Experiment set4IT066 for Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Compare to:

LB_plus_SM_buffer with 6F2_phage 0.0001875 MOI

200 most important genes:

  gene name fitness t score description  
GFF2475 -4.5 -3.2 Ribonuclease III (EC 3.1.26.3) compare
GFF1634 -4.3 -3.0 Lipid A biosynthesis (KDO) 2-(lauroyl)-lipid IVA acyltransferase (EC 2.3.1.-) compare
GFF4890 -3.5 -10.1 Transport ATP-binding protein CydC compare
GFF3890 -3.3 -6.5 dTDP-4-dehydrorhamnose 3,5-epimerase (EC 5.1.3.13) compare
GFF4891 -3.2 -13.4 Transport ATP-binding protein CydD compare
GFF388 -3.1 -10.6 Lipopolysaccharide 1,2-N-acetylglucosaminetransferase (EC 2.4.1.56) compare
GFF2389 -3.0 -2.0 Trk system potassium uptake protein TrkA compare
GFF2991 -2.8 -3.7 Tyrosine recombinase XerD compare
GFF384 -2.8 -2.0 UDP-glucose:(glucosyl)lipopolysaccharide alpha-1,3-glucosyltransferase WaaO (EC 2.4.1.-) compare
GFF389 -2.6 -5.9 Oligosaccharide repeat unit polymerase Wzy; O-antigen ligase compare
GFF1256 -2.5 -4.2 Chromosome (plasmid) partitioning protein ParA compare
GFF4646 -2.4 -10.9 Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-) compare
GFF824 -2.4 -4.4 tRNA dimethylallyltransferase (EC 2.5.1.75) compare
GFF4647 -2.4 -11.9 Cytochrome d ubiquinol oxidase subunit II (EC 1.10.3.-) compare
GFF267 -2.4 -9.1 Transcriptional activator RfaH compare
GFF4596 -2.3 -4.4 Ferric uptake regulation protein FUR compare
GFF991 -2.2 -1.4 hypothetical protein compare
GFF3901 -2.2 -4.0 Phosphomannomutase (EC 5.4.2.8) compare
GFF380 -2.1 -9.5 UDP-glucose:(heptosyl) LPS alpha1,3-glucosyltransferase WaaG (EC 2.4.1.-) compare
GFF3888 -2.0 -7.5 dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133) compare
GFF2946 -2.0 -4.4 RNA polymerase sigma-54 factor RpoN compare
GFF2690 -1.9 -2.4 Peptide transport system permease protein SapC compare
GFF3712 -1.8 -4.2 Cyclic AMP receptor protein compare
GFF652 -1.7 -3.5 UDP-N-acetylglucosamine 4-epimerase (EC 5.1.3.7) / UDP-glucose 4-epimerase (EC 5.1.3.2) compare
GFF276 -1.7 -5.4 Potassium uptake protein TrkH compare
GFF1750 -1.7 -3.5 GTPase and tRNA-U34 5-formylation enzyme TrmE compare
GFF1884 -1.7 -2.2 NADH-ubiquinone oxidoreductase chain I (EC 1.6.5.3) compare
GFF122 -1.7 -8.1 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF4655 -1.7 -3.3 18K peptidoglycan-associated outer membrane lipoprotein; Peptidoglycan-associated lipoprotein precursor; Outer membrane protein P6; OmpA/MotB precursor compare
GFF55 -1.6 -7.7 [Protein-PII] uridylyltransferase (EC 2.7.7.59) compare
GFF2047 -1.6 -7.3 Phosphoenolpyruvate-protein phosphotransferase of PTS system (EC 2.7.3.9) compare
GFF1886 -1.6 -9.9 NADH-ubiquinone oxidoreductase chain G (EC 1.6.5.3) compare
GFF390 -1.6 -2.2 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) compare
GFF121 -1.6 -3.8 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF2881 -1.6 -6.8 WzxE protein compare
GFF1888 -1.6 -3.2 NADH-ubiquinone oxidoreductase chain E (EC 1.6.5.3) compare
