Experiment set1IT027 for Pseudomonas fluorescens GW456-L13

Compare to:

D-Serine carbon source

200 most detrimental genes:

  gene name fitness t score description  
PfGW456L13_815 +5.5 30.1 Putrescine utilization regulator compare
PfGW456L13_1391 +4.5 13.2 Transcriptional regulator, AsnC family compare
PfGW456L13_2597 +4.3 16.3 Isovaleryl-CoA dehydrogenase (EC 1.3.8.4) compare
PfGW456L13_1041 +2.6 3.9 Putative translation initiation inhibitor, yjgF family compare
PfGW456L13_200 +2.4 20.4 Glycosyl transferase in large core OS assembly cluster compare
PfGW456L13_4517 +2.4 17.8 L-aspartate oxidase (EC 1.4.3.16) compare
PfGW456L13_2186 +2.1 11.4 UDP-N-acetylglucosamine 4,6-dehydratase (EC 4.2.1.-) compare
PfGW456L13_199 +2.0 14.1 alpha-1,3-rhamnosyltransferase compare
PfGW456L13_2189 +1.9 10.7 UDP-2,3-diacetamido-2,3-dideoxy-D-mannuronic acid transferase compare
PfGW456L13_4769 +1.9 1.1 hypothetical protein compare
PfGW456L13_420 +1.9 5.4 Phosphoenolpyruvate carboxykinase [ATP] (EC 4.1.1.49) compare
PfGW456L13_4112 +1.9 12.6 Phosphoenolpyruvate synthase (EC 2.7.9.2) compare
PfGW456L13_2185 +1.8 6.4 putative colanic acid biosynthesis glycosyl transferase compare
PfGW456L13_2184 +1.8 7.7 putative polysaccharide polymerase compare
PfGW456L13_4437 +1.8 6.1 Cytosine/purine/uracil/thiamine/allantoin permease family protein compare
PfGW456L13_59 +1.8 9.3 Sensor histidine kinase/response regulator compare
PfGW456L13_204 +1.8 13.1 Carbamoyltransferase in large core OS assembly cluster compare
PfGW456L13_203 +1.8 8.3 Glycosyl transferase in large core OS assembly cluster compare
PfGW456L13_202 +1.7 9.2 Probable transcription regulator Mig-14 compare
PfGW456L13_2190 +1.7 6.3 Undecaprenyl-phosphate N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.-) compare
PfGW456L13_1865 +1.5 1.4 Cold shock protein CspA compare
PfGW456L13_2191 +1.4 10.6 nucleotide sugar epimerase/dehydratase WbpM compare
PfGW456L13_2322 +1.4 10.3 Threonine and homoserine efflux system compare
PfGW456L13_4253 +1.4 4.5 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) compare
PfGW456L13_4955 +1.2 1.8 FIG00954638: hypothetical protein compare
PfGW456L13_3049 +1.1 3.7 Chemotaxis protein methyltransferase CheR (EC 2.1.1.80) compare
PfGW456L13_4936 +1.1 7.9 Cytochrome O ubiquinol oxidase subunit II (EC 1.10.3.-) compare
PfGW456L13_2348 +1.1 5.4 2-Oxobutyrate oxidase, putative compare
PfGW456L13_4155 +1.1 4.3 Spermidine synthase (EC 2.5.1.16) compare
PfGW456L13_2150 +1.1 2.4 Carbon storage regulator compare
PfGW456L13_866 +1.0 4.5 Small-conductance mechanosensitive channel compare
PfGW456L13_4933 +1.0 4.9 Cytochrome O ubiquinol oxidase subunit IV (EC 1.10.3.-) compare
PfGW456L13_510 +1.0 2.9 FIG00960943: hypothetical protein compare
PfGW456L13_1848 +1.0 1.7 hypothetical protein compare
PfGW456L13_397 +1.0 4.3 Agmatine deiminase (EC 3.5.3.12) compare
PfGW456L13_1443 +1.0 1.6 FIG00954896: hypothetical protein compare
PfGW456L13_2327 +1.0 3.6 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
PfGW456L13_205 +1.0 3.4 hypothetical protein compare
PfGW456L13_4354 +1.0 2.5 Flagellar hook-basal body complex protein FliE compare
PfGW456L13_157 +1.0 2.2 N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28) compare
PfGW456L13_1349 +0.9 3.3 MaoC-like domain protein compare
PfGW456L13_1454 +0.9 1.6 hypothetical protein compare
PfGW456L13_4907 +0.9 1.6 hypothetical protein compare
PfGW456L13_3232 +0.9 1.8 hypothetical protein compare
PfGW456L13_4247 +0.9 6.2 NLP/P60 family protein compare
PfGW456L13_61 +0.9 2.4 hypothetical protein compare
PfGW456L13_1996 +0.9 2.4 Flagellar biosynthesis protein FlgN compare
PfGW456L13_2268 +0.9 1.6 Thiol-disulfide isomerase and thioredoxins compare
PfGW456L13_4774 +0.9 3.8 Signal transduction histidine kinase regulating C4-dicarboxylate transport system (EC 2.7.13.3) compare
PfGW456L13_3989 +0.9 1.8 FIG00964275: hypothetical protein compare
PfGW456L13_3937 +0.8 1.5 DedD protein compare
PfGW456L13_617 +0.8 5.8 FIG00953365: hypothetical protein compare
PfGW456L13_3909 +0.8 3.2 Ribose operon repressor compare
PfGW456L13_4598 +0.8 1.4 Aspartate-semialdehyde dehydrogenase (EC 1.2.1.11) compare
PfGW456L13_4790 +0.8 6.4 D-serine/D-alanine/glycine transporter compare
PfGW456L13_2345 +0.8 2.2 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
PfGW456L13_3825 +0.8 3.0 Aromatic hydrocarbon utilization transcriptional regulator CatR (LysR family) compare
PfGW456L13_4896 +0.8 2.1 hypothetical protein compare
PfGW456L13_705 +0.8 1.2 FIG00953800: hypothetical protein compare
PfGW456L13_1040 +0.8 3.0 D-amino acid dehydrogenase small subunit (EC 1.4.99.1) compare
PfGW456L13_67 +0.8 3.4 Cobalamin biosynthesis protein CobG compare
PfGW456L13_3291 +0.8 1.6 4-carboxymuconolactone decarboxylase domain/alkylhydroperoxidase AhpD family core domain protein compare
PfGW456L13_97 +0.8 5.0 membrane protein, putative compare
PfGW456L13_4022 +0.8 1.4 FIG00953243: hypothetical protein compare
PfGW456L13_1838 +0.7 2.7 Sensory box histidine kinase compare
PfGW456L13_942 +0.7 2.2 ATPases of the AAA+ class compare
PfGW456L13_1757 +0.7 3.1 Electron transport complex protein RnfB compare
PfGW456L13_4346 +0.7 1.8 Hpt domain protein compare
PfGW456L13_4640 +0.7 1.3 FIG00955308: hypothetical protein compare
PfGW456L13_4932 +0.7 5.1 Heme O synthase, protoheme IX farnesyltransferase (EC 2.5.1.-) COX10-CtaB compare
PfGW456L13_2265 +0.7 3.6 Probable transmembrane protein compare
PfGW456L13_1770 +0.7 4.7 InaA protein compare
PfGW456L13_4485 +0.7 1.7 Cyclic nucleotide-binding protein compare
PfGW456L13_4233 +0.7 0.9 Transcriptional regulator, MarR family compare
PfGW456L13_69 +0.7 1.1 Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) compare
PfGW456L13_872 +0.7 4.5 FIG139438: lipoprotein B compare
PfGW456L13_3991 +0.7 5.1 Capsular polysaccharide biosynthesis protein compare
PfGW456L13_2095 +0.7 1.6 Ribonuclease E (EC 3.1.26.12) compare
PfGW456L13_2023 +0.7 1.8 Flavoprotein WrbA compare
PfGW456L13_811 +0.7 3.0 Leucine-responsive regulatory protein, regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system compare
PfGW456L13_4944 +0.7 1.0 FIG00963370: hypothetical protein compare
