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Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments

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Abstract

A set of 96 winter wheat accessions sampled from a variety of geographic origins, including cultivars and breeding lines, were characterized with 46 genome-wide SSR loci for genetic diversity and population structure. The genetic diversity within these accessions was examined using a genetic distance-based and a model-based clustering method. The model-based analysis identified an underlying population structure comprising of four distinct sub-populations which corresponded well with distance-based groupings. Information on the population structure is taken into account in an association mapping study of grain yield from a 3-years field trial incorporating fully irrigated, rainfed and drought stress treatments. A total of 21 marker-grain yield associations (P < 0.01) were identified with nine SSR markers. Most associations were detected only in one to three environments (treatment/year combination), with an average R 2 value around 13 %. However, marker gwm484 (on chromosome 2D) was associated with yield in six environments, including irrigated, rainfed and drought stress treatments, suggesting it could be used to improve grain yield across a range of environments. Variation in grain yield at this locus was associated with earliness, early vigour, kernels per spikelet and harvest index. Microsatellite locus psp3200 (on chromosome 6D) was associated with yield in dry and hot environments, which was related to earliness, early vigour, productive tillering and total biomass per plant. Partial least squares regression, with nine environmental factors, showed that precipitation from tillering to maturity was the main environmental factor causing marker × environment associations for grain yield.

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Acknowledgments

We are grateful to Dr. Jean-Luc Jannink for insightful suggestions and to Dr. Marco Maccaferri for critically reviewing this manuscript. This work was supported by a Serbian Ministry of Education and Science grant (award no. TR31005/11 and TR31066) and an EU-FP7 Marie Curie Intra-European Fellowship award to D.D. (Grant Agreement Number 254064).

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  1. Dejan Dodig

    Present address: School of Biology, Newcastle Institute for Research on Sustainability, Newcastle University, Newcastle Upon Tyne, NE1 7RU, UK

Authors and Affiliations

  1. Institute of Field and Vegetative Crops, Maksima Gorkog 30, 21000, Novi Sad, Serbia

    Miroslav Zorić & Borislav Kobiljski

  2. Maize Research Institute, Slobodana Bajica 1, 11185, Belgrade-Zemun Polje, Serbia

    Dejan Dodig

  3. School of Biology, Newcastle Institute for Research on Sustainability, Newcastle University, Newcastle Upon Tyne, NE1 7RU, UK

    Steve Quarrie & Jeremy Barnes

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  1. Miroslav Zorić
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Zorić, M., Dodig, D., Kobiljski, B. et al. Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments. Genetica 140, 259–275 (2012). https://doi.org/10.1007/s10709-012-9677-2

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