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Transposable elements maintain genome-wide heterozygosity in inbred populations

Author

Listed:
  • Hanne De Kort

    (University of Leuven, Kasteelpark Arenberg 31-2435)

  • Sylvain Legrand

    (Univ. Lille, CNRS, UMR 8198 - Evo-Eco-Paleo)

  • Olivier Honnay

    (University of Leuven, Kasteelpark Arenberg 31-2435)

  • James Buckley

    (University of Plymouth)

Abstract

Elevated levels of inbreeding increase the risk of inbreeding depression and extinction, yet many inbred species are widespread, suggesting that inbreeding has little impact on evolutionary potential. Here, we explore the potential for transposable elements (TEs) to maintain genetic variation in functional genomic regions under extreme inbreeding. Capitalizing on the mixed mating system of Arabidopsis lyrata, we assess genome-wide heterozygosity and signatures of selection at single nucleotide polymorphisms near transposable elements across an inbreeding gradient. Under intense inbreeding, we find systematically elevated heterozygosity downstream of several TE superfamilies, associated with signatures of balancing selection. In addition, we demonstrate increased heterozygosity in stress-responsive genes that consistently occur downstream of TEs. We finally reveal that TE superfamilies are associated with specific signatures of selection that are reproducible across independent evolutionary lineages of A. lyrata. Together, our study provides an important hypothesis for the success of self-fertilizing species.

Suggested Citation

  • Hanne De Kort & Sylvain Legrand & Olivier Honnay & James Buckley, 2022. "Transposable elements maintain genome-wide heterozygosity in inbred populations," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-34795-4
    DOI: 10.1038/s41467-022-34795-4
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    References listed on IDEAS

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    3. Hude Mao & Hongwei Wang & Shengxue Liu & Zhigang Li & Xiaohong Yang & Jianbing Yan & Jiansheng Li & Lam-Son Phan Tran & Feng Qin, 2015. "A transposable element in a NAC gene is associated with drought tolerance in maize seedlings," Nature Communications, Nature, vol. 6(1), pages 1-13, November.
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