Discovery and distribution of natural product biosynthesis pathways in the marine actinomycetes Salinispora

海洋放线菌 Salinispora 中天然产物生物合成途径的发现和分布

• 批准号: 190974300
• 负责人: Professorin Dr. Nadine Ziemert
• 金额: --
• 依托单位: Scripps Institution of Oceanography
• 依托单位国家: 德国
• 项目类别: Research Fellowships
• 财政年份: 2010
• 资助国家: 德国
• 起止时间: 2009-12-31 至 2012-12-31
• 项目状态: 已结题
• 来源: https://gepris.dfg.de/gepris/projekt/190974300?language=en
• 关键词: Discovery; distribution; natural; product; biosynthesis

Genome mining and various bioinformatic techniques have broadened traditional screening approaches and become important tools for the discovery of new natural products. We are developing a genome mining approach that can be used to predict secondary metabolite production based on short (ca. 600 bp) fragments of the appropriate biosynthetic genes as opposed to the analysis of complete biosynthetic gene clusters, which can exceed 100 kb. This method is being applied to four unassembled Salinispora genome sequences including two strains of the new species “S. pacifica”. Salinospora species are a prolific source of structurally diverse secondary metabolites including polyketides, nonribosomal peptides and PKS/NRPS hybrids. Phylogenetic analyses of conserved domains responsible for amino acid condensation in nonribosomal peptide synthetases and acyl condensation in polyketide synthases are performed not only to assess the type and number of biosynthetic pathways in four genome sequences but also to infer evolutionary and biogeographical patterns of secondary metabolites in Salinospora species. The project intends to develop a fast and easy to use tool to predict the potent novelty of biosynthetic gene clusters in unassembled sequence data and facilitate the discovery of new compounds.

基因组挖掘和各种生物信息技术拓宽了传统的筛选方法，成为发现新天然产物的重要工具。我们正在开发一种基因组挖掘方法，该方法可用于基于适当生物合成基因的短片段（约 600 bp）来预测次级代谢产物的产生，而不是分析完整的生物合成基因簇（可能超过 100 kb）。该方法正应用于四个未组装的盐孢菌基因组序列，包括新物种“S. pacifica”的两个菌株。盐孢菌属是结构多样的次生代谢物的丰富来源，包括聚酮化合物、非核糖体肽和 PKS/NRPS 杂合体。对负责非核糖体肽合成酶中的氨基酸缩合和聚酮合酶中的酰基缩合的保守结构域进行系统发育分析，不仅可以评估四个基因组序列中生物合成途径的类型和数量，还可以推断盐孢菌属次生代谢物的进化和生物地理学模式。该项目打算开发一种快速且易于使用的工具来预测未组装序列数据中生物合成基因簇的潜在新颖性，并促进新化合物的发现。