| 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 |
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| 引用本文： | 杨慧林,张志斌,颜日明,汪涯,朱笃.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[J].微生物学通报,2015,42(4):801-809. |
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| 作者姓名： | 杨慧林 张志斌 颜日明 汪涯 朱笃 |
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| 作者单位： | 1. 江西师范大学生命科学学院 江西省亚热带植物资源保护与利用重点实验室 江西 南昌 330022；2. 江西科技师范大学 江西省生物加工过程重点实验室 江西 南昌 330013,1. 江西师范大学生命科学学院 江西省亚热带植物资源保护与利用重点实验室 江西 南昌 330022,1. 江西师范大学生命科学学院 江西省亚热带植物资源保护与利用重点实验室 江西 南昌 330022,2. 江西科技师范大学 江西省生物加工过程重点实验室 江西 南昌 330013,1. 江西师范大学生命科学学院 江西省亚热带植物资源保护与利用重点实验室 江西 南昌 330022；2. 江西科技师范大学 江西省生物加工过程重点实验室 江西 南昌 330013 |
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| 基金项目： | 国家“十二五”科技支撑计划项目(No. 2011BAC13B04)；国家自然科学基金项目(No. 31260137)；江西省青年科学基金项目(No. 20132BAB214006)；江西省教育厅基金项目(No. GJJ13211, GJJ14250) |
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| 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。
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| 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 |
Whole-genome sequencing and analysis of an endophytic actinomycete Streptomyces sp. PRh5 from Dongxiang wild rice |
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| YANG Hui-Lin,ZHANG Zhi-Bin,YAN Ri-Ming,WANG Ya and ZHU Du.Whole-genome sequencing and analysis of an endophytic actinomycete Streptomyces sp. PRh5 from Dongxiang wild rice[J].Microbiology,2015,42(4):801-809. |
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| Authors: | YANG Hui-Lin ZHANG Zhi-Bin YAN Ri-Ming WANG Ya and ZHU Du |
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| Institution: | 1. Jiangxi Normal University, College of Life Sciences, Key Laboratory of Protection and Utilizationof Subtropic Plant Resources, Nanchang, Jiangxi 330022, China; 2. Jiangxi Science & Technology Normal University, Jiangxi Key Laboratory of Bioprocess, Nanchang, Jiangxi 330013, China,1. Jiangxi Normal University, College of Life Sciences, Key Laboratory of Protection and Utilizationof Subtropic Plant Resources, Nanchang, Jiangxi 330022, China,1. Jiangxi Normal University, College of Life Sciences, Key Laboratory of Protection and Utilizationof Subtropic Plant Resources, Nanchang, Jiangxi 330022, China,2. Jiangxi Science & Technology Normal University, Jiangxi Key Laboratory of Bioprocess, Nanchang, Jiangxi 330013, China and 1. Jiangxi Normal University, College of Life Sciences, Key Laboratory of Protection and Utilizationof Subtropic Plant Resources, Nanchang, Jiangxi 330022, China; 2. Jiangxi Science & Technology Normal University, Jiangxi Key Laboratory of Bioprocess, Nanchang, Jiangxi 330013, China |
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| 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. |
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| Keywords: | Oryza rufipogon Endophytic actinomycete Antimicrobial activity Whole-genome sequencing Biosynthetic gene cluster |
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