Experiment set1IT058 for Rahnella sp. WP5

Compare to:

L-Serine nitrogen source; ShewMM media; shaking

200 most important genes:

  gene name fitness t score description  
EX31_RS03695 -5.6 -6.6 3-isopropylmalate dehydratase small subunit compare
EX31_RS02530 -5.5 -5.4 ABC transporter ATP-binding protein compare
EX31_RS12400 -5.4 -6.5 RNA polymerase factor sigma-54 compare
EX31_RS03250 -5.2 -10.5 RNA polymerase-binding protein DksA compare
EX31_RS12510 -5.1 -19.0 FAD-dependent oxidoreductase compare
EX31_RS13160 -5.0 -14.4 amino-acid N-acetyltransferase compare
EX31_RS02520 -4.7 -5.5 sigma-54-dependent Fis family transcriptional regulator compare
EX31_RS03685 -4.6 -17.1 3-isopropylmalate dehydrogenase compare
EX31_RS14190 -4.6 -13.5 N-acetyl-gamma-glutamyl-phosphate reductase compare
EX31_RS02515 -4.6 -6.2 PAS domain-containing protein compare
EX31_RS23415 -4.5 -10.0 citrate synthase compare
EX31_RS03690 -4.4 -14.2 3-isopropylmalate dehydratase large subunit compare
EX31_RS15005 -4.4 -19.1 dihydroxy-acid dehydratase compare
EX31_RS13445 -4.4 -18.8 argininosuccinate synthase compare
EX31_RS23245 -4.4 -22.7 asparagine synthase B compare
EX31_RS09965 -4.3 -8.3 anthranilate phosphoribosyltransferase compare
EX31_RS09980 -4.3 -7.2 tryptophan synthase subunit alpha compare
EX31_RS15020 -4.3 -20.3 ketol-acid reductoisomerase compare
EX31_RS22750 -4.2 -6.4 phosphoribosylaminoimidazolesuccinocarboxamide synthase compare
EX31_RS14180 -4.2 -18.7 argininosuccinate lyase compare
EX31_RS03830 -4.2 -20.4 carbamoyl-phosphate synthase large subunit compare
EX31_RS12515 -4.2 -28.8 glutamate synthase large subunit compare
EX31_RS13275 -4.2 -14.2 diaminopimelate decarboxylase compare
EX31_RS03945 -4.2 -25.1 bifunctional aspartate kinase/homoserine dehydrogenase I compare
EX31_RS14200 -4.1 -17.3 phosphoenolpyruvate carboxylase compare
EX31_RS03935 -4.1 -13.9 threonine synthase compare
EX31_RS11455 -4.1 -6.3 imidazole glycerol phosphate synthase subunit HisH compare
EX31_RS20495 -4.1 -13.2 outer membrane protein assembly factor BamB compare
EX31_RS18540 -4.1 -3.9 cysteine/glutathione ABC transporter permease/ATP-binding protein CydD compare
EX31_RS09970 -4.1 -9.4 bifunctional indole-3-glycerol-phosphate synthase TrpC/phosphoribosylanthranilate isomerase TrpF compare
EX31_RS03835 -4.0 -12.1 glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit compare
EX31_RS11465 -4.0 -8.9 imidazole glycerol phosphate synthase subunit HisF compare
EX31_RS15875 -4.0 -16.0 nitrogen regulation protein NR(II) compare
EX31_RS14185 -3.9 -9.2 acetylglutamate kinase compare
EX31_RS23440 -3.9 -2.7 2-oxoglutarate dehydrogenase E1 component compare
EX31_RS24385 -3.9 -5.2 dihydroorotase compare
EX31_RS02690 -3.9 -7.9 pyrroline-5-carboxylate reductase compare
EX31_RS15880 -3.9 -10.5 nitrogen regulation protein NR(I) compare
EX31_RS09975 -3.8 -10.2 tryptophan synthase subunit beta compare
EX31_RS19570 -3.8 -15.7 amidophosphoribosyltransferase compare
EX31_RS11470 -3.7 -4.3 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP diphosphatase HisIE compare
EX31_RS03940 -3.7 -13.6 homoserine kinase compare
EX31_RS16860 -3.7 -22.2 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase compare
EX31_RS22250 -3.7 -6.5 ATP-dependent protease ATP-binding subunit ClpX compare
EX31_RS05785 -3.7 -5.0 superoxide dismutase [Mn] compare
EX31_RS14215 -3.6 -19.6 cystathionine gamma-synthase compare
EX31_RS22245 -3.6 -4.9 ATP-dependent Clp endopeptidase proteolytic subunit ClpP compare
