Experiment set4IT045 for Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Compare to:

LB_plus_SM_buffer with Ffm_phage 0.1875 MOI

200 most important genes:

  gene name fitness t score description  
GFF388 -6.0 -13.8 Lipopolysaccharide 1,2-N-acetylglucosaminetransferase (EC 2.4.1.56) compare
GFF1634 -4.3 -3.0 Lipid A biosynthesis (KDO) 2-(lauroyl)-lipid IVA acyltransferase (EC 2.3.1.-) compare
GFF4890 -3.4 -12.7 Transport ATP-binding protein CydC compare
GFF4891 -3.4 -14.1 Transport ATP-binding protein CydD compare
GFF384 -2.9 -2.6 UDP-glucose:(glucosyl)lipopolysaccharide alpha-1,3-glucosyltransferase WaaO (EC 2.4.1.-) compare
GFF4647 -2.9 -11.1 Cytochrome d ubiquinol oxidase subunit II (EC 1.10.3.-) compare
GFF389 -2.8 -5.0 Oligosaccharide repeat unit polymerase Wzy; O-antigen ligase compare
GFF3712 -2.8 -4.1 Cyclic AMP receptor protein compare
GFF3890 -2.7 -5.9 dTDP-4-dehydrorhamnose 3,5-epimerase (EC 5.1.3.13) compare
GFF4646 -2.6 -13.2 Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-) compare
GFF2389 -2.5 -2.4 Trk system potassium uptake protein TrkA compare
GFF3667 -2.5 -2.3 Cytidylate kinase (EC 2.7.4.25) compare
GFF3888 -2.4 -5.3 dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133) compare
GFF824 -2.4 -4.6 tRNA dimethylallyltransferase (EC 2.5.1.75) compare
GFF4355 -2.3 -1.9 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF4639 -2.3 -3.2 2-oxoglutarate dehydrogenase E1 component (EC 1.2.4.2) compare
GFF2430 -2.2 -2.6 Ferredoxin, 2Fe-2S compare
GFF4350 -2.1 -1.4 hypothetical protein compare
GFF1312 -2.0 -3.2 'Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-)' transl_table=11 compare
GFF2475 -2.0 -2.9 Ribonuclease III (EC 3.1.26.3) compare
GFF2690 -1.9 -2.3 Peptide transport system permease protein SapC compare
GFF391 -1.9 -1.9 ADP-heptose--lipooligosaccharide heptosyltransferase II (EC 2.4.1.-) compare
GFF390 -1.9 -2.8 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) compare
GFF2946 -1.9 -4.2 RNA polymerase sigma-54 factor RpoN compare
GFF1891 -1.9 -3.9 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) compare
GFF121 -1.9 -3.7 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF3901 -1.8 -3.7 Phosphomannomutase (EC 5.4.2.8) compare
GFF4596 -1.8 -3.9 Ferric uptake regulation protein FUR compare
GFF1256 -1.8 -3.7 Chromosome (plasmid) partitioning protein ParA compare
GFF4655 -1.7 -4.0 18K peptidoglycan-associated outer membrane lipoprotein; Peptidoglycan-associated lipoprotein precursor; Outer membrane protein P6; OmpA/MotB precursor compare
GFF2216 -1.7 -8.5 DNA polymerase I (EC 2.7.7.7) compare
GFF1303 -1.6 -1.2 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
GFF2047 -1.6 -7.0 Phosphoenolpyruvate-protein phosphotransferase of PTS system (EC 2.7.3.9) compare
GFF387 -1.6 -4.4 Lipopolysaccharide core biosynthesis protein RfaZ compare
GFF2991 -1.6 -2.4 Tyrosine recombinase XerD compare
GFF4353 -1.6 -2.9 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
