Experiment set4IT063 for Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Compare to:

LB_plus_SM_buffer with phi19h1_phage 0.001875 MOI

200 most important genes:

  gene name fitness t score description  
GFF4891 -5.5 -8.4 Transport ATP-binding protein CydD compare
GFF4890 -5.4 -6.4 Transport ATP-binding protein CydC compare
GFF1634 -5.2 -3.6 Lipid A biosynthesis (KDO) 2-(lauroyl)-lipid IVA acyltransferase (EC 2.3.1.-) compare
GFF4647 -5.1 -9.8 Cytochrome d ubiquinol oxidase subunit II (EC 1.10.3.-) compare
GFF4354 -4.8 -5.6 ATP-dependent Clp protease ATP-binding subunit ClpX compare
GFF2216 -4.7 -8.5 DNA polymerase I (EC 2.7.7.7) compare
GFF2389 -4.4 -3.0 Trk system potassium uptake protein TrkA compare
GFF87 -4.3 -3.0 C4-type zinc finger protein, DksA/TraR family compare
GFF4646 -4.2 -12.5 Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-) compare
GFF4596 -3.8 -4.8 Ferric uptake regulation protein FUR compare
GFF1256 -3.5 -4.6 Chromosome (plasmid) partitioning protein ParA compare
GFF2690 -3.3 -3.4 Peptide transport system permease protein SapC compare
GFF1750 -3.3 -4.5 GTPase and tRNA-U34 5-formylation enzyme TrmE compare
GFF4355 -3.2 -2.1 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF4600 -3.2 -5.3 SeqA protein, negative modulator of initiation of replication compare
GFF2946 -3.2 -4.8 RNA polymerase sigma-54 factor RpoN compare
GFF20 -3.2 -9.7 D-glycero-D-manno-heptose 1,7-bisphosphate phosphatase (EC 3.1.1.-) compare
GFF3667 -3.2 -3.1 Cytidylate kinase (EC 2.7.4.25) compare
GFF2173 -3.2 -8.3 Chromosomal replication initiator protein DnaA compare
GFF1076 -2.9 -4.4 Aerobic respiration control protein arcA compare
GFF2430 -2.8 -2.5 Ferredoxin, 2Fe-2S compare
GFF2991 -2.7 -3.2 Tyrosine recombinase XerD compare
GFF2434 -2.7 -1.6 Iron-sulfur cluster assembly scaffold protein IscU compare
GFF1716 -2.6 -7.1 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA compare
GFF121 -2.5 -3.7 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF2816 -2.5 -3.6 Septum site-determining protein MinC compare
GFF824 -2.3 -3.9 tRNA dimethylallyltransferase (EC 2.5.1.75) compare
GFF265 -2.3 -7.4 Twin-arginine translocation protein TatC compare
GFF3133 -2.2 -7.3 Putative cell division protein precursor compare
GFF1032 -2.2 -1.4 DNA polymerase III psi subunit (EC 2.7.7.7) compare
GFF2431 -2.2 -4.6 Chaperone protein HscA compare
GFF122 -2.2 -10.0 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF355 -2.2 -3.0 ATP-dependent DNA helicase RecG (EC 3.6.1.-) compare
GFF1921 -2.2 -3.0 3-polyprenyl-4-hydroxybenzoate carboxy-lyase UbiX (EC 4.1.1.-) compare
GFF3712 -2.2 -3.6 Cyclic AMP receptor protein compare
GFF632 -2.2 -6.6 Methyl-directed repair DNA adenine methylase (EC 2.1.1.72) compare
GFF4027 -2.1 -2.6 Flagellar biosynthesis protein FliS compare
GFF633 -2.1 -4.8 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF2477 -2.0 -8.5 Translation elongation factor LepA compare
