Experiment set2IT076 for Pseudomonas fluorescens GW456-L13

Compare to:

D-Alanine carbon source

200 most detrimental genes:

  gene name fitness t score description  
PfGW456L13_4674 +3.4 23.2 RNA polymerase sigma factor RpoS compare
PfGW456L13_199 +3.0 19.5 alpha-1,3-rhamnosyltransferase compare
PfGW456L13_200 +3.0 26.3 Glycosyl transferase in large core OS assembly cluster compare
PfGW456L13_4791 +2.6 9.6 Transposase and inactivated derivatives compare
PfGW456L13_815 +2.5 16.7 Putrescine utilization regulator compare
PfGW456L13_1865 +1.9 3.8 Cold shock protein CspA compare
PfGW456L13_223 +1.8 13.9 Transcriptional repressor of PutA and PutP / Proline dehydrogenase (EC 1.5.99.8) (Proline oxidase) / Delta-1-pyrroline-5-carboxylate dehydrogenase (EC 1.5.1.12) compare
PfGW456L13_1453 +1.8 12.0 Glutathione-regulated potassium-efflux system ATP-binding protein compare
PfGW456L13_203 +1.8 9.5 Glycosyl transferase in large core OS assembly cluster compare
PfGW456L13_3610 +1.4 2.2 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
PfGW456L13_2322 +1.3 10.0 Threonine and homoserine efflux system compare
PfGW456L13_3560 +1.2 4.2 Transcriptional regulator, LysR family compare
PfGW456L13_204 +1.2 10.1 Carbamoyltransferase in large core OS assembly cluster compare
PfGW456L13_1866 +1.2 5.6 Aminomethyltransferase (EC 2.1.2.10) (from data) compare
PfGW456L13_2538 +1.1 1.8 3-ketoacyl-CoA thiolase (EC 2.3.1.16) @ Acetyl-CoA acetyltransferase (EC 2.3.1.9) compare
PfGW456L13_2845 +1.1 3.1 FIG00953703: hypothetical protein compare
PfGW456L13_598 +1.1 5.7 Zinc uptake regulation protein ZUR compare
PfGW456L13_347 +1.1 5.5 Nitrogen regulation protein NR(I) compare
PfGW456L13_1300 +1.0 3.4 dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133) compare
PfGW456L13_2029 +1.0 7.2 BarA sensory histidine kinase (= VarS = GacS) compare
PfGW456L13_2885 +1.0 4.7 BarA-associated response regulator UvrY (= GacA = SirA) compare
PfGW456L13_4900 +0.9 2.3 2-hydroxychromene-2-carboxylate isomerase/DsbA-like thioredoxin domain compare
PfGW456L13_55 +0.9 3.9 tRNA dihydrouridine synthase B (EC 1.-.-.-) compare
PfGW456L13_672 +0.9 3.5 rRNA small subunit 7-methylguanosine (m7G) methyltransferase GidB compare
PfGW456L13_4932 +0.9 6.0 Heme O synthase, protoheme IX farnesyltransferase (EC 2.5.1.-) COX10-CtaB compare
PfGW456L13_2857 +0.9 2.2 ChlD component of cobalt chelatase involved in B12 biosynthesis compare
PfGW456L13_770 +0.9 2.1 Superfamily II DNA and RNA helicases compare
PfGW456L13_144 +0.9 3.3 3'-to-5' exoribonuclease RNase R compare
PfGW456L13_2817 +0.9 3.1 HEAT repeat-containing protein compare
PfGW456L13_3774 +0.8 2.0 Organic hydroperoxide resistance protein compare
PfGW456L13_2142 +0.8 6.2 Transcriptional regulator, GntR family domain / Aspartate aminotransferase (EC 2.6.1.1) compare
PfGW456L13_597 +0.8 6.1 Zinc ABC transporter, periplasmic-binding protein ZnuA compare
PfGW456L13_3894 +0.8 1.1 Integration host factor alpha subunit compare
PfGW456L13_1386 +0.8 7.5 Sensor histidine kinase compare
PfGW456L13_4033 +0.8 1.4 Predicted transcriptional regulator for fatty acid degradation FadQ, TetR family compare
