Experiment set1S313 for Hydrogenophaga sp. GW460-11-11-14-LB1

Compare to:

Ying_AminoAcid20 rep A; time point 2

200 most detrimental genes:

  gene name fitness t score description  
GFF518 +3.6 16.3 Transcriptional regulator compare
GFF781 +3.5 9.2 Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1) compare
GFF780 +3.0 11.8 Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1) compare
GFF779 +2.9 17.1 Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1) compare
GFF4311 +2.9 18.9 Leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein compare
GFF2038 +2.6 6.9 Gamma-glutamyl-GABA hydrolase (EC 3.5.1.94) compare
GFF519 +2.1 12.4 Glutamate Aspartate periplasmic binding protein precursor GltI (TC 3.A.1.3.4) compare
GFF2567 +2.1 11.4 Preprotein translocase subunit YajC (TC 3.A.5.1.1) compare
GFF1225 +1.6 3.1 FIG136845: Rhodanese-related sulfurtransferase compare
GFF3698 +1.5 5.1 NAD-specific glutamate dehydrogenase (EC 1.4.1.2); NADP-specific glutamate dehydrogenase (EC 1.4.1.4) compare
GFF5028 +1.4 4.1 FMN reductase (EC 1.5.1.29) compare
GFF5027 +1.4 7.0 Sulfate and thiosulfate binding protein CysP compare
GFF4277 +1.3 3.8 Acetolactate synthase small subunit (EC 2.2.1.6) compare
GFF1972 +1.0 5.2 Transcriptional regulator compare
GFF4473 +1.0 1.8 Potassium-transporting ATPase C chain (EC 3.6.3.12) (TC 3.A.3.7.1) compare
GFF513 +1.0 2.2 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF796 +1.0 3.2 TRAP-type C4-dicarboxylate transport system, small permease component compare
GFF4399 +0.9 2.0 Chromosome (plasmid) partitioning protein ParA compare
GFF2595 +0.9 3.2 hypothetical protein compare
GFF1924 +0.9 1.4 MG(2+) CHELATASE FAMILY PROTEIN / ComM-related protein compare
GFF5075 +0.8 1.4 Alkanesulfonates ABC transporter ATP-binding protein / Sulfonate ABC transporter, ATP-binding subunit SsuB compare
GFF2536 +0.8 3.0 two-component hybrid sensor and regulator compare
GFF5226 +0.8 5.4 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF5467 +0.8 1.5 hypothetical protein compare
GFF831 +0.8 4.3 Heat-inducible transcription repressor HrcA compare
GFF4074 +0.8 1.4 Flagellar basal-body rod modification protein FlgD compare
GFF2877 +0.7 1.3 Methylglyoxal reductase, acetol producing (EC 1.1.1.-) / 2,5-diketo-D-gluconic acid reductase B (EC 1.1.1.274) compare
GFF4667 +0.7 5.7 Tricarboxylate transport protein TctB compare
GFF3244 +0.7 4.2 Rhodanese-related sulfurtransferases compare
GFF3241 +0.7 2.4 hypothetical protein compare
GFF3488 +0.7 1.8 hypothetical protein compare
GFF600 +0.7 1.2 Phosphohydrolase (MutT/nudix family protein) compare
GFF933 +0.7 1.4 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
GFF5261 +0.7 2.0 Transcriptional regulator, LuxR family compare
GFF2410 +0.7 1.5 Two-component system response regulator QseB compare
GFF2922 +0.7 2.2 putative c'cytochrome compare
GFF3538 +0.7 1.7 Copper tolerance protein compare
GFF2346 +0.6 1.8 hypothetical protein compare
GFF1073 +0.6 1.8 hypothetical protein compare
GFF5715 +0.6 2.0 Urea carboxylase-related ABC transporter, ATPase protein compare
GFF3174 +0.6 1.4 response regulator, NarL-family compare
GFF2867 +0.6 1.5 hypothetical protein compare
GFF1677 +0.6 3.2 Peptidase, M23/M37 family compare
GFF1293 +0.6 1.9 ubiquinol cytochrome C oxidoreductase, cytochrome C1 subunit compare
GFF4668 +0.6 5.3 Tricarboxylate transport membrane protein TctA compare
GFF102 +0.6 1.8 Integral membrane protein compare
