Experiment set3IT023 for Pseudomonas fluorescens FW300-N1B4

Compare to:

LB with methylglyoxal 0.008 vol%

200 most important genes:

  gene name fitness t score description  
Pf1N1B4_2005 -4.0 -2.8 ATP-dependent DNA helicase UvrD/PcrA compare
Pf1N1B4_3143 -3.1 -3.0 RecA protein compare
Pf1N1B4_932 -3.0 -2.5 FIG00963370: hypothetical protein compare
Pf1N1B4_1641 -2.9 -10.9 Lysine-arginine-ornithine-binding periplasmic protein precursor (TC 3.A.1.3.1) compare
Pf1N1B4_4568 -2.7 -3.2 FIG00793915: hypothetical protein compare
Pf1N1B4_2721 -2.7 -9.7 AMP nucleosidase (EC 3.2.2.4) conserved
Pf1N1B4_2283 -2.6 -1.4 Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-) compare
Pf1N1B4_3325 -2.6 -2.4 Sigma factor RpoE negative regulatory protein RseB precursor compare
Pf1N1B4_6041 -2.4 -3.1 Carbon storage regulator compare
Pf1N1B4_3833 -2.3 -8.5 Major porin and structural outer membrane porin OprF compare
Pf1N1B4_2874 -2.3 -2.6 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
Pf1N1B4_2886 -2.2 -10.2 Paraquat-inducible protein B compare
Pf1N1B4_1462 -2.2 -12.4 Oligosaccharide repeat unit polymerase Wzy; O-antigen ligase compare
Pf1N1B4_1619 -2.1 -9.1 Carboxyl-terminal protease (EC 3.4.21.102) compare
Pf1N1B4_3667 -2.1 -6.4 Nucleoside ABC transporter, periplasmic nucleoside-binding protein conserved
Pf1N1B4_606 -2.1 -3.2 Iron siderophore sensor protein compare
Pf1N1B4_2917 -2.0 -8.1 FIG140336: TPR domain protein compare
Pf1N1B4_1057 -1.9 -3.3 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) / Adenylylsulfate kinase (EC 2.7.1.25) compare
Pf1N1B4_3396 -1.9 -2.3 Protein export cytoplasm protein SecA ATPase RNA helicase (TC 3.A.5.1.1) compare
Pf1N1B4_1159 -1.9 -3.3 tRNA pseudouridine synthase B (EC 4.2.1.70) compare
Pf1N1B4_3668 -1.9 -7.2 Nucleoside ABC transporter, periplasmic nucleoside-binding protein conserved
Pf1N1B4_2029 -1.9 -2.8 FIG00953722: hypothetical protein compare
Pf1N1B4_327 -1.9 -2.4 hypothetical protein compare
Pf1N1B4_4603 -1.9 -2.5 hypothetical protein compare
Pf1N1B4_4062 -1.8 -5.7 FIG065221: Holliday junction DNA helicase conserved
Pf1N1B4_4866 -1.8 -2.8 hypothetical protein compare
Pf1N1B4_3446 -1.8 -2.2 Putative GTPases (G3E family) compare
Pf1N1B4_3779 -1.8 -2.5 Hydrolase, alpha/beta fold family functionally coupled to Phosphoribulokinase compare
Pf1N1B4_866 -1.8 -2.3 Iron-sulfur cluster regulator IscR compare
Pf1N1B4_5618 -1.7 -2.6 Excinuclease ABC subunit C compare
Pf1N1B4_2611 -1.7 -11.1 Excinuclease ABC subunit A conserved
Pf1N1B4_1869 -1.7 -6.8 Zinc ABC transporter, inner membrane permease protein ZnuB compare
Pf1N1B4_2885 -1.7 -4.6 Paraquat-inducible protein A compare
Pf1N1B4_1180 -1.7 -1.4 Outer membrane lipoprotein SmpA, a component of the essential YaeT outer-membrane protein assembly complex compare
Pf1N1B4_629 -1.6 -2.9 Queuosine Biosynthesis QueE Radical SAM compare
Pf1N1B4_967 -1.6 -2.0 hypothetical protein compare