GFF381 -1.5 -4.1 Lipopolysaccharide core biosynthesis protein WaaP (EC 2.7.-.-), heptosyl-I-kinase compare
GFF2434 -1.5 -1.2 Iron-sulfur cluster assembly scaffold protein IscU compare
GFF1312 -1.5 -2.3 'Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-)' transl_table=11 compare
GFF242 -1.5 -3.2 Magnesium and cobalt transport protein CorA compare
GFF1890 -1.5 -9.1 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) compare
GFF4639 -1.5 -2.6 2-oxoglutarate dehydrogenase E1 component (EC 1.2.4.2) compare
GFF4353 -1.5 -4.2 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
GFF4652 -1.5 -3.7 Tol biopolymer transport system, TolR protein compare
GFF230 -1.4 -7.6 Adenylate cyclase (EC 4.6.1.1) compare
GFF2216 -1.4 -6.7 DNA polymerase I (EC 2.7.7.7) compare
GFF1881 -1.4 -8.3 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) compare
GFF20 -1.4 -5.7 D-glycero-D-manno-heptose 1,7-bisphosphate phosphatase (EC 3.1.1.-) compare
GFF1889 -1.4 -9.2 NADH-ubiquinone oxidoreductase chain C (EC 1.6.5.3) / NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3) compare
GFF1953 -1.4 -3.7 Phosphohistidine phosphatase SixA compare
GFF1887 -1.4 -7.4 NADH-ubiquinone oxidoreductase chain F (EC 1.6.5.3) compare
GFF3706 -1.4 -2.5 Peptidyl-prolyl cis-trans isomerase PpiA precursor (EC 5.2.1.8) compare
GFF4600 -1.4 -4.5 SeqA protein, negative modulator of initiation of replication compare
GFF1882 -1.3 -7.3 NADH-ubiquinone oxidoreductase chain K (EC 1.6.5.3) compare
GFF1891 -1.3 -2.2 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) compare
GFF1879 -1.3 -8.0 NADH-ubiquinone oxidoreductase chain N (EC 1.6.5.3) compare
GFF635 -1.3 -4.0 Tryptophanyl-tRNA synthetase (EC 6.1.1.2) compare
GFF4635 -1.3 -1.7 Succinate dehydrogenase cytochrome b-556 subunit compare
GFF115 -1.3 -3.8 Aconitate hydratase 2 (EC 4.2.1.3) @ 2-methylisocitrate dehydratase (EC 4.2.1.99) compare
GFF4653 -1.3 -2.8 TolA protein compare
GFF1883 -1.3 -7.9 NADH-ubiquinone oxidoreductase chain J (EC 1.6.5.3) compare
GFF1303 -1.3 -1.8 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
GFF4636 -1.3 -4.8 Succinate dehydrogenase hydrophobic membrane anchor protein compare
GFF4060 -1.3 -1.5 putative cytoplasmic protein compare
GFF633 -1.3 -4.0 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF2948 -1.3 -2.4 PTS system nitrogen-specific IIA component, PtsN compare
GFF1885 -1.3 -6.1 NADH-ubiquinone oxidoreductase chain H (EC 1.6.5.3) compare
GFF1716 -1.2 -4.7 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA compare
GFF1880 -1.2 -8.1 NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3) compare
GFF2784 -1.2 -2.0 GTP-binding and nucleic acid-binding protein YchF compare
GFF2148 -1.2 -3.0 Arginine pathway regulatory protein ArgR, repressor of arg regulon compare
GFF192 -1.2 -6.7 'Bis(5'-nucleosyl)-tetraphosphatase, symmetrical (EC 3.6.1.41)' transl_table=11 compare
GFF4355 -1.2 -1.2 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF713 -1.2 -1.3 FIG01047037: hypothetical protein compare
