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Title: | The great tit HapMap project: A continental-scale analysis of genomic variation in a songbird | Authors: | Spurgin, Lewis G. Bosse, Mirte Adriaensen, Frank Albayrak, Tamer Barboutis, Christos Belda, Eduardo Bushuev, Andrey Cecere, Jacopo G. Charmantier, Anne Cichon, Mariusz Dingemanse, Niels J. Doligez, Blandine Eeva, Tapio Erikstad, Kjell Einar Fedorov, Vyacheslav Griggio, Matteo HEYLEN, Dieter Hille, Sabine Hinde, Camilla A. Ivankina, Elena Kempenaers, Bart Kerimov, Anvar Krist, Milos Kvist, Laura Laine, Veronika N. Mand, Raivo Matthysen, Erik Nager, Ruedi Nikolov, Boris P. Norte, Ana Claudia Orell, Markku Ouyang, Jenny Petrova-Dinkova, Gergana Richner, Heinz Rubolini, Diego Slagsvold, Tore Tilgar, Vallo Torok, Janos Tschirren, Barbara Vagasi, Csongor I. Yuta, Teru Groenen, Martien A. M. Visser, Marcel E. van Oers, Kees Sheldon, Ben C. Slate, Jon |
Issue Date: | 2024 | Publisher: | WILEY | Source: | Molecular Ecology Resources, 24 (5) (Art N° e13969) | Abstract: | A major aim of evolutionary biology is to understand why patterns of genomic diversity vary within taxa and space. Large-scale genomic studies of widespread species are useful for studying how environment and demography shape patterns of genomic divergence. Here, we describe one of the most geographically comprehensive surveys of genomic variation in a wild vertebrate to date; the great tit (Parus major) HapMap project. We screened ca 500,000 SNP markers across 647 individuals from 29 populations, spanning similar to 30 degrees of latitude and 40 degrees of longitude - almost the entire geographical range of the European subspecies. Genome-wide variation was consistent with a recent colonisation across Europe from a South-East European refugium, with bottlenecks and reduced genetic diversity in island populations. Differentiation across the genome was highly heterogeneous, with clear 'islands of differentiation', even among populations with very low levels of genome-wide differentiation. Low local recombination rates were a strong predictor of high local genomic differentiation (FST), especially in island and peripheral mainland populations, suggesting that the interplay between genetic drift and recombination causes highly heterogeneous differentiation landscapes. We also detected genomic outlier regions that were confined to one or more peripheral great tit populations, probably as a result of recent directional selection at the species' range edges. Haplotype-based measures of selection were related to recombination rate, albeit less strongly, and highlighted population-specific sweeps that likely resulted from positive selection. Our study highlights how comprehensive screens of genomic variation in wild organisms can provide unique insights into spatio-temporal evolutionary dynamics. | Notes: | Slate, J (corresponding author), Univ Sheffield, Sch Biosci, Sheffield, England. j.slate@sheffield.ac.uk |
Keywords: | adaptation;birds;ecological genetics;genomics/proteomics;molecular evolution;population genetics - empirical | Document URI: | http://hdl.handle.net/1942/43220 | ISSN: | 1755-098X | e-ISSN: | 1755-0998 | DOI: | 10.1111/1755-0998.13969 | ISI #: | 001222732700001 | Datasets of the publication: | 10.5061/dryad.w3r2280z5 | Rights: | 2024 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd. This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. | Category: | A1 | Type: | Journal Contribution |
Appears in Collections: | Research publications |
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