An overview of online resources for intra-species detection of gene duplications

Xi Zhang; David Roy Smith

doi:10.3389/fgene.2022.1012788

An overview of online resources for intra-species detection of gene duplications

Front Genet. 2022 Oct 13:13:1012788. doi: 10.3389/fgene.2022.1012788. eCollection 2022.

Authors

Xi Zhang^{1

2}, David Roy Smith³

Affiliations

¹ Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, NS, Canada.
² Institute for Comparative Genomics, Dalhousie University, Halifax, NS, Canada.
³ Department of Biology, Western University, London, ON, Canada.

Abstract

Gene duplication plays an important role in evolutionary mechanism, which can act as a new source of genetic material in genome evolution. However, detecting duplicate genes from genomic data can be challenging. Various bioinformatics resources have been developed to identify duplicate genes from single and/or multiple species. Here, we summarize the metrics used to measure sequence identity among gene duplicates within species, compare several computational approaches that have been used to predict gene duplicates, and review recent advancements of a Basic Local Alignment Search Tool (BLAST)-based web tool and database, allowing future researchers to easily identify intra-species gene duplications. This article is a quick reference guide for research tools used for detecting gene duplicates.

Keywords: comparative genomics; gene duplication; genome duplication; genome evolution; paralogous genes.

Publication types

Review