植物促生根际细菌成团泛菌 P5 的全基因组分析。

Comprehensive genomic analysis of a plant growth-promoting rhizobacterium Pantoea agglomerans strain P5.

机构信息

Plant Molecular Biotechnology Department, National Institute of Genetic Engineering and Biotechnology, Tehran, Iran.

NIGEB Genome Center, National Institute of Genetic Engineering and Biotechnology, Tehran, Iran.

出版信息

Sci Rep. 2017 Nov 15;7(1):15610. doi: 10.1038/s41598-017-15820-9.

In this study, we provide a comparative genomic analysis of Pantoea agglomerans strain P5 and 10 closely related strains based on phylogenetic analyses. A next-generation shotgun strategy was implemented using the Illumina HiSeq 2500 technology followed by core- and pan-genome analysis. The genome of P. agglomerans strain P5 contains an assembly size of 5082485 bp with 55.4% G + C content. P. agglomerans consists of 2981 core and 3159 accessory genes for Coding DNA Sequences (CDSs) based on the pan-genome analysis. Strain P5 can be grouped closely with strains PG734 and 299 R using pan and core genes, respectively. All the predicted and annotated gene sequences were allocated to KEGG pathways. Accordingly, genes involved in plant growth-promoting (PGP) ability, including phosphate solubilization, IAA and siderophore production, acetoin and 2,3-butanediol synthesis and bacterial secretion, were assigned. This study provides an in-depth view of the PGP characteristics of strain P5, highlighting its potential use in agriculture as a biofertilizer.

在这项研究中，我们基于系统发育分析，对聚生泛菌菌株 P5 及其 10 株亲缘关系密切的菌株进行了比较基因组分析。我们采用 Illumina HiSeq 2500 技术实施了新一代鸟枪法测序策略，随后进行了核心基因组和泛基因组分析。聚生泛菌菌株 P5 的基因组大小为 5082485 bp，GC 含量为 55.4%。根据泛基因组分析，聚生泛菌包含 2981 个核心基因和 3159 个辅助基因用于编码 DNA 序列（CDS）。菌株 P5 可以分别使用泛基因组和核心基因与 PG734 和 299R 菌株紧密聚类。所有预测和注释的基因序列都被分配到 KEGG 途径中。因此，与植物促生（PGP）能力相关的基因，包括磷酸盐溶解、IAA 和铁载体生产、乙酰醇和 2,3-丁二醇合成以及细菌分泌等，都被确定下来。这项研究深入了解了菌株 P5 的 PGP 特性，突出了其作为生物肥料在农业中的潜在用途。