PfGW456L13_4972 +0.8 2.7 Hypothetical flavoprotein YqcA (clustered with tRNA pseudouridine synthase C) compare
PfGW456L13_1965 +0.8 5.6 Arginine/ornithine ABC transporter, permease protein AotQ compare
PfGW456L13_4936 +0.8 5.6 Cytochrome O ubiquinol oxidase subunit II (EC 1.10.3.-) compare
PfGW456L13_202 +0.8 4.0 Probable transcription regulator Mig-14 compare
PfGW456L13_3050 +0.8 2.3 hypothetical protein compare
PfGW456L13_1966 +0.8 6.6 Arginine/ornithine ABC transporter, permease protein AotM compare
PfGW456L13_2372 +0.8 2.3 ABC transporter, permease protein compare
PfGW456L13_3047 +0.8 2.0 Response regulator compare
PfGW456L13_613 +0.8 2.4 hypothetical protein compare
PfGW456L13_62 +0.8 1.4 hypothetical protein compare
PfGW456L13_2262 +0.7 2.3 response regulator compare
PfGW456L13_4059 +0.7 3.3 Cytochrome c oxidase subunit CcoP (EC 1.9.3.1) compare
PfGW456L13_600 +0.7 4.2 Zinc ABC transporter, inner membrane permease protein ZnuB compare
PfGW456L13_3824 +0.7 1.6 Muconate cycloisomerase (EC 5.5.1.1) compare
PfGW456L13_2868 +0.7 1.6 hypothetical protein compare
PfGW456L13_1447 +0.7 0.9 Transcriptional regulator, GntR family compare
PfGW456L13_1985 +0.7 1.9 Alginate biosynthesis transcriptional activator compare
PfGW456L13_3386 +0.7 2.3 Glutathione peroxidase family protein compare
PfGW456L13_1971 +0.7 4.2 Succinylornithine transaminase (EC 2.6.1.81) compare
PfGW456L13_3683 +0.7 2.5 FIG00957787: hypothetical protein compare
PfGW456L13_1916 +0.7 2.0 hypothetical protein compare
PfGW456L13_1954 +0.7 1.1 hypothetical protein compare
PfGW456L13_607 +0.7 2.5 Heme A synthase, cytochrome oxidase biogenesis protein Cox15-CtaA compare
PfGW456L13_3598 +0.7 2.4 hypothetical protein compare
PfGW456L13_599 +0.7 4.1 Zinc ABC transporter, ATP-binding protein ZnuC compare
PfGW456L13_3954 +0.7 2.5 Probable hydrolase compare
PfGW456L13_709 +0.7 3.5 Zinc ABC transporter, inner membrane permease protein ZnuB compare
PfGW456L13_1854 +0.7 1.9 4-hydroxybenzoyl-CoA thioesterase family active site compare
PfGW456L13_1637 +0.7 3.3 Stringent starvation protein A compare
PfGW456L13_2305 +0.7 2.5 ABC transporter in pyoverdin gene cluster, ATP-binding component compare
PfGW456L13_608 +0.7 4.7 Probable transmembrane protein compare
PfGW456L13_855 +0.7 4.8 Autolysis response regulater LytR compare
PfGW456L13_4457 +0.7 2.2 3-phosphoglycerate kinase compare
PfGW456L13_616 +0.7 3.2 FIG00965752: hypothetical protein compare
PfGW456L13_4259 +0.7 1.0 FIG00953296: hypothetical protein compare
PfGW456L13_2192 +0.7 2.8 regulator of length of O-antigen component of lipopolysaccharide chains compare
PfGW456L13_2595 +0.7 1.9 Predicted transcriptional regulator LiuR of leucine degradation pathway, MerR family compare
PfGW456L13_4036 +0.7 1.6 FIG00954079: hypothetical protein compare
PfGW456L13_3437 +0.7 3.6 2-amino-3-carboxymuconate-6-semialdehyde decarboxylase (EC 4.1.1.45) compare
PfGW456L13_504 +0.7 1.7 Outer membrane component of tripartite multidrug resistance system compare
PfGW456L13_2644 +0.7 2.5 Cold shock protein CspD compare
PfGW456L13_2444 +0.7 1.1 Diaminopimelate epimerase (EC 5.1.1.7) compare
