Comparative genomic and functional analysis reveal conservation of plant growth promoting traits in Paenibacillus polymyxa and its closely related species

• DOI: 10.1038/srep21329
• Publication Date: 2016-02-09T11:07:51Z
• Authors: Jianbo Xie; Haowen Shi; Zhenglin Du; Tianshu Wang; Xiaomeng Liu; Sanfeng Chen
• Keywords: Paenibacillus polymyxa; Paenibacillus; Nucleotide diversity

Abstract Paenibacillus polymyxa has widely been studied as a model of plant-growth promoting rhizobacteria (PGPR). Here, the genome sequences 9 P. strains, together with 26 other sequenced spp., were comparatively studied. Phylogenetic analysis concatenated 244 single-copy core genes suggests that strains and 5 isolated from diverse geographic regions ecological niches, formed closely related clade (here it is called Poly-clade). Analysis single nucleotide polymorphisms (SNPs) reveals local diversification 14 Poly-clade genomes. SNPs not evenly distributed throughout genomes high SNP density contain to secondary metabolism, including coding for polyketide. Recombination played an important role in genetic diversity this clade, although rate recombination was clearly lower than mutation. Some relevant traits, i.e. phosphate solubilization IAA production, are well conserved, while some nitrogen fixation antibiotics synthesis evolved Poly-clade. This study both its species have plant growth traits they great potential uses agriculture horticulture PGPR.