Discovery and population genomics of structural variation in a songbird genus

Weissensteiner, Matthias H., Bunikis, Ignas, Catalán, Ana, Francoijs, Kees-Jan, Knief, Ulrich, Heim, Wieland, Peona, Valentina, Pophaly, Saurabh D., Sedlazeck, Fritz J., Suh, Alexander, Warmuth, Vera M. and Wolf, Jochen B. W. (2020) Discovery and population genomics of structural variation in a songbird genus. Nature Communications, 11 (1). ISSN 2041-1723

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Abstract

Structural variation (SV) constitutes an important type of genetic mutations providing the raw material for evolution. Here, we uncover the genome-wide spectrum of intra- and interspecific SV segregating in natural populations of seven songbird species in the genus Corvus. Combining short-read (N = 127) and long-read re-sequencing (N = 31), as well as optical mapping (N = 16), we apply both assembly- and read mapping approaches to detect SV and characterize a total of 220,452 insertions, deletions and inversions. We exploit sampling across wide phylogenetic timescales to validate SV genotypes and assess the contribution of SV to evolutionary processes in an avian model of incipient speciation. We reveal an evolutionary young (~530,000 years) cis-acting 2.25-kb LTR retrotransposon insertion reducing expression of the NDP gene with consequences for premating isolation. Our results attest to the wealth and evolutionary significance of SV segregating in natural populations and highlight the need for reliable SV genotyping.

Item Type: Article
Uncontrolled Keywords: chemistry(all),biochemistry, genetics and molecular biology(all),physics and astronomy(all) ,/dk/atira/pure/subjectarea/asjc/1600
Faculty \ School: Faculty of Science > School of Biological Sciences
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Depositing User: LivePure Connector
Date Deposited: 14 Jul 2020 00:04
Last Modified: 27 Sep 2020 00:13
URI: https://ueaeprints.uea.ac.uk/id/eprint/76036
DOI: 10.1038/s41467-020-17195-4

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