Pf1N1B4_2352 -1.6 -5.0 Glutathione synthetase (EC 6.3.2.3) compare
Pf1N1B4_58 -1.6 -6.6 Transaldolase (EC 2.2.1.2) compare
Pf1N1B4_384 -1.6 -1.4 proteinase inhibitor compare
Pf1N1B4_5269 -1.6 -3.3 hypothetical protein compare
Pf1N1B4_3546 -1.6 -1.5 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein compare
Pf1N1B4_4485 -1.6 -2.5 membrane protein, putative compare
Pf1N1B4_2106 -1.6 -2.7 Hydrogen peroxide-inducible genes activator compare
Pf1N1B4_1234 -1.5 -3.7 Exodeoxyribonuclease V alpha chain (EC 3.1.11.5) compare
Pf1N1B4_2609 -1.5 -9.9 Catalase (EC 1.11.1.6) compare
Pf1N1B4_1872 -1.5 -6.4 Zinc ABC transporter, periplasmic-binding protein ZnuA compare
Pf1N1B4_3093 -1.5 -2.3 Outer membrane protein H precursor compare
Pf1N1B4_2682 -1.5 -1.9 Antiholin-like protein LrgA compare
Pf1N1B4_1544 -1.5 -6.3 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
Pf1N1B4_5279 -1.5 -2.5 hypothetical protein compare
Pf1N1B4_3768 -1.4 -2.6 Homoserine/homoserine lactone efflux protein compare
Pf1N1B4_2884 -1.4 -4.3 Paraquat-inducible protein A compare
Pf1N1B4_4765 -1.4 -3.0 2-ketogluconate kinase (EC 2.7.1.13) compare
Pf1N1B4_3168 -1.4 -3.3 AmpG permease compare
Pf1N1B4_2479 -1.4 -2.0 Glycine cleavage system transcriptional antiactivator GcvR compare
Pf1N1B4_1870 -1.4 -2.8 Zinc ABC transporter, ATP-binding protein ZnuC compare
Pf1N1B4_5294 -1.4 -1.9 hypothetical protein compare
Pf1N1B4_5074 -1.4 -2.5 Gluconate permease compare
Pf1N1B4_5371 -1.3 -1.5 hypothetical protein compare
Pf1N1B4_1581 -1.3 -3.3 Histidine ammonia-lyase (EC 4.3.1.3) compare
Pf1N1B4_5498 -1.3 -2.0 hypothetical protein compare
Pf1N1B4_4882 -1.3 -5.0 Transcriptional regulator MexT compare
Pf1N1B4_616 -1.3 -2.8 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
Pf1N1B4_2284 -1.3 -3.4 FIG001592: Phosphocarrier protein kinase/phosphorylase, nitrogen regulation associated compare
Pf1N1B4_26 -1.3 -4.8 Excinuclease ABC subunit B compare
Pf1N1B4_2209 -1.2 -6.8 Exopolyphosphatase (EC 3.6.1.11) compare
Pf1N1B4_2612 -1.2 -3.1 Putative transport protein compare
Pf1N1B4_5995 -1.2 -2.4 Transporter, MFS superfamily compare
Pf1N1B4_4596 -1.2 -2.2 Hydroxyacylglutathione hydrolase (EC 3.1.2.6) compare
Pf1N1B4_1317 -1.2 -2.4 Sensor histidine kinase/response regulator compare
Pf1N1B4_5675 -1.2 -2.3 hypothetical protein compare
Pf1N1B4_3656 -1.2 -1.7 Eukaryotic-type low-affinity urea transporter compare
Pf1N1B4_2707 -1.2 -3.2 Putative membrane protein compare
Pf1N1B4_2035 -1.2 -4.3 Phosphate transport system permease protein PstC (TC 3.A.1.7.1) compare
Pf1N1B4_1367 -1.2 -3.0 Glycine cleavage system transcriptional activator compare
Pf1N1B4_2674 -1.2 -1.9 hypothetical protein compare
Pf1N1B4_3334 -1.2 -3.5 Metal-dependent hydrolases of the beta-lactamase superfamily I compare
Pf1N1B4_4335 -1.2 -2.3 Putative translation initiation inhibitor, yjgF family compare
Pf1N1B4_5598 -1.2 -2.7 hypothetical protein compare
