海洋细菌Pseudoalteromonas sp. NJ631中NRPS基因簇及核心模件的发掘

Nonribosomal peptides synthetases gene clusters and core domain in Pseudoalteromonas sp. NJ631

摘要:

摘要:【目的】运用基因组信息发掘技术(Genome Mining)对海洋细菌Pseudoalteromonas sp．NJ631基因组中的非核糖体肽合成酶(Nonribosomal peptides synthetases，NRPSs)基因簇资源及其核心模件进行发掘分析，旨在为Pseudoalteromonas属中非核糖体肽(Nonribosomal peptides，NRPs)的发现提供理论依据和数据支持。【方法】依托第二代测序技术获得的Pseudoalteromonas sp．NJ631基因组序列草图，在分析其次生代谢产物编码基因的基础上，利用NRPS-PKS knowledgebase在线预测软件鉴定潜在的NRPSs基因簇，并对其基因组中的NRPSs核心模件腺苷酰化(Adenylation，A)结构域编码基因信息进行发掘。【结果】在NJ631 基因组序列草图中发现3个典型结构组成的NRPSs基因簇，命名为NGC1、NGC2和NGC3，分别位于scaffold6，9和11。进一步的结构域预测分析表明，3个NRPSs 基因簇均含有3个ORFs，其中NGC1编码7个NRPSs模块;NGC2和NGC3均编码6个NRPSs模块。对A结构域的信息发掘显示NJ631基因组中含有38个A结构域编码基因，特异性选择18种氨基酸底物。【结论】通过运用基因组信息发掘技术对海洋细菌Pseudoalteromonas sp．NJ631全基因组信息进行NRPSs基因簇及核心模件A结构域的发掘分析，结果提示，通常只在放线菌或真菌中发现的NRPSs基因资源也在Pseudoalteromonas属中大量存在。研究结果也为今后Pseudoalteromonas 属中非核糖体肽(Nonribosomal peptides，NRPs)的发现提供理论依据。

Abstract:

Abstract:［Objective］We studied nonribosomal peptides synthetases (NRPSs) gene clusters and the core module of NRPSs in Pseudoalteromonas sp． NJ631 using genome mining approach.［Methods］The genome of Pseudoalteromonas sp. NJ631 was constructed by the next genome sequencing (NGS) technology. We adopted an online available software called NRPSPKS knowledgebase to identify potential NRPSs gene clusters within genes involved in the biosynthesis of secondary metabolite of Pseudoalteromonas sp. NJ631. The genes encoding adenylation(A) domains，the core module of NRPSs，were collected and analyzed using genome mining method.［Results］We identified three typical NRPS gene clusters comprising three ORFs which encode six continuous modular NRPSs. The result of genome mining indicates that genome of Pseudoalteromonas sp. NJ631 contains 38 A domain genes which show 60% similarity below to their closest relatives. The substrate of these A domains was predicted to specifically bind 18 types of amino acids using the specificity-conferring selection rule.［Conclusion］This is the first reported on the systematic screening and analysis of NRPSs gene clusters and A domains in genus Pseudoalteromonas，suggesting that the genus Pseudoalteromonas possesses a vast array of secondary metabolite biosynthesis genes that were previously found mostly in actinomycetes and fungi. The information on secondary metabolite genes from Pseudoalteromonas sp. NJ631 will facilitate us to isolate novel nonribosomal peptides.