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Genome-wide association mapping of three important traits using bread wheat elite breeding populations

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Abstract

The exponential development of molecular markers enables a more effective study of the genetic architecture of traits of economic importance, like test weight in wheat (Triticum aestivum L.), for which a high value is desired by most end-users. The association mapping (AM) method now allows more precise exploration of the entire genome. AM requires populations with substantial genetic variability of the traits of interest. The breeding lines at the end of a selection cycle, characterized for numerous traits, represent a potentially useful population for AM studies. Using three elite line populations, selected by several breeders and genotyped with about 2,500 Diversity Arrays Technology markers, several associations were identified between these markers and test weight, grain yield and heading date. To minimize spurious associations, we compared the general linear model and mixed linear model (MLM), which adjust for population structure and kinship differently. The MLM model with the kinship matrix was the most efficient. Finally, elite lines from several breeding programs had sufficient genetic variability to allow for the mapping of several chromosomal regions involved in the variation of three important traits.

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Abbreviations

AM:

Association mapping

DH:

Doubled haploid

GLM:

General linear model

GY:

Grain yield

HD:

Heading date

LD:

Linkage disequilibrium

MLM:

Mixed linear model

PCA:

Principal component analysis

QTL:

Quantitative trait locus/loci

RIL:

Recombinant inbred line

TW:

Test weight

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Acknowledgments

This project was funded by the FSOV (Fonds de Soutien à l’Obtention Végétale) under grant FSOV2008A.

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Authors and Affiliations

  1. UMR GDEC, INRA, 5 chemin de Beaulieu, 63039, Clermont-Ferrand Cedex 2, France

    Jacques Bordes, Laetitia Chevarin, François Xavier Oury, Annie Lapierre, Marie Reine Perretant, Jacques Le Gouis, Eric Storlie & Gilles Charmet

  2. UMR GDEC, Université Blaise Pascal, 24 Avenue des landais, 63177, Aubière Cedex, France

    Jacques Bordes, Laetitia Chevarin, François Xavier Oury, Annie Lapierre, Marie Reine Perretant, Jacques Le Gouis, Eric Storlie & Gilles Charmet

  3. Bioplante-Florimond Desprez, BP 41, 59242, Cappelle en Pévèle, France

    Ellen Goudemand, Denis Beghin, Valérie Laurent & Olivier Robert

  4. Bioplante-R2n, 60 rue Léon Beauchamp, 59930, La Chapelle d’Armentières, France

    Laure Duchalais

  5. UE GCIE Estrées-Mons, INRA, 80203, Péronne, France

    Emmanuel Heumez

  6. INRA-IGEPP - Domaine de la Motte, BP 35327, 35653, Le Rheu Cedex, France

    Bernard Rolland

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  1. Jacques Bordes
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  2. Ellen Goudemand
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  15. Gilles Charmet
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Correspondence to Jacques Bordes.

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Bordes, J., Goudemand, E., Duchalais, L. et al. Genome-wide association mapping of three important traits using bread wheat elite breeding populations. Mol Breeding 33, 755–768 (2014). https://doi.org/10.1007/s11032-013-0004-0

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