Lack of low frequency variants masks patterns of non-neutral evolution following domestication

Celine H Frere; P J Prentis; E K Gilding; A M Mudge; A Cruickshank; I D Godwin

doi:10.1371/journal.pone.0023041

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Lack of low frequency variants masks patterns of non-neutral evolution following domestication

Journal article

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Lack of low frequency variants masks patterns of non-neutral evolution following domestication

Celine H Frere, P J Prentis, E K Gilding, A M Mudge, A Cruickshank and I D Godwin

PLoS One, Vol.6(8), e23041

2011

DOI: https://doi.org/10.1371/journal.pone.0023041

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Abstract

Detecting artificial selection in the genome of domesticated species can not only shed light on human history but can also be beneficial to future breeding strategies. Evidence for selection has been documented in domesticated species including maize and rice, but few studies have to date detected signals of artificial selection in the Sorghum bicolor genome. Based on evidence that domesticated S. bicolor and its wild relatives show significant differences in endosperm structure and quality, we sequenced three candidate seed storage protein (kafirin) loci and three candidate starch biosynthesis loci to test whether these genes show non-neutral evolution resulting from the domestication process. We found strong evidence of non-neutral selection at the starch synthase IIa gene, while both starch branching enzyme I and the beta kafirin gene showed weaker evidence of non-neutral selection. We argue that the power to detect consistent signals of non-neutral selection in our dataset is confounded by the absence of low frequency variants at four of the six candidate genes. A future challenge in the detection of positive selection associated with domestication in sorghum is to develop models that can accommodate for skewed frequency spectrums

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Title: Lack of low frequency variants masks patterns of non-neutral evolution following domestication
Authors: Celine H Frere (Author) - University of Queensland
P J Prentis (Author) - University of Queensland
E K Gilding (Author) - University of Queensland
A M Mudge (Author) - University of Queensland
A Cruickshank (Author) - Agri-Science Queensland
I D Godwin (Author) - University of Queensland
Publication details: PLoS One, Vol.6(8), e23041
Publisher: Public Library of Science
Date published: 2011
DOI: 10.1371/journal.pone.0023041
ISSN: 1932-6203
Copyright note: Copyright © 2011 Frère et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Organisation Unit: School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; School of Science, Technology and Engineering
Language: English
Record Identifier: 99448881302621
Output Type: Journal article

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