ExOrthist: a tool to infer exon orthologies at any evolutionary distance
2021
Márquez, Yamile | Mantica, Federica | Cozzuto, Luca | Burguera, Demian | Hermoso-Pulido, Antonio | Ponomarenko, Julia | Roy, Scott W. | Irimia, Manuel
Several bioinformatic tools have been developed for genome-wide identification of orthologous and paralogous genes. However, no corresponding tool allows the detection of exon homology relationships. Here, we present ExOrthist, a fully reproducible Nextflow-based software enabling inference of exon homologs and orthogroups, visualization of evolution of exon-intron structures, and assessment of conservation of alternative splicing patterns. ExOrthist evaluates exon sequence conservation and considers the surrounding exon-intron context to derive genome-wide multi-species exon homologies at any evolutionary distance. We demonstrate its use in different evolutionary scenarios: whole genome duplication in frogs and convergence of Nova-regulated splicing networks (https://github.com/biocorecrg/ExOrthist).
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