Functional bias in molecular evolution rate of Arabidopsis thaliana

Warren, Andrew S.; Anandakrishnan, Ramu; Zhang, Liqing

Functional bias in molecular evolution rate of Arabidopsis thaliana

dc.contributor.author	Warren, Andrew S.	en
dc.contributor.author	Anandakrishnan, Ramu	en
dc.contributor.author	Zhang, Liqing	en
dc.contributor.department	Computer Science	en
dc.date.accessioned	2012-08-24T11:24:04Z	en
dc.date.available	2012-08-24T11:24:04Z	en
dc.date.issued	2010-05-01	en
dc.date.updated	2012-08-24T11:24:04Z	en
dc.description.abstract	Background Characteristics derived from mutation and other mechanisms that are advantageous for survival are often preserved during evolution by natural selection. Some genes are conserved in many organisms because they are responsible for fundamental biological function, others are conserved for their unique functional characteristics. Therefore one would expect the rate of molecular evolution for individual genes to be dependent on their biological function. Whether this expectation holds for genes duplicated by whole genome duplication is not known. Results We empirically demonstrate here, using duplicated genes generated from the Arabidopsis thaliana α-duplication event, that the rate of molecular evolution of genes duplicated in this event depend on biological function. Using functional clustering based on gene ontology annotation of gene pairs, we show that some duplicated genes, such as defense response genes, are under weaker purifying selection or under stronger diversifying selection than other duplicated genes, such as protein translation genes, as measured by the ratio of nonsynonymous to synonymous divergence (dN/dS). Conclusions These results provide empirical evidence indicating that molecular evolution rate for genes duplicated in whole genome duplication, as measured by dN/dS, may depend on biological function, which we characterize using gene ontology annotation. Furthermore, the general approach used here provides a framework for comparative analysis of molecular evolution rate for genes based on their biological function.	en
dc.description.version	Published version	en
dc.format.mimetype	application/pdf	en
dc.identifier.citation	BMC Evolutionary Biology. 2010 May 01;10(1):125	en
dc.identifier.doi	https://doi.org/10.1186/1471-2148-10-125	en
dc.identifier.uri	http://hdl.handle.net/10919/18842	en
dc.language.iso	en	en
dc.rights	Creative Commons Attribution 4.0 International	en
dc.rights.holder	Andrew S Warren et al.; licensee BioMed Central Ltd.	en
dc.rights.uri	http://creativecommons.org/licenses/by/4.0/	en
dc.title	Functional bias in molecular evolution rate of Arabidopsis thaliana	en
dc.title.serial	BMC Evolutionary Biology	en
dc.type	Article - Refereed	en
dc.type.dcmitype	Text	en