Population genomics and subgenome evolution of the allotetraploid frog Xenopus laevis in southern Africa.

Publisher: Oxford University Press Country of Publication: England NLM ID: 101566598 Publication Model: Print Cited Medium: Internet ISSN: 2160-1836 (Electronic) Linking ISSN: 21601836 NLM ISO Abbreviation: G3 (Bethesda) Subsets: MEDLINE

Publication: 2021- : [Oxford] : Oxford University Press
Original Publication: Bethesda, MD : Genetics Society of America, 2011-

Metagenomics* ; Genome*; Animals ; Xenopus laevis/genetics ; Genomics ; Africa, Southern ; Evolution, Molecular ; Phylogeny

Allotetraploid genomes have two distinct genomic components called subgenomes that are derived from separate diploid ancestral species. Many genomic characteristics such as gene function, expression, recombination, and transposable element mobility may differ significantly between subgenomes. To explore the possibility that subgenome population structure and gene flow may differ as well, we examined genetic variation in an allotetraploid frog-the African clawed frog (Xenopus laevis)-over the dynamic and varied habitat of its native range in southern Africa. Using reduced representation genome sequences from 91 samples from 12 localities, we found no strong evidence that population structure and gene flow differed substantially by subgenome. We then compared patterns of population structure in the nuclear genome to the mitochondrial genome using Sanger sequences from 455 samples from 183 localities. Our results provide further resolution to the geographic distribution of mitochondrial and nuclear diversity in this species and illustrate that population structure in both genomes corresponds roughly with variation in seasonal rainfall and with the topography of southern Africa.
Competing Interests: Conflicts of interest The authors declare no conflict of interest.
(© The Author(s) 2022. Published by Oxford University Press on behalf of the Genetics Society of America.)

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Keywords: gene flow; phylogeography; polyploid ratchet; population genetics

Date Created: 20221216 Date Completed: 20230213 Latest Revision: 20230222

20230222

PMC9911082

10.1093/g3journal/jkac325

36524354