Experiment set4IT051 for Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Compare to:

LB_plus_SM_buffer with EIP16_phage 0.0875 MOI

200 most important genes:

  gene name fitness t score description  
GFF2968 -7.2 -4.3 Stringent starvation protein A compare
GFF1808 -6.2 -5.2 Mannose-6-phosphate isomerase (EC 5.3.1.8) compare
GFF2881 -5.3 -5.2 WzxE protein compare
GFF4601 -5.2 -7.1 Phosphoglucomutase (EC 5.4.2.2) compare
GFF2882 -5.1 -10.3 Lipopolysaccharide biosynthesis protein RffA compare
GFF1076 -4.9 -3.9 Aerobic respiration control protein arcA compare
GFF2880 -4.8 -8.9 4-alpha-L-fucosyltransferase (EC 2.4.1.-) compare
GFF3149 -4.4 -15.2 Type I secretion outer membrane protein, TolC precursor compare
GFF87 -4.4 -1.8 C4-type zinc finger protein, DksA/TraR family compare
GFF1634 -4.3 -3.0 Lipid A biosynthesis (KDO) 2-(lauroyl)-lipid IVA acyltransferase (EC 2.3.1.-) compare
GFF824 -4.2 -4.1 tRNA dimethylallyltransferase (EC 2.5.1.75) compare
GFF4596 -4.0 -4.0 Ferric uptake regulation protein FUR compare
GFF2475 -3.8 -2.7 Ribonuclease III (EC 3.1.26.3) compare
GFF34 -3.7 -3.0 FIG01280259: hypothetical protein compare
GFF1699 -3.7 -3.0 BarA-associated response regulator UvrY (= GacA = SirA) compare
GFF3901 -3.4 -4.1 Phosphomannomutase (EC 5.4.2.8) compare
GFF4027 -3.4 -1.9 Flagellar biosynthesis protein FliS compare
GFF1303 -3.3 -2.4 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
GFF610 -3.3 -5.6 Ferrous iron transport protein A compare
GFF4788 -3.2 -5.1 RNA polymerase sigma factor RpoS compare
GFF1396 -3.2 -13.1 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF4890 -3.1 -9.4 Transport ATP-binding protein CydC compare
GFF381 -3.0 -5.4 Lipopolysaccharide core biosynthesis protein WaaP (EC 2.7.-.-), heptosyl-I-kinase compare
GFF3887 -3.0 -4.5 dTDP-glucose 4,6-dehydratase (EC 4.2.1.46) compare
GFF3667 -3.0 -1.9 Cytidylate kinase (EC 2.7.4.25) compare
GFF2991 -2.9 -3.4 Tyrosine recombinase XerD compare
GFF2430 -2.9 -2.4 Ferredoxin, 2Fe-2S compare
GFF609 -2.9 -16.1 Ferrous iron transport protein B compare
GFF4891 -2.8 -14.4 Transport ATP-binding protein CydD compare
GFF2906 -2.8 -4.5 Protein yifE compare
GFF2922 -2.8 -2.9 Transcription elongation factor GreA compare
GFF4586 -2.7 -2.7 Glucosamine-6-phosphate deaminase (EC 3.5.99.6) compare
GFF3397 -2.7 -9.8 Transcription-repair coupling factor compare
GFF608 -2.6 -2.9 Ferrous iron-sensisng transcriptional regulator FeoC compare
GFF3566 -2.5 -4.9 major outer membrane lipoprotein compare
GFF3886 -2.5 -5.3 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF2431 -2.5 -2.5 Chaperone protein HscA compare
GFF4798 -2.5 -4.7 Adenylylsulfate kinase (EC 2.7.1.25) compare
GFF1256 -2.5 -4.2 Chromosome (plasmid) partitioning protein ParA compare
GFF1737 -2.5 -2.4 Phosphate transport ATP-binding protein PstB (TC 3.A.1.7.1) compare
GFF2434 -2.4 -1.2 Iron-sulfur cluster assembly scaffold protein IscU compare