GFF4639 -2.0 -2.4 2-oxoglutarate dehydrogenase E1 component (EC 1.2.4.2) compare
GFF3377 -1.9 -6.6 3-oxoacyl-[acyl-carrier-protein] synthase, KASII (EC 2.3.1.41) compare
GFF1887 -1.9 -9.2 NADH-ubiquinone oxidoreductase chain F (EC 1.6.5.3) compare
GFF4162 -1.9 -3.7 DNA repair protein RecN compare
GFF55 -1.9 -9.6 [Protein-PII] uridylyltransferase (EC 2.7.7.59) compare
GFF1090 -1.8 -2.9 Chaperone protein DnaJ compare
GFF4634 -1.8 -5.5 Citrate synthase (si) (EC 2.3.3.1) compare
GFF4653 -1.8 -4.0 TolA protein compare
GFF2061 -1.7 -6.7 Predicted dye-decolorizing peroxidase (DyP), YfeX-like subgroup compare
GFF2784 -1.7 -4.0 GTP-binding and nucleic acid-binding protein YchF compare
GFF1953 -1.7 -3.5 Phosphohistidine phosphatase SixA compare
GFF2692 -1.6 -4.6 Peptide transport system ATP-binding protein SapF compare
GFF1934 -1.6 -4.2 tRNA pseudouridine synthase A (EC 4.2.1.70) compare
GFF276 -1.6 -4.8 Potassium uptake protein TrkH compare
GFF3149 -1.6 -8.0 Type I secretion outer membrane protein, TolC precursor compare
GFF1881 -1.5 -7.3 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) compare
GFF1879 -1.5 -7.9 NADH-ubiquinone oxidoreductase chain N (EC 1.6.5.3) compare
GFF1415 -1.5 -1.0 UPF0337 protein yjbJ compare
GFF1886 -1.5 -8.6 NADH-ubiquinone oxidoreductase chain G (EC 1.6.5.3) compare
GFF242 -1.5 -3.5 Magnesium and cobalt transport protein CorA compare
GFF1889 -1.5 -8.3 NADH-ubiquinone oxidoreductase chain C (EC 1.6.5.3) / NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3) compare
GFF1890 -1.5 -8.3 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) compare
GFF635 -1.5 -5.0 Tryptophanyl-tRNA synthetase (EC 6.1.1.2) compare
GFF4601 -1.5 -6.2 Phosphoglucomutase (EC 5.4.2.2) compare
GFF603 -1.5 -2.7 NfuA Fe-S protein maturation compare
GFF156 -1.4 -1.6 rRNA small subunit methyltransferase H compare
GFF4353 -1.4 -2.9 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
GFF4637 -1.4 -8.4 Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) compare
GFF1880 -1.4 -6.4 NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3) compare
GFF1885 -1.4 -7.0 NADH-ubiquinone oxidoreductase chain H (EC 1.6.5.3) compare
GFF1891 -1.4 -3.0 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) compare
GFF2475 -1.4 -3.1 Ribonuclease III (EC 3.1.26.3) compare
GFF4522 -1.3 -2.1 Regulator of nucleoside diphosphate kinase compare
GFF2433 -1.3 -3.6 Iron binding protein IscA for iron-sulfur cluster assembly compare
GFF2415 -1.3 -3.6 Nucleoside diphosphate kinase (EC 2.7.4.6) compare
GFF2948 -1.3 -4.7 PTS system nitrogen-specific IIA component, PtsN compare
GFF2881 -1.3 -6.3 WzxE protein compare
GFF1882 -1.3 -3.5 NADH-ubiquinone oxidoreductase chain K (EC 1.6.5.3) compare
GFF2347 -1.3 -4.9 Hydrogen peroxide-inducible genes activator compare
GFF230 -1.3 -6.0 Adenylate cyclase (EC 4.6.1.1) compare
GFF4635 -1.3 -2.9 Succinate dehydrogenase cytochrome b-556 subunit compare
