Experiment set1S317 for Hydrogenophaga sp. GW460-11-11-14-LB1

Compare to:

Ying_OrganicAcid7 rep B; time point 2

200 most detrimental genes:

  gene name fitness t score description  
GFF2536 +1.1 4.0 two-component hybrid sensor and regulator compare
GFF3232 +1.0 2.5 hypothetical protein compare
GFF2142 +1.0 5.3 hypothetical protein compare
GFF5696 +0.9 1.8 PROBABLE TRANSMEMBRANE PROTEIN compare
GFF4437 +0.9 1.9 Conjugative transfer protein TrbD compare
GFF5806 +0.9 1.7 tRNA-Ala-CGC compare
GFF5538 +0.9 1.9 hypothetical protein compare
GFF468 +0.8 2.5 Ribose ABC transport system, permease protein RbsC (TC 3.A.1.2.1) compare
GFF2563 +0.8 2.3 hypothetical protein compare
GFF2209 +0.8 1.4 Uptake hydrogenase small subunit precursor (EC 1.12.99.6) compare
GFF5323 +0.8 1.6 hypothetical protein compare
GFF482 +0.8 1.7 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF5121 +0.8 2.9 Benzoate transport, ATPase component compare
GFF4399 +0.8 1.5 Chromosome (plasmid) partitioning protein ParA compare
GFF513 +0.7 2.7 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF61 +0.7 1.2 hypothetical protein compare
GFF176 +0.7 2.2 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
GFF5072 +0.7 1.6 Taurine transport ATP-binding protein TauB compare
GFF4004 +0.7 1.5 LysR family regulatory protein compare
GFF1560 +0.7 2.4 Fumarylacetoacetate hydrolase family protein compare
GFF600 +0.7 1.2 Phosphohydrolase (MutT/nudix family protein) compare
GFF3853 +0.7 1.5 DNA-binding protein HU-beta compare
GFF3010 +0.7 1.8 3-oxoacyl-[ACP] synthase compare
GFF2739 +0.7 1.3 lipoprotein, putative compare
GFF2537 +0.7 3.1 Two-component response regulator compare
GFF1194 +0.6 1.1 Formate dehydrogenase subunit or accessory protein compare
GFF4830 +0.6 2.3 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF1932 +0.6 1.0 Bll5738 protein compare
GFF1924 +0.6 1.4 MG(2+) CHELATASE FAMILY PROTEIN / ComM-related protein compare
GFF2902 +0.6 2.9 Tricarboxylate transport protein TctC compare
GFF4316 +0.6 1.7 Phenylacetic acid degradation protein PaaN, ring-opening aldehyde dehydrogenase (EC 1.2.1.3) compare
GFF1820 +0.6 2.0 Multiple antibiotic resistance protein marC compare
GFF1461 +0.6 1.5 Flagellar biosynthesis protein FliP compare
GFF4034 +0.6 1.4 Chromosome initiation inhibitor compare
GFF4784 +0.6 1.6 Phospholipid N-methyltransferase compare
GFF4119 +0.6 0.9 Type II/IV secretion system protein TadC, associated with Flp pilus assembly compare
GFF3466 +0.6 1.3 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
GFF3738 +0.6 1.5 hypothetical protein compare
GFF2864 +0.6 2.2 Creatinine amidohydrolase (EC 3.5.2.10) compare
GFF261 +0.6 2.8 Sulfur oxidation protein SoxZ compare
GFF2713 +0.5 1.4 Aminopeptidase Y (Arg, Lys, Leu preference) (EC 3.4.11.15) compare
GFF323 +0.5 2.4 Probable sulfite reductase compare
GFF1609 +0.5 1.8 Regulator of competence-specific genes compare
GFF1459 +0.5 2.5 Flagellar motor switch protein FliN compare
GFF4441 +0.5 2.3 Conjugative transfer protein TrbF compare
GFF3442 +0.5 1.3 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
GFF2558 +0.5 2.3 hypothetical protein compare
GFF1941 +0.5 1.0 transcriptional regulator, AbrB family compare
GFF2139 +0.5 1.4 transcriptional regulator, LysR family compare
GFF1635 +0.5 2.2 DNA-binding response regulator compare
GFF308 +0.5 2.0 hypothetical protein compare