GFF3485 +0.6 1.4 Plasmid replication initiator protein compare
GFF4490 +0.6 3.7 Benzoate transport, extracellular ligand-binding receptor compare
GFF5670 +0.6 1.4 Benzoate 1,2-dioxygenase beta subunit (EC 1.14.12.10) compare
GFF573 +0.6 2.6 Phosphatidate cytidylyltransferase (EC 2.7.7.41) compare
GFF1194 +0.6 1.0 Formate dehydrogenase subunit or accessory protein compare
GFF4459 +0.6 1.3 Serine-protein kinase RsbW (EC 2.7.11.1) compare
GFF2428 +0.6 2.1 TRAP-type C4-dicarboxylate transport system, small permease component compare
GFF3733 +0.6 1.9 Maebl compare
GFF1898 +0.6 1.9 hypothetical protein compare
GFF3702 +0.6 2.7 AttH component of AttEFGH ABC transport system compare
GFF2558 +0.6 1.7 hypothetical protein compare
GFF361 +0.6 1.2 ABC, transporter, ATP-binding protein compare
GFF1040 +0.6 2.1 Transcriptional regulator, HxlR family compare
GFF926 +0.6 0.9 MaoC family protein compare
GFF3394 +0.5 1.7 Dioxygenases related to 2-nitropropane dioxygenase compare
GFF5521 +0.5 1.3 peptidoglycan binding domain protein compare
GFF3401 +0.5 2.5 Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) compare
GFF1698 +0.5 0.9 Ferredoxin compare
GFF176 +0.5 1.6 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
GFF3426 +0.5 1.2 hypothetical protein compare
GFF812 +0.5 2.0 hypothetical protein compare
GFF5364 +0.5 2.6 FIG00461527: hypothetical protein compare
GFF5304 +0.5 1.5 hypothetical protein compare
GFF308 +0.5 1.4 hypothetical protein compare
GFF2190 +0.5 1.8 hypothetical protein compare
GFF1095 +0.5 1.7 Cobalt/zinc/cadmium efflux RND transporter, membrane fusion protein, CzcB family compare
GFF935 +0.5 1.4 Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1) compare
GFF2680 +0.5 1.2 cytosolic long-chain acyl-CoA thioester hydrolase family protein compare
GFF4274 +0.5 1.5 Diacylglycerol kinase (EC 2.7.1.107) compare
GFF4995 +0.5 1.9 3-oxoacyl-(acyl carrier protein) synthase (EC 2.3.1.41) compare
GFF2462 +0.5 0.9 Ribosomal RNA small subunit methyltransferase E (EC 2.1.1.-) compare
GFF4004 +0.5 0.9 LysR family regulatory protein compare
GFF4165 +0.5 1.9 Glycosidases compare
GFF1093 +0.5 1.4 Mobile element protein compare
GFF4499 +0.5 2.3 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
GFF2974 +0.5 1.4 TRAP-type C4-dicarboxylate transport system, periplasmic component compare
GFF138 +0.5 2.1 Hydroxypyruvate isomerase (EC 5.3.1.22) compare
GFF165 +0.5 2.2 FIG00932121: hypothetical protein compare
GFF3425 +0.5 2.5 Nucleoside-diphosphate-sugar epimerases compare
GFF1027 +0.5 1.4 Ferredoxin, 2Fe-2S compare
GFF2448 +0.5 1.8 Methionine biosynthesis protein MetW compare
GFF1971 +0.5 3.6 Transcriptional regulator, TetR family compare
GFF3738 +0.5 1.3 hypothetical protein compare
GFF4440 +0.5 1.3 Conjugative transfer protein TrbL compare
GFF5391 +0.5 2.1 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
GFF5041 +0.5 2.3 O-acetylhomoserine sulfhydrylase (EC 2.5.1.49) / O-succinylhomoserine sulfhydrylase (EC 2.5.1.48) compare
GFF185 +0.5 0.9 Oligopeptide transport system permease protein OppC (TC 3.A.1.5.1) compare
GFF2244 +0.5 1.2 putative exported protein compare
GFF4435 +0.5 0.8 Conjugative transfer protein TrbB compare
GFF5132 +0.4 2.3 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) compare
GFF1871 +0.4 0.9 Hypothetical metal-binding enzyme, YcbL homolog compare
GFF5018 +0.4 1.4 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF323 +0.4 2.0 Probable sulfite reductase compare