GFF4636 -1.3 -5.5 Succinate dehydrogenase hydrophobic membrane anchor protein compare
GFF3755 -1.2 -1.3 FIG00896318: hypothetical protein compare
GFF2954 -1.2 -8.0 Aerobic respiration control sensor protein arcB (EC 2.7.3.-) compare
GFF3644 -1.2 -2.9 Electron transport complex protein RnfD compare
GFF3324 -1.2 -1.4 putative periplasmic protein compare
GFF661 -1.2 -5.5 6-phosphogluconolactonase (EC 3.1.1.31) compare
GFF190 -1.2 -3.8 SSU rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase (EC 2.1.1.182) compare
GFF2149 -1.2 -5.6 Malate dehydrogenase (EC 1.1.1.37) compare
GFF1930 -1.1 -2.3 DedD protein compare
GFF4652 -1.1 -2.4 Tol biopolymer transport system, TolR protein compare
GFF2397 -1.1 -5.1 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF241 -1.1 -4.3 ATP-dependent DNA helicase UvrD/PcrA compare
GFF2047 -1.1 -4.9 Phosphoenolpyruvate-protein phosphotransferase of PTS system (EC 2.7.3.9) compare
GFF2689 -1.1 -2.1 Peptide transport system permease protein SapB compare
GFF236 -1.1 -0.8 FIG00545237: hypothetical protein compare
GFF1348 -1.1 -1.5 FIG01046723: hypothetical protein compare
GFF4317 -1.1 -2.8 Ribonucleotide reductase transcriptional regulator NrdR compare
GFF1312 -1.0 -1.5 'Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-)' transl_table=11 compare
GFF883 -1.0 -5.7 Predicted transcriptional regulator of the myo-inositol catabolic operon compare
GFF4638 -1.0 -3.8 Succinate dehydrogenase iron-sulfur protein (EC 1.3.99.1) compare
GFF4314 -1.0 -1.0 hypothetical protein compare
GFF1900 -1.0 -5.1 Acetate kinase (EC 2.7.2.1) compare
GFF1883 -1.0 -5.8 NADH-ubiquinone oxidoreductase chain J (EC 1.6.5.3) compare
GFF4026 -1.0 -2.9 Flagellar biosynthesis protein FliT compare
GFF3632 -1.0 -1.8 Transcriptional regulator SlyA compare
GFF948 -1.0 -3.4 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF1621 -1.0 -1.3 DNA polymerase III theta subunit (EC 2.7.7.7) compare
GFF1303 -1.0 -1.2 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
GFF3538 -1.0 -1.1 hypothetical protein compare
GFF3419 -1.0 -1.3 Nudix-like NDP and NTP phosphohydrolase YmfB compare
GFF3583 -0.9 -1.8 Type III secretion protein SsaB compare
GFF4755 -0.9 -2.7 Type III secretion inner membrane protein (YscS,homologous to flagellar export components) compare
GFF4344 -0.9 -3.4 Cytochrome O ubiquinol oxidase subunit III (EC 1.10.3.-) compare
GFF3230 -0.9 -1.0 Transposase compare
GFF4784 -0.9 -2.1 Transcriptional regulator, MarR family compare
GFF1981 -0.9 -1.1 FIG00638165: hypothetical protein compare
GFF4343 -0.9 -3.4 Cytochrome O ubiquinol oxidase subunit IV (EC 1.10.3.-) compare
GFF2717 -0.9 -2.3 YciK-like oxidoreductase compare
GFF89 -0.9 -4.8 Poly(A) polymerase (EC 2.7.7.19) compare
GFF4182 -0.9 -4.6 Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70) compare
GFF4835 -0.9 -2.3 ParE toxin protein compare