GFF3862 -1.5 -4.9 Deoxycytidine triphosphate deaminase (EC 3.5.4.13) compare
GFF236 -1.5 -1.1 FIG00545237: hypothetical protein compare
GFF1880 -1.5 -7.2 NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3) compare
GFF1887 -1.5 -8.0 NADH-ubiquinone oxidoreductase chain F (EC 1.6.5.3) compare
GFF55 -1.5 -6.6 [Protein-PII] uridylyltransferase (EC 2.7.7.59) compare
GFF2104 -1.5 -3.2 ATP-dependent RNA helicase SrmB compare
GFF4600 -1.4 -4.8 SeqA protein, negative modulator of initiation of replication compare
GFF380 -1.4 -6.8 UDP-glucose:(heptosyl) LPS alpha1,3-glucosyltransferase WaaG (EC 2.4.1.-) compare
GFF2692 -1.4 -4.1 Peptide transport system ATP-binding protein SapF compare
GFF20 -1.3 -5.8 D-glycero-D-manno-heptose 1,7-bisphosphate phosphatase (EC 3.1.1.-) compare
GFF381 -1.3 -3.5 Lipopolysaccharide core biosynthesis protein WaaP (EC 2.7.-.-), heptosyl-I-kinase compare
GFF2433 -1.3 -4.0 Iron binding protein IscA for iron-sulfur cluster assembly compare
GFF230 -1.3 -7.6 Adenylate cyclase (EC 4.6.1.1) compare
GFF4653 -1.3 -2.1 TolA protein compare
GFF2392 -1.3 -2.1 Peptide deformylase (EC 3.5.1.88) compare
GFF1750 -1.3 -3.1 GTPase and tRNA-U34 5-formylation enzyme TrmE compare
GFF122 -1.3 -6.9 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF276 -1.3 -4.4 Potassium uptake protein TrkH compare
GFF1889 -1.3 -7.6 NADH-ubiquinone oxidoreductase chain C (EC 1.6.5.3) / NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3) compare
GFF1884 -1.3 -1.5 NADH-ubiquinone oxidoreductase chain I (EC 1.6.5.3) compare
GFF1499 -1.3 -2.9 Ribosome-binding factor A compare
GFF392 -1.2 -1.8 ADP-L-glycero-D-manno-heptose-6-epimerase (EC 5.1.3.20) compare
GFF4652 -1.2 -3.2 Tol biopolymer transport system, TolR protein compare
GFF1879 -1.2 -8.0 NADH-ubiquinone oxidoreductase chain N (EC 1.6.5.3) compare
GFF1356 -1.2 -1.7 Acetate operon repressor compare
GFF1890 -1.2 -6.7 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) compare
GFF1886 -1.2 -6.8 NADH-ubiquinone oxidoreductase chain G (EC 1.6.5.3) compare
GFF1716 -1.2 -4.7 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA compare
GFF635 -1.2 -3.6 Tryptophanyl-tRNA synthetase (EC 6.1.1.2) compare
GFF87 -1.2 -1.5 C4-type zinc finger protein, DksA/TraR family compare
GFF4638 -1.2 -3.3 Succinate dehydrogenase iron-sulfur protein (EC 1.3.99.1) compare
GFF3166 -1.1 -3.3 ADP-heptose synthase (EC 2.7.-.-) / D-glycero-beta-D-manno-heptose 7-phosphate kinase compare
GFF1885 -1.1 -6.3 NADH-ubiquinone oxidoreductase chain H (EC 1.6.5.3) compare
GFF1881 -1.1 -6.1 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) compare
GFF4642 -1.1 -1.3 Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5) compare
GFF2784 -1.1 -2.0 GTP-binding and nucleic acid-binding protein YchF compare
GFF4637 -1.1 -7.4 Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) compare
GFF1882 -1.1 -3.3 NADH-ubiquinone oxidoreductase chain K (EC 1.6.5.3) compare
GFF4026 -1.1 -3.2 Flagellar biosynthesis protein FliT compare
