SOI: robust identification of orthologous synteny with the Orthology Index and broad applications in evolutionary genomics.

ABSTRACT: With the explosive growth of whole-genome datasets, accurate detection of orthologous synteny has become crucial for reconstructing evolutionary history. However, current methods for identifying orthologous synteny face great limitations, particularly in scaling with varied polyploidy histories and accurately removing out-paralogous synteny. In this study, we developed a scalable and robust approach, based on the Orthology Index (OI), to effectively identify orthologous synteny. Our evaluation across a large-scale empirical dataset with diverse polyploidization events demonstrated the high reliability and robustness of the OI method. Simulation-based benchmarks further validated the accuracy of our method, showing its superior performance against existing methods across a wide range of sce

SUBMITTER: Zhang RG 

PROVIDER: S-EPMC12006799 | biostudies-literature | 2025 Apr

REPOSITORIES: biostudies-literature