PfGW456L13_1634 +0.7 3.8 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
PfGW456L13_4935 +0.7 4.6 Cytochrome O ubiquinol oxidase subunit I (EC 1.10.3.-) compare
PfGW456L13_2329 +0.6 1.6 Endoribonuclease L-PSP compare
PfGW456L13_3326 +0.6 2.4 FIG00953934: hypothetical protein compare
PfGW456L13_812 +0.6 1.6 D-amino acid dehydrogenase small subunit (EC 1.4.99.1) compare
PfGW456L13_1637 +0.6 2.8 Stringent starvation protein A compare
PfGW456L13_348 +0.6 1.6 FIG00955429: hypothetical protein compare
PfGW456L13_5113 +0.6 4.9 Lactate-responsive regulator LldR in Enterobacteria, GntR family compare
PfGW456L13_4934 +0.6 3.4 Cytochrome O ubiquinol oxidase subunit III (EC 1.10.3.-) compare
PfGW456L13_3577 +0.6 0.7 hypothetical protein compare
PfGW456L13_1982 +0.6 1.7 Carbon storage regulator compare
PfGW456L13_66 +0.6 1.2 Cobalt-precorrin-8x methylmutase (EC 5.4.1.2) compare
PfGW456L13_2931 +0.6 1.2 transcriptional regulator MvaT, P16 subunit, putative compare
PfGW456L13_4064 +0.6 2.6 Cytochrome c oxidase subunit CcoP (EC 1.9.3.1) compare
PfGW456L13_2192 +0.6 2.6 regulator of length of O-antigen component of lipopolysaccharide chains compare
PfGW456L13_3511 +0.6 3.0 Sensory box histidine kinase/response regulator compare
PfGW456L13_1829 +0.6 1.9 glycosyl transferase, group 1 family protein compare
PfGW456L13_6 +0.6 1.2 FIG000605: protein co-occurring with transport systems (COG1739) compare
PfGW456L13_3482 +0.6 2.4 hypothetical protein compare
PfGW456L13_4067 +0.6 4.5 Type cbb3 cytochrome oxidase biogenesis protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4) compare
PfGW456L13_1526 +0.6 2.8 FIG00954153: hypothetical protein compare
PfGW456L13_3512 +0.6 1.7 Alcohol dehydrogenase (EC 1.1.1.1); Acetaldehyde dehydrogenase (EC 1.2.1.10) compare
PfGW456L13_4674 +0.6 4.3 RNA polymerase sigma factor RpoS compare
PfGW456L13_3811 +0.6 2.1 hypothetical protein compare
PfGW456L13_43 +0.6 5.2 Biosynthetic arginine decarboxylase (EC 4.1.1.19) compare
PfGW456L13_4972 +0.6 1.6 Hypothetical flavoprotein YqcA (clustered with tRNA pseudouridine synthase C) compare
PfGW456L13_4609 +0.6 3.8 Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1) compare
PfGW456L13_1934 +0.6 1.6 DGPFAETKE compare
PfGW456L13_2513 +0.6 2.0 3,4-dihydroxy-2-butanone 4-phosphate synthase (EC 4.1.99.12) / GTP cyclohydrolase II (EC 3.5.4.25) compare
PfGW456L13_4148 +0.6 1.6 hypothetical protein compare
PfGW456L13_865 +0.6 3.7 Glutathione-regulated potassium-efflux system ATP-binding protein compare
PfGW456L13_2589 +0.6 2.5 Methylglutaconyl-CoA hydratase (EC 4.2.1.18) compare
PfGW456L13_3444 +0.6 1.4 Transcriptional regulator, TetR family compare
PfGW456L13_3650 +0.6 3.6 putative lipoprotein compare
PfGW456L13_4045 +0.6 4.1 Soluble lytic murein transglycosylase precursor (EC 3.2.1.-) compare
PfGW456L13_538 +0.5 2.0 T1SS secreted agglutinin RTX compare
PfGW456L13_207 +0.5 2.5 InaA protein compare
PfGW456L13_2037 +0.5 2.2 nucleoprotein/polynucleotide-associated enzyme compare
PfGW456L13_155 +0.5 1.9 tRNA dimethylallyltransferase (EC 2.5.1.75) compare
PfGW456L13_2804 +0.5 1.5 Cytochrome c5 compare
