Whole-genome sequencing and comparative analysis of two plant-associated strains of Rhodopseudomonas palustris (PS3 and YSC3)

Scientific Reports
Kai-Jiun LoChi-Te Liu

Abstract

Rhodopseudomonas palustris strains PS3 and YSC3 are purple non-sulfur phototrophic bacteria isolated from Taiwanese paddy soils. PS3 has beneficial effects on plant growth and enhances the uptake efficiency of applied fertilizer nutrients. In contrast, YSC3 has no significant effect on plant growth. The genomic structures of PS3 and YSC3 are similar; each contains one circular chromosome that is 5,269,926 or 5,371,816 bp in size, with 4,799 or 4,907 protein-coding genes, respectively. In this study, a large class of genes involved in chemotaxis and motility was identified in both strains, and genes associated with plant growth promotion, such as nitrogen fixation-, IAA synthesis- and ACC deamination-associated genes, were also identified. We noticed that the growth rate, the amount of biofilm formation, and the relative expression levels of several chemotaxis-associated genes were significantly higher for PS3 than for YSC3 upon treatment with root exudates. These results indicate that PS3 responds better to the presence of plant hosts, which may contribute to the successful interactions of PS3 with plant hosts. Moreover, these findings indicate that the existence of gene clusters associated with plant growth promotion is requir...Continue Reading

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Citations

Mar 22, 2020·Functional & Integrative Genomics·Nicolás D Franco-SierraJavier C Álvarez
Mar 16, 2019·Environmental Science & Technology·Hasina AfrozCaroline Meharg

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Datasets Mentioned

BETA
CP019966

Methods Mentioned

BETA
environmental stress
electrophoresis
whole-genome shotgun sequencing
PCR

Software Mentioned

OrthoMC
ClustalW
CIRCOS
Trimmomatic
PATRIC
BLAST
SMRT
OrthoMCL
Zisland Explorer
BlastKOALA

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