GFF4417 +0.5 0.9 Electron transfer flavoprotein, beta subunit compare
GFF1905 +0.5 0.7 membrane protein, putative compare
GFF3743 +0.5 1.1 Aspartate dehydrogenase homolog compare
GFF4152 +0.5 1.5 FIG050068: DNA-binding protein compare
GFF2562 +0.5 3.4 hypothetical protein compare
GFF478 +0.5 1.1 Acyclic terpenes utilization regulator AtuR, TetR family compare
GFF5270 +0.5 2.8 Nitrogen regulation protein NtrB (EC 2.7.13.3) compare
GFF4772 +0.5 3.4 Glycine-rich cell wall structural protein precursor compare
GFF3047 +0.5 2.3 Bll3153 protein compare
GFF5246 +0.5 1.3 PROBABLE HYDROLASE PROTEIN compare
GFF1577 +0.5 0.6 YciL protein compare
GFF1698 +0.5 0.8 Ferredoxin compare
GFF1652 +0.5 1.4 similar to protocatechuate 4,5-dioxygenase beta chain compare
GFF361 +0.5 1.7 ABC, transporter, ATP-binding protein compare
GFF4833 +0.5 1.4 Chromate transporter compare
GFF5715 +0.5 1.5 Urea carboxylase-related ABC transporter, ATPase protein compare
GFF4767 +0.5 2.9 Asparagine synthetase [glutamine-hydrolyzing] (EC 6.3.5.4) AsnH compare
GFF4165 +0.5 1.3 Glycosidases compare
GFF2428 +0.5 1.3 TRAP-type C4-dicarboxylate transport system, small permease component compare
GFF2671 +0.5 1.4 hypothetical protein compare
GFF4371 +0.5 1.7 ABC transporter related compare
GFF4847 +0.4 1.0 Arylesterase precursor (EC 3.1.1.2) compare
GFF917 +0.4 1.0 Methylcrotonyl-CoA carboxylase biotin-containing subunit (EC 6.4.1.4) compare
GFF2108 +0.4 1.1 3-ketoacyl-CoA thiolase (EC 2.3.1.16) @ Acetyl-CoA acetyltransferase (EC 2.3.1.9) compare
GFF3759 +0.4 1.3 PlcB, ORFX, ORFP, ORFB, ORFA, ldh gene compare
GFF1779 +0.4 1.5 hypothetical protein compare
GFF2150 +0.4 1.2 Transcriptional regulator AglR, LacI family compare
GFF3151 +0.4 1.2 hypothetical protein compare
GFF3378 +0.4 1.5 transcriptional regulator, XRE family compare
GFF4721 +0.4 2.1 Mhp operon transcriptional activator compare
GFF331 +0.4 1.6 hypothetical protein compare
GFF4077 +0.4 2.1 Flagellar basal-body rod protein FlgG compare
GFF5783 +0.4 1.5 Mobile element protein compare
GFF878 +0.4 1.1 Acyclic terpenes utilization regulator AtuR, TetR family compare
GFF3479 +0.4 1.4 Type IV secretory pathway, VirD2 components (relaxase) compare
GFF175 +0.4 1.7 TRAP-type C4-dicarboxylate transport system, periplasmic component compare
GFF5000 +0.4 1.7 Catechol 1,2-dioxygenase (EC 1.13.11.1) compare
GFF833 +0.4 1.8 hypothetical protein compare
GFF1285 +0.4 1.7 Mutator mutT protein (7,8-dihydro-8-oxoguanine-triphosphatase) (EC 3.6.1.-) compare
GFF195 +0.4 1.6 Oxidoreductase, Gfo/Idh/MocA family compare
GFF1590 +0.4 2.3 Transcriptional regulator, AraC family compare
GFF2333 +0.4 1.7 3-oxoadipate CoA-transferase subunit B (EC 2.8.3.6) compare
GFF892 +0.4 1.5 Aspartate 1-decarboxylase (EC 4.1.1.11) compare
GFF2978 +0.4 2.4 D-2-hydroxyglutarate dehydrogenase compare
GFF2122 +0.4 1.8 hypothetical protein compare
GFF2143 +0.4 1.4 ABC transporter substrate-binding protein compare
GFF342 +0.4 1.8 transcriptional regulator, Crp/Fnr family compare
GFF3129 +0.4 1.6 Mobile element protein compare
GFF3154 +0.4 1.9 hypothetical protein compare
GFF3702 +0.4 1.8 AttH component of AttEFGH ABC transport system compare
GFF3547 +0.4 1.4 hypothetical protein compare
GFF831 +0.4 2.8 Heat-inducible transcription repressor HrcA compare
GFF1821 +0.4 0.8 2-dehydropantoate 2-reductase (EC 1.1.1.169) compare
