Table 4 Gene Ontology (GO) categories of Salmonella Typhimurium N-15 transcriptome significantly overrepresented in the mono-culture compared to co-culture with RBL67
GO category | p-value | Ngenes in category | Description of category |
|---|---|---|---|
Biological process | |||
 GO:044249 | 1.69E-20 | 168 | cellular biosynthetic process |
 GO:009058 | 2.27E-18 | 174 | biosynthetic process |
 GO:010467 | 1.16E-11 | 70 | gene expression |
 GO:009987 | 2.05E-11 | 276 | cellular process |
 GO:044237 | 1.12E-10 | 236 | cellular metabolic process |
 GO:006412 | 1.07E-09 | 49 | translation |
 GO:044238 | 2.26E-08 | 227 | primary metabolic process |
 GO:034645 | 5.65E-08 | 74 | cellular macromolecule biosynthetic process |
 GO:009059 | 1.43E-07 | 75 | macromolecule biosynthetic process |
 GO:044267 | 2.58E-07 | 66 | cellular protein metabolic process |
 GO:006633 | 1.86E-06 | 12 | fatty acid biosynthetic process |
 GO:019538 | 4.61E-06 | 82 | protein metabolic process |
 GO:044260 | 5.80E-06 | 118 | cellular macromolecule metabolic process |
 GO:008299 | 5.80E-06 | 12 | isoprenoid biosynthetic process |
 GO:006720 | 5.80E-06 | 12 | isoprenoid metabolic process |
 GO:008610 | 7.04E-06 | 32 | lipid biosynthetic process |
 GO:008152 | 1.73E-05 | 286 | metabolic process |
 GO:044255 | 1.80E-05 | 32 | cellular lipid metabolic process |
 GO:043170 | 1.93E-05 | 138 | macromolecule metabolic process |
 GO:006629 | 2.55E-05 | 34 | lipid metabolic process |
 GO:006631 | 4.06E-05 | 12 | fatty acid metabolic process |
 GO:048870 | 4.72E-04 | 13 | cell motility |
 GO:051674 | 4.72E-04 | 13 | localization of cell |
 GO:001539 | 4.72E-04 | 13 | ciliary or flagellar motility |
 GO:044283 | 6.74E-04 | 62 | small molecule biosynthetic process |
 GO:006928 | 8.07E-04 | 13 | cellular component movement |
 GO:006350 | 9.66E-04 | 9 | transcription |
 GO:043064 | 1.53E-03 | 8 | flagellum organization |
 GO:009141 | 2.48E-03 | 10 | nucleoside triphosphate metabolic process |
 GO:016070 | 2.77E-03 | 30 | RNA metabolic process |
 GO:009108 | 3.33E-03 | 17 | coenzyme biosynthetic process |
 GO:030030 | 3.43E-03 | 8 | cell projection organization |
 GO:009142 | 4.02E-03 | 9 | nucleoside triphosphate biosynthetic process |
 GO:006351 | 5.55E-03 | 7 | transcription, DNA-dependent |
 GO:040011 | 5.89E-03 | 17 | locomotion |
 GO:044281 | 8.06E-03 | 106 | small molecule metabolic process |
 GO:009296 | 8.41E-03 | 6 | flagellum assembly |
 GO:034641 | 9.65E-03 | 117 | cellular nitrogen compound metabolic process |
 GO:006139 | 9.87E-03 | 77 | nucleobase, nucleoside, nucleotide and nucleic acid metabolic process |
 GO:032774 | 9.87E-03 | 7 | RNA biosynthetic process |
 GO:019720 | 9.87E-03 | 7 | Mo-molybdopterin cofactor metabolic process |
 GO:032324 | 9.87E-03 | 7 | molybdopterin cofactor biosynthetic process |
 GO:043545 | 9.87E-03 | 7 | molybdopterin cofactor metabolic process |