GFF2889 -2.4 -10.0 Undecaprenyl-phosphate N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.-) compare
GFF2943 -2.4 -2.4 Uncharacterized protein YrbK clustered with lipopolysaccharide transporters compare
GFF880 -2.4 -14.8 Fructose-1,6-bisphosphatase, type I (EC 3.1.3.11) compare
GFF1334 -2.3 -1.3 Uncharacterized protein YohL compare
GFF236 -2.3 -1.2 FIG00545237: hypothetical protein compare
GFF3054 -2.2 -5.6 Hypothetical protein YggS, proline synthase co-transcribed bacterial homolog PROSC compare
GFF20 -2.2 -7.5 D-glycero-D-manno-heptose 1,7-bisphosphate phosphatase (EC 3.1.1.-) compare
GFF2433 -2.1 -6.3 Iron binding protein IscA for iron-sulfur cluster assembly compare
GFF4355 -1.9 -1.5 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF2160 -1.9 -3.2 'Inosine-5'-monophosphate dehydrogenase (EC 1.1.1.205) / CBS domain' transl_table=11 compare
GFF4639 -1.9 -2.4 2-oxoglutarate dehydrogenase E1 component (EC 1.2.4.2) compare
GFF2016 -1.9 -9.2 Cytochrome c-type biogenesis protein DsbD, protein-disulfide reductase (EC 1.8.1.8) compare
GFF1058 -1.9 -9.1 NadR transcriptional regulator / Nicotinamide-nucleotide adenylyltransferase, NadR family (EC 2.7.7.1) / Ribosylnicotinamide kinase (EC 2.7.1.22) compare
GFF4837 -1.9 -8.4 'GTP pyrophosphokinase (EC 2.7.6.5), (p)ppGpp synthetase I / Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (EC 3.1.7.2)' transl_table=11 compare
GFF1591 -1.8 -3.0 Transcription repressor of tripartite multidrug resistance system compare
GFF2990 -1.8 -6.3 Thiol:disulfide interchange protein DsbC compare
GFF2389 -1.7 -1.7 Trk system potassium uptake protein TrkA compare
GFF597 -1.7 -3.1 DNA-damage-inducible protein J compare
GFF1311 -1.7 -7.4 FIG001592: Phosphocarrier protein kinase/phosphorylase, nitrogen regulation associated compare
GFF2104 -1.6 -2.1 ATP-dependent RNA helicase SrmB compare
GFF2698 -1.6 -5.1 Exoribonuclease II (EC 3.1.13.1) compare
GFF2216 -1.6 -6.6 DNA polymerase I (EC 2.7.7.7) compare
GFF3772 -1.6 -1.7 1-phosphofructokinase (EC 2.7.1.56) compare
GFF4647 -1.5 -7.6 Cytochrome d ubiquinol oxidase subunit II (EC 1.10.3.-) compare
GFF387 -1.5 -2.9 Lipopolysaccharide core biosynthesis protein RfaZ compare
GFF494 -1.5 -9.0 Protein yhjK compare
GFF4411 -1.5 -6.6 Putative NAD(P)-dependent oxidoreductase EC-YbbO compare
GFF2348 -1.5 -3.5 Soluble pyridine nucleotide transhydrogenase (EC 1.6.1.1) compare
GFF233 -1.5 -3.1 Frataxin homolog CyaY, facilitates iron supply for heme A synthesis or Fe-S cluster assembly compare
GFF390 -1.5 -1.8 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) compare
GFF4145 -1.5 -1.6 hypothetical protein compare
GFF2891 -1.5 -5.8 Thioredoxin compare
GFF366 -1.5 -4.3 Ribonuclease PH (EC 2.7.7.56) compare
GFF2887 -1.5 -6.0 UDP-N-acetylglucosamine 2-epimerase (EC 5.1.3.14) compare
GFF3874 -1.5 -1.6 Colanic acid biosynthesis acetyltransferase WcaF (EC 2.3.1.-) compare
