Zol and fai: large-scale targeted detection and evolutionary investigation of gene clusters.

ABSTRACT: Many universally and conditionally important genes are genomically aggregated within clusters. Here, we introduce fai and zol, which together enable large-scale comparative analysis of different types of gene clusters and mobile-genetic elements, such as biosynthetic gene clusters (BGCs) or viruses. Fundamentally, they overcome a current bottleneck to reliably perform comprehensive orthology inference at large scale across broad taxonomic contexts and thousands of genomes. First, fai allows the identification of orthologous instances of a query gene cluster of interest amongst a database of target genomes. Subsequently, zol enables reliable, context-specific inference of ortholog groups for individual protein-encoding genes across gene cluster instances. In addition, zol performs functiona

SUBMITTER: Salamzade R 

PROVIDER: S-EPMC11795205 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature