Accounting for alternative splicing in gene families evolution reconstruction
Thursday 9 May 2019 (12h15 - 13h00) - Génopode - Auditoire A
Abstract of the talk :
Alternative splicing is a powerful mechanism that allows the production of multiple splice transcript variants by genes in eukaryotic organisms. However, current comparative genomics and phylogenomic methods make use of a single reference transcript per gene to reconstruct gene families evolution and infer gene orthology relationships. Moreover, most of these methods only relies on sequence similarity/divergence, while neglecting the splicing structure of transcripts that is also informative.
To address these lacks, we have developed a series of algorithms for computing multiple spliced alignments, inferring splicing orthology relationships, and constructing gene trees. The new methods account for multiple alternative transcripts and both sequence and splicing structure similarity between transcripts. We have also developed a method for the visualization and annotation of the splice variants of a set of homologous genes, based on multiple spliced alignment.
In this seminar, I will present and discuss our new framework and algorithms based on multiple spliced alignments for comparing and analyzing sets of splice variants of a gene family.