Pf1N1B4_3141 -1.2 -1.9 FIG00959768: hypothetical protein compare
Pf1N1B4_563 -1.2 -3.7 RNA polymerase sigma-70 factor compare
Pf1N1B4_2407 -1.2 -3.6 FIG00953367: hypothetical protein compare
Pf1N1B4_1399 -1.2 -3.3 FIG003573: hypothetical protein compare
Pf1N1B4_1967 -1.2 -2.4 hypothetical protein compare
Pf1N1B4_522 -1.2 -2.4 HlyD family secretion protein compare
Pf1N1B4_2037 -1.2 -2.7 Phosphate transport ATP-binding protein PstB (TC 3.A.1.7.1) compare
Pf1N1B4_6031 -1.2 -2.1 Ribokinase (EC 2.7.1.15) (from data) compare
Pf1N1B4_1708 -1.1 -3.0 Efflux transporter, RND family, MFP subunit compare
Pf1N1B4_1998 -1.1 -2.9 Putative metal chaperone, involved in Zn homeostasis, GTPase of COG0523 family compare
Pf1N1B4_3559 -1.1 -7.9 Aromatic amino acid transport protein AroP compare
Pf1N1B4_3889 -1.1 -1.5 hypothetical protein compare
Pf1N1B4_2411 -1.1 -1.7 FIG00953568: hypothetical protein compare
Pf1N1B4_4533 -1.1 -2.5 Uncharacterized protein ImpH/VasB compare
Pf1N1B4_5824 -1.1 -2.7 Na(+) H(+) antiporter subunit D compare
Pf1N1B4_2768 -1.1 -3.0 DNA repair protein RadA compare
Pf1N1B4_373 -1.1 -2.3 5-methylaminomethyl-2-thiouridine-forming enzyme mnmC compare
Pf1N1B4_974 -1.1 -2.9 Periplasmic thiol:disulfide oxidoreductase DsbB, required for DsbA reoxidation compare
Pf1N1B4_5071 -1.1 -1.9 FIG00959535: hypothetical protein compare
Pf1N1B4_4007 -1.1 -2.0 sigma-54 dependent transcriptional regulator compare
Pf1N1B4_2427 -1.1 -1.9 Gamma-butyrobetaine,2-oxoglutarate dioxygenase (EC 1.14.11.1) compare
Pf1N1B4_1504 -1.1 -1.8 Acyl carrier protein compare
Pf1N1B4_3552 -1.1 -3.3 Hypothetical YciO protein, TsaC/YrdC paralog compare
Pf1N1B4_1691 -1.1 -1.1 hypothetical protein compare
Pf1N1B4_515 -1.1 -2.5 DNA-binding response regulator GltR, controls specific porins for the entry of glucose compare
Pf1N1B4_1236 -1.1 -4.1 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
Pf1N1B4_1153 -1.0 -2.4 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
Pf1N1B4_3526 -1.0 -2.0 Glutathione S-transferase (EC 2.5.1.18) compare
Pf1N1B4_4982 -1.0 -1.4 Transcriptional regulator, AraC family compare
Pf1N1B4_4969 -1.0 -1.7 FIG00956189: hypothetical protein compare
Pf1N1B4_2828 -1.0 -1.8 FIG00953333: hypothetical protein compare
Pf1N1B4_813 -1.0 -4.6 hypothetical protein compare
Pf1N1B4_3166 -1.0 -5.3 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_883 -1.0 -1.8 Hypothetical nudix hydrolase YeaB compare
Pf1N1B4_823 -1.0 -1.5 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_345 -1.0 -1.4 Integration host factor beta subunit compare
Pf1N1B4_2807 -1.0 -1.9 FKBP-type peptidyl-prolyl cis-trans isomerase SlpA (EC 5.2.1.8) compare
Pf1N1B4_388 -1.0 -3.9 OmpA family protein compare
Pf1N1B4_844 -1.0 -2.8 Exodeoxyribonuclease VII large subunit (EC 3.1.11.6) compare
Pf1N1B4_5666 -1.0 -2.3 Oxidoreductase probably involved in sulfite reduction compare
Pf1N1B4_3214 -1.0 -2.5 Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1) compare
