Selection-driven divergence after gene duplication in Arabidopsis thaliana

Journal of Molecular Evolution
Toni I Gossmann, Karl J Schmid

Abstract

Gene duplications are one of the most important mechanisms for the origin of evolutionary novelties. Even though various models of the fate of duplicated genes have been established, current knowledge about the role of divergent selection after gene duplication is rather limited. In this study, we analyzed sequence divergence in response to neo- and subfunctionalization of segmentally duplicated genes in the genome of Arabidopsis thaliana. We compared the genomes of A. thaliana and the poplar Populus trichocarpa to identify orthologous pairs of genes and their corresponding inparalogs. Maximum-likelihood analyses of the nonsynonymous and synonymous substitution rate ratio [Formula: see text] of pairs of A. thaliana inparalogs were used to detect differences in the evolutionary rates of protein coding sequences. We analyzed 1,924 A. thaliana paralogous pairs and our results indicate that around 6.9% show divergent ω values between the lineages for a fraction of sites. We observe an enrichment of regulatory sequences, a reduced level of co-expression and an increased number of substitutions that can be attributed to positive selection based on an McDonald-Kreitman type of analysis. Taken together, these results show that selectio...Continue Reading

References

Nov 26, 2013·Molecular Biology and Evolution·Toni I GossmannKarl J Schmid
Mar 9, 2017·Proceedings of the National Academy of Sciences of the United States of America·Todd BlevinsCraig S Pikaard

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Related Concepts

In Silico
Conserved Sequence
Populus trichocarpa
Genome
Segmental Duplications, Genomic
Likelihood Functions
Genes, Reiterated
Homologous Sequences, Amino Acid
Gene Expression
Arabidopsis thaliana Proteins

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