Experiment set4IT010 for Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Compare to:

LB_plus_SM_buffer with EIP30_phage 0.0000875 MOI

200 most important genes:

  gene name fitness t score description  
GFF1634 -4.9 -4.8 Lipid A biosynthesis (KDO) 2-(lauroyl)-lipid IVA acyltransferase (EC 2.3.1.-) compare
GFF4890 -3.9 -9.7 Transport ATP-binding protein CydC compare
GFF4891 -3.7 -12.7 Transport ATP-binding protein CydD compare
GFF4647 -3.6 -11.0 Cytochrome d ubiquinol oxidase subunit II (EC 1.10.3.-) compare
GFF1076 -3.5 -3.0 Aerobic respiration control protein arcA compare
GFF2475 -3.1 -3.2 Ribonuclease III (EC 3.1.26.3) compare
GFF4646 -2.7 -10.6 Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-) compare
GFF121 -2.5 -4.4 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF2690 -2.4 -3.1 Peptide transport system permease protein SapC compare
GFF2946 -2.3 -5.0 RNA polymerase sigma-54 factor RpoN compare
GFF1256 -2.3 -4.8 Chromosome (plasmid) partitioning protein ParA compare
GFF242 -2.3 -5.2 Magnesium and cobalt transport protein CorA compare
GFF3166 -2.2 -5.8 ADP-heptose synthase (EC 2.7.-.-) / D-glycero-beta-D-manno-heptose 7-phosphate kinase compare
GFF824 -2.0 -3.7 tRNA dimethylallyltransferase (EC 2.5.1.75) compare
GFF1716 -2.0 -6.8 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA compare
GFF122 -2.0 -10.1 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF4350 -2.0 -1.2 hypothetical protein compare
GFF87 -1.9 -2.7 C4-type zinc finger protein, DksA/TraR family compare
GFF4355 -1.9 -2.0 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF4096 -1.8 -2.1 FIG01047254: hypothetical protein compare
GFF391 -1.8 -2.3 ADP-heptose--lipooligosaccharide heptosyltransferase II (EC 2.4.1.-) compare
GFF2216 -1.8 -7.1 DNA polymerase I (EC 2.7.7.7) compare
GFF55 -1.8 -8.4 [Protein-PII] uridylyltransferase (EC 2.7.7.59) compare
GFF4596 -1.7 -4.4 Ferric uptake regulation protein FUR compare
GFF2434 -1.7 -1.2 Iron-sulfur cluster assembly scaffold protein IscU compare
GFF392 -1.7 -2.5 ADP-L-glycero-D-manno-heptose-6-epimerase (EC 5.1.3.20) compare
GFF20 -1.7 -8.2 D-glycero-D-manno-heptose 1,7-bisphosphate phosphatase (EC 3.1.1.-) compare
GFF355 -1.7 -2.5 ATP-dependent DNA helicase RecG (EC 3.6.1.-) compare
GFF4354 -1.6 -4.7 ATP-dependent Clp protease ATP-binding subunit ClpX compare
GFF4653 -1.6 -2.7 TolA protein compare
GFF1312 -1.6 -3.3 'Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-)' transl_table=11 compare
GFF1934 -1.5 -4.8 tRNA pseudouridine synthase A (EC 4.2.1.70) compare
GFF2389 -1.5 -2.5 Trk system potassium uptake protein TrkA compare
GFF2430 -1.5 -1.8 Ferredoxin, 2Fe-2S compare
GFF3712 -1.5 -3.5 Cyclic AMP receptor protein compare
GFF4270 -1.5 -1.0 FIG00637869: hypothetical protein compare
GFF4027 -1.4 -1.3 Flagellar biosynthesis protein FliS compare