Pf1N1B4_5790 -1.0 -2.4 hypothetical protein compare
Pf1N1B4_2054 -1.0 -1.9 FIG00964469: hypothetical protein compare
Pf1N1B4_3109 -1.0 -3.3 S-formylglutathione hydrolase (EC 3.1.2.12) compare
Pf1N1B4_3687 -1.0 -2.5 FIG00953885: hypothetical protein compare
Pf1N1B4_625 -0.9 -2.9 FIG023103: Predicted transmembrane protein compare
Pf1N1B4_389 -0.9 -3.6 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_1178 -0.9 -3.5 DNA repair protein RecN compare
Pf1N1B4_4437 -0.9 -2.3 hypothetical protein compare
Pf1N1B4_3775 -0.9 -1.5 FIG00956876: hypothetical protein compare
Pf1N1B4_13 -0.9 -2.0 SAM-dependent methyltransferase YafE (UbiE paralog) compare
Pf1N1B4_1103 -0.9 -2.9 Rare lipoprotein A compare
Pf1N1B4_4111 -0.9 -2.1 Panthothenate synthetase compare
Pf1N1B4_644 -0.9 -1.7 Cold shock protein CspC compare
Pf1N1B4_3817 -0.9 -2.4 FIG008443: hypothetical protein compare
Pf1N1B4_5769 -0.9 -1.7 Heme d1 biosynthesis protein NirL compare
Pf1N1B4_5073 -0.9 -1.4 Hydroxypyruvate isomerase (EC 5.3.1.22) compare
Pf1N1B4_5330 -0.9 -1.3 hypothetical protein compare
Pf1N1B4_4939 -0.9 -2.0 sodium/hydrogen exchanger family protein compare
Pf1N1B4_4256 -0.9 -1.7 Probable transmembrane protein compare
Pf1N1B4_5898 -0.9 -1.7 hypothetical protein compare
Pf1N1B4_806 -0.9 -3.4 hypothetical protein compare
Pf1N1B4_1781 -0.9 -1.4 hypothetical protein compare
Pf1N1B4_2208 -0.9 -3.7 Polyphosphate kinase (EC 2.7.4.1) compare
Pf1N1B4_2857 -0.9 -2.2 Poly(A) polymerase (EC 2.7.7.19) compare
Pf1N1B4_5513 -0.9 -2.2 hypothetical protein compare
Pf1N1B4_5483 -0.9 -1.6 hypothetical protein compare
Pf1N1B4_3713 -0.9 -1.5 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase (EC 2.4.2.21) compare
Pf1N1B4_984 -0.9 -2.5 Alginate biosynthesis protein Alg44 compare
Pf1N1B4_1620 -0.9 -3.2 Putative periplasmic protein YibQ, distant homology with nucleoside diphosphatase and polysaccharide deacetylase compare
Pf1N1B4_3072 -0.9 -2.3 hypothetical protein compare
Pf1N1B4_3909 -0.9 -1.5 Cell division inhibitor-related protein compare
Pf1N1B4_3764 -0.9 -1.9 Allantoicase (EC 3.5.3.4) compare
Pf1N1B4_564 -0.8 -1.5 ABC-type phosphate/phosphonate transport system, periplasmic component compare
Pf1N1B4_5464 -0.8 -1.8 Cointegrate resolution protein T compare
Pf1N1B4_2833 -0.8 -1.8 Benzoate transport protein compare
Pf1N1B4_5979 -0.8 -1.3 Ureidoglycolate/malate/sulfolactate dehydrogenase family (EC 1.1.1.-) compare
Pf1N1B4_4516 -0.8 -1.8 Pyridine nucleotide-disulphide oxidoreductase associated with reductive pyrimidine catabolism compare
Pf1N1B4_1716 -0.8 -2.3 FIG00953394: hypothetical protein compare
Pf1N1B4_5589 -0.8 -2.5 3-ketoacyl-CoA thiolase (EC 2.3.1.16) compare
Pf1N1B4_4823 -0.8 -1.9 Paraquat-inducible protein A compare
Pf1N1B4_3503 -0.8 -2.5 Two-component response regulator PfeR, enterobactin compare
Pf1N1B4_2935 -0.8 -1.7 Hypoxanthine-guanine phosphoribosyltransferase (EC 2.4.2.8) compare
