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Table 2 Genes involved in plant-bacteria interactions in FZB42

From: Stimulation of plant growth and biocontrol by Bacillus amyloliquefaciens subsp. plantarum FZB42 engineered for improved action

Accession Gene Function
Synthesis of IAA (Idris et al. [24])
RBAM_020800 trpBA Tryptophan synthase subunits A and B, plant growth promotion
RBAM_020840 trpED Anthranilate synthase, transferase, plant growth promotion
RBAM_035380 ysnE Putative IAA acetyl transferase, plant growth promotion
Transposon mutagenesis (Budiharjo et al. [11])
RBAM_032640 degU Two-component response regulator, swarming, biofilm formation, root colonization
RBAM_030060 yusV Putative iron (III) ABC transport ATPase, biofilm formation, root colonization
RBAM_035360 nfrA NADPH-flavin oxidoreductase, root colonization, plant growth promotion
RBAM017410   61 aa protein, plant growth promotion
Transcriptome, enhanced in presence of root exudate (Fan et al. [20])
RBAM_016150 fliM Flagellar motor switch protein FliM, motility and chemotaxis
RBAM_016190 fliP Flagellar biosynthetic protein FliP, motility and chemotaxis
RBAM_016290 cheC Chemotaxis protein CheC, motility and chemotaxis
RBAM_032580 flgM Negative regulator of flagellin synthesis, motility and chemotaxis
RBAM_032510 hag Flagellin; involved in elicitation of plant basal defense, motility and chemotaxis
RBAM_027680 luxS S-ribosylhomocysteine lyase LuxS, biofilm formation
RBAM_016860 ymcA Control of community development, biofilm formation
RBAM_031630 epsE Putative exopolysaccharide biosynthesis protein, biofilm formation
RBAM_001610 secY Preprotein translocase subunit SecY, sec-dependent protein export
RBAM_001250 secE Preprotein translocase subunit, sec-dependent protein export
RBAM_002940 tatA sec-independent protein translocase protein TatAD
RBAM_002950 tatC sec-independent protein translocase protein TatCD
RBAM_026150 phoP Two-component response regulator, global regulation of the pho regulon
RBAM_008360 glvA Maltose-6′-phosphate glucosidase GlvA, maltose metabolism
RBAM_008380 glvC Phosphotransferase system (PTS) maltose-specific enzyme IICB
RBAM_008370 glvR HTH-type transcriptional regulator GlvR, maltose operon
RBAM_035460 galK Galactokinase GalK, galactose metabolism
RBAM_028430 pgi Glucose-6-phosphate isomerase Pgi, carbon core metabolism
RBAM_006560 ydjE Fructokinase homologue YdjE, carbon core metabolism
RBAM_026060 gapB Glyceraldehyde-3-phosphate dehydrogenase, carbon core metabolism
RBAM_031290 pgk Phosphoglycerate kinase, carbon core metabolism, gluconeogenesis
RBAM_031270 pgm2 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase Pgm
RBAM_008330 acoL Acetoin dehydrogenase E3 (dihydrolipoamide dehydrogenase) AcoL
RBAM_014440 pdhC Pyruvate dehydrogenase E2 (dihydrolipoamide acetyltransferase) PdhC
RBAM_026180 citZ Citrate synthase II CitZ, carbon core metabolism, TCA cycle
RBAM_017800 citB Aconitate hydratase CitB, carbon core metabolism, TCA cycle
RBAM_019120 odhB Succinyltransferase of 2-oxoglutarate dehydrogenase complex
RBAM_015920 sucC Succinyl-CoA synthetase (beta subunit), carbon core metabolism, TCA
RBAM_025500 sdhB Succinate dehydrogenase (iron-sulfur protein), carbon core metabolism
RBAM_026160 mdh Malate dehydrogenase Mdh, carbon core metabolism, TCA cycle