GFF3377 -1.4 -5.2 3-oxoacyl-[acyl-carrier-protein] synthase, KASII (EC 2.3.1.41) compare
GFF4026 -1.4 -2.8 Flagellar biosynthesis protein FliT compare
GFF2954 -1.4 -9.0 Aerobic respiration control sensor protein arcB (EC 2.7.3.-) compare
GFF1750 -1.4 -2.5 GTPase and tRNA-U34 5-formylation enzyme TrmE compare
GFF236 -1.4 -0.9 FIG00545237: hypothetical protein compare
GFF4182 -1.4 -6.1 Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70) compare
GFF2991 -1.4 -2.2 Tyrosine recombinase XerD compare
GFF2948 -1.4 -4.8 PTS system nitrogen-specific IIA component, PtsN compare
GFF633 -1.3 -4.6 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF2433 -1.3 -4.6 Iron binding protein IscA for iron-sulfur cluster assembly compare
GFF2692 -1.3 -4.2 Peptide transport system ATP-binding protein SapF compare
GFF4250 -1.3 -1.1 Putative copper chaperone compare
GFF2477 -1.3 -4.1 Translation elongation factor LepA compare
GFF4639 -1.3 -2.3 2-oxoglutarate dehydrogenase E1 component (EC 1.2.4.2) compare
GFF1900 -1.3 -7.3 Acetate kinase (EC 2.7.2.1) compare
GFF3632 -1.3 -3.2 Transcriptional regulator SlyA compare
GFF883 -1.3 -6.8 Predicted transcriptional regulator of the myo-inositol catabolic operon compare
GFF635 -1.2 -4.6 Tryptophanyl-tRNA synthetase (EC 6.1.1.2) compare
GFF230 -1.2 -7.3 Adenylate cyclase (EC 4.6.1.1) compare
GFF2173 -1.2 -4.1 Chromosomal replication initiator protein DnaA compare
GFF2729 -1.2 -1.3 Protein YciE compare
GFF2943 -1.2 -1.6 Uncharacterized protein YrbK clustered with lipopolysaccharide transporters compare
GFF3667 -1.2 -1.8 Cytidylate kinase (EC 2.7.4.25) compare
GFF1921 -1.1 -1.9 3-polyprenyl-4-hydroxybenzoate carboxy-lyase UbiX (EC 4.1.1.-) compare
GFF1879 -1.1 -7.0 NADH-ubiquinone oxidoreductase chain N (EC 1.6.5.3) compare
GFF380 -1.1 -6.8 UDP-glucose:(heptosyl) LPS alpha1,3-glucosyltransferase WaaG (EC 2.4.1.-) compare
GFF4652 -1.1 -3.7 Tol biopolymer transport system, TolR protein compare
GFF1901 -1.1 -4.9 Phosphate acetyltransferase (EC 2.3.1.8) compare
GFF4600 -1.1 -4.2 SeqA protein, negative modulator of initiation of replication compare
GFF1887 -1.1 -6.8 NADH-ubiquinone oxidoreductase chain F (EC 1.6.5.3) compare
GFF1890 -1.1 -6.1 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) compare
GFF603 -1.1 -2.7 NfuA Fe-S protein maturation compare
GFF381 -1.1 -6.5 Lipopolysaccharide core biosynthesis protein WaaP (EC 2.7.-.-), heptosyl-I-kinase compare
GFF276 -1.1 -4.2 Potassium uptake protein TrkH compare
GFF2623 -1.1 -1.1 Putative inner membrane protein compare
GFF1882 -1.1 -3.3 NADH-ubiquinone oxidoreductase chain K (EC 1.6.5.3) compare
GFF522 -1.1 -5.5 Low-affinity inorganic phosphate transporter compare
GFF1886 -1.1 -6.0 NADH-ubiquinone oxidoreductase chain G (EC 1.6.5.3) compare
GFF1615 -1.1 -1.7 phage-tail assembly-like protein compare
GFF2047 -1.0 -4.2 Phosphoenolpyruvate-protein phosphotransferase of PTS system (EC 2.7.3.9) compare