EX31_RS09890 -3.6 -14.3 HTH-type transcriptional regulator CysB compare
EX31_RS11450 -3.6 -7.9 bifunctional histidinol-phosphatase/imidazoleglycerol-phosphate dehydratase HisB compare
EX31_RS09960 -3.5 -7.1 glutamine amidotransferase compare
EX31_RS09955 -3.5 -10.2 anthranilate synthase component 1 compare
EX31_RS09855 -3.5 -5.8 orotidine-5'-phosphate decarboxylase compare
EX31_RS11735 -3.5 -12.0 homoserine O-succinyltransferase compare
EX31_RS18095 -3.5 -7.3 quinone-dependent dihydroorotate dehydrogenase compare
EX31_RS14500 -3.4 -12.0 orotate phosphoribosyltransferase compare
EX31_RS20975 -3.3 -9.5 glutamate-5-semialdehyde dehydrogenase compare
EX31_RS08745 -3.3 -3.1 50S ribosomal protein L9 compare
EX31_RS20980 -3.2 -8.8 glutamate 5-kinase compare
EX31_RS18530 -3.2 -15.8 leucine-responsive transcriptional regulator Lrp compare
EX31_RS21895 -3.2 -19.6 phosphoribosylformylglycinamidine synthase compare
EX31_RS22620 -3.2 -8.2 5-(carboxyamino)imidazole ribonucleotide synthase compare
EX31_RS22625 -3.2 -3.7 5-(carboxyamino)imidazole ribonucleotide mutase compare
EX31_RS22695 -3.2 -11.0 phosphoribosylformylglycinamidine cyclo-ligase compare
EX31_RS20175 -3.2 -10.4 cysteine synthase A compare
EX31_RS14340 -3.2 -2.2 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase compare
EX31_RS11445 -3.1 -10.5 histidinol-phosphate transaminase compare
EX31_RS11440 -3.1 -8.8 histidinol dehydrogenase compare
EX31_RS03680 -3.1 -14.6 2-isopropylmalate synthase compare
EX31_RS12825 -3.1 -8.4 ornithine carbamoyltransferase compare
EX31_RS14335 -3.0 -2.1 serine O-acetyltransferase compare
EX31_RS07895 -3.0 -11.2 phosphoadenylyl-sulfate reductase compare
EX31_RS13045 -2.9 -16.4 bifunctional uridylyltransferase/uridylyl-removing protein GlnD compare
EX31_RS07585 -2.9 -7.8 bifunctional chorismate mutase/prephenate dehydratase compare
EX31_RS07590 -2.9 -3.4 bifunctional chorismate mutase/prephenate dehydrogenase compare
EX31_RS16855 -2.8 -14.7 phosphoribosylamine--glycine ligase compare
EX31_RS06055 -2.8 -4.3 phosphate ABC transporter ATP-binding protein PstB compare
EX31_RS15870 -2.8 -5.0 glutamate--ammonia ligase compare
EX31_RS11460 -2.8 -4.8 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino]imidazole-4- carboxamide isomerase compare
EX31_RS14990 -2.7 -12.9 acetolactate synthase 2 catalytic subunit compare
EX31_RS15010 -2.7 -11.2 threonine ammonia-lyase, biosynthetic compare
EX31_RS14205 -2.7 -10.4 methylenetetrahydrofolate reductase compare
EX31_RS12785 -2.6 -12.4 aspartate carbamoyltransferase compare
EX31_RS14310 -2.6 -5.7 6-phosphofructokinase compare
EX31_RS07955 -2.5 -16.7 GTP diphosphokinase compare
EX31_RS18525 -2.5 -5.0 DNA translocase FtsK compare
EX31_RS18450 -2.5 -2.4 hypothetical protein compare
EX31_RS07870 -2.5 -10.1 adenylyl-sulfate kinase compare
EX31_RS19655 -2.5 -6.7 beta-ketoacyl-ACP synthase I compare
EX31_RS07560 -2.4 -17.9 ATP-dependent chaperone ClpB compare
EX31_RS02385 -2.4 -2.2 hypothetical protein compare
EX31_RS20450 -2.4 -8.1 IMP dehydrogenase compare
EX31_RS07900 -2.4 -13.5 assimilatory sulfite reductase (NADPH) hemoprotein subunit compare
EX31_RS07905 -2.2 -14.7 NADPH-dependent assimilatory sulfite reductase flavoprotein subunit compare
EX31_RS07475 -2.2 -2.0 hypothetical protein compare
EX31_RS25375 -2.1 -2.5 ilv operon leader peptide compare
EX31_RS00985 -2.1 -3.4 type VI secretion protein compare
EX31_RS08720 -2.0 -11.3 3'(2'),5'-bisphosphate nucleotidase CysQ compare