GFF2434 -1.1 -0.9 Iron-sulfur cluster assembly scaffold protein IscU compare
GFF4636 -1.1 -4.2 Succinate dehydrogenase hydrophobic membrane anchor protein compare
GFF982 -1.1 -8.0 Putative cytoplasmic protein USSDB7A compare
GFF2881 -1.1 -5.4 WzxE protein compare
GFF3940 -1.1 -1.1 Propanediol utilization polyhedral body protein PduJ compare
GFF2431 -1.1 -2.6 Chaperone protein HscA compare
GFF1883 -1.0 -5.8 NADH-ubiquinone oxidoreductase chain J (EC 1.6.5.3) compare
GFF1921 -1.0 -1.8 3-polyprenyl-4-hydroxybenzoate carboxy-lyase UbiX (EC 4.1.1.-) compare
GFF2948 -1.0 -3.0 PTS system nitrogen-specific IIA component, PtsN compare
GFF4635 -1.0 -1.8 Succinate dehydrogenase cytochrome b-556 subunit compare
GFF3370 -1.0 -2.6 COG1399 protein, clustered with ribosomal protein L32p compare
GFF2477 -1.0 -4.4 Translation elongation factor LepA compare
GFF1571 -1.0 -0.9 FIG00638334: hypothetical protein compare
GFF633 -1.0 -3.1 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF4654 -1.0 -4.0 tolB protein precursor, periplasmic protein involved in the tonb-independent uptake of group A colicins compare
GFF158 -1.0 -5.8 Fructose repressor FruR, LacI family compare
GFF1953 -0.9 -2.0 Phosphohistidine phosphatase SixA compare
GFF3588 -0.9 -1.6 Secretion system effector SseB compare
GFF2882 -0.9 -4.9 Lipopolysaccharide biosynthesis protein RffA compare
GFF2689 -0.9 -2.5 Peptide transport system permease protein SapB compare
GFF1900 -0.9 -5.8 Acetate kinase (EC 2.7.2.1) compare
GFF1888 -0.9 -2.2 NADH-ubiquinone oxidoreductase chain E (EC 1.6.5.3) compare
GFF4182 -0.9 -4.3 Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70) compare
GFF883 -0.9 -6.2 Predicted transcriptional regulator of the myo-inositol catabolic operon compare
GFF192 -0.9 -4.6 'Bis(5'-nucleosyl)-tetraphosphatase, symmetrical (EC 3.6.1.41)' transl_table=11 compare
GFF2173 -0.9 -2.7 Chromosomal replication initiator protein DnaA compare
GFF242 -0.9 -1.9 Magnesium and cobalt transport protein CorA compare
GFF1935 -0.8 -2.5 Aspartate-semialdehyde dehydrogenase (EC 1.2.1.11) compare
GFF357 -0.8 -2.0 '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
GFF2348 -0.8 -2.6 Soluble pyridine nucleotide transhydrogenase (EC 1.6.1.1) compare
GFF4798 -0.8 -3.3 Adenylylsulfate kinase (EC 2.7.1.25) compare
GFF3632 -0.8 -1.6 Transcriptional regulator SlyA compare
GFF3874 -0.8 -3.0 Colanic acid biosynthesis acetyltransferase WcaF (EC 2.3.1.-) compare
GFF1863 -0.8 -1.0 Polymyxin resistance protein PmrL, sucrose-6 phosphate hydrolase compare
GFF4288 -0.8 -5.5 AroM protein compare
GFF2219 -0.8 -4.5 Coproporphyrinogen III oxidase, oxygen-independent (EC 1.3.99.22) compare
GFF4060 -0.8 -1.0 putative cytoplasmic protein compare
GFF355 -0.8 -1.4 ATP-dependent DNA helicase RecG (EC 3.6.1.-) compare
GFF4605 -0.8 -0.9 hypothetical protein compare
GFF4740 -0.8 -4.8 MxiG protein; Pathogenicity 1 island effector protein compare
GFF2891 -0.8 -3.9 Thioredoxin compare