GFF3642 -1.4 -4.1 Electron transport complex protein RnfE compare
GFF3712 -1.4 -3.3 Cyclic AMP receptor protein compare
GFF3862 -1.4 -3.6 Deoxycytidine triphosphate deaminase (EC 3.5.4.13) compare
GFF4839 -1.4 -6.6 BarA sensory histidine kinase (= VarS = GacS) compare
GFF4646 -1.4 -7.9 Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-) compare
GFF3166 -1.3 -2.9 ADP-heptose synthase (EC 2.7.-.-) / D-glycero-beta-D-manno-heptose 7-phosphate kinase compare
GFF716 -1.3 -3.9 L,D-transpeptidase YbiS compare
GFF2878 -1.3 -7.8 Probable UDP-N-acetyl-D-mannosaminuronic acid transferase (EC 2.4.1.-) compare
GFF380 -1.3 -5.7 UDP-glucose:(heptosyl) LPS alpha1,3-glucosyltransferase WaaG (EC 2.4.1.-) compare
GFF1621 -1.3 -2.0 DNA polymerase III theta subunit (EC 2.7.7.7) compare
GFF1815 -1.3 -2.9 Electron transport complex protein RnfA compare
GFF3040 -1.3 -6.2 Biosynthetic arginine decarboxylase (EC 4.1.1.19) compare
GFF2886 -1.2 -4.3 UDP-glucose dehydrogenase (EC 1.1.1.22) compare
GFF3765 -1.2 -1.2 proteinase inhibitor compare
GFF2173 -1.2 -3.3 Chromosomal replication initiator protein DnaA compare
GFF2973 -1.2 -3.8 Putative cytochrome d ubiquinol oxidase subunit III (EC 1.10.3.-) (Cytochrome bd-I oxidase subunit III) compare
GFF2063 -1.2 -1.4 Inner membrane protein YfeZ compare
GFF2819 -1.2 -4.9 Ribonuclease D (EC 3.1.26.3) compare
GFF1504 -1.2 -4.0 DEAD-box ATP-dependent RNA helicase CshA (EC 3.6.4.13) compare
GFF1168 -1.2 -1.4 IncF plasmid conjugative transfer protein TrbI compare
GFF355 -1.2 -2.0 ATP-dependent DNA helicase RecG (EC 3.6.1.-) compare
GFF156 -1.1 -1.4 rRNA small subunit methyltransferase H compare
GFF4635 -1.1 -2.3 Succinate dehydrogenase cytochrome b-556 subunit compare
GFF3533 -1.1 -1.8 FIG00638687: hypothetical protein compare
GFF661 -1.1 -4.6 6-phosphogluconolactonase (EC 3.1.1.31) compare
GFF4545 -1.1 -4.2 D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4) compare
GFF342 -1.1 -1.2 FIG01046502: hypothetical protein compare
GFF242 -1.1 -2.3 Magnesium and cobalt transport protein CorA compare
GFF3041 -1.1 -1.1 hypothetical protein compare
GFF2946 -1.1 -3.2 RNA polymerase sigma-54 factor RpoN compare
GFF1735 -1.1 -2.1 Phosphate transport system permease protein PstC (TC 3.A.1.7.1) compare
GFF3104 -1.1 -1.0 Hydrogenase maturation protease (EC 3.4.24.-) compare
GFF982 -1.1 -4.6 Putative cytoplasmic protein USSDB7A compare
GFF4636 -1.1 -4.3 Succinate dehydrogenase hydrophobic membrane anchor protein compare
GFF2867 -1.1 -1.4 hypothetical protein compare
GFF3012 -1.0 -2.1 5-formyltetrahydrofolate cyclo-ligase (EC 6.3.3.2) compare
GFF2907 -1.0 -1.9 HTH-type transcriptional regulator hdfR compare
GFF633 -1.0 -4.3 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF2468 -1.0 -1.2 Putative transmembrane transport protein compare
GFF2392 -1.0 -1.5 Peptide deformylase (EC 3.5.1.88) compare
GFF3379 -1.0 -5.1 FIG004453: protein YceG like compare
GFF3506 -1.0 -1.2 6-phospho-beta-glucosidase (EC 3.2.1.86) compare