EX31_RS08150 -2.0 -11.9 inorganic triphosphatase compare
EX31_RS22430 -2.0 -2.2 hemolysin expression modulator Hha compare
EX31_RS25370 -1.9 -10.5 HTH-type transcriptional regulator MetR compare
EX31_RS11625 -1.9 -1.7 hypothetical protein compare
EX31_RS07380 -1.9 -3.0 redox-regulated ATPase YchF compare
EX31_RS03480 -1.9 -4.3 pyruvate dehydrogenase (acetyl-transferring), homodimeric type compare
EX31_RS18255 -1.9 -3.7 3-phosphoserine/phosphohydroxythreonine transaminase compare
EX31_RS07875 -1.9 -13.2 sulfate adenylyltransferase subunit CysN compare
EX31_RS09895 -1.8 -3.6 type I DNA topoisomerase compare
EX31_RS23480 -1.8 -4.8 Tol-Pal system protein TolQ compare
EX31_RS07415 -1.8 -1.8 bifunctional diguanylate cyclase/phosphodiesterase compare
EX31_RS07880 -1.8 -12.6 sulfate adenylyltransferase subunit CysD compare
EX31_RS23485 -1.8 -2.8 colicin uptake protein TolR compare
EX31_RS03790 -1.8 -2.9 bis(5'-nucleosyl)-tetraphosphatase (symmetrical) compare
EX31_RS11675 -1.8 -2.5 Holliday junction branch migration protein RuvA compare
EX31_RS06060 -1.7 -4.9 phosphate ABC transporter permease PstA compare
EX31_RS23495 -1.7 -7.1 Tol-Pal system protein TolB compare
EX31_RS06150 -1.7 -11.8 transcriptional regulator AsnC compare
EX31_RS03220 -1.6 -1.8 Fe3+-hydroxamate ABC transporter ATP-binding protein FhuC compare
EX31_RS22740 -1.6 -8.5 4-hydroxy-tetrahydrodipicolinate synthase compare
EX31_RS04390 -1.6 -3.4 DNA polymerase III subunit chi compare
EX31_RS15000 -1.6 -9.3 branched-chain amino acid transaminase compare
EX31_RS15155 -1.5 -2.4 diaminopimelate epimerase compare
EX31_RS04710 -1.4 -3.7 adenine-specific DNA-methyltransferase compare
EX31_RS12175 -1.4 -3.6 DNA-binding transcriptional regulator Fis compare
EX31_RS12875 -1.4 -2.3 D-glycero-beta-D-manno-heptose 1,7-bisphosphate 7-phosphatase compare
EX31_RS11435 -1.4 -5.7 ATP phosphoribosyltransferase compare
EX31_RS06070 -1.4 -6.1 phosphate ABC transporter substrate-binding protein PstS compare
EX31_RS03400 -1.4 -5.1 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase compare
EX31_RS20735 -1.4 -4.2 exodeoxyribonuclease V subunit beta compare
EX31_RS08130 -1.4 -1.9 accessory factor UbiK family protein compare
EX31_RS01075 -1.4 -4.5 manganese-binding transcriptional regulator MntR compare
EX31_RS06000 -1.4 -4.5 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE compare
EX31_RS24220 -1.4 -2.1 hypothetical protein compare
EX31_RS19600 -1.3 -5.9 tRNA pseudouridine(38-40) synthase TruA compare
EX31_RS06065 -1.3 -5.7 phosphate ABC transporter permease PstC compare
EX31_RS03010 -1.3 -5.5 helix-turn-helix domain-containing protein compare
EX31_RS06585 -1.3 -1.3 DUF2501 domain-containing protein compare
EX31_RS10590 -1.3 -1.9 cell division topological specificity factor MinE compare
EX31_RS23490 -1.3 -2.5 cell envelope integrity protein TolA compare
EX31_RS17100 -1.3 -2.8 colicin immunity protein Cui compare
EX31_RS20220 -1.3 -4.5 sulfate/thiosulfate ABC transporter permease CysT compare
EX31_RS03900 -1.2 -4.5 molecular chaperone DnaK compare
EX31_RS24715 -1.2 -5.9 L-serine ammonia-lyase compare
EX31_RS19205 -1.2 -3.0 50S ribosomal protein L25 compare
EX31_RS21805 -1.2 -2.0 anti-sigma-E factor RseA compare
EX31_RS16625 -1.2 -1.2 bifunctional 4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxy-phosphogluconate aldolase compare
EX31_RS13480 -1.2 -3.6 site-specific tyrosine recombinase XerD compare
EX31_RS24395 -1.2 -3.4 ribonuclease E compare
