Experiment set26IT042 for Escherichia coli BW25113

Compare to:

RCH2_defined_glucose with Supernatant; Trichoderma harzianum M10 and Trichoderma harzanium TH1 and Trichoderma harzianum M10 grown as spores in 0.5x MS_media_noCarbon with Brachypodium distachyon roots for 27 days 0.5x

200 most important genes:

  gene name fitness t score description  
b0907 serC -6.5 -11.6 phosphoserine aminotransferase (NCBI) compare
b1062 pyrC -6.3 -12.2 dihydroorotase (NCBI) compare
b3642 pyrE -6.3 -6.1 orotate phosphoribosyltransferase (NCBI) compare
b4005 purD -6.3 -14.6 phosphoribosylamine--glycine ligase (NCBI) compare
b0523 purE -6.2 -7.4 phosphoribosylaminoimidazole carboxylase catalytic subunit (NCBI) compare
b4388 serB -6.2 -10.4 3-phosphoserine phosphatase (NCBI) compare
b2557 purL -6.2 -13.2 phosphoribosylformylglycinamidine synthase (NCBI) compare
b2499 purM -5.9 -8.0 phosphoribosylaminoimidazole synthetase (NCBI) compare
b2913 serA -5.8 -11.8 D-3-phosphoglycerate dehydrogenase (NCBI) compare
b0033 carB -5.8 -22.7 carbamoyl-phosphate synthase large subunit (NCBI) compare
b0522 purK -5.6 -13.6 phosphoribosylaminoimidazole carboxylase (NCBI) compare
b2476 purC -5.6 -5.1 phosphoribosylaminoimidazole-succinocarboxamidesynthase (NCBI) compare
b0945 pyrD -5.5 -11.8 dihydroorotate dehydrogenase (NCBI) compare
b1260 trpA -5.5 -7.0 tryptophan synthase subunit alpha (NCBI) compare
b1281 pyrF -5.4 -7.4 orotidine 5'-phosphate decarboxylase (NCBI) compare
b4006 purH -5.4 -20.2 bifunctionalphosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase (NCBI) compare
b2312 purF -5.4 -10.9 amidophosphoribosyltransferase (NCBI) compare
b0004 thrC -5.4 -13.0 threonine synthase (NCBI) compare
b2762 cysH -5.1 -12.4 phosphoadenosine phosphosulfate reductase (NCBI) compare
b1192 ldcA -5.1 -10.5 L,D-carboxypeptidase A (NCBI) compare
b0032 carA -4.9 -8.6 carbamoyl-phosphate synthase small subunit (NCBI) compare
b4245 pyrB -4.9 -17.9 aspartate carbamoyltransferase catalytic subunit (NCBI) compare
b3389 aroB -4.8 -20.0 3-dehydroquinate synthase (NCBI) compare
b3956 ppc -4.8 -27.5 phosphoenolpyruvate carboxylase (NCBI) compare
b3281 aroE -4.7 -25.7 dehydroshikimate reductase, NAD(P)-binding (NCBI) compare
b0003 thrB -4.6 -9.3 homoserine kinase (NCBI) compare
b2329 aroC -4.5 -9.0 chorismate synthase (NCBI) compare
b0002 thrA -4.4 -17.8 bifunctional aspartokinase I/homeserine dehydrogenase I (NCBI) compare
b2479 gcvR -4.4 -8.9 transcriptional regulation of gcv operon (VIMSS) compare
b1850 eda -4.3 -5.1 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase (NCBI) compare
b0145 dksA -4.3 -5.1 DNA-binding transcriptional regulator of rRNA transcription, DnaK suppressor protein (NCBI) compare
b1261 trpB -4.3 -3.7 tryptophan synthase subunit beta (NCBI) compare
b1865 nudB -4.2 -4.0 dATP pyrophosphohydrolase (NCBI) compare
b0908 aroA -4.1 -14.1 3-phosphoshikimate 1-carboxyvinyltransferase (NCBI) compare
b3390 aroK -4.0 -4.7 shikimate kinase I (NCBI) compare
b1693 aroD -4.0 -10.3 3-dehydroquinate dehydratase (NCBI) compare
b0149 mrcB -4.0 -22.6 penicillin-binding protein 1b (NCBI) compare