PfGW456L13_4492 +0.5 1.9 YcgN (Fragment) compare
PfGW456L13_3543 +0.5 2.7 Dihydrolipoyl dehydrogenase (EC 1.8.1.4) (from data) compare
PfGW456L13_2313 +0.5 1.5 Chromosome segregation ATPases compare
PfGW456L13_2682 +0.5 2.3 Gll0911 protein compare
PfGW456L13_654 +0.5 1.8 Chaperone protein YscY (Yop proteins translocation protein Y) compare
PfGW456L13_2356 +0.5 2.0 Lipid A export ATP-binding/permease protein MsbA compare
PfGW456L13_4460 +0.5 3.5 Peptidyl-prolyl cis-trans isomerase PpiA precursor (EC 5.2.1.8) compare
PfGW456L13_2290 +0.5 2.6 Acyclic terpenes utilization regulator AtuR, TetR family compare
PfGW456L13_3309 +0.5 0.7 Glutathione S-transferase family protein compare
PfGW456L13_4238 +0.5 2.0 Cobyric acid synthase (EC 6.3.5.10) compare
PfGW456L13_1990 +0.5 1.5 hypothetical protein compare
PfGW456L13_4237 +0.5 1.4 Adenosylcobinamide-phosphate guanylyltransferase (EC 2.7.7.62) compare
PfGW456L13_3148 +0.5 1.4 L-proline glycine betaine ABC transport system permease protein ProW (TC 3.A.1.12.1) compare
PfGW456L13_2636 +0.5 1.7 FIG002776: hypothetical protein compare
PfGW456L13_3528 +0.5 2.1 Transcriptional regulator, LuxR family compare
PfGW456L13_1441 +0.5 1.1 Large-conductance mechanosensitive channel compare
PfGW456L13_3395 +0.5 2.6 3-hydroxybutyryl-CoA dehydrogenase (EC 1.1.1.157); 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) compare
PfGW456L13_4911 +0.5 1.5 Transcriptional regulator, LysR family compare
PfGW456L13_3409 +0.5 1.3 Transcriptional regulator, IclR family compare
PfGW456L13_3705 +0.5 1.6 hypothetical protein compare
PfGW456L13_1731 +0.5 0.9 NADH:flavin oxidoreductases, Old Yellow Enzyme family compare
PfGW456L13_4433 +0.5 1.0 FIG00955751: hypothetical protein compare
PfGW456L13_5123 +0.5 1.9 Ais protein, putative compare
PfGW456L13_2309 +0.5 2.1 FIG139991: Putative thiamine pyrophosphate-requiring enzyme compare
PfGW456L13_4065 +0.5 3.8 Type cbb3 cytochrome oxidase biogenesis protein CcoG, involved in Cu oxidation compare
PfGW456L13_514 +0.5 1.7 Adenylylsulfate kinase (EC 2.7.1.25) compare
PfGW456L13_4525 +0.5 3.3 Tricarboxylate porin OpdH compare
PfGW456L13_4518 +0.5 2.0 FIG00955375: hypothetical protein compare
PfGW456L13_1733 +0.5 2.1 Glycerol-3-phosphate regulon repressor, DeoR family compare
PfGW456L13_3818 +0.5 1.8 Benzoate 1,2-dioxygenase beta subunit (EC 1.14.12.10) compare
PfGW456L13_2592 +0.5 0.5 hypothetical protein compare
PfGW456L13_4062 +0.5 2.8 Cytochrome c oxidase subunit CcoO (EC 1.9.3.1) compare
PfGW456L13_3596 +0.5 2.3 Transcriptional regulator, AraC family compare
PfGW456L13_169 +0.5 2.5 Predicted signal transduction protein compare
PfGW456L13_5112 +0.5 0.5 tmRNA-binding protein SmpB compare
PfGW456L13_2182 +0.5 2.8 regulator of length of O-antigen component of lipopolysaccharide chains compare
PfGW456L13_3373 +0.5 1.5 hypothetical protein compare
PfGW456L13_418 +0.5 1.9 hypothetical protein compare
PfGW456L13_4781 +0.5 1.4 Nudix hydrolase family protein PA3470 compare
PfGW456L13_1761 +0.5 2.7 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