GFF177 +0.4 1.6 Demethylmenaquinone methyltransferase compare
GFF4547 +0.4 1.2 putative membrane protein compare
GFF5312 +0.4 1.3 hypothetical protein compare
GFF5628 +0.4 0.8 Transcriptional regulator, LysR family compare
GFF4081 +0.4 1.5 Flagellar hook-associated protein FlgK compare
GFF1236 +0.4 2.3 6,7-dimethyl-8-ribityllumazine synthase (EC 2.5.1.78) compare
GFF5847 +0.4 2.1 putative exported protein compare
GFF8 +0.4 1.5 Alkanesulfonates ABC transporter ATP-binding protein / Sulfonate ABC transporter, ATP-binding subunit SsuB compare
GFF322 +0.4 0.9 Ribosomal RNA small subunit methyltransferase D (EC 2.1.1.-) compare
GFF4760 +0.4 2.1 hypothetical protein compare
GFF3072 +0.4 0.9 hypothetical protein compare
GFF4420 +0.4 0.9 Tricarboxylate transport protein TctC compare
GFF2141 +0.4 1.4 TcuR: regulates tcuABC genes used in utilization of tricarballylate compare
GFF1531 +0.4 1.1 putative exported protein compare
GFF5003 +0.4 1.0 Adenylate cyclase (EC 4.6.1.1) compare
GFF2071 +0.4 1.7 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
GFF1494 +0.4 1.1 Transcriptional regulator, LysR family compare
GFF3921 +0.4 1.2 FIG152265: Sodium:solute symporter associated protein compare
GFF5676 +0.4 1.8 NAD(P)H oxidoreductase YRKL (EC 1.6.99.-) @ Putative NADPH-quinone reductase (modulator of drug activity B) @ Flavodoxin 2 compare
GFF582 +0.4 1.4 hypothetical protein compare
GFF5157 +0.4 2.4 Type IV fimbrial biogenesis protein PilX compare
GFF4775 +0.4 3.0 FIG123464: Polysaccharide export protein compare
GFF189 +0.4 2.2 MFS permease compare
GFF3555 +0.4 1.5 Fatty acid desaturase compare
GFF4207 +0.4 2.7 hypothetical protein compare
GFF2922 +0.4 1.1 putative c'cytochrome compare
GFF4765 +0.4 1.9 glycosyl transferase, group 1 compare
GFF124 +0.4 2.4 dTDP-glucose 4,6-dehydratase (EC 4.2.1.46) compare
GFF1871 +0.4 1.1 Hypothetical metal-binding enzyme, YcbL homolog compare
GFF5263 +0.4 1.9 Permease of the drug/metabolite transporter (DMT) superfamily compare
GFF1583 +0.4 0.9 Nodulation protein D (transcriptional regulator, LysR family) compare
GFF611 +0.4 1.6 Dihydrolipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex (EC 2.3.1.168) compare
GFF318 +0.4 1.3 hypothetical protein compare
GFF3473 +0.4 1.6 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
GFF30 +0.4 1.3 Cytosine deaminase (EC 3.5.4.1) compare
GFF795 +0.4 1.3 TRAP-type C4-dicarboxylate transport system, large permease component compare
GFF1149 +0.4 1.6 Hydroxymethylpyrimidine ABC transporter, transmembrane component compare
GFF3323 +0.4 2.8 UDP-glucose 4-epimerase (EC 5.1.3.2) compare
GFF1073 +0.3 1.1 hypothetical protein compare
GFF329 +0.3 1.3 RNA polymerase sigma-54 factor RpoN compare
GFF5437 +0.3 1.3 Periplasmic molybdate-binding domain compare
GFF4485 +0.3 1.5 hypothetical protein compare
GFF5128 +0.3 1.0 Tricarboxylate transport protein TctB compare
GFF2585 +0.3 1.8 LysR-family transcriptional regulator compare
GFF3781 +0.3 1.8 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
GFF4163 +0.3 0.8 Chromosome (plasmid) partitioning protein ParA compare
GFF3142 +0.3 1.1 Conjugative signal peptidase TrhF compare
GFF4766 +0.3 2.6 Myo-inositol 2-dehydrogenase 1 (EC 1.1.1.18) compare
GFF3401 +0.3 1.4 Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) compare
GFF5658 +0.3 0.8 Methylsuccinyl-CoA dehydrogenase, predicted by (Erb et al, 2007) compare
