Archaea gene cataloguing-based reconstruction of evolution from simple to complex cells

基于古细菌基因编目重建从简单细胞到复杂细胞的进化

• 批准号: 22KF0418
• 负责人: 延 優
• 金额: $ 1.41万
• 依托单位: Japan Agency for Marine-Earth Science and Technology (2023)National Institute of Advanced Industrial Science and Technology (2022)
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for JSPS Fellows
• 财政年份: 2023
• 资助国家: 日本
• 起止时间: 2023-03-08 至 2025-03-31
• 项目状态: 未结题
• 来源: https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-22KF0418/
• 关键词: Bioinformatics; Archaea; Genes

We collected archaeal genomes public databases and, with the workstation purchased using this funding, performed computationally demanding analyses, such as gene function annotation, species pangenome construction, prediction of protein families/superfamilies, and homology analyses. We also performed iterative Markov-clustering-based approaches to cluster all archaeal gene sequences into homologous groups. Evaluating the functional consistency in each cluster showed that most clusters associated with known functions do not include homologs of other function, indicating success of the approach (to a certain degree).

我们收集了古细菌基因组公共数据库，并使用这笔资金购买的工作站进行了计算要求很高的分析，如基因功能注释，物种泛基因组构建，蛋白质家族/超家族预测和同源性分析。我们还进行了迭代马尔可夫聚类为基础的方法聚类所有古细菌基因序列成同源组。评估每个聚类中的功能一致性表明，与已知功能相关的大多数聚类不包括其他功能的同源物，这表明该方法（在一定程度上）是成功的。