GFF2430 -1.2 -2.0 Ferredoxin, 2Fe-2S compare
GFF982 -1.2 -7.5 Putative cytoplasmic protein USSDB7A compare
GFF1901 -1.1 -5.5 Phosphate acetyltransferase (EC 2.3.1.8) compare
GFF392 -1.1 -1.8 ADP-L-glycero-D-manno-heptose-6-epimerase (EC 5.1.3.20) compare
GFF2433 -1.1 -4.6 Iron binding protein IscA for iron-sulfur cluster assembly compare
GFF603 -1.1 -3.3 NfuA Fe-S protein maturation compare
GFF4354 -1.1 -3.5 ATP-dependent Clp protease ATP-binding subunit ClpX compare
GFF4158 -1.1 -1.8 tmRNA-binding protein SmpB compare
GFF2863 -1.1 -1.3 FIG074102: hypothetical protein compare
GFF357 -1.1 -2.4 'GTP pyrophosphokinase (EC 2.7.6.5), (p)ppGpp synthetase II / Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (EC 3.1.7.2)' transl_table=11 compare
GFF391 -1.1 -1.5 ADP-heptose--lipooligosaccharide heptosyltransferase II (EC 2.4.1.-) compare
GFF2311 -1.0 -1.3 Ribonuclease E inhibitor RraA compare
GFF87 -1.0 -1.5 C4-type zinc finger protein, DksA/TraR family compare
GFF4634 -1.0 -5.8 Citrate synthase (si) (EC 2.3.3.1) compare
GFF4288 -1.0 -5.7 AroM protein compare
GFF2149 -1.0 -3.7 Malate dehydrogenase (EC 1.1.1.37) compare
GFF2692 -1.0 -3.6 Peptide transport system ATP-binding protein SapF compare
GFF883 -1.0 -6.1 Predicted transcriptional regulator of the myo-inositol catabolic operon compare
GFF2943 -1.0 -1.6 Uncharacterized protein YrbK clustered with lipopolysaccharide transporters compare
GFF3667 -1.0 -1.1 Cytidylate kinase (EC 2.7.4.25) compare
GFF3862 -1.0 -2.3 Deoxycytidine triphosphate deaminase (EC 3.5.4.13) compare
GFF4654 -0.9 -4.0 tolB protein precursor, periplasmic protein involved in the tonb-independent uptake of group A colicins compare
GFF2663 -0.9 -1.6 Thiol peroxidase, Tpx-type (EC 1.11.1.15) compare
GFF4026 -0.9 -1.5 Flagellar biosynthesis protein FliT compare
GFF3765 -0.9 -1.3 proteinase inhibitor compare
GFF2348 -0.9 -2.5 Soluble pyridine nucleotide transhydrogenase (EC 1.6.1.1) compare
GFF1736 -0.9 -1.1 Phosphate transport system permease protein PstA (TC 3.A.1.7.1) compare
GFF367 -0.9 -5.1 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF4316 -0.9 -2.0 hypothetical protein compare
GFF3506 -0.9 -1.7 6-phospho-beta-glucosidase (EC 3.2.1.86) compare
GFF1499 -0.9 -2.2 Ribosome-binding factor A compare
GFF1411 -0.9 -3.9 Diacylglycerol kinase (EC 2.7.1.107) compare
GFF4642 -0.9 -1.1 Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5) compare
GFF2477 -0.9 -3.9 Translation elongation factor LepA compare
GFF3149 -0.9 -6.0 Type I secretion outer membrane protein, TolC precursor compare
GFF1109 -0.8 -1.7 Putative LysR family transcriptional regulator compare
GFF4637 -0.8 -5.4 Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) compare
GFF2808 -0.8 -4.4 Periplasmic thiol:disulfide oxidoreductase DsbB, required for DsbA reoxidation compare
GFF4182 -0.8 -4.1 Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70) compare
GFF2182 -0.8 -2.0 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF2576 -0.8 -2.9 Putative outer membrane lipoprotein compare
