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A standardized workflow for submitting data to the Minimum Information about a Biosynthetic Gene cluster (MIBiG) repository: prospects for research-based educational experiences
Environmental Microbiome ( IF 7.9 ) Pub Date : 2018-07-11 , DOI: 10.1186/s40793-018-0318-y
Samuel C. Epstein , Louise K. Charkoudian , Marnix H. Medema

Microorganisms utilize complex enzymatic pathways to biosynthesize structurally complex and pharmacologically relevant molecules. These pathways are encoded by gene clusters and are found in a diverse set of organisms. The Minimum Information about a Biosynthetic Gene cluster repository facilitates standardized and centralized storage of experimental data on these gene clusters and their molecular products, by utilizing user-submitted data to translate scientific discoveries into a format that can be analyzed computationally. This accelerates the processes of connecting genes to chemical structures, understanding biosynthetic gene clusters in the context of environmental diversity, and performing computer-assisted design of synthetic gene clusters. Here, we present a Standard Operating Procedure, Excel templates, a tutorial video, and a collection of relevant review literature to support scientists in their efforts to submit data into MiBIG. Further, we provide tools to integrate gene cluster annotation projects into the classroom environment, including workflows and assessment materials.

中文翻译:

用于向有关生物合成基因簇(MIBiG)信息库的最低信息提交数据的标准化工作流:基于研究的教育经验的前景

微生物利用复杂的酶促途径生物合成结构复杂和药理相关的分子。这些途径由基因簇编码,存在于多种生物中。通过利用用户提交的数据将科学发现转化为可计算分析的格式,有关生物合成基因簇储存库的最低信息可促进这些基因簇及其分子产物上实验数据的标准化和集中存储。这加快了将基因连接到化学结构,在环境多样性的背景下理解生物合成基因簇以及执行计算机辅助设计合成基因簇的过程。在这里,我们介绍了标准操作程序,Excel模板,教程视频,以及一系列相关的评论文献,以支持科学家努力将数据提交到MiBIG。此外,我们提供了将基因簇注释项目集成到教室环境中的工具,包括工作流程和评估材料。
更新日期:2018-07-11
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