 GO:051189 | 9.87E-03 | 7 | prosthetic group metabolic process |
 GO:006777 | 9.87E-03 | 7 | Mo-molybdopterin cofactor biosynthetic process |
 GO:016053 | 1.01E-02 | 31 | organic acid biosynthetic process |
 GO:046394 | 1.01E-02 | 31 | carboxylic acid biosynthetic process |
 GO:009219 | 1.10E-02 | 4 | pyrimidine deoxyribonucleotide metabolic process |
 GO:009394 | 1.10E-02 | 4 | 2′-deoxyribonucleotide metabolic process |
 GO:042180 | 1.26E-02 | 58 | cellular ketone metabolic process |
 GO:030031 | 1.55E-02 | 6 | cell projection assembly |
 GO:006732 | 1.55E-02 | 20 | coenzyme metabolic process |
 GO:042559 | 1.55E-02 | 7 | pteridine and derivative biosynthetic process |
 GO:042558 | 1.55E-02 | 7 | pteridine and derivative metabolic process |
 GO:046034 | 1.55E-02 | 7 | ATP metabolic process |
 GO:015985 | 1.55E-02 | 7 | energy coupled proton transport, down electrochemical gradient |
 GO:015986 | 1.55E-02 | 7 | ATP synthesis coupled proton transport |
 GO:006119 | 1.55E-02 | 7 | oxidative phosphorylation |
 GO:006754 | 1.55E-02 | 7 | ATP biosynthetic process |
 GO:044271 | 1.65E-02 | 52 | cellular nitrogen compound biosynthetic process |
 GO:006950 | 1.72E-02 | 26 | response to stress |
 GO:022607 | 1.93E-02 | 16 | cellular component assembly |
 GO:044085 | 2.28E-02 | 22 | cellular component biogenesis |
 GO:009152 | 2.52E-02 | 10 | purine ribonucleotide biosynthetic process |
 GO:009201 | 2.53E-02 | 7 | ribonucleoside triphosphate biosynthetic process |
 GO:009206 | 2.53E-02 | 7 | purine ribonucleoside triphosphate biosynthetic process |
 GO:009145 | 2.53E-02 | 7 | purine nucleoside triphosphate biosynthetic process |
 GO:006807 | 2.99E-02 | 121 | nitrogen compound metabolic process |
 GO:019748 | 3.10E-02 | 4 | secondary metabolic process |
 GO:009234 | 3.10E-02 | 4 | menaquinone biosynthetic process |
 GO:009233 | 3.10E-02 | 4 | menaquinone metabolic process |
 GO:042362 | 3.10E-02 | 4 | fat-soluble vitamin biosynthetic process |
 GO:042371 | 3.10E-02 | 4 | vitamin K biosynthetic process |
 GO:042373 | 3.10E-02 | 4 | vitamin K metabolic process |
 GO:006775 | 3.10E-02 | 4 | fat-soluble vitamin metabolic process |
 GO:009150 | 3.10E-02 | 10 | purine ribonucleotide metabolic process |
 GO:006164 | 3.35E-02 | 11 | purine nucleotide biosynthetic process |
 GO:009165 | 3.40E-02 | 15 | nucleotide biosynthetic process |
 GO:009205 | 3.58E-02 | 7 | purine ribonucleoside triphosphate metabolic process |
 GO:009199 | 3.58E-02 | 7 | ribonucleoside triphosphate metabolic process |
 GO:009144 | 3.58E-02 | 7 | purine nucleoside triphosphate metabolic process |
 GO:019752 | 3.59E-02 | 53 | carboxylic acid metabolic process |
 GO:043436 | 3.59E-02 | 53 | oxoacid metabolic process |
 GO:009211 | 3.59E-02 | 3 | pyrimidine deoxyribonucleoside triphosphate metabolic process |
 GO:009200 | 3.59E-02 | 3 | deoxyribonucleoside triphosphate metabolic process |