PfGW456L13_2982 +0.6 2.0 3-ketoacyl-CoA thiolase (EC 2.3.1.16) (from data) compare
PfGW456L13_1964 +0.6 5.5 Arginine/ornithine ABC transporter, periplasmic arginine/ornithine binding protein compare
PfGW456L13_4927 +0.6 3.5 RidA/YER057c/UK114 superfamily, group 2, YoaB-like protein compare
PfGW456L13_1337 +0.6 4.1 DedA protein compare
PfGW456L13_4051 +0.6 1.4 LSU rRNA 2'-O-methyl-C2498 methyltransferase RlmM compare
PfGW456L13_2279 +0.6 1.7 FIG00953472: hypothetical protein compare
PfGW456L13_1867 +0.6 4.9 L-serine dehydratase (EC 4.3.1.17) compare
PfGW456L13_743 +0.6 3.2 Transcriptional regulator compare
PfGW456L13_4218 +0.6 1.7 Quaternary ammonium compound-resistance protein SugE compare
PfGW456L13_80 +0.6 3.2 ABC transporter (iron.B12.siderophore.hemin) , permease component compare
PfGW456L13_707 +0.6 3.2 Carbonic anhydrase, gamma class (EC 4.2.1.1) compare
PfGW456L13_420 +0.6 1.0 Phosphoenolpyruvate carboxykinase [ATP] (EC 4.1.1.49) compare
PfGW456L13_1349 +0.6 1.2 MaoC-like domain protein compare
PfGW456L13_3763 +0.6 2.1 Methylamine dehydrogenase light chain precursor (EC 1.4.99.3) compare
PfGW456L13_4944 +0.6 0.9 FIG00963370: hypothetical protein compare
PfGW456L13_4633 +0.6 1.3 Isochorismatase (EC 3.3.2.1) compare
PfGW456L13_1520 +0.6 1.6 Pantoate--beta-alanine ligase (EC 6.3.2.1) compare
PfGW456L13_1887 +0.6 1.8 Methylglyoxal synthase (EC 4.2.3.3) compare
PfGW456L13_2804 +0.6 2.0 Cytochrome c5 compare
PfGW456L13_4605 +0.6 1.8 FIG00955830: hypothetical protein compare
PfGW456L13_3315 +0.6 1.7 FIG00955242: hypothetical protein compare
PfGW456L13_3561 +0.6 2.8 Choline dehydrogenase (EC 1.1.99.1) compare
PfGW456L13_606 +0.6 4.3 Cytochrome oxidase biogenesis protein Sco1/SenC/PrrC, putative copper metallochaperone compare
PfGW456L13_3502 +0.6 1.6 4-carboxymuconolactone decarboxylase domain/alkylhydroperoxidase AhpD family core domain protein compare
PfGW456L13_614 +0.6 4.6 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) compare
PfGW456L13_405 +0.6 2.3 FIG001957: putative hydrolase compare
PfGW456L13_2776 +0.6 1.4 Phage protein compare
PfGW456L13_612 +0.6 3.0 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
PfGW456L13_1206 +0.6 2.4 DnaJ-like protein DjlA compare
PfGW456L13_895 +0.6 2.1 FIG001590: Putative conserved exported protein precursor compare
PfGW456L13_4354 +0.5 1.2 Flagellar hook-basal body complex protein FliE compare
PfGW456L13_2981 +0.5 0.8 Probable acyl-CoA dehydrogenase (EC 1.3.99.3) compare
PfGW456L13_3937 +0.5 1.6 DedD protein compare
PfGW456L13_758 +0.5 1.0 Phosphate regulon transcriptional regulatory protein PhoB (SphR) compare
PfGW456L13_1621 +0.5 4.9 FIG002188: hypothetical protein compare
PfGW456L13_205 +0.5 2.5 hypothetical protein compare
PfGW456L13_2426 +0.5 2.0 Phenylacetate-CoA oxygenase, PaaH subunit compare
PfGW456L13_4934 +0.5 3.3 Cytochrome O ubiquinol oxidase subunit III (EC 1.10.3.-) compare
PfGW456L13_615 +0.5 3.7 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
PfGW456L13_2942 +0.5 1.6 hypothetical protein compare
PfGW456L13_3367 +0.5 2.8 Probable carboxyvinyl-carboxyphosphonate phosphorylmutase (EC 2.7.8.23) compare
