salvage 3.035 0.018