b3941 metF -3.9 -16.9 5,10-methylenetetrahydrofolate reductase (NCBI) compare
b3172 argG -3.9 -17.3 argininosuccinate synthase (NCBI) compare
b3957 argE -3.9 -21.4 acetylornithine deacetylase (NCBI) compare
b3960 argH -3.8 -17.8 argininosuccinate lyase (NCBI) compare
b0243 proA -3.8 -15.6 gamma-glutamyl phosphate reductase (NCBI) compare
b0740 tolB -3.8 -9.4 translocation protein TolB precursor (NCBI) compare
b2023 hisH -3.8 -10.2 imidazole glycerol phosphate synthase subunit HisH (NCBI) compare
b2818 argA -3.8 -15.1 N-acetylglutamate synthase (NCBI) compare
b3870 glnA -3.7 -3.6 glutamine synthetase (NCBI) compare
b3959 argB -3.7 -19.2 acetylglutamate kinase (RefSeq) compare
b2838 lysA -3.7 -14.8 diaminopimelate decarboxylase, PLP-binding (NCBI) compare
b2750 cysC -3.7 -13.5 adenylylsulfate kinase (NCBI) compare
b0242 proB -3.6 -11.4 gamma-glutamyl kinase (NCBI) compare
b3958 argC -3.5 -20.7 N-acetyl-gamma-glutamyl-phosphate reductase (NCBI) compare
b2022 hisB -3.5 -12.3 imidazoleglycerolphosphate dehydratase and histidinol-phosphate phosphatase (VIMSS) compare
b3774 ilvC -3.4 -21.9 ketol-acid reductoisomerase (NCBI) compare
b3770 ilvE -3.3 -20.1 branched-chain amino acid aminotransferase (NCBI) compare
b0720 gltA -3.3 -10.9 citrate synthase (NCBI) compare
b2414 cysK -3.3 -14.8 cysteine synthase A, O-acetylserine sulfhydrolase A subunit (NCBI) compare
b0386 proC -3.2 -9.2 pyrroline-5-carboxylate reductase (NCBI) compare
b3771 ilvD -3.2 -19.9 dihydroxy-acid dehydratase (NCBI) compare
b0726 sucA -3.2 -5.3 alpha-ketoglutarate decarboxylase (NCBI) compare
b2839 lysR -3.2 -6.8 DNA-binding transcriptional dual regulator (NCBI) compare
b0738 tolR -3.2 -5.2 membrane spanning protein in TolA-TolQ-TolR complex (NCBI) compare
b1860 ruvB -3.1 -2.1 Holliday junction DNA helicase B (NCBI) compare
b4214 cysQ -3.1 -16.3 PAPS (adenosine 3'-phosphate 5'-phosphosulfate) 3'(2'),5'-bisphosphate nucleotidase (NCBI) compare
b2025 hisF -3.1 -6.1 imidazole glycerol phosphate synthase subunit HisF (NCBI) compare
b4013 metA -3.0 -9.2 homoserine O-succinyltransferase (NCBI) compare
b4246 pyrL -3.0 -1.8 pyrBI operon leader peptide (NCBI) compare
b2764 cysJ -2.9 -13.6 sulfite reductase, alpha subunit, flavoprotein (NCBI) compare
b0142 folK -2.9 -1.4 2-amino-4-hydroxy-6-hydroxymethyldihyropteridine pyrophosphokinase (NCBI) compare
b1105 ycfM -2.9 -11.0 predicted outer membrane lipoprotein (NCBI) compare
b3939 metB -2.9 -15.7 cystathionine gamma-synthase (NCBI) compare
b3772 ilvA -2.7 -17.8 threonine dehydratase (NCBI) compare
b0737 tolQ -2.7 -5.1 membrane spanning protein in TolA-TolQ-TolR complex (NCBI) compare
b2019 hisG -2.7 -11.2 ATP phosphoribosyltransferase (NCBI) compare
b1861 ruvA -2.7 -2.5 Holliday junction DNA helicase motor protein (NCBI) compare
b2026 hisI -2.7 -11.3 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein (NCBI) compare
b2763 cysI -2.7 -11.8 sulfite reductase, beta subunit, NAD(P)-binding, heme-binding (NCBI) compare
b2600 tyrA -2.6 -7.5 fused chorismate mutase T/prephenate dehydrogenase (NCBI) compare
b2021 hisC -2.6 -10.1 histidinol-phosphate aminotransferase (NCBI) compare