 GO:009120 | 3.59E-02 | 3 | deoxyribonucleoside metabolic process |
 GO:046125 | 3.59E-02 | 3 | pyrimidine deoxyribonucleoside metabolic process |
 GO:009221 | 3.59E-02 | 3 | pyrimidine deoxyribonucleotide biosynthetic process |
 GO:009263 | 3.59E-02 | 3 | deoxyribonucleotide biosynthetic process |
 GO:009265 | 3.59E-02 | 3 | 2′-deoxyribonucleotide biosynthetic process |
 GO:009260 | 3.68E-02 | 10 | ribonucleotide biosynthetic process |
 GO:006163 | 3.85E-02 | 11 | purine nucleotide metabolic process |
 GO:019438 | 3.88E-02 | 12 | aromatic compound biosynthetic process |
 GO:015992 | 3.97E-02 | 8 | proton transport |
 GO:006818 | 3.97E-02 | 8 | hydrogen transport |
 GO:006082 | 4.00E-02 | 54 | organic acid metabolic process |
 GO:090304 | 4.05E-02 | 52 | nucleic acid metabolic process |
 GO:043648 | 4.38E-02 | 9 | dicarboxylic acid metabolic process |
 GO:016043 | 4.38E-02 | 22 | cellular component organization |
 GO:009259 | 4.64E-02 | 10 | ribonucleotide metabolic process |
 GO:032787 | 4.92E-02 | 16 | monocarboxylic acid metabolic process |
Molecular function | |||
 GO:005198 | 2.25E-10 | 39 | structural molecule activity |
 GO:003735 | 1.05E-08 | 32 | structural constituent of ribosome |
 GO:046983 | 1.50E-02 | 10 | protein dimerization activity |
 GO:003774 | 2.16E-02 | 10 | motor activity |
 GO:016810 | 2.24E-02 | 16 | hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds |
 GO:016814 | 3.39E-02 | 6 | hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines |
Cellular component | |||
 GO:044424 | 7.14E-22 | 391 | intracellular part |
 GO:005622 | 8.72E-21 | 395 | intracellular |
 GO:005737 | 1.19E-16 | 371 | cytoplasm |
 GO:043228 | 7.58E-16 | 53 | non-membrane-bounded organelle |
 GO:043232 | 7.58E-16 | 53 | intracellular non-membrane-bounded organelle |
 GO:043229 | 7.58E-16 | 57 | intracellular organelle |
 GO:043226 | 7.58E-16 | 57 | organelle |
 GO:005840 | 1.95E-10 | 33 | ribosome |
 GO:030529 | 5.54E-10 | 33 | ribonucleoprotein complex |
 GO:044444 | 1.68E-09 | 41 | cytoplasmic part |
 GO:032991 | 2.06E-07 | 59 | macromolecular complex |
 GO:019861 | 1.39E-06 | 19 | flagellum |
 GO:009288 | 1.47E-05 | 15 | bacterial-type flagellum |
 GO:044422 | 3.09E-04 | 16 | organelle part |
 GO:033279 | 9.66E-04 | 9 | ribosomal subunit |
 GO:016469 | 3.31E-03 | 8 | proton-transporting two-sector ATPase complex |
 GO:042995 | 7.19E-03 | 19 | cell projection |
 GO:044446 | 7.85E-03 | 9 | intracellular organelle part |
 GO:015934 | 8.09E-03 | 5 | large ribosomal subunit |
 GO:009426 | 1.60E-02 | 3 | bacterial-type flagellum basal body, distal rod |
 GO:009424 | 1.60E-02 | 3 | bacterial-type flagellum hook |
 GO:009317 | 1.60E-02 | 3 | acetyl-CoA carboxylase complex |
 GO:044463 | 3.10E-02 | 7 | cell projection part |
 GO:044461 | 3.10E-02 | 7 | bacterial-type flagellum part |
 GO:044460 | 3.10E-02 | 7 | flagellum part |
 GO:030694 | 4.73E-02 | 3 | bacterial-type flagellum basal body, rod |