GFF1270 -0.8 -2.0 DNA polymerase III theta subunit (EC 2.7.7.7) compare
GFF1599 -0.8 -1.5 Putative phosphatase YqaB compare
GFF1032 -0.8 -0.9 DNA polymerase III psi subunit (EC 2.7.7.7) compare
GFF2535 -0.8 -2.7 S-adenosylmethionine:tRNA ribosyltransferase-isomerase (EC 5.-.-.-) compare
GFF4634 -0.7 -3.3 Citrate synthase (si) (EC 2.3.3.1) compare
GFF4354 -0.7 -1.9 ATP-dependent Clp protease ATP-binding subunit ClpX compare
GFF2576 -0.7 -2.8 Putative outer membrane lipoprotein compare
GFF2220 -0.7 -4.2 Nitrogen regulation protein NR(I) compare
GFF1934 -0.7 -2.7 tRNA pseudouridine synthase A (EC 4.2.1.70) compare
GFF2656 -0.7 -3.0 Fumarate and nitrate reduction regulatory protein compare
GFF1615 -0.7 -1.3 phage-tail assembly-like protein compare
GFF1591 -0.7 -1.9 Transcription repressor of tripartite multidrug resistance system compare
GFF3830 -0.7 -0.8 Uncharacterized protein YehA precursor compare
GFF2873 -0.7 -1.1 hypothetical protein compare
GFF1168 -0.7 -1.1 IncF plasmid conjugative transfer protein TrbI compare
GFF4439 -0.7 -1.8 Phosphoribosylaminoimidazole carboxylase catalytic subunit (EC 4.1.1.21) compare
GFF267 -0.7 -2.5 Transcriptional activator RfaH compare
GFF3887 -0.7 -2.3 dTDP-glucose 4,6-dehydratase (EC 4.2.1.46) compare
GFF3938 -0.7 -1.8 Ethanolamine utilization protein similar to PduL compare
GFF2468 -0.7 -1.1 Putative transmembrane transport protein compare
GFF607 -0.7 -1.2 hypothetical protein compare
GFF1459 -0.7 -2.5 hypothetical protein compare
GFF4027 -0.7 -1.1 Flagellar biosynthesis protein FliS compare
GFF3426 -0.7 -1.3 Virulence protein MsgA compare
GFF2397 -0.7 -3.3 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF2409 -0.7 -2.9 Outer membrane protein YfgL, lipoprotein component of the protein assembly complex (forms a complex with YaeT, YfiO, and NlpB) compare
GFF1076 -0.7 -1.8 Aerobic respiration control protein arcA compare
GFF1526 -0.6 -2.0 PTS system, galactitol-specific IIA component (EC 2.7.1.69) compare
GFF309 -0.6 -1.2 Putative transcriptional regulator of unknown carbohydrate utilization cluster, GntR family compare
GFF1156 -0.6 -1.8 IncF plasmid conjugative transfer pilus assembly protein TraL compare
GFF4601 -0.6 -3.2 Phosphoglucomutase (EC 5.4.2.2) compare
GFF603 -0.6 -2.5 NfuA Fe-S protein maturation compare
GFF4585 -0.6 -3.5 N-acetylglucosamine-6-phosphate deacetylase (EC 3.5.1.25) compare
GFF213 -0.6 -2.7 Carbamoyl-phosphate synthase large chain (EC 6.3.5.5) compare
GFF3548 -0.6 -2.1 3-dehydroquinate dehydratase I (EC 4.2.1.10) compare
GFF522 -0.6 -3.2 Low-affinity inorganic phosphate transporter compare
GFF3723 -0.6 -0.9 FKBP-type peptidyl-prolyl cis-trans isomerase SlyD (EC 5.2.1.8) compare
GFF1600 -0.6 -1.7 HAD-superfamily hydrolase, subfamily IA compare
GFF3877 -0.6 -1.3 GDP-mannose mannosyl hydrolase (EC 3.6.1.-) compare
GFF3377 -0.6 -3.0 3-oxoacyl-[acyl-carrier-protein] synthase, KASII (EC 2.3.1.41) compare
GFF3566 -0.6 -1.4 major outer membrane lipoprotein compare
