东乡野生稻内生放线菌Streptomyces sp. PRh5的全基因组测序及序列分析

Whole-genome sequencing and analysis of an endophytic actinomycete Streptomyces sp. PRh5 from Dongxiang wild rice

摘要:

【目的】Streptomyces sp. PRh5是从东乡野生稻(Oryza rufipogon Griff.)中分离获得的一株对细菌和真菌都具有较强抗菌活性的内生放线菌。为深入研究PRh5菌株抗菌机制及挖掘次级代谢产物基因资源，有必要解析PRh5菌株的基因组序列信息。【方法】采用高通量测序技术对PRh5菌株进行全基因组测序，然后使用相关软件对测序数据进行基因组组装、基因预测与功能注释、直系同源簇(COG)聚类分析、共线性分析及次级代谢产物合成基因簇预测等。【结果】基因组组装获得290 Contigs，整个基因组大小约11.1 Mb，GC含量为71.1%，序列已提交至GenBank数据库，登录号为JABQ00000000。同时，预测得到50个次级代谢产物合成基因簇。【结论】将为Streptomyces sp. PRh5的功能基因组学研究及相关次级代谢产物的生物合成途径与异源表达研究提供基础。

关键词:东乡野生稻，内生放线菌，抗菌活性，全基因组测序，生物合成基因簇

Abstract:

[Objective] Streptomyces sp. PRh5 is an endophytic actinomycete from Dongxiang wild rice, and shows strong antimicrobial activity in vitro. In order to further study Streptomyces sp. PRh5 antimicrobial mechanism and secondary metabolites biosynthetic gene clusters, it is necessary to decipher the strain genome. [Methods] The genome was sequenced using high-throughput sequencing, and then analyzed using relevant software for genome assembly, gene prediction and functional annotation, cluster of orthologous group (COG) cluster analysis, synteny analysis and total secondary metabolite biosynthesis gene clusters prediction. [Results] The whole genome was assembled into 290 contigs, and the genome size is about 11.1 Mb with GC content of 71.1%. This Whole Genome Shotgun project has been deposited at GenBank under the accession JABQ00000000. According to genome sequences analysis, 50 secondary metabolite biosynthetic gene clusters were predicted. [Conclusion] The results will provide genome sequences for future functional genomics, biosynthetic pathways and heterologous expression of secondary metabolites on Streptomyces sp. PRh5.

Key words:Oryza rufipogon, Endophytic actinomycete, Antimicrobial activity, Whole-genome sequencing, Biosynthetic gene cluster