PfGW456L13_295 +0.5 1.7 Transcriptional regulator PhaD compare
PfGW456L13_4259 +0.5 0.6 FIG00953296: hypothetical protein compare
PfGW456L13_2925 +0.5 1.2 Cointegrate resolution protein T compare
PfGW456L13_609 +0.5 2.5 Cytochrome oxidase biogenesis protein Surf1, facilitates heme A insertion compare
PfGW456L13_4154 +0.5 1.3 FIG00957412: hypothetical protein compare
PfGW456L13_1434 +0.5 3.0 MFS general substrate transporter compare
PfGW456L13_2113 +0.5 3.2 Transcriptional regulator, TetR family compare
PfGW456L13_322 +0.5 1.5 Histidine ABC transporter, ATP-binding protein (TC 3.A.1) compare
PfGW456L13_2638 +0.5 1.4 FIG002903: a protein of unknown function perhaps involved in purine metabolism compare
PfGW456L13_3920 +0.5 2.3 Carbonic anhydrase (EC 4.2.1.1) compare
PfGW456L13_2256 +0.5 3.6 sensor histidine kinase/response regulator compare
PfGW456L13_2094 +0.5 1.5 CTP:molybdopterin cytidylyltransferase compare
PfGW456L13_3475 +0.5 1.9 Stress responsive alpha-beta barrel domain protein Dabb compare
PfGW456L13_4874 +0.5 1.3 Iron-sulfur cluster regulator IscR compare
PfGW456L13_1936 +0.5 1.3 RNA polymerase sigma-70 factor, ECF subfamily compare
PfGW456L13_2528 +0.5 2.6 Acyl-CoA dehydrogenase; probable dibenzothiophene desulfurization enzyme compare
PfGW456L13_1532 +0.4 2.0 Regulator of competence-specific genes compare
PfGW456L13_2866 +0.4 1.9 Transcriptional regulator, IclR family compare
PfGW456L13_1641 +0.4 2.7 Predicted endonuclease distantly related to archaeal Holliday junction resolvase compare
PfGW456L13_4264 +0.4 3.5 Branched-chain amino acid transport system carrier protein compare
PfGW456L13_2765 +0.4 2.1 Primosomal protein I compare
PfGW456L13_328 +0.4 1.8 Conserved hypothetical protein (perhaps related to histidine degradation) compare
PfGW456L13_4495 +0.4 1.7 Protein YcgL compare
PfGW456L13_1947 +0.4 2.7 CTP synthase (EC 6.3.4.2) compare
PfGW456L13_2791 +0.4 2.5 Phage protein U compare
PfGW456L13_3125 +0.4 1.9 Glutathione-dependent formaldehyde-activating enzyme (EC 4.4.1.22) compare
PfGW456L13_3171 +0.4 2.1 Short-chain dehydrogenase/reductase SDR compare
PfGW456L13_3971 +0.4 2.6 hypothetical protein compare
PfGW456L13_3316 +0.4 1.2 Ketoglutarate semialdehyde dehydrogenase (EC 1.2.1.26) compare
PfGW456L13_3961 +0.4 1.0 FIG00958186: hypothetical protein compare
PfGW456L13_2599 +0.4 1.4 Exodeoxyribonuclease III (EC 3.1.11.2) compare
PfGW456L13_2097 +0.4 1.9 Ribosomal large subunit pseudouridine synthase C (EC 4.2.1.70) compare
PfGW456L13_3050 +0.4 1.2 hypothetical protein compare
PfGW456L13_3308 +0.4 2.3 Exonuclease SbcC compare
PfGW456L13_1801 +0.4 1.1 FIG00954888: hypothetical protein compare
PfGW456L13_2308 +0.4 2.0 FIG137877: Hypothetical protein in pyoverdin gene cluster compare
PfGW456L13_572 +0.4 1.1 Osmotically inducible protein C compare
PfGW456L13_2266 +0.4 1.7 Probable transmembrane protein compare
PfGW456L13_2245 +0.4 2.7 Spermidine synthase (EC 2.5.1.16) compare


Specific Phenotypes

For 5 genes in this experiment

For carbon source D-Serine in Pseudomonas fluorescens GW456-L13

For carbon source D-Serine across organisms