Patterns of polymorphism and selection in the subgenomes of the allopolyploid Arabidopsis kamchatica

Open access
Date
2018-09-25Type
- Journal Article
Citations
Cited 11 times in
Web of Science
Cited 11 times in
Scopus
ETH Bibliography
yes
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Abstract
Genome duplication is widespread in wild and crop plants. However, little is known about genome-wide selection in polyploids due to the complexity of duplicated genomes. In polyploids, the patterns of purifying selection and adaptive substitutions may be affected by masking owing to duplicated genes or homeologs as well as effective population size. Here, we resequence 25 accessions of the allotetraploid Arabidopsis kamchatica, which is derived from the diploid species A. halleri and A. lyrata. We observe a reduction in purifying selection compared with the parental species. Interestingly, proportions of adaptive non-synonymous substitutions are significantly positive in contrast to most plant species. A recurrent pattern observed in both frequency and divergence–diversity neutrality tests is that the genome-wide distributions of both subgenomes are similar, but the correlation between homeologous pairs is low. This may increase the opportunity of different evolutionary trajectories such as in the HMA4 gene involved in heavy metal hyperaccumulation. Show more
Permanent link
https://doi.org/10.3929/ethz-b-000295502Publication status
publishedExternal links
Journal / series
Nature CommunicationsVolume
Pages / Article No.
Publisher
Nature Publishing GroupOrganisational unit
09613 - Payne, Joshua (SNF-Professur) / Payne, Joshua (SNF-Professur)
02207 - Functional Genomics Center Zurich / Functional Genomics Center Zurich
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Show all metadata
Citations
Cited 11 times in
Web of Science
Cited 11 times in
Scopus
ETH Bibliography
yes
Altmetrics