GFF3212 -1.0 -0.9 FIG01046763: hypothetical protein compare
GFF189 -1.0 -5.1 4-hydroxythreonine-4-phosphate dehydrogenase (EC 1.1.1.262) compare
GFF2566 -1.0 -4.8 Transcriptional regulator, TetR family compare
GFF3644 -1.0 -2.4 Electron transport complex protein RnfD compare
GFF1891 -1.0 -1.7 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) compare
GFF2303 -1.0 -4.0 Putative uncharacterized protein YiiQ compare
GFF4600 -1.0 -1.3 SeqA protein, negative modulator of initiation of replication compare
GFF391 -1.0 -1.4 ADP-heptose--lipooligosaccharide heptosyltransferase II (EC 2.4.1.-) compare
GFF3794 -0.9 -3.6 SanA protein compare
GFF175 -0.9 -1.9 DedA family inner membrane protein YabI compare
GFF2051 -0.9 -4.5 Predicted transcriptional regulator of pyridoxine metabolism compare
GFF652 -0.9 -2.1 UDP-N-acetylglucosamine 4-epimerase (EC 5.1.3.7) / UDP-glucose 4-epimerase (EC 5.1.3.2) compare
GFF1459 -0.9 -2.6 hypothetical protein compare
GFF4103 -0.9 -5.2 probable exported protein STY0357 compare
GFF392 -0.9 -1.5 ADP-L-glycero-D-manno-heptose-6-epimerase (EC 5.1.3.20) compare
GFF928 -0.9 -2.5 Endoribonuclease L-PSP compare
GFF4379 -0.9 -6.6 RND efflux system, inner membrane transporter CmeB compare
GFF1526 -0.9 -2.8 PTS system, galactitol-specific IIA component (EC 2.7.1.69) compare
GFF4733 -0.9 -0.9 Type III secretion transcriptional regulator HilC (= SirC) compare
GFF4026 -0.8 -2.2 Flagellar biosynthesis protein FliT compare
GFF3877 -0.8 -1.7 GDP-mannose mannosyl hydrolase (EC 3.6.1.-) compare
GFF4162 -0.8 -3.0 DNA repair protein RecN compare
GFF4784 -0.8 -1.1 Transcriptional regulator, MarR family compare
GFF4865 -0.8 -2.9 Glycine cleavage system transcriptional activator GcvA compare
GFF2994 -0.8 -1.1 YgfY COG2938 compare
GFF4669 -0.8 -1.2 Phage outer membrane lytic protein Rz; Endopeptidase (EC 3.4.-.-) compare
GFF1150 -0.8 -1.3 unnamed protein product compare
GFF1736 -0.8 -1.0 Phosphate transport system permease protein PstA (TC 3.A.1.7.1) compare
GFF3643 -0.8 -3.3 Electron transport complex protein RnfG compare
GFF728 -0.8 -3.0 Dipeptide transport system, periplasmic component in protein degradation cluster compare
GFF662 -0.8 -4.4 Pectinesterase (EC 3.1.1.11) compare
GFF4160 -0.8 -2.3 UPF0125 protein yfjF compare
GFF1221 -0.8 -0.7 hypothetical protein compare
GFF785 -0.8 -1.9 hypothetical protein compare
GFF4491 -0.8 -3.2 Enterobactin esterase compare
GFF1572 -0.8 -2.2 Transcriptional regulator, ArsR family compare
GFF4350 -0.8 -0.6 hypothetical protein compare
GFF201 -0.8 -1.1 Ferredoxin-like protein FixX compare
GFF4286 -0.8 -2.6 Shikimate kinase III (EC 2.7.1.71) compare
GFF3257 -0.8 -3.8 hemimethylated DNA binding protein YccV compare
GFF3787 -0.7 -1.9 Mgl repressor and galactose ultrainduction factor GalS, HTH-type transcriptional regulator compare
GFF1848 -0.7 -0.9 FIG074102: hypothetical protein compare