GFF298 +0.4 1.5 DedD protein compare
GFF72 +0.4 0.8 Predicted secretion system X protein GspG-like compare
GFF5455 +0.4 1.5 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
GFF4458 +0.4 1.0 Histidine kinase compare
GFF3072 +0.4 1.4 hypothetical protein compare
GFF5675 +0.4 1.4 Acyl-CoA thioesterase II (EC 3.1.2.-) compare
GFF4559 +0.4 1.7 Peptide deformylase (EC 3.5.1.88) compare
GFF1875 +0.4 1.3 hydrolase, alpha/beta fold family compare
GFF2961 +0.4 1.3 putative exported protein compare
GFF43 +0.4 1.0 Glycosyl transferase, group 1 compare
GFF342 +0.4 1.9 transcriptional regulator, Crp/Fnr family compare
GFF2847 +0.4 1.7 hypothetical protein compare
GFF3070 +0.4 1.0 FIG00348512: hypothetical protein compare
GFF2671 +0.4 1.2 hypothetical protein compare
GFF4089 +0.4 1.5 Flagellar biosynthesis protein FliR compare
GFF3518 +0.4 1.1 Putative outer membrane lipoprotein compare
GFF4460 +0.4 1.5 Anti-sigma F factor antagonist (spoIIAA-2); Anti-sigma B factor antagonist RsbV compare
GFF96 +0.4 2.2 Outer membrane porin protein 32 precursor compare
GFF5431 +0.4 0.7 Vitamin B12 ABC transporter, permease component BtuC compare
GFF1144 +0.4 0.6 putative periplasmic protein kinase ArgK and related GTPases of G3E family compare
GFF3814 +0.4 2.1 hypothetical protein compare
GFF5477 +0.4 1.6 Probable ferredoxin subunit of a ring-hydroxylating dioxygenase oxidoreductase protein (EC 1.-.-.-) compare
GFF5627 +0.4 1.2 Mannose-6-phosphate isomerase compare
GFF462 +0.4 1.4 FIG074102: hypothetical protein compare
GFF2783 +0.4 2.3 Sensor histidine kinase compare
GFF1874 +0.4 1.8 Mannose-6-phosphate isomerase compare
GFF2132 +0.4 1.8 TcuR: regulates tcuABC genes used in utilization of tricarballylate compare
GFF4065 +0.4 1.5 RNA polymerase sigma factor for flagellar operon compare
GFF3543 +0.4 1.7 hypothetical protein compare
GFF5415 +0.4 1.5 Quino(hemo)protein alcohol dehydrogenase, PQQ-dependent (EC 1.1.99.8) compare
GFF1472 +0.4 1.8 Regulatory protein, LuxR:Response regulator receiver compare
GFF4152 +0.4 1.4 FIG050068: DNA-binding protein compare
GFF5320 +0.4 1.1 hypothetical protein compare
GFF3395 +0.4 1.0 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF1389 +0.4 0.6 General secretion pathway protein N compare
GFF4418 +0.4 1.8 Electron transfer flavoprotein, alpha subunit compare
GFF2902 +0.4 1.6 Tricarboxylate transport protein TctC compare
GFF5113 +0.4 0.6 Glutathione S-transferase (EC 2.5.1.18) compare
GFF2844 +0.4 1.1 LysR family transcriptional regulator PA2758 compare
GFF5179 +0.4 1.6 putative membrane protein compare
GFF1765 +0.4 1.2 Ser-tRNA(Ala) deacylase; Gly-tRNA(Ala) deacylase compare
GFF1153 +0.4 0.7 Transcriptional regulator, LysR family compare
GFF4119 +0.4 0.6 Type II/IV secretion system protein TadC, associated with Flp pilus assembly compare
GFF197 +0.4 1.9 Ribose ABC transporter, periplasmic ribose-binding protein RbsB (TC 3.A.1.2.1) compare
GFF717 +0.4 2.3 Rubrerythrin compare
GFF164 +0.4 0.9 3-oxoacyl-[acyl-carrier-protein] synthase, KASIII (EC 2.3.1.180) compare
GFF1913 +0.4 1.2 Permease of the drug/metabolite transporter (DMT) superfamily compare
GFF1555 +0.4 2.2 4-hydroxy-tetrahydrodipicolinate synthase (EC 4.3.3.7) compare
GFF5077 +0.4 1.8 similar to ABC-type nitrate/sulfonate/bicarbonate transport systems periplasmic components compare
GFF5642 +0.4 2.1 High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1) compare