b0739 tolA -2.6 -6.2 cell envelope integrity inner membrane protein TolA (NCBI) compare
b3368 cysG -2.5 -19.6 fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase/uroporphyrinogen methyltransferase (NCBI) compare
b0049 apaH -2.5 -4.6 diadenosinetetraphosphatase (NCBI) compare
b0741 pal -2.5 -7.5 peptidoglycan-associated outer membrane lipoprotein (NCBI) compare
b2020 hisD -2.4 -11.0 histidinol dehydrogenase (NCBI) compare
b0072 leuC -2.4 -15.6 isopropylmalate isomerase large subunit (NCBI) compare
b3613 yibP -2.3 -8.3 putative membrane protein (VIMSS) compare
b2500 purN -2.3 -7.3 phosphoribosylglycinamide formyltransferase (NCBI) compare
b0889 lrp -2.3 -5.8 DNA-binding transcriptional dual regulator, leucine-binding (NCBI) compare
b3916 pfkA -2.2 -3.9 6-phosphofructokinase (NCBI) compare
b2024 hisA -2.2 -4.9 N-(5'-phospho-L-ribosyl-formimino)-5-amino-1-(5'- phosphoribosyl)-4-imidazolecarboxamide isomerase (VIMSS) compare
b0073 leuB -2.2 -11.9 3-isopropylmalate dehydrogenase (VIMSS) compare
b0074 leuA -2.2 -11.3 2-isopropylmalate synthase (NCBI) compare
b0071 leuD -2.2 -11.6 isopropylmalate isomerase small subunit (NCBI) compare
b3405 ompR -2.1 -8.7 osmolarity response regulator (NCBI) compare
b3773 ilvY -2.1 -11.1 DNA-binding transcriptional dual regulator (NCBI) compare
b0564 appY -2.1 -1.1 DLP12 prophage; DNA-binding transcriptional activator (NCBI) compare
b2518 ndk -2.1 -3.3 nucleoside diphosphate kinase (NCBI) compare
b2188 yejM -2.0 -11.9 predicted hydrolase, inner membrane (NCBI) compare
b1262 trpC -1.9 -3.2 N-(5-phosphoribosyl)anthranilate isomerase and indole-3-glycerolphosphate synthetase (VIMSS) compare
b1524 yneH -1.9 -2.0 predicted glutaminase (NCBI) compare
b4042 dgkA -1.9 -3.2 diacylglycerol kinase (NCBI) compare
b2313 cvpA -1.9 -2.5 membrane protein required for colicin V production (NCBI) compare
b3940 metL -1.7 -9.4 bifunctional aspartate kinase II/homoserine dehydrogenase II (NCBI) compare
b3781 trxA -1.7 -6.7 thioredoxin 1 (VIMSS) compare
b2599 pheA -1.7 -6.0 fused chorismate mutase P/prephenate dehydratase (NCBI) compare
b4025 pgi -1.7 -9.5 glucose-6-phosphate isomerase (NCBI) compare
b0437 clpP -1.6 -7.9 ATP-dependent Clp protease proteolytic subunit (NCBI) compare
b2912 ygfA -1.6 -5.5 putative ligase (VIMSS) compare
b3863 polA -1.5 -1.9 DNA polymerase I (NCBI) compare
b2830 nudH -1.5 -2.4 dinucleoside polyphosphate hydrolase (NCBI) compare
b4480 hdfR -1.5 -7.8 transcriptional regulator HdfR (NCBI) compare
b0113 pdhR -1.5 -6.9 transcriptional regulator of pyruvate dehydrogenase complex (NCBI) compare
b3429 glgA -1.5 -11.6 glycogen synthase (NCBI) compare
b3237 argR -1.5 -5.7 arginine repressor (NCBI) compare
b4593 ymgI -1.5 -1.3 hypothetical protein (RefSeq) compare
b3021 ygiT -1.4 -3.9 predicted DNA-binding transcriptional regulator (NCBI) compare
b4647 mokA -1.4 -1.3 no description compare
b2699 recA -1.4 -1.8 recombinase A (NCBI) compare
b0088 murD -1.3 -3.5 UDP-N-acetylmuramoyl-L-alanyl-D-glutamatesynthetase (NCBI) compare
b1361 ydaW -1.3 -0.9 orf, hypothetical protein (VIMSS) compare
b1830 prc -1.3 -8.0 carboxy-terminal protease for penicillin-binding protein 3 (NCBI) compare