GFF2221 -1.0 -4.7 Nitrogen regulation protein NtrB (EC 2.7.13.3) compare
GFF2784 -1.0 -2.4 GTP-binding and nucleic acid-binding protein YchF compare
GFF2149 -1.0 -4.4 Malate dehydrogenase (EC 1.1.1.37) compare
GFF1881 -1.0 -5.6 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) compare
GFF4636 -1.0 -3.1 Succinate dehydrogenase hydrophobic membrane anchor protein compare
GFF1880 -1.0 -6.1 NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3) compare
GFF661 -1.0 -4.5 6-phosphogluconolactonase (EC 3.1.1.31) compare
GFF1884 -0.9 -1.2 NADH-ubiquinone oxidoreductase chain I (EC 1.6.5.3) compare
GFF3476 -0.9 -2.9 Putative oxidoreductase YeaE, aldo/keto reductase family compare
GFF4892 -0.9 -3.5 Thioredoxin reductase (EC 1.8.1.9) compare
GFF2409 -0.9 -3.5 Outer membrane protein YfgL, lipoprotein component of the protein assembly complex (forms a complex with YaeT, YfiO, and NlpB) compare
GFF1808 -0.9 -3.3 Mannose-6-phosphate isomerase (EC 5.3.1.8) compare
GFF4654 -0.9 -3.6 tolB protein precursor, periplasmic protein involved in the tonb-independent uptake of group A colicins compare
GFF3548 -0.9 -3.0 3-dehydroquinate dehydratase I (EC 4.2.1.10) compare
GFF4061 -0.9 -0.8 putative periplasmic protein compare
GFF1883 -0.9 -5.0 NADH-ubiquinone oxidoreductase chain J (EC 1.6.5.3) compare
GFF2505 -0.9 -1.3 Multiple antibiotic resistance protein MarB compare
GFF1935 -0.9 -2.3 Aspartate-semialdehyde dehydrogenase (EC 1.2.1.11) compare
GFF4637 -0.9 -5.3 Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1) compare
GFF2470 -0.9 -1.2 4Fe-4S ferredoxin, iron-sulfur binding compare
GFF4353 -0.9 -2.0 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
GFF2220 -0.8 -4.3 Nitrogen regulation protein NR(I) compare
GFF1642 -0.8 -1.3 putative cytoplasmic protein compare
GFF1885 -0.8 -3.8 NADH-ubiquinone oxidoreductase chain H (EC 1.6.5.3) compare
GFF1940 -0.8 -1.1 Putative DNA-binding protein in cluster with Type I restriction-modification system compare
GFF82 -0.8 -1.3 hypothetical protein compare
GFF384 -0.8 -1.2 UDP-glucose:(glucosyl)lipopolysaccharide alpha-1,3-glucosyltransferase WaaO (EC 2.4.1.-) compare
GFF3685 -0.8 -4.2 Aspartate aminotransferase (EC 2.6.1.1) compare
GFF587 -0.8 -4.0 Aerobic glycerol-3-phosphate dehydrogenase (EC 1.1.5.3) compare
GFF4095 -0.8 -1.4 LysR-family transcriptional regulator SinR compare
GFF4634 -0.8 -3.0 Citrate synthase (si) (EC 2.3.3.1) compare
GFF1737 -0.8 -1.8 Phosphate transport ATP-binding protein PstB (TC 3.A.1.7.1) compare
GFF1223 -0.8 -0.9 CcdB toxin protein compare
GFF3890 -0.8 -1.5 dTDP-4-dehydrorhamnose 3,5-epimerase (EC 5.1.3.13) compare
GFF4866 -0.8 -0.9 probable lipoprotein compare
GFF360 -0.8 -0.8 hypothetical protein compare
GFF3149 -0.7 -4.8 Type I secretion outer membrane protein, TolC precursor compare
GFF1571 -0.7 -0.7 FIG00638334: hypothetical protein compare