GFF630 -0.8 -4.0 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF1076 -0.8 -1.9 Aerobic respiration control protein arcA compare
GFF1334 -0.8 -0.9 Uncharacterized protein YohL compare
GFF3533 -0.8 -1.7 FIG00638687: hypothetical protein compare
GFF2862 -0.8 -1.8 FIG01046381: hypothetical protein compare
GFF1032 -0.8 -1.0 DNA polymerase III psi subunit (EC 2.7.7.7) compare
GFF2688 -0.8 -3.8 Peptide transport periplasmic protein SapA compare
GFF4733 -0.8 -1.1 Type III secretion transcriptional regulator HilC (= SirC) compare
GFF2104 -0.8 -2.0 ATP-dependent RNA helicase SrmB compare
GFF2891 -0.8 -4.0 Thioredoxin compare
GFF2173 -0.8 -2.5 Chromosomal replication initiator protein DnaA compare
GFF1768 -0.8 -0.8 hypothetical protein compare
GFF2160 -0.8 -2.1 'Inosine-5'-monophosphate dehydrogenase (EC 1.1.1.205) / CBS domain' transl_table=11 compare
GFF4638 -0.7 -2.5 Succinate dehydrogenase iron-sulfur protein (EC 1.3.99.1) compare
GFF812 -0.7 -2.3 Phage minor tail protein compare
GFF1900 -0.7 -3.6 Acetate kinase (EC 2.7.2.1) compare
GFF2220 -0.7 -4.7 Nitrogen regulation protein NR(I) compare
GFF4736 -0.7 -3.5 Oxygen-regulated invasion protein OrgA compare
GFF4892 -0.7 -2.3 Thioredoxin reductase (EC 1.8.1.9) compare
GFF158 -0.7 -4.0 Fructose repressor FruR, LacI family compare
GFF626 -0.7 -1.0 Type IV pilus biogenesis protein PilO compare
GFF3166 -0.7 -2.2 ADP-heptose synthase (EC 2.7.-.-) / D-glycero-beta-D-manno-heptose 7-phosphate kinase compare
GFF701 -0.7 -1.2 Hypothetical Zinc-finger containing protein compare
GFF4256 -0.7 -1.2 putative Cytochrome bd2, subunit II compare
GFF1088 -0.7 -0.8 FIG01045785: hypothetical protein compare
GFF2397 -0.7 -4.1 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF2230 -0.7 -2.5 Outer membrane sugar transport protein YshA compare
GFF1408 -0.7 -3.9 Chorismate--pyruvate lyase (EC 4.1.3.40) compare
GFF2566 -0.7 -2.5 Transcriptional regulator, TetR family compare
GFF342 -0.7 -1.1 FIG01046502: hypothetical protein compare
GFF4439 -0.7 -2.3 Phosphoribosylaminoimidazole carboxylase catalytic subunit (EC 4.1.1.21) compare
GFF629 -0.7 -1.0 Shikimate kinase I (EC 2.7.1.71) compare
GFF1114 -0.7 -1.7 FIG01200701: possible membrane protein compare
GFF3555 -0.7 -1.0 1,4-dihydroxy-2-naphthoyl-CoA hydrolase (EC 3.1.2.28) in menaquinone biosynthesis compare
GFF2528 -0.7 -2.9 Hexuronate utilization operon transcriptional repressor ExuR compare
GFF4234 -0.7 -1.3 Possible transmembrane regulator compare
GFF198 -0.7 -2.9 Probable secreted protein compare
GFF2840 -0.7 -1.5 Putative inner membrane protein compare
GFF2324 -0.7 -4.2 Aspartokinase (EC 2.7.2.4) / Homoserine dehydrogenase (EC 1.1.1.3) compare
GFF3887 -0.7 -3.1 dTDP-glucose 4,6-dehydratase (EC 4.2.1.46) compare
GFF2222 -0.7 -4.0 Glutamine synthetase type I (EC 6.3.1.2) compare
GFF1934 -0.7 -2.5 tRNA pseudouridine synthase A (EC 4.2.1.70) compare
GFF2061 -0.7 -3.2 Predicted dye-decolorizing peroxidase (DyP), YfeX-like subgroup compare