Pf1N1B4_2359 -0.8 -1.5 Chemotaxis signal transduction protein compare
Pf1N1B4_3374 -0.8 -2.1 Cysteine synthase (EC 2.5.1.47) compare
Pf1N1B4_174 -0.8 -2.5 Lipid A export ATP-binding/permease protein MsbA compare
Pf1N1B4_2224 -0.8 -1.5 FIG00953390: hypothetical protein compare
Pf1N1B4_617 -0.8 -1.2 Carbamate kinase (EC 2.7.2.2) compare
Pf1N1B4_1441 -0.8 -5.6 Putative esterase, FIGfam005057 compare
Pf1N1B4_3998 -0.8 -2.1 putative exported protein compare
Pf1N1B4_1561 -0.8 -2.1 FIG00954300: hypothetical protein compare
Pf1N1B4_5059 -0.8 -1.0 Transcriptional regulator, LysR family compare
Pf1N1B4_3222 -0.8 -1.1 Ferredoxin compare
Pf1N1B4_4065 -0.8 -4.1 Siroheme synthase / Precorrin-2 oxidase (EC 1.3.1.76) / Sirohydrochlorin ferrochelatase (EC 4.99.1.4) / Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
Pf1N1B4_5591 -0.8 -1.5 Vanillin dehydrogenase (Hydroxybenzaldehyde dehydrogenase) (EC 1.2.1.28) compare
Pf1N1B4_2172 -0.8 -2.3 Protein of unknown function DUF484 compare
Pf1N1B4_5095 -0.8 -1.0 hypothetical protein compare
Pf1N1B4_3815 -0.8 -2.7 FIG002781: Alpha-L-glutamate ligase family protein compare
Pf1N1B4_5309 -0.8 -1.6 hypothetical protein compare
Pf1N1B4_4509 -0.8 -1.9 Aldose 1-epimerase compare
Pf1N1B4_1235 -0.8 -3.2 Exodeoxyribonuclease V beta chain (EC 3.1.11.5) compare
Pf1N1B4_5283 -0.8 -1.8 hypothetical protein compare
Pf1N1B4_1211 -0.8 -2.1 Hydrogen peroxide-inducible genes activator compare
Pf1N1B4_3553 -0.8 -3.4 Segregation and condensation protein A compare
Pf1N1B4_1522 -0.8 -3.6 Transcriptional regulators, LysR family compare
Pf1N1B4_476 -0.8 -1.6 ABC-type multidrug transport system, ATPase component compare
Pf1N1B4_2048 -0.8 -1.3 hypothetical protein compare
Pf1N1B4_4611 -0.8 -1.5 GlpG protein (membrane protein of glp regulon) compare
Pf1N1B4_2726 -0.8 -2.5 Cobalt-zinc-cadmium resistance protein compare
Pf1N1B4_4422 -0.8 -0.9 ABC transporter amino acid-binding protein compare
Pf1N1B4_2083 -0.8 -1.9 Uncharacterized protein ImpB compare
Pf1N1B4_1307 -0.8 -1.5 3-dehydroquinate dehydratase II (EC 4.2.1.10) compare
Pf1N1B4_4393 -0.8 -1.7 Ferredoxin reductase compare
Pf1N1B4_576 -0.8 -2.1 hypothetical protein compare
Pf1N1B4_322 -0.8 -1.6 nucleotide sugar epimerase/dehydratase WbpM compare
Pf1N1B4_1733 -0.8 -3.7 5-aminovalerate aminotransferase (EC 2.6.1.48) / Gamma-aminobutyrate:alpha-ketoglutarate aminotransferase (EC 2.6.1.19) compare
Pf1N1B4_4632 -0.7 -2.1 Exonuclease SbcC compare
Pf1N1B4_1595 -0.7 -2.5 FIG027190: Putative transmembrane protein compare
Pf1N1B4_2458 -0.7 -1.8 Sarcosine oxidase gamma subunit (EC 1.5.3.1) compare
Pf1N1B4_268 -0.7 -2.1 Spermidine synthase (EC 2.5.1.16) compare
Pf1N1B4_4531 -0.7 -1.7 FIG01221261: hypothetical protein compare


Specific Phenotypes

For 7 genes in this experiment

For stress methylglyoxal in Pseudomonas fluorescens FW300-N1B4

For stress methylglyoxal across organisms