GFF3041 -0.7 -0.8 hypothetical protein compare
GFF1889 -0.7 -4.7 NADH-ubiquinone oxidoreductase chain C (EC 1.6.5.3) / NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3) compare
GFF3237 -0.7 -1.6 hypothetical protein compare
GFF630 -0.7 -3.5 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF2249 -0.7 -1.6 Putative merR family bacterial regulatory protein compare
GFF192 -0.7 -3.5 'Bis(5'-nucleosyl)-tetraphosphatase, symmetrical (EC 3.6.1.41)' transl_table=11 compare
GFF3320 -0.7 -1.3 Transcriptional regulator CsgD for 2nd curli operon compare
GFF3748 -0.7 -0.7 FIG002927: hypothetical protein compare
GFF3370 -0.7 -1.2 COG1399 protein, clustered with ribosomal protein L32p compare
GFF1620 -0.7 -0.9 Copper resistance protein CopC compare
GFF2222 -0.7 -4.0 Glutamine synthetase type I (EC 6.3.1.2) compare
GFF201 -0.7 -1.0 Ferredoxin-like protein FixX compare
GFF1888 -0.7 -1.5 NADH-ubiquinone oxidoreductase chain E (EC 1.6.5.3) compare
GFF3772 -0.7 -1.1 1-phosphofructokinase (EC 2.7.1.56) compare
GFF1953 -0.7 -1.7 Phosphohistidine phosphatase SixA compare
GFF3246 -0.7 -2.2 ATP-dependent protease La (EC 3.4.21.53) Type II compare
GFF400 -0.7 -0.9 Glutaredoxin 3 (Grx3) compare
GFF2527 -0.7 -1.3 Choloylglycine hydrolase (EC 3.5.1.24) compare
GFF188 -0.7 -2.7 Survival protein SurA precursor (Peptidyl-prolyl cis-trans isomerase SurA) (EC 5.2.1.8) compare
GFF3123 -0.7 -1.2 hypothetical protein compare
GFF390 -0.7 -1.1 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) compare
GFF2891 -0.7 -2.0 Thioredoxin compare
GFF1234 -0.7 -0.7 hypothetical protein compare
GFF2431 -0.6 -1.6 Chaperone protein HscA compare
GFF3588 -0.6 -0.9 Secretion system effector SseB compare
GFF648 -0.6 -2.2 Phosphoglycerate mutase (EC 5.4.2.1) compare
GFF1411 -0.6 -2.7 Diacylglycerol kinase (EC 2.7.1.107) compare
GFF379 -0.6 -3.5 Lipopolysaccharide heptosyltransferase III (EC 2.4.1.-) compare
GFF714 -0.6 -2.2 Mn-dependent transcriptional regulator MntR compare
GFF3139 -0.6 -3.6 Sensory histidine kinase QseC compare
GFF1499 -0.6 -1.9 Ribosome-binding factor A compare
GFF110 -0.6 -1.8 4-hydroxythreonine-4-phosphate dehydrogenase (EC 1.1.1.262) compare
GFF4460 -0.6 -1.3 Putative inner membrane protein compare
GFF1285 -0.6 -1.1 FIG01049612: hypothetical protein compare
GFF1079 -0.6 -0.8 Homoserine kinase (EC 2.7.1.39) compare
GFF3583 -0.6 -1.2 Type III secretion protein SsaB compare
GFF629 -0.6 -0.8 Shikimate kinase I (EC 2.7.1.71) compare
GFF4218 -0.6 -0.9 hypothetical protein compare
GFF4585 -0.6 -3.4 N-acetylglucosamine-6-phosphate deacetylase (EC 3.5.1.25) compare
GFF1095 -0.6 -0.7 Putative membrane protein compare
GFF2348 -0.6 -2.0 Soluble pyridine nucleotide transhydrogenase (EC 1.6.1.1) compare
GFF4338 -0.6 -3.2 Putative transport protein compare
GFF889 -0.6 -2.7 putative DNA-binding protein compare
GFF2776 -0.6 -2.2 hypothetical protein compare