GFF2249 -0.7 -1.9 Putative merR family bacterial regulatory protein compare
GFF876 -0.7 -4.7 UPF0131 protein YtfP compare
GFF3685 -0.6 -3.2 Aspartate aminotransferase (EC 2.6.1.1) compare
GFF2409 -0.6 -3.1 Outer membrane protein YfgL, lipoprotein component of the protein assembly complex (forms a complex with YaeT, YfiO, and NlpB) compare
GFF2553 -0.6 -1.1 Osmotically inducible protein C compare
GFF3938 -0.6 -1.8 Ethanolamine utilization protein similar to PduL compare
GFF4344 -0.6 -3.1 Cytochrome O ubiquinol oxidase subunit III (EC 1.10.3.-) compare
GFF2003 -0.6 -4.3 Putative luxR family bacterial regulatory protein compare
GFF934 -0.6 -2.2 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
GFF3875 -0.6 -2.8 GDP-mannose 4,6-dehydratase (EC 4.2.1.47) compare
GFF3502 -0.6 -0.8 PTS system, cellobiose-specific IIB component (EC 2.7.1.69) compare
GFF1921 -0.6 -1.6 3-polyprenyl-4-hydroxybenzoate carboxy-lyase UbiX (EC 4.1.1.-) compare
GFF4145 -0.6 -1.1 hypothetical protein compare
GFF3041 -0.6 -0.9 hypothetical protein compare
GFF3625 -0.6 -0.9 Transcriptional regulator, TetR family compare
GFF880 -0.6 -4.7 Fructose-1,6-bisphosphatase, type I (EC 3.1.3.11) compare
GFF825 -0.6 -1.4 RNA-binding protein Hfq compare
GFF828 -0.6 -3.0 HflC protein compare
GFF1363 -0.6 -2.0 hypothetical protein compare
GFF4601 -0.6 -2.9 Phosphoglucomutase (EC 5.4.2.2) compare
GFF3322 -0.6 -1.3 Major curlin subunit precursor CsgA compare
GFF3588 -0.6 -1.2 Secretion system effector SseB compare
GFF1747 -0.6 -0.7 putative inner membrane protein compare
GFF201 -0.6 -1.1 Ferredoxin-like protein FixX compare
GFF3377 -0.6 -2.7 3-oxoacyl-[acyl-carrier-protein] synthase, KASII (EC 2.3.1.41) compare
GFF668 -0.6 -1.8 Histidine ammonia-lyase (EC 4.3.1.3) compare
GFF4740 -0.6 -3.0 MxiG protein; Pathogenicity 1 island effector protein compare
GFF1808 -0.6 -2.7 Mannose-6-phosphate isomerase (EC 5.3.1.8) compare
GFF4820 -0.6 -2.6 Sulfite reductase [NADPH] flavoprotein alpha-component (EC 1.8.1.2) compare
GFF215 -0.6 -1.5 FIG01046809: hypothetical protein compare
GFF3632 -0.6 -1.6 Transcriptional regulator SlyA compare
GFF2992 -0.6 -3.8 Flavodoxin 2 compare
GFF2219 -0.6 -3.5 Coproporphyrinogen III oxidase, oxygen-independent (EC 1.3.99.22) compare
GFF1571 -0.6 -0.6 FIG00638334: hypothetical protein compare
GFF1930 -0.6 -1.3 DedD protein compare
GFF597 -0.6 -1.6 DNA-damage-inducible protein J compare
GFF3830 -0.6 -0.7 Uncharacterized protein YehA precursor compare
GFF834 -0.6 -2.2 FIG006163: hypothetical protein compare
GFF4162 -0.6 -2.4 DNA repair protein RecN compare
GFF2856 -0.6 -1.0 corresponds to STY1986 from Accession AL513382: Salmonella typhi CT18 compare
GFF2768 -0.6 -1.1 Cation transport regulator chaB compare
GFF2001 -0.6 -0.8 Quaternary ammonium compound-resistance protein SugE compare


Specific Phenotypes

None in this experiment

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

For phage 6F2_phage across organisms