PfGW456L13_4642 +0.5 1.6 Cold shock protein CspA compare
PfGW456L13_2929 +0.5 1.8 Lactoylglutathione lyase (EC 4.4.1.5) compare
PfGW456L13_3380 +0.5 2.2 hypothetical protein compare
PfGW456L13_4355 +0.5 1.5 Flagellar regulatory protein FleQ compare
PfGW456L13_3011 +0.5 1.2 hypothetical protein compare
PfGW456L13_207 +0.5 2.1 InaA protein compare
PfGW456L13_611 +0.5 3.2 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) compare
PfGW456L13_1140 +0.5 0.9 Glycine cleavage system transcriptional antiactivator GcvR compare
PfGW456L13_3672 +0.5 1.5 hypothetical protein compare
PfGW456L13_1599 +0.5 3.1 Hypoxanthine-guanine phosphoribosyltransferase (EC 2.4.2.8) compare
PfGW456L13_3989 +0.5 1.8 FIG00964275: hypothetical protein compare
PfGW456L13_1993 +0.5 2.4 glutamine synthetase family protein compare
PfGW456L13_3794 +0.5 1.2 Transcriptional regulatory protein ompR compare
PfGW456L13_3583 +0.5 1.8 4-hydroxyproline epimerase (EC 5.1.1.8) compare
PfGW456L13_2923 +0.5 2.6 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
PfGW456L13_1774 +0.5 1.9 Iron-regulated protein A precursor compare
PfGW456L13_4930 +0.5 3.6 Transcriptional regulator, GntR family domain / Aspartate aminotransferase (EC 2.6.1.1) compare
PfGW456L13_708 +0.5 2.9 Zinc ABC transporter, periplasmic-binding protein ZnuA compare
PfGW456L13_5151 +0.5 1.5 Exodeoxyribonuclease V beta chain (EC 3.1.11.5) compare
PfGW456L13_1048 +0.5 3.5 ATP-dependent RNA helicase RhlE compare
PfGW456L13_1412 +0.5 2.0 acetyltransferase, GNAT family compare
PfGW456L13_2492 +0.5 1.4 Virulence factor mviM compare
PfGW456L13_5059 +0.5 0.7 hypothetical protein compare
PfGW456L13_4955 +0.5 0.8 FIG00954638: hypothetical protein compare
PfGW456L13_2508 +0.5 1.6 ADP compounds hydrolase NudE (EC 3.6.1.-) compare
PfGW456L13_3311 +0.5 0.7 hypothetical protein compare
PfGW456L13_578 +0.5 3.0 Glutamate-aspartate carrier protein compare
PfGW456L13_24 +0.5 2.6 Lead, cadmium, zinc and mercury transporting ATPase (EC 3.6.3.3) (EC 3.6.3.5); Copper-translocating P-type ATPase (EC 3.6.3.4) compare
PfGW456L13_1795 +0.5 2.0 Aldehyde dehydrogenase (EC 1.2.1.3) compare
PfGW456L13_3121 +0.5 1.4 Nitrilotriacetate monooxygenase component B (EC 1.14.13.-) compare
PfGW456L13_2542 +0.5 2.4 Major facilitator family transporter compare
PfGW456L13_1011 +0.5 0.9 Hypothetical protein YggS, proline synthase co-transcribed bacterial homolog PROSC compare
PfGW456L13_4916 +0.5 2.0 Phosphate regulon transcriptional regulatory protein PhoB (SphR) compare
PfGW456L13_4022 +0.5 1.2 FIG00953243: hypothetical protein compare
PfGW456L13_3623 +0.5 2.3 D-serine dehydratase transcriptional activator compare
PfGW456L13_1978 +0.5 2.1 6,7-dimethyl-8-ribityllumazine synthase (EC 2.5.1.78) compare
PfGW456L13_4137 +0.5 1.9 small molecule metabolism; degradation; amines compare
PfGW456L13_3533 +0.5 3.4 Outer membrane protein (porin) compare
PfGW456L13_787 +0.5 2.4 Exodeoxyribonuclease III (EC 3.1.11.2) compare
PfGW456L13_2870 +0.5 1.6 Peptidyl-prolyl cis-trans isomerase PpiC (EC 5.2.1.8) compare
PfGW456L13_351 +0.5 1.8 Glutaredoxin 3 (Grx3) compare