GFF1095 -0.7 -0.6 Putative membrane protein compare
GFF2249 -0.7 -1.1 Putative merR family bacterial regulatory protein compare
GFF3743 -0.7 -2.2 FIG01046717: hypothetical protein compare
GFF3648 -0.7 -1.3 tRNA-Arg-TCT compare
GFF2663 -0.7 -1.2 Thiol peroxidase, Tpx-type (EC 1.11.1.15) compare
GFF2825 -0.7 -1.4 FIG00638134: hypothetical protein compare
GFF3247 -0.7 -2.1 Macrodomain Ter protein YcbG compare
GFF1423 -0.7 -5.5 Biosynthetic Aromatic amino acid aminotransferase alpha (EC 2.6.1.57) compare
GFF3665 -0.7 -2.7 5-Enolpyruvylshikimate-3-phosphate synthase (EC 2.5.1.19) compare
GFF3748 -0.7 -0.7 FIG002927: hypothetical protein compare
GFF3248 -0.7 -3.9 Outer membrane protein A precursor compare
GFF2149 -0.7 -2.9 Malate dehydrogenase (EC 1.1.1.37) compare
GFF4252 -0.7 -6.3 Type III restriction-modification system methylation subunit (EC 2.1.1.72) compare
GFF629 -0.7 -1.0 Shikimate kinase I (EC 2.7.1.71) compare
GFF2015 -0.7 -1.4 Periplasmic divalent cation tolerance protein CutA compare
GFF158 -0.7 -3.1 Fructose repressor FruR, LacI family compare
GFF930 -0.7 -3.6 Aspartate carbamoyltransferase (EC 2.1.3.2) compare
GFF1936 -0.7 -3.4 Erythronate-4-phosphate dehydrogenase (EC 1.1.1.290) compare
GFF1000 -0.7 -1.5 Type I restriction-modification system, specificity subunit S (EC 3.1.21.3) compare
GFF4290 -0.7 -2.6 DNA recombination-dependent growth factor C compare
GFF4789 -0.7 -2.6 Lipoprotein NlpD compare
GFF2750 -0.7 -2.6 Thymidine kinase (EC 2.7.1.21) compare
GFF1512 -0.7 -2.3 FIG002208: Acetyltransferase (EC 2.3.1.-) compare
GFF2039 -0.7 -2.4 Putative cytochrome oxidase compare
GFF249 -0.7 -0.7 L-lysine permease compare
GFF1356 -0.7 -1.3 Acetate operon repressor compare
GFF4253 -0.7 -5.1 Type III restriction-modification system StyLTI enzyme res (EC 3.1.21.5) compare
GFF1957 -0.7 -4.1 Long-chain fatty acid transport protein compare
GFF3723 -0.7 -0.7 FKBP-type peptidyl-prolyl cis-trans isomerase SlyD (EC 5.2.1.8) compare
GFF2739 -0.7 -2.3 Cardiolipin synthetase (EC 2.7.8.-) compare
GFF3252 -0.7 -1.2 Inner membrane protein YccF compare
GFF3042 -0.7 -2.3 hypothetical protein STY3242 compare
GFF1088 -0.7 -0.6 FIG01045785: hypothetical protein compare
GFF309 -0.7 -0.8 Putative transcriptional regulator of unknown carbohydrate utilization cluster, GntR family compare
GFF588 -0.7 -2.4 Thiosulfate sulfurtransferase GlpE (EC 2.8.1.1) compare
GFF2219 -0.7 -3.4 Coproporphyrinogen III oxidase, oxygen-independent (EC 1.3.99.22) compare
GFF1360 -0.7 -2.4 Alpha-aspartyl dipeptidase Peptidase E (EC 3.4.13.21) compare
GFF2690 -0.7 -0.9 Peptide transport system permease protein SapC compare
GFF3502 -0.6 -0.7 PTS system, cellobiose-specific IIB component (EC 2.7.1.69) compare
GFF4653 -0.6 -1.4 TolA protein compare


Specific Phenotypes

For 3 genes in this experiment

For phage EIP16_phage in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

For phage EIP16_phage across organisms