Target identification and functional analysis of regulatory small RNAs in Sinorhizobium meliloti and related alpha-proteobacteria

苜蓿中华根瘤菌及相关α-变形菌中调节性小RNA的靶标鉴定和功能分析

• 批准号: 40014398
• 负责人: Professorin Dr. Anke Becker
• 金额: --
• 依托单位: Zentrum für Synthetische Mikrobiologie (SYNMIKRO)
• 依托单位国家: 德国
• 项目类别: Priority Programmes
• 财政年份: 2007
• 资助国家: 德国
• 起止时间: 2006-12-31 至 2013-12-31
• 项目状态: 已结题
• 来源: https://gepris.dfg.de/gepris/projekt/40014398?language=en
• 关键词: Target; identification; functional; analysis; regulatory

We have identified more than 400 candidates for small, non-coding RNAs in S. meliloti, transcribed under varying conditions, using deep sequencing, microarrays, Affymetrics chips, and bioinformatics analysis. The second phase of the project will focus on 212 trans-encoded sRNA candidates and seek for interactions partners of these candidates with experimental and bioinformatics methods. It will study in detail candidates involved in symbiosis and quorum sensing, and use comparative bioinformatics tools to transfer knowledge about confirmed functional ncRNAs to the group of alpha-proteobacteria. On the experimental side this will include techniques such as expression profiling at transcript and protein level, as well as analysis of sRNA overexpression and mutant strains. We will also further functionally study sRNA-mRNA target interactions of selected trans-encoded sRNA candidates. This includes mutational and structural analyses. On the bioinformatics side, new methods for comparative analysis of sRNAs based on a conserved secondary structure, but possibly lacking sequence conservation, will be developed.

我们已经鉴定了400多个小的非编码RNA的候选人在S。在不同条件下转录，使用深度测序，微阵列，Affymetrics芯片和生物信息学分析。该项目的第二阶段将重点关注212个反式编码的sRNA候选物，并通过实验和生物信息学方法寻找这些候选物的相互作用伙伴。它将详细研究参与共生和群体感应的候选人，并使用比较生物信息学工具将有关确认的功能性ncRNA的知识转移到α-变形菌群。在实验方面，这将包括技术，如在转录和蛋白质水平的表达谱，以及sRNA过表达和突变株的分析。我们还将进一步从功能上研究选定的反式编码sRNA候选物的sRNA-mRNA靶相互作用。这包括突变和结构分析。在生物信息学方面，将开发基于保守二级结构但可能缺乏序列保守性的sRNAs比较分析的新方法。