GFF630 -0.9 -3.5 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF1532 -0.9 -2.2 Transcriptional repressor of aga operon compare
GFF4586 -0.9 -1.4 Glucosamine-6-phosphate deaminase (EC 3.5.99.6) compare
GFF4060 -0.9 -0.9 putative cytoplasmic protein compare
GFF261 -0.9 -1.2 Protein YigP (COG3165) clustered with ubiquinone biosynthetic genes compare
GFF2989 -0.9 -5.6 Single-stranded-DNA-specific exonuclease RecJ (EC 3.1.-.-) compare
GFF1888 -0.9 -2.0 NADH-ubiquinone oxidoreductase chain E (EC 1.6.5.3) compare
GFF1300 -0.9 -4.8 Exodeoxyribonuclease V alpha chain (EC 3.1.11.5) compare
GFF4305 -0.9 -3.1 tRNA-guanine transglycosylase (EC 2.4.2.29) compare
GFF4342 -0.8 -3.9 Heme O synthase, protoheme IX farnesyltransferase (EC 2.5.1.-) COX10-CtaB compare
GFF522 -0.8 -4.9 Low-affinity inorganic phosphate transporter compare
GFF3533 -0.8 -2.2 FIG00638687: hypothetical protein compare
GFF1884 -0.8 -1.2 NADH-ubiquinone oxidoreductase chain I (EC 1.6.5.3) compare
GFF2895 -0.8 -0.8 Peptidyl-prolyl cis-trans isomerase PpiC (EC 5.2.1.8) compare
GFF4322 -0.8 -2.8 Phosphatidylglycerophosphatase A (EC 3.1.3.27) compare
GFF2882 -0.8 -4.2 Lipopolysaccharide biosynthesis protein RffA compare
GFF629 -0.8 -0.8 Shikimate kinase I (EC 2.7.1.71) compare
GFF4346 -0.8 -3.7 Cytochrome O ubiquinol oxidase subunit II (EC 1.10.3.-) compare
GFF3548 -0.8 -2.5 3-dehydroquinate dehydratase I (EC 4.2.1.10) compare
GFF1081 -0.8 -4.1 UPF0246 protein YaaA compare
GFF3685 -0.8 -3.8 Aspartate aminotransferase (EC 2.6.1.1) compare
GFF3162 -0.8 -1.0 glycogen synthesis protein GlgS compare
GFF3405 -0.8 -2.2 Spermidine Putrescine ABC transporter permease component potC (TC_3.A.1.11.1) compare
GFF2880 -0.8 -4.6 4-alpha-L-fucosyltransferase (EC 2.4.1.-) compare
GFF2543 -0.8 -0.8 FIG01045496: hypothetical protein compare
GFF399 -0.8 -2.2 FIG136845: Rhodanese-related sulfurtransferase compare
GFF1206 -0.8 -2.7 Putative GerE-family regulatory protein compare
GFF1756 -0.7 -4.5 DNA recombination and repair protein RecF compare
GFF249 -0.7 -0.9 L-lysine permease compare
GFF626 -0.7 -0.9 Type IV pilus biogenesis protein PilO compare
GFF1901 -0.7 -3.5 Phosphate acetyltransferase (EC 2.3.1.8) compare
GFF3366 -0.7 -3.9 Ribosomal large subunit pseudouridine synthase C (EC 4.2.1.70) compare
GFF1360 -0.7 -2.7 Alpha-aspartyl dipeptidase Peptidase E (EC 3.4.13.21) compare
GFF2311 -0.7 -0.9 Ribonuclease E inhibitor RraA compare
GFF2104 -0.7 -1.3 ATP-dependent RNA helicase SrmB compare
GFF3028 -0.7 -5.3 Transketolase (EC 2.2.1.1) compare
GFF4160 -0.7 -2.1 UPF0125 protein yfjF compare
GFF1620 -0.7 -1.2 Copper resistance protein CopC compare
GFF2454 -0.7 -2.2 Nitrogen regulatory protein P-II compare
GFF3101 -0.7 -2.0 [NiFe] hydrogenase metallocenter assembly protein HybG compare
GFF333 -0.7 -1.4 hypothetical protein compare
GFF4250 -0.7 -0.7 Putative copper chaperone compare
GFF2392 -0.7 -1.3 Peptide deformylase (EC 3.5.1.88) compare
