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

我们收集了古细菌基因组公共数据库，并利用这笔资金购买的工作站进行了计算要求高的分析，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。我们还执行了基于马尔可夫聚类的迭代方法，将所有古菌基因序列聚类到同源群中。对每个聚类的功能一致性进行评估表明，与已知函数相关的大多数聚类不包括其他函数的同源物，这表明该方法（在一定程度上）是成功的。

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).