GFF1071 +0.4 1.0 hypothetical protein compare
GFF5358 +0.4 2.1 Isoquinoline 1-oxidoreductase beta subunit (EC 1.3.99.16) compare
GFF4489 +0.4 2.7 Benzoate transport, inner-membrane translocator compare
GFF3004 +0.4 2.4 FIG027190: Putative transmembrane protein compare
GFF4010 +0.4 1.5 Homoserine/homoserine lactone efflux protein compare
GFF3090 +0.4 1.9 DNA alkylation repair enzyme compare
GFF5310 +0.4 1.9 Replicative DNA helicase (EC 3.6.1.-) compare
GFF5613 +0.4 1.3 Hydrogen peroxide-inducible genes activator compare
GFF4603 +0.4 1.2 Acyl-CoA dehydrogenase (EC 1.3.8.7) compare
GFF1642 +0.4 0.9 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase (EC 4.1.2.n4) compare
GFF4142 +0.4 1.6 transcriptional regulator, Crp/Fnr family compare
GFF3555 +0.4 1.3 Fatty acid desaturase compare
GFF151 +0.4 1.1 Short-chain dehydrogenase/reductase SDR compare
GFF4441 +0.4 1.6 Conjugative transfer protein TrbF compare
GFF2705 +0.4 0.9 hypothetical protein compare
GFF3651 +0.4 0.7 Serine acetyltransferase (EC 2.3.1.30) compare
GFF548 +0.4 0.8 Blr3520 protein homolog, hypothetical protein compare
GFF4025 +0.4 1.0 Transcriptional regulator, AraC family compare
GFF4191 +0.4 2.2 Uncharacterized protein conserved in bacteria compare
GFF1949 +0.3 0.7 Sensory box histidine kinase compare
GFF4455 +0.3 1.6 putative exported protein compare
GFF3449 +0.3 1.1 Conjugative transfer protein TrbJ compare
GFF5278 +0.3 1.9 hypothetical protein compare
GFF2252 +0.3 1.7 FIG01094124: hypothetical protein compare
GFF5039 +0.3 2.2 Methionine ABC transporter substrate-binding protein compare
GFF4569 +0.3 1.4 Membrane protein, putative compare
GFF5651 +0.3 1.1 putative phosphotransferase compare
GFF5552 +0.3 1.3 hypothetical protein compare
GFF5003 +0.3 1.0 Adenylate cyclase (EC 4.6.1.1) compare
GFF3536 +0.3 1.8 Methyl-accepting chemotaxis protein I (serine chemoreceptor protein) compare
GFF4928 +0.3 1.4 putative exported protein compare
GFF2310 +0.3 1.8 putative exported protein compare
GFF3494 +0.3 1.9 hypothetical protein compare
GFF5658 +0.3 1.0 Methylsuccinyl-CoA dehydrogenase, predicted by (Erb et al, 2007) compare
GFF3726 +0.3 1.1 hypothetical protein compare
GFF5527 +0.3 1.7 Potassium efflux system KefA protein / Small-conductance mechanosensitive channel compare
GFF3400 +0.3 0.9 High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1) compare
GFF372 +0.3 2.0 Glutathione reductase (EC 1.8.1.7) compare
GFF2535 +0.3 2.0 FIG003879: Predicted amidohydrolase compare
GFF1485 +0.3 1.1 Transcriptional regulator, ArsR family compare
GFF1564 +0.3 1.3 Transcriptional regulator, IclR family compare
GFF1644 +0.3 1.8 4-hydroxy-tetrahydrodipicolinate synthase (EC 4.3.3.7) compare
GFF3987 +0.3 0.9 ChlI component of cobalt chelatase involved in B12 biosynthesis compare
GFF59 +0.3 1.0 Tyrosine-protein kinase Wzc (EC 2.7.10.2) compare
GFF4760 +0.3 2.0 hypothetical protein compare
GFF4258 +0.3 2.6 FIG005121: SAM-dependent methyltransferase (EC 2.1.1.-) compare
GFF4884 +0.3 2.3 NLP/P60 protein compare
GFF3146 +0.3 1.0 Thiol:disulfide involved in conjugative transfer compare
GFF541 +0.3 1.3 ABC transporter permease protein compare
GFF1899 +0.3 1.5 L-threonine 3-dehydrogenase (EC 1.1.1.103) compare
GFF3804 +0.3 1.4 Chromosome segregation ATPases-like protein compare


Specific Phenotypes

None in this experiment

For Hydrogenophaga sp. GW460-11-11-14-LB1 in carbon source experiments

For carbon source Ying_AminoAcid20 across organisms