EX31_RS14620 -1.2 -1.9 SCP2 domain-containing protein compare
EX31_RS16655 -1.2 -1.8 hypothetical protein compare
EX31_RS21750 -1.2 -4.4 RnfH family protein compare
EX31_RS20530 -1.1 -4.2 nucleoside-diphosphate kinase compare
EX31_RS03310 -1.1 -2.5 hypothetical protein compare
EX31_RS20890 -1.1 -1.6 hypothetical protein compare
EX31_RS02525 -1.1 -4.6 ABC transporter permease compare
EX31_RS03710 -1.1 -1.5 glucose uptake inhibitor SgrT compare
EX31_RS20215 -1.0 -6.2 sulfate/thiosulfate ABC transporter permease CysW compare
EX31_RS01545 -1.0 -1.9 hypothetical protein compare
EX31_RS03890 -1.0 -2.6 Na+/H+ antiporter NhaA compare
EX31_RS00600 -1.0 -1.6 DUF1471 domain-containing protein compare
EX31_RS24880 -1.0 -8.7 carboxy terminal-processing peptidase compare
EX31_RS19480 -1.0 -4.1 acetate kinase compare
EX31_RS25895 -1.0 -1.7 DinI-like family protein compare
EX31_RS06600 -1.0 -3.1 electron transport complex subunit RsxG compare
EX31_RS21295 -1.0 -2.6 acyl carrier protein compare
EX31_RS10115 -1.0 -6.3 formyltetrahydrofolate deformylase compare
EX31_RS19505 -1.0 -1.9 PTS sugar transporter subunit IIB compare
EX31_RS25295 -1.0 -1.9 GhoT/OrtT family toxin compare
EX31_RS06140 -1.0 -6.0 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG compare
EX31_RS14610 -1.0 -1.1 twin-arginine translocase subunit TatE compare
EX31_RS00190 -1.0 -2.3 H-NS histone family protein compare
EX31_RS16845 -0.9 -2.8 DNA-binding protein HU-alpha compare
EX31_RS08535 -0.9 -1.6 30S ribosome-binding factor RbfA compare
EX31_RS26025 -0.9 -1.7 conjugal transfer protein TraK compare
EX31_RS17290 -0.9 -2.6 tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34) synthase CmoB compare
EX31_RS19420 -0.9 -2.1 NADH-quinone oxidoreductase subunit NuoE compare
EX31_RS09495 -0.9 -2.2 DUF4186 domain-containing protein compare
EX31_RS20670 -0.9 -0.9 RNA chaperone/antiterminator CspA compare
EX31_RS25340 -0.9 -3.0 hypothetical protein compare
EX31_RS25125 -0.9 -2.5 thr operon leader peptide compare
EX31_RS13980 -0.9 -1.8 lipoate--protein ligase A compare
EX31_RS16675 -0.8 -2.1 histidine utilization repressor compare
EX31_RS06610 -0.8 -4.4 electron transport complex subunit RsxC compare
EX31_RS01970 -0.8 -0.9 hypothetical protein compare
EX31_RS03035 -0.8 -4.8 LysE family transporter compare
EX31_RS26075 -0.8 -1.1 hypothetical protein compare
EX31_RS20000 -0.8 -1.9 nuclear transport factor 2 family protein compare
EX31_RS10030 -0.8 -1.7 YciY family protein compare
EX31_RS04725 -0.8 -2.5 shikimate kinase AroK compare
EX31_RS03770 -0.8 -4.6 peptidylprolyl isomerase SurA compare
EX31_RS07750 -0.8 -5.4 glutamate--cysteine ligase compare
EX31_RS06605 -0.8 -3.7 electron transport complex subunit RsxD compare
EX31_RS17985 -0.8 -2.2 acylphosphatase compare
EX31_RS04925 -0.8 -1.4 Fe-S biogenesis protein NfuA compare
EX31_RS20935 -0.8 -1.3 hypothetical protein compare
EX31_RS15260 -0.8 -2.1 hypothetical protein compare
EX31_RS17955 -0.8 -1.6 SDR family oxidoreductase compare
EX31_RS12460 -0.8 -3.3 BolA family transcriptional regulator compare
EX31_RS07830 -0.8 -2.7 murein hydrolase activator NlpD compare
EX31_RS20210 -0.8 -3.4 sulfate/thiosulfate ABC transporter ATP-binding protein CysA compare
EX31_RS07785 -0.8 -1.1 carbon storage regulator CsrA compare
EX31_RS22320 -0.8 -4.8 ammonium transporter AmtB compare


Specific Phenotypes

None in this experiment

For Rahnella sp. WP5 in nitrogen source experiments

For nitrogen source L-Serine across organisms