GFF746 +0.3 1.4 Spermidine synthase (EC 2.5.1.16) compare
GFF4029 +0.3 1.6 Aerotaxis sensor receptor protein compare
GFF3400 +0.3 1.0 High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1) compare
GFF2542 +0.3 0.7 Colanic acid biosysnthesis glycosyl transferase WcaI compare
GFF4667 +0.3 2.5 Tricarboxylate transport protein TctB compare
GFF5489 +0.3 0.6 TPR domain protein, putative component of TonB system compare
GFF5135 +0.3 1.2 hypothetical protein compare
GFF1225 +0.3 0.5 FIG136845: Rhodanese-related sulfurtransferase compare
GFF2529 +0.3 1.2 hypothetical protein compare
GFF1488 +0.3 1.1 Two-component system response regulator compare
GFF3950 +0.3 1.5 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
GFF4025 +0.3 1.4 Transcriptional regulator, AraC family compare
GFF3176 +0.3 1.0 Mobile element protein compare
GFF1956 +0.3 0.8 Inner membrane protein YqiK compare
GFF3485 +0.3 1.0 Plasmid replication initiator protein compare
GFF1472 +0.3 1.6 Regulatory protein, LuxR:Response regulator receiver compare
GFF542 +0.3 1.7 Oligopeptide ABC transporter, periplasmic oligopeptide-binding protein OppA (TC 3.A.1.5.1) compare
GFF2286 +0.3 1.3 TRAP transporter solute receptor, TAXI family precursor compare
GFF3056 +0.3 0.8 MmgE/PrpD family protein compare
GFF1574 +0.3 1.2 Nicotinamidase (EC 3.5.1.19) compare
GFF2099 +0.3 1.1 Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1) compare
GFF5374 +0.3 1.3 Carbon monoxide dehydrogenase medium chain (EC 1.2.99.2) compare
GFF5542 +0.3 1.8 Glutamyl-tRNA(Gln) amidotransferase subunit A-like protein compare
GFF3835 +0.3 2.1 Glyoxylate reductase (EC 1.1.1.79) / Glyoxylate reductase (EC 1.1.1.26) / Hydroxypyruvate reductase (EC 1.1.1.81); 2-ketoaldonate reductase, broad specificity (EC 1.1.1.215) (EC 1.1.1.-) compare
GFF5206 +0.3 1.8 Integral membrane protein compare
GFF3787 +0.3 1.4 2-hydroxychromene-2-carboxylate isomerase compare
GFF49 +0.3 1.7 hypothetical protein compare
GFF1898 +0.3 1.0 hypothetical protein compare
GFF2476 +0.3 1.5 Periplasmic hemin-binding protein compare
GFF4338 +0.3 1.1 Oligopeptide transport system permease protein OppB (TC 3.A.1.5.1) compare
GFF1643 +0.3 1.1 Dihydropyrimidinase (EC 3.5.2.2) compare
GFF1057 +0.3 0.8 hypothetical protein compare
GFF3819 +0.3 1.2 DNA-binding response regulator compare
GFF3314 +0.3 1.5 Transcriptional regulator compare
GFF2634 +0.3 1.2 hypothetical protein compare
GFF4735 +0.3 1.1 Glycosyltransferase (EC 2.4.1.-) compare
GFF2571 +0.3 1.8 Rossmann fold nucleotide-binding protein Smf possibly involved in DNA uptake compare
GFF1622 +0.3 0.5 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF4424 +0.3 0.7 Regulatory protein, LuxR:Tetratricopeptide TPR_4 compare
GFF5744 +0.3 1.5 FIG00931343: hypothetical protein compare
GFF5595 +0.3 2.0 Phosphatidylserine decarboxylase (EC 4.1.1.65) compare
GFF994 +0.3 0.6 probable hydrolase compare
GFF3012 +0.3 1.5 3-oxoacyl-[ACP] reductase (EC 1.1.1.100) compare
GFF4963 +0.3 1.2 hypothetical protein compare
GFF3863 +0.3 1.8 TRAP-type C4-dicarboxylate transport system, small permease component compare
GFF757 +0.3 1.7 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase compare


Specific Phenotypes

None in this experiment

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

For carbon source Ying_OrganicAcid7 across organisms