b0683 fur -1.3 -1.7 ferric uptake regulator (NCBI) compare
b2168 fruK -1.3 -1.6 1-phosphofructokinase (NCBI) compare
b0890 ftsK -1.3 -4.7 DNA-binding membrane protein required for chromosome resolution and partitioning (NCBI) compare
b1159 mcrA -1.3 -1.7 e14 prophage; 5-methylcytosine-specific restriction endonuclease B (NCBI) compare
b0439 lon -1.3 -5.9 DNA-binding ATP-dependent protease La (NCBI) compare
b2601 aroF -1.3 -4.7 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase, tyrosine-repressible (NCBI) compare
b3169 nusA -1.3 -4.0 transcription elongation factor NusA (NCBI) compare
b0928 aspC -1.3 -7.6 aspartate aminotransferase, PLP-dependent (NCBI) compare
b2318 truA -1.3 -3.7 tRNA pseudouridine synthase A (NCBI) compare
b2853 ygeI -1.2 -0.7 hypothetical protein (NCBI) compare
b2620 smpB -1.2 -1.7 SsrA-binding protein (NCBI) compare
b4505 insX -1.2 -2.6 predicted IS protein (RefSeq) compare
b3386 rpe -1.2 -0.8 ribulose-phosphate 3-epimerase (NCBI) compare
b0077 ilvI -1.2 -8.7 acetolactate synthase III large subunit (NCBI) compare
b3204 ptsN -1.2 -5.4 sugar-specific enzyme IIA component of PTS (NCBI) compare
b0912 ihfB -1.2 -4.8 integration host factor subunit beta (NCBI) compare
b0161 degP -1.2 -7.0 serine endoprotease (protease Do), membrane-associated (NCBI) compare
b1264 trpE -1.1 -2.3 anthranilate synthase component I (NCBI) compare
b2501 ppk -1.1 -7.8 polyphosphate kinase (NCBI) compare
b3764 yifE -1.1 -5.7 hypothetical protein (NCBI) compare
b1358 ydaT -1.1 -1.7 Rac prophage; predicted protein (NCBI) compare
b3404 envZ -1.1 -8.0 osmolarity sensor protein (NCBI) compare
b2340 sixA -1.1 -3.9 phosphohistidine phosphatase (NCBI) compare
b1332 ynaJ -1.1 -1.2 predicted inner membrane protein (NCBI) compare
b2752 cysD -1.1 -4.4 sulfate adenylyltransferase subunit 2 (NCBI) compare
b2751 cysN -1.0 -5.9 sulfate adenylyltransferase subunit 1 (NCBI) compare
b3792 wzxE -1.0 -6.9 O-antigen translocase (NCBI) compare
b0078 ilvH -1.0 -6.9 acetolactate synthase small subunit (NCBI) compare
b0438 clpX -1.0 -5.9 ATP-dependent protease ATP-binding subunit (NCBI) compare
b3816 corA -1.0 -7.7 magnesium/nickel/cobalt transporter (NCBI) compare
b3784 rfe -1.0 -8.7 UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase (NCBI) compare
b4375 prfC -1.0 -3.8 peptide chain release factor 3 (NCBI) compare
b1130 phoP -1.0 -1.7 DNA-binding response regulator in two-component regulatory system with PhoQ (NCBI) compare
b1263 trpD -1.0 -1.7 bifunctional indole-3-glycerol-phosphate synthase/anthranilate phosphoribosyltransferase (NCBI) compare
b3839 tatC -1.0 -6.0 TatABCE protein translocation system subunit (NCBI) compare
b3649 rpoZ -1.0 -3.9 DNA-directed RNA polymerase subunit omega (NCBI) compare
b0641 rlpB -1.0 -2.0 minor lipoprotein (NCBI) compare
b0222 lpcA -0.9 -2.5 phosphoheptose isomerase (NCBI) compare
b1863 ruvC -0.9 -2.2 Holliday junction resolvase (NCBI) compare
b2846 yqeH -0.9 -0.8 orf, hypothetical protein (VIMSS) compare
b3811 xerC -0.9 -2.0 site-specific tyrosine recombinase XerC (NCBI) compare
b0075 leuL -0.9 -3.4 leu operon leader peptide (NCBI) compare
