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

Qiao, Jun-Qing; Wu, Hui-Jun; Huo, Rong; Gao, Xue-Wen; Borriss, Rainer

doi:10.1186/s40538-014-0012-2

Chemical and Biological Technologies in Agriculture

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

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.

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