GFF3482 -0.7 -3.1 L-asparaginase I, cytoplasmic (EC 3.5.1.1) compare
GFF2667 -0.7 -0.7 Right origin-binding protein compare
GFF2806 -0.7 -2.2 Transcriptional regulator for fatty acid degradation FadR, GntR family compare
GFF2773 -0.7 -2.7 Protein-N(5)-glutamine methyltransferase PrmC, methylates polypeptide chain release factors RF1 and RF2 compare
GFF3180 -0.7 -1.6 Transcriptional regulator, PadR family compare
GFF1780 -0.7 -2.8 Putative ABC transporter periplasmic binding protein compare
GFF4390 -0.7 -2.8 Recombination protein RecR compare
GFF158 -0.7 -3.3 Fructose repressor FruR, LacI family compare
GFF2094 -0.7 -1.4 Putative outer membrane lipoprotein compare
GFF1646 -0.7 -2.2 Dihydroneopterin triphosphate pyrophosphohydrolase type 2 (nudB) compare
GFF4288 -0.7 -3.3 AroM protein compare
GFF2470 -0.7 -1.0 4Fe-4S ferredoxin, iron-sulfur binding compare
GFF3285 -0.7 -1.5 Transcriptional activator of 4-hydroxyphenylacetate 3-monooxygenase operon, XylS/AraC family compare
GFF180 -0.6 -0.5 FIG01045455: hypothetical protein compare
GFF4765 -0.6 -2.9 Type III secretion thermoregulatory protein (LcrF,VirF,transcription regulation of virulence plasmid) compare
GFF3057 -0.6 -3.0 Nucleoside 5-triphosphatase RdgB (dHAPTP, dITP, XTP-specific) (EC 3.6.1.15) compare
GFF2110 -0.6 -3.5 Sigma factor RpoE regulatory protein RseC compare
GFF1815 -0.6 -2.6 Electron transport complex protein RnfA compare
GFF1935 -0.6 -2.0 Aspartate-semialdehyde dehydrogenase (EC 1.2.1.11) compare
GFF2566 -0.6 -3.1 Transcriptional regulator, TetR family compare
GFF3490 -0.6 -3.8 Exodeoxyribonuclease III (EC 3.1.11.2) compare
GFF3320 -0.6 -1.3 Transcriptional regulator CsgD for 2nd curli operon compare
GFF876 -0.6 -4.2 UPF0131 protein YtfP compare
GFF4118 -0.6 -1.0 tRNA-Thr-CGT compare
GFF3040 -0.6 -3.8 Biosynthetic arginine decarboxylase (EC 4.1.1.19) compare
GFF188 -0.6 -2.7 Survival protein SurA precursor (Peptidyl-prolyl cis-trans isomerase SurA) (EC 5.2.1.8) compare
GFF2425 -0.6 -1.7 FIG074102: hypothetical protein compare
GFF2249 -0.6 -0.9 Putative merR family bacterial regulatory protein compare
GFF608 -0.6 -1.6 Ferrous iron-sensisng transcriptional regulator FeoC compare
GFF2688 -0.6 -2.9 Peptide transport periplasmic protein SapA compare
GFF2949 -0.6 -2.8 Hypothetical ATP-binding protein UPF0042, contains P-loop compare
GFF4135 -0.6 -2.8 FIG01047465: hypothetical protein compare
GFF3628 -0.6 -1.6 Superoxide dismutase [Cu-Zn] precursor (EC 1.15.1.1) compare
GFF3071 -0.6 -1.3 hypothetical protein compare
GFF3722 -0.6 -0.8 Putative cytoplasmic protein ,probably associated with Glutathione-regulated potassium-efflux compare
GFF2051 -0.6 -2.9 Predicted transcriptional regulator of pyridoxine metabolism compare


Specific Phenotypes

None in this experiment

For Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868 in phage experiments

For phage phi19h1_phage across organisms