b4535 yniD -0.9 -1.5 predicted protein (RefSeq) compare
b3791 rffA -0.9 -6.5 TDP-4-oxo-6-deoxy-D-glucose transaminase (NCBI) compare
b4234 yjgA -0.9 -3.9 hypothetical protein (NCBI) compare
b3828 metR -0.9 -5.9 DNA-binding transcriptional activator, homocysteine-binding (NCBI) compare
b3082 ygjM -0.9 -2.0 predicted DNA-binding transcriptional regulator (NCBI) compare
b2820 recB -0.9 -0.8 exonuclease V (RecBCD complex), beta subunit (NCBI) compare
b4178 yjeB -0.9 -4.7 predicted DNA-binding transcriptional regulator (NCBI) compare
b4481 rffT -0.9 -5.8 4-alpha-L-fucosyltransferase (NCBI) compare
b2567 rnc -0.9 -0.9 ribonuclease III (NCBI) compare
b1101 ptsG -0.9 -6.7 fused glucose-specific PTS enzymes: IIB component/IIC component (NCBI) compare
b3008 metC -0.9 -6.4 cystathionine beta-lyase (NCBI) compare
b3388 damX -0.9 -7.1 hypothetical protein (NCBI) compare
b1348 lar -0.9 -2.3 Rac prophage; restriction alleviation protein (NCBI) compare
b1048 mdoG -0.9 -4.7 glucan biosynthesis protein, periplasmic (NCBI) compare
b3787 rffD -0.8 -6.7 UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase (NCBI) compare
b3786 rffE -0.8 -6.9 UDP-N-acetyl glucosamine-2-epimerase (NCBI) compare
b4702 mgtL -0.8 -1.7 regulatory leader peptide for mgtA (NCBI) compare
b4146 yjeK -0.8 -2.0 predicted lysine aminomutase (NCBI) compare
b3794 rffM -0.8 -6.0 putative UDP-N-acetyl-D-mannosaminuronic acid transferase (NCBI) compare
b1753 ynjA -0.8 -1.5 hypothetical protein (NCBI) compare
b0767 ybhE -0.8 -3.5 6-phosphogluconolactonase (NCBI) compare
b4701 sokX -0.8 -0.9 sok-related sRNA, function unknown (RefSeq) compare
b2642 yfjW -0.8 -1.2 CP4-57 prophage; predicted inner membrane protein (NCBI) compare
b4239 treC -0.8 -1.9 trehalose-6-P hydrolase (NCBI) compare
b2363 yfdT -0.8 -2.2 CPS-53 (KpLE1) prophage; predicted protein (NCBI) compare
b1286 rnb -0.8 -1.9 exoribonuclease II (NCBI) compare
b2531 iscR -0.8 -1.8 DNA-binding transcriptional repressor (NCBI) compare
b1049 mdoH -0.7 -5.3 glucosyltransferase MdoH (NCBI) compare
b1600 mdtJ -0.7 -1.4 multidrug efflux system transporter (NCBI) compare
b3026 qseC -0.7 -3.5 sensory histidine kinase in two-component regulatory system with QseB (NCBI) compare
b3728 pstS -0.7 -2.5 phosphate transporter subunit (NCBI) compare
b1129 phoQ -0.7 -1.3 sensory histidine kinase in two-compoent regulatory system with PhoP (NCBI) compare
b3790 rffC -0.7 -3.7 TDP-fucosamine acetyltransferase (RefSeq) compare
b0388 aroL -0.7 -3.2 shikimate kinase II (NCBI) compare
b1235 rssB -0.7 -4.2 response regulator of RpoS (NCBI) compare
b3052 rfaE -0.7 -3.4 fused heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase (NCBI) compare
b1575 dicB -0.7 -1.2 Qin prophage; cell division inhibition protein (NCBI) compare
b3465 yhhF -0.7 -4.7 predicted methyltransferase (NCBI) compare


Specific Phenotypes

None in this experiment

For Escherichia coli BW25113 in supernatant experiments

For supernatant Supernatant; Trichoderma harzianum M10 and Trichoderma harzanium TH1 and Trichoderma harzianum M10 grown as spores in 0.5x MS_media_noCarbon with Brachypodium distachyon roots for 27 days across organisms