Parental legacy, demography, and admixture influenced the evolution of the two subgenomes of the tetraploid Capsella bursa-pastoris (Brassicaceae).

Autor: Kryvokhyzha D; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden., Salcedo A; Department of Ecology and Evolution, University of Toronto, Toronto, Canada., Eriksson MC; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.; Department of Biological and Environmental Sciences, University of Gothenburg, Gothenburg, Sweden., Duan T; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden., Tawari N; Computational and Systems Biology Group, Genome Institute of Singapore, Agency for Science, Technology and Research (A*Star), Singapore., Chen J; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden., Guerrina M; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden., Kreiner JM; Department of Ecology and Evolution, University of Toronto, Toronto, Canada., Kent TV; Department of Ecology and Evolution, University of Toronto, Toronto, Canada., Lagercrantz U; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden., Stinchcombe JR; Department of Ecology and Evolution, University of Toronto, Toronto, Canada., Glémin S; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.; CNRS, Université de Rennes 1, ECOBIO (Ecosystémes, biodiversité, évolution) - UMR 6553, F-35000 Rennes, France., Wright SI; Department of Ecology and Evolution, University of Toronto, Toronto, Canada., Lascoux M; Plant Ecology and Evolution, Department of Ecology and Genetics, Evolutionary Biology Centre and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.
Jazyk: angličtina
Zdroj: PLoS genetics [PLoS Genet] 2019 Feb 15; Vol. 15 (2), pp. e1007949. Date of Electronic Publication: 2019 Feb 15 (Print Publication: 2019).
DOI: 10.1371/journal.pgen.1007949
Abstrakt: Allopolyploidy is generally perceived as a major source of evolutionary novelties and as an instantaneous way to create isolation barriers. However, we do not have a clear understanding of how two subgenomes evolve and interact once they have fused in an allopolyploid species nor how isolated they are from their relatives. Here, we address these questions by analyzing genomic and transcriptomic data of allotetraploid Capsella bursa-pastoris in three differentiated populations, Asia, Europe, and the Middle East. We phased the two subgenomes, one descended from the outcrossing and highly diverse Capsella grandiflora (CbpCg) and the other one from the selfing and genetically depauperate Capsella orientalis (CbpCo). For each subgenome, we assessed its relationship with the diploid relatives, temporal changes of effective population size (Ne), signatures of positive and negative selection, and gene expression patterns. In all three regions, Ne of the two subgenomes decreased gradually over time and the CbpCo subgenome accumulated more deleterious changes than CbpCg. There were signs of widespread admixture between C. bursa-pastoris and its diploid relatives. The two subgenomes were impacted differentially depending on geographic region suggesting either strong interploidy gene flow or multiple origins of C. bursa-pastoris. Selective sweeps were more common on the CbpCg subgenome in Europe and the Middle East, and on the CbpCo subgenome in Asia. In contrast, differences in expression were limited with the CbpCg subgenome slightly more expressed than CbpCo in Europe and the Middle-East. In summary, after more than 100,000 generations of co-existence, the two subgenomes of C. bursa-pastoris still retained a strong signature of parental legacy but their evolutionary trajectory strongly varied across geographic regions.
Competing Interests: The authors have declared that no competing interests exist.
Databáze: MEDLINE
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