Fagin: synteny-based phylostratigraphy and finer classification of young genes.

ABSTRACT:

Background

With every new genome that is sequenced, thousands of species-specific genes (orphans) are found, some originating from ultra-rapid mutations of existing genes, many others originating de novo from non-genic regions of the genome. If some of these genes survive across speciations, then extant organisms will contain a patchwork of genes whose ancestors first appeared at different times. Standard phylostratigraphy, the technique of partitioning genes by their age, is based solely on protein similarity algorithms. However, this approach relies on negative evidence ─ a failure to detect a homolog of a query gene. An alternative approach is to limit the search for homologs to syntenic regions. Then, genes can be positively identified as de novo orphans by tracing them to non-

SUBMITTER: Arendsee Z 

PROVIDER: S-EPMC6712868 | biostudies-literature | 2019 Aug

REPOSITORIES: biostudies-literature