PfGW456L13_1450 +0.5 1.9 hypothetical protein compare
PfGW456L13_376 +0.5 3.3 Histidine ABC transporter, ATP-binding protein HisP (TC 3.A.1.3.1) compare
PfGW456L13_739 +0.5 2.2 Transcriptional regulator, AraC family compare
PfGW456L13_1602 +0.5 1.4 Aminopeptidase N compare
PfGW456L13_259 +0.5 0.5 General secretion pathway protein K compare
PfGW456L13_4933 +0.4 1.6 Cytochrome O ubiquinol oxidase subunit IV (EC 1.10.3.-) compare
PfGW456L13_2594 +0.4 3.0 Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4) compare
PfGW456L13_2345 +0.4 1.3 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
PfGW456L13_4425 +0.4 1.7 FIG039061: hypothetical protein related to heme utilization compare
PfGW456L13_17 +0.4 0.9 Transcriptional regulator, ArsR family compare
PfGW456L13_3195 +0.4 1.3 hypothetical protein compare
PfGW456L13_3551 +0.4 2.1 diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s) compare
PfGW456L13_2773 +0.4 1.3 Phage protein compare
PfGW456L13_581 +0.4 0.7 hypothetical protein compare
PfGW456L13_2663 +0.4 2.7 Membrane protein, putative compare
PfGW456L13_4935 +0.4 3.0 Cytochrome O ubiquinol oxidase subunit I (EC 1.10.3.-) compare
PfGW456L13_2039 +0.4 1.5 FIG00953102: hypothetical protein compare
PfGW456L13_3586 +0.4 1.4 D-amino acid dehydrogenase (EC 1.4.99.1) family protein in hydroxy-L-proline catabolic cluster compare
PfGW456L13_6 +0.4 1.2 FIG000605: protein co-occurring with transport systems (COG1739) compare
PfGW456L13_1311 +0.4 0.9 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
PfGW456L13_4928 +0.4 1.6 carboxylase compare
PfGW456L13_425 +0.4 3.0 Ribosomal protein S6 glutaminyl transferase compare
PfGW456L13_2699 +0.4 1.1 Exopolyphosphatase (EC 3.6.1.11) compare
PfGW456L13_2348 +0.4 2.9 2-Oxobutyrate oxidase, putative compare
PfGW456L13_2854 +0.4 1.1 CobW GTPase involved in cobalt insertion for B12 biosynthesis compare
PfGW456L13_247 +0.4 1.9 FIG022199: FAD-binding protein compare
PfGW456L13_4083 +0.4 2.4 Transcriptional regulator, GntR family compare
PfGW456L13_424 +0.4 2.9 hypothetical protein compare
PfGW456L13_3018 +0.4 2.2 FIG00955061: hypothetical protein compare
PfGW456L13_4658 +0.4 2.2 COG1720: Uncharacterized conserved protein compare
PfGW456L13_2333 +0.4 2.6 Glycosyltransferase (EC 2.4.1.-) compare
PfGW456L13_4911 +0.4 1.3 Transcriptional regulator, LysR family compare
PfGW456L13_4922 +0.4 2.3 hypothetical protein compare
PfGW456L13_873 +0.4 2.4 Porphobilinogen synthase (EC 4.2.1.24) compare
PfGW456L13_2851 +0.4 1.4 Cobalt-precorrin-3b C17-methyltransferase compare
PfGW456L13_349 +0.4 1.3 tRNA (cytidine(34)-2'-O)-methyltransferase (EC 2.1.1.207) compare
PfGW456L13_4834 +0.4 0.6 FIG137478: Hypothetical protein compare
PfGW456L13_2335 +0.4 2.7 Teichoic acid export ATP-binding protein TagH (EC 3.6.3.40) compare
PfGW456L13_1767 +0.4 2.3 DNA-binding response regulator ColR compare
PfGW456L13_1523 +0.4 0.7 Poly(A) polymerase (EC 2.7.7.19) compare
PfGW456L13_2113 +0.4 2.9 Transcriptional regulator, TetR family compare


Specific Phenotypes

For 9 genes in this experiment

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

For carbon source D-Alanine across organisms