| 引用本文: | 房耀维,刘 姝,王淑军,吕明生,焦豫良,陈国强,潘建梅,牛 军.海洋稀有放线菌Salinispora arenicola CNP193 基因组新颖PKS 和NRPS 基因簇的发掘[J].海洋科学,2014,38(12):48-57. |
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| 摘要: |
| 利用基因组发掘技术, 从海洋稀有放线菌Salinispora arenicola CNP193 基因组序列中发掘新颖PKS 和NRPS 基因簇, 并初步预测基因簇对应产物, 为新颖聚酮化合物的发现, 基因簇的异源表达和利用组合生物合成技术对化合物结构进行改造提供信息。在利用antiSMASH 对S. arenicola CNS 205和S. arenicola CNP193 次级代谢产物基因簇进行预测, 并经过NRPS-PKS knowledgebase 验证的基础上,以S. arenicola CNS 205 基因簇为对照, 初步选择新颖基因簇; 进一步用NCBI Blast 和NapDos 分析判断基因簇的新颖性后获得3 个新颖基因簇: 基因簇7, 基因簇10 和基因簇20。结合antiSMASH 对基因簇核心结构的预测和与已知功能同源性基因簇, NCBI Blast 比对的同源序列, 以及NapDos 对个基因簇中KS domain 和C domain 的进化分析等信息, 初步表明基因簇7 和基因簇20 的对应产物分别为烯二炔类和有半胱氨酸及其他氨基酸参与合成的肽类化合物。由于基因簇10 得到的信息较少, 不能预测其代谢产物。 |
| 关键词: 基因簇发掘 新颖PKS 基因簇 新颖NRPS 基因簇 产物预测 |
| DOI：10.11759/hykx20131113001 |
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| 基金项目:中央财政支持地方高校发展专项资金资助项目 (CXTD13);江苏省自然科学基金项目 (BK20141249); 江苏省高校自然科学研究项目 (13KJB550003); 江苏省2014 年度青蓝工程项目第48 批“留学回国人员”科研启动基金 |
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| Mining Salinispora arenicola CNP193 genome for novel PKS and NRPS gene clusters |
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| Abstract: |
| Novel polyketide synthases (PKS) and non-ribosomal peptide synthetases (NRPS) gene clusters were mined from the genome of the obligate marine actinomycete strain Salinispora arenicola CNP193 through bioinformatics analysis. The metabolic products of the gene clusters were predicted based on the bioinformatics analysis, which would lay an experimental base for discovery of novel polyketides, heterologous expression of the gene clusters, and modification of the product through combinatorial biosynthesis. The genome sequences of S. arenicola CNP193 and S. arenicola CNS 205 were scanned for potential PKS and NRPS modular clusters with antiSMASH and NRPS-PKS knowledgebase. The potential novel PKS and NRPS gene clusters from the chromosome of the S. arenicola CNP193 were selected with that of the S. arenicola CNS 193 as control. Three novel PKS and NRPS gene clusters, named gene cluster 7, gene cluster 10, and gene cluster 20, were selected after analyzed by NCBI Blast and NapDos. The products of the gene clusters were predicted by combination all the hints from the analysis results of antiSMASH, NCBI Blast, and NapDos. The metabolic products of gene cluster 7 and gene cluster 20 would be enediyne and peptide respectively, and cysteine was one of the amino acid compositions of the peptide. However, the metabolic product of gene cluster 20 couldn’t be predicted based on the information acquired. |
| Key words: Genome mining novel PKS gene cluster novel NRPS gene cluster prediction of metabolic product |
