Deciphering the conserved genetic loci implicated in plant disease control through comparative genomics of Bacillus amyloliquefaciens subsp. plantarum

Frontiers in Plant Science
Mohammad J HossainMark R Liles

Abstract

To understand the growth-promoting and disease-inhibiting activities of plant growth-promoting rhizobacteria (PGPR) strains, the genomes of 12 Bacillus subtilis group strains with PGPR activity were sequenced and analyzed. These B. subtilis strains exhibited high genomic diversity, whereas the genomes of B. amyloliquefaciens strains (a member of the B. subtilis group) are highly conserved. A pairwise BLASTp matrix revealed that gene family similarity among Bacillus genomes ranges from 32 to 90%, with 2839 genes within the core genome of B. amyloliquefaciens subsp. plantarum. Comparative genomic analyses of B. amyloliquefaciens strains identified genes that are linked with biological control and colonization of roots and/or leaves, including 73 genes uniquely associated with subsp. plantarum strains that have predicted functions related to signaling, transportation, secondary metabolite production, and carbon source utilization. Although B. amyloliquefaciens subsp. plantarum strains contain gene clusters that encode many different secondary metabolites, only polyketide biosynthetic clusters that encode difficidin and macrolactin are conserved within this subspecies. To evaluate their role in plant pathogen biocontrol, genes invo...Continue Reading

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Citations

Dec 24, 2015·Frontiers in Microbiology·Liming WuRainer Borriss
Oct 3, 2015·Genome Announcements·Haeyoung JeongSoo-Keun Choi
Oct 14, 2017·Genome Announcements·Michelle M GerstAhmed E Yousef
May 18, 2020·Environmental Science and Pollution Research International·Dorra Ben AbdallahOlfa Frikha-Gargouri
Oct 12, 2018·Cell Host & Microbe·Asaf LevyTanja Woyke
Jul 22, 2020·Combinatorial Chemistry & High Throughput Screening·Bhimanagoud KumbarRiaz Mahmood

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Methods Mentioned

BETA
454 sequencing
PCR
genetic modifications

Software Mentioned

CLC Genomics Workbench
GeneMark
BLASTx
ANI
BLAST
SAS
BLASTn
MEGA5
Mauve
antiSMASH

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