RBAM_035770 licA PTS lichenan-specific enzyme IIA
RBAM_035760 licH 6-Phospho-beta-glucosidase, utilization of lichenan
RBAM_036780 iolA Methylmalonate-semialdehyde dehydrogenase, utilization of inositol
RBAM_036770 iolB Inositol utilization protein B (IolB)
RBAM_036760 iolC Inositol utilization protein C (IolC)
RBAM_036750 iolD Inositol utilization protein D (IolD)
RBAM_036740 iolE Inositol utilization protein E (IolE)
RBAM_036730 iolF Inositol transport protein IolF
RBAM_036720 iolG Myo-inositol 2-dehydrogenase IolG
RBAM_036700 iolI Inositol utilization protein I (IolI)
RBAM_036800 iolS Inositol utilization protein S (IolS)
RBAM_006650 bdhA Acetoin reductase/butanediol dehydrogenase, synthesis of volatiles
RBAM_011430 oppA Oligopeptide ABC transporter (binding protein) OppA
RBAM_011460 oppD Oligopeptide ABC transporter (ATP-binding protein) OppD
RBAM_011470 oppF Oligopeptide ABC transporter (ATP-binding protein) OppF
RBAM_015410 cysP Sulfate permease CysP
RBAM_016930 baeE Malonyl-CoA-[acyl-carrier protein] transacylase (AT) BaeE
RBAM_016970 baeI Enoyl-CoA-hydratase BaeI, synthesis of bacillaene
RBAM_016990 baeL Modular polyketide synthase BaeL, synthesis of bacillaene
RBAM_017010 baeN Hybrid NRPS/PKS BaeN, synthesis of bacillaene
RBAM_017020 baeR Modular polyketide synthase BaeR, synthesis of bacillaene
RBAM_022010 dfnF Modular polyketide synthase of type I DfnF, synthesis of difficidin
RBAM_022000 dfnG Modular polyketide synthase of type I DfnG, synthesis of difficidin
RBAM_021980 dfnI Modular polyketide synthase of type I DfnI, synthesis of difficidin
RBAM_021970 dfnJ Modular polyketide synthase of type I DfnJ, synthesis of difficidin
RBAM_014400 mlnH Polyketide synthase of type I MlnH, synthesis of macrolactin
RBAM_018420 fenE Fengycin synthetase FenE, synthesis of fengycin
RBAM_003680 srfAC Surfactin synthetase C SrfAC, synthesis of surfactin
RBAM_003690 srfAD Surfactin synthetase D SrfAD, synthesis of surfactin
Secretome enhanced in the presence of root exudate (Kierul, unpublished)
RBAM_032500 fliD Flagellin HAP2; involved in elicitation of plant basal defense, motility
RBAM_032510 hag Flagellin; involved in elicitation of plant basal defense, motility and chemotaxis
RBAM_026420 tpx Thiol peroxidase, resistance against oxidative stress
RBAM_020470 ponA Bifunctional glucosyltransferase/transpeptidase, membrane protein
RBAM_011380 appA Oligopeptide ABC transporter (binding protein)
RBAM_011430 oppA Oligopeptide ABC transporter (binding protein)
RBAM_023290 pstS Phosphate ABC transporter (binding protein)
RBAM_022520 yqiG NADH-dependent flavin oxidoreductase
RBAM_026160 mdh Malate dehydrogenase Mdh, carbon core metabolism, TCA cycle
RBAM_033170 alsS Acetolactate synthase, synthesis of 2,3-butanediol, plant growth promotion, elicitation of plant ISR
RBAM_025870 abnA Arabinan-endo 1,5-alpha-l-arabinase, utilization of arabinan
RBAM_017540 chbA Putative chitin-binding protein, utilization of chitin/chitosan
RBAM_018140 xynC Endo-1,4-beta-xylanase, utilization of xylan
RBAM_035930 gmuG Endo-beta-1,4-mannanase, utilization of glucomannan
  1. Data were compiled from Idris et al. (2007), Fan et al. [20], Budiharjo et al. [11], and Kierul et al. (in preparation). Genes involved in plant-bacteria interactions in FZB42. The genes detected in both transcriptome and secretome analysis are in bold.