GFF366 -0.6 -2.7 Ribonuclease PH (EC 2.7.7.56) compare
GFF4820 -0.6 -3.0 Sulfite reductase [NADPH] flavoprotein alpha-component (EC 1.8.1.2) compare
GFF4892 -0.6 -2.2 Thioredoxin reductase (EC 1.8.1.9) compare
GFF2324 -0.6 -3.5 Aspartokinase (EC 2.7.2.4) / Homoserine dehydrogenase (EC 1.1.1.3) compare
GFF2992 -0.6 -3.2 Flavodoxin 2 compare
GFF3943 -0.6 -0.7 Propanediol dehydratase small subunit (EC 4.2.1.28) compare
GFF736 -0.6 -1.9 Electron transfer flavoprotein, alpha subunit compare
GFF2540 -0.6 -2.1 FIG01046001: hypothetical protein compare
GFF3480 -0.6 -2.7 Uncharacterized protein YeaC compare
GFF2700 -0.6 -1.0 FIG01045186: hypothetical protein compare
GFF816 -0.6 -0.9 Phage tail assembly protein I compare
GFF4736 -0.6 -2.0 Oxygen-regulated invasion protein OrgA compare
GFF3149 -0.6 -3.0 Type I secretion outer membrane protein, TolC precursor compare
GFF651 -0.6 -1.9 Galactose-1-phosphate uridylyltransferase (EC 2.7.7.10) compare
GFF115 -0.6 -2.0 Aconitate hydratase 2 (EC 4.2.1.3) @ 2-methylisocitrate dehydratase (EC 4.2.1.99) compare
GFF3417 -0.6 -3.4 FIG002903: a protein of unknown function perhaps involved in purine metabolism compare
GFF4105 -0.6 -2.2 Protein with similarity to RtcB compare
GFF4675 -0.6 -1.7 putative RecA/RadA recombinase compare
GFF785 -0.6 -1.7 hypothetical protein compare
GFF367 -0.6 -2.7 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF352 -0.6 -0.8 FIG01048298: hypothetical protein compare
GFF825 -0.6 -1.4 RNA-binding protein Hfq compare
GFF3685 -0.6 -2.5 Aspartate aminotransferase (EC 2.6.1.1) compare
GFF3162 -0.6 -0.8 glycogen synthesis protein GlgS compare
GFF4358 -0.6 -0.8 FIG01200701: possible membrane protein compare
GFF880 -0.6 -4.5 Fructose-1,6-bisphosphatase, type I (EC 3.1.3.11) compare
GFF4584 -0.6 -2.8 N-acetylglucosamine-6P-responsive transcriptional repressor NagC, ROK family compare
GFF4162 -0.6 -1.7 DNA repair protein RecN compare
GFF1505 -0.6 -2.8 Tryptophan-specific transport protein compare
GFF379 -0.6 -3.3 Lipopolysaccharide heptosyltransferase III (EC 2.4.1.-) compare
GFF1334 -0.6 -0.6 Uncharacterized protein YohL compare
GFF4343 -0.6 -2.0 Cytochrome O ubiquinol oxidase subunit IV (EC 1.10.3.-) compare
GFF2222 -0.6 -3.1 Glutamine synthetase type I (EC 6.3.1.2) compare
GFF630 -0.6 -2.8 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF287 -0.6 -1.0 hypothetical protein compare
GFF2694 -0.6 -2.2 FIG01046389: hypothetical protein compare
GFF1985 -0.5 -1.5 tRNA-Ala-GGC compare
GFF3795 -0.5 -2.5 Cytidine deaminase (EC 3.5.4.5) compare
GFF876 -0.5 -3.8 UPF0131 protein YtfP compare
GFF1616 -0.5 -1.8 FIG01047716: hypothetical protein compare
GFF1411 -0.5 -2.8 Diacylglycerol kinase (EC 2.7.1.107) compare
GFF2249 -0.5 -1.9 Putative merR family bacterial regulatory protein compare
GFF3419 -0.5 -0.8 Nudix-like NDP and NTP phosphohydrolase YmfB compare


Specific Phenotypes

None in this experiment

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

For phage Ffm_phage across organisms