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Table 2 KEGG functional modules distinctive for the P. aeruginosa pangenome gene category

From: Pangenome-wide and molecular evolution analyses of the Pseudomonas aeruginosa species

KEGG module number Description Genes
Core genome
 M00064 ADP-L-glycero-D-manno-heptose biosynthesis 2
 M00493 AlgZ-AlgR (alginate production) two-component regulatory system 1
 M00235 Arginine/ornithine transport system 3
 M00531 Assimilatory nitrate reduction 1
 M00475 BarA-UvrY (central carbon metabolism) two-component regulatory system 2
 M00086 Beta-Oxidation 1
 M00123, M00573, M00577 Biotin biosynthesis 3
 M00364, M00366 C10-C20 isoprenoid biosynthesis 2
 M00170, M00171 C4-dicarboxylic acid cycle 2
 M00168 CAM (Crassulacean acid metabolism) 1
 M00722, M00727, M00728 Cationic antimicrobial peptide (CAMP) resistance 3
 M00256 Cell division transport system 1
 M00010 Citrate cycle 4
 M00120 Coenzyme A biosynthesis 3
 M00338 Cysteine biosynthesis 1
 M00154, M00155 Cytochrome c oxidase 3
 M00417 Cytochrome o ubiquinol oxidase 3
 M00552 D-galactonate degradation, De Ley-Doudoroff pathway 2
 M00596 Dissimilatory sulfate reduction 1
 M00542 EHEC/EPEC pathogenicity signature 2
 M00008 Entner-Doudoroff pathway 1
 M00445 EnvZ-OmpR (osmotic stress response) two-component regulatory system 3
 M00515 FlrB-FlrC (polar flagellar synthesis) two-component regulatory system 1
 M00729 Fluoroquinolone resistance 1
 M00344, M00345 Formaldehyde assimilation 3
 M00497 GlnL-GlnG (nitrogen regulation) two-component regulatory system 1
 M00605 Glucose/mannose transport system 2
 M00012 Glyoxylate cycle 1
 M00050 Guanine ribonucleotide biosynthesis, IMP 3
 M00259 Heme transport system 1
 M00045 Histidine degradation 4
 M00226 Histidine transport system 1
 M00620 Incomplete reductive citrate cycle 3
 M00131 Inositol phosphate metabolism 1
 M00190 Iron (III) transport system 4
 M00535 Isoleucine biosynthesis 3
 M00113 Jasmonic acid biosynthesis 1
 M00505 KinB-AlgB (alginate production) two-component regulatory system 2
 M00080 Lipopolysaccharide biosynthesis 1
 M00320 Lipopolysaccharide export system 2
 M00255 Lipoprotein-releasing system 1
 M00116 Menaquinone biosynthesis 1
 M00740 Methylaspartate cycle 2
 M00189 Molybdate transport system 3
 M00711 Multidrug resistance, efflux pump MdtIJ 1
 M00115 NAD biosynthesis 3
 M00144 NADH:quinone oxidoreductase 13
 M00471 NarX-NarL (nitrate respiration) two-component regulatory system 1
 M00622 Nicotinate degradation 1
 M00615 Nitrate assimilation 2
 M00438 Nitrate/nitrite transport system 1
 M00439 Oligopeptide transport system 1
 M00209 Osmoprotectant transport system 2
 M00004, M00007 Pentose phosphate pathway 6
 M00024 Phenylalanine biosynthesis 3
 M00434 PhoR-PhoB (phosphate starvation response) 1
 M00222 Phosphate transport system 4
 M00501 PilS-PilR (type 4 fimbriae synthesis) two-component regulatory system 1
 M00133 Polyamine biosynthesis 3
 M00015 Proline biosynthesis 3
 M00247, M00258 Putative ABC transport system 3
 M00193 Putative spermidine/putrescine transport system 7
 M00046 Pyrimidine degradation 1
 M00053 Pyrimidine deoxyribonuleotide biosynthesis, CDP/CTP 5
 M00052 Pyrimidine ribonucleotide biosynthesis, UMP 3
 M00377 Reductive acetyl-CoA pathway (Wood-Ljungdahl pathway) 1
 M00167 Reductive pentose phosphate cycle 5
 M00523 RegB-RegA (redox response) two-component regulatory system 2
 M00125 Riboflavin biosynthesis, GTP 2
 M00394 RNA degradosome 1
 M00308 Semi-phosphorylative Entner-Doudoroff pathway 2
 M00185 Sulfate transport system 2
 M00436 Sulfonate transport system 3
 M00435 Taurine transport system 1
 M00089 Triacylglycerol biosynthesis 2
 M00332 Type III secretion system 2
 M00025, M00040 Tyrosine biosynthesis 4
 M00117, M00128 Ubiquinone biosynthesis 7
 M00029 Urea cycle 3
 M00651 Vancomycin resistance 2
 M00241 Vitamin B12 transport system 1
 M00660 Xanthomonas spp. pathogenicity signature 2
 M00242 Zinc transport system 2
Accessory genome
 M00502 GlrK-GlrR (amino sugar metabolism) two-component regulatory system 1
 M00533 Homoprotocatechuate degradation 2
 M00240 Iron complex transport system 3
 M00005 PRPP biosynthesis 1
 M00473 UhpB-UhpA (hexose phosphates uptake) two-component regulatory system 1
 M00644 Vanadium resistance 1
Unique genes
 M00653 AauS-AauR (acidic amino acids utilization) two-component regulatory system 1
 M00500 AtoS-AtoC (cPHB biosynthesis) two-component regulatory system 1
 M00450 BaeS-BaeR (envelope stress response) two-component regulatory system 1
 M00104 Bile acid biosynthesis 1
 M00581 Biotin transport system 1
 M00569 Catechol meta-cleavage 4
 M00582 Energy-coupling factor transport system 1
 M00760 Erythromycin resistance 1
 M00524 FixL-FixJ (nitrogen fixation) two-component regulatory system 1
 M00713 Fluoroquinolone resistance 1
 M00059 Glycosaminoglycan biosynthesis 1
 M00499 HydH-HydG (metal tolerance) two-component regulatory system 1
 M00714, M00645 Multidrug resistance 2
 M00664 Nodulation 1
 M00549 Nucleotide sugar biosynthesis 1
 M00267 PTS system, N-acetylglucosamine-specific II component 1
  1. Catalogue of the KEGG functional modules (M) distinctively found in three gene categories of the P. aeruginosa pangenome: core, accessory, and unique genes. The number of modules correlated with those numbers presented in Fig. 2 (Venn diagram on the right)