GFF2072 -0.6 -2.0 Ethanolamine ammonia-lyase light chain (EC 4.3.1.7) compare
GFF4358 -0.6 -0.8 FIG01200701: possible membrane protein compare
GFF1168 -0.6 -0.8 IncF plasmid conjugative transfer protein TrbI compare
GFF3862 -0.6 -1.8 Deoxycytidine triphosphate deaminase (EC 3.5.4.13) compare
GFF3417 -0.6 -2.3 FIG002903: a protein of unknown function perhaps involved in purine metabolism compare
GFF1055 -0.6 -1.4 Phosphoserine phosphatase (EC 3.1.3.3) compare
GFF3623 -0.6 -1.2 Lactoylglutathione lyase (EC 4.4.1.5) compare
GFF827 -0.6 -2.8 HflK protein compare
GFF4835 -0.6 -0.7 ParE toxin protein compare
GFF2487 -0.6 -1.6 putative secreted protein compare
GFF3315 -0.6 -0.9 Putative oxidoreductase component of anaerobic dehydrogenases; Functional role page for Chaperone protein TorD compare
GFF4317 -0.6 -2.1 Ribonucleotide reductase transcriptional regulator NrdR compare
GFF2311 -0.6 -0.7 Ribonuclease E inhibitor RraA compare
GFF2055 -0.6 -2.3 Cysteine synthase (EC 2.5.1.47) compare
GFF4288 -0.6 -3.4 AroM protein compare
GFF2387 -0.6 -1.4 transcriptional regulator, MerR family compare
GFF3718 -0.6 -1.6 FIG01045308: hypothetical protein compare
GFF3030 -0.6 -2.1 Agmatinase (EC 3.5.3.11) compare
GFF4305 -0.6 -2.0 tRNA-guanine transglycosylase (EC 2.4.2.29) compare
GFF3042 -0.6 -1.9 hypothetical protein STY3242 compare
GFF876 -0.6 -3.9 UPF0131 protein YtfP compare
GFF1191 -0.6 -2.1 putative cytoplasmic protein compare
GFF4740 -0.6 -3.1 MxiG protein; Pathogenicity 1 island effector protein compare
GFF3297 -0.6 -1.8 FIG01045408: hypothetical protein compare
GFF4802 -0.6 -1.6 FIG01045727: hypothetical protein compare
GFF4745 -0.6 -0.6 secretion chaparone compare
GFF1792 -0.6 -0.9 Spermidine export protein MdtJ compare
GFF1433 -0.6 -1.1 Putative inner membrane or exported protein compare
GFF3943 -0.6 -0.6 Propanediol dehydratase small subunit (EC 4.2.1.28) compare
GFF1597 -0.6 -4.2 Glutamate--cysteine ligase (EC 6.3.2.2) compare
GFF352 -0.6 -0.7 FIG01048298: hypothetical protein compare
GFF2085 -0.5 -0.9 Ethanolamine utilization polyhedral-body-like protein EutS compare
GFF2867 -0.5 -0.8 hypothetical protein compare
GFF401 -0.5 -1.6 Protein export cytoplasm chaperone protein (SecB, maintains protein to be exported in unfolded state) compare
GFF713 -0.5 -0.6 FIG01047037: hypothetical protein compare
GFF2003 -0.5 -3.0 Putative luxR family bacterial regulatory protein compare
GFF3888 -0.5 -1.3 dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133) compare
GFF3567 -0.5 -2.6 Pyruvate kinase (EC 2.7.1.40) compare
GFF3336 -0.5 -2.9 Cytochrome B561 compare
GFF2392 -0.5 -1.0 Peptide deformylase (EC 3.5.1.88) compare
GFF23 -0.5 -2.9 Methionine ABC transporter substrate-binding protein compare


Specific Phenotypes

None in this experiment

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

For phage EIP30_phage across organisms