Structural and temporal variation in genetic diversity of European spring two-row barley cultivars and association mapping of quantitative traits

Alessandro Tondelli, Xin Xu, Marc Moragues, Rajiv Sharma, Florian Schnaithmann, Christina Ingvardsen, Outi Manninen, Jordi Comadran, Joanne Russell, Robbie Waugh, Alan H. Schulman, Klaus Pillen, Søren K. Rasmussen, Benjamin Kilian, Luigi Cattivelli, William T.B. Thomas, Andrew J. Flavell

Research output: Contribution to journalArticle

30 Citations (Scopus)

Abstract

Two hundred sixteen barley (Hordeum vulgare L.) cultivars were selected to represent the diversity and history of European spring two-row barley breeding and to search for alleles controlling agronomic traits by association genetics. The germplasm was genotyped with 7864 gene-based single nucleotide polymorphism markers and corresponding field trial trait data relating to growth and straw strength were obtained at multiple European sites. Analysis of the marker data by statistical population genetics approaches revealed two important trends in the genetic diversity of European two-row spring barley, namely, i) directional selection for approximately 14% of total genetic variation of the population in the last approximately 50 yr and ii) highly uneven genomic distribution of genetic diversity. Association analysis of the phenotypic and genotypic data identified multiple loci affecting the traits investigated, some of which co-map with selected regions. Collectively, these data show that the genetic makeup of European two-row spring barley is evolving under breeder selection, with signs of extinction of diversity in some genomic regions, suggesting that "breeding the best with the best" is leading towards fixation of some breeder targets. Nevertheless, modern germplasm also retains many regions of high diversity, suggesting that site-specific genetic approaches for allele identification and crop improvement such as association genetics are likely to be successful.

Original languageEnglish
Pages (from-to)1-14
Number of pages14
JournalPlant Genome
Volume6
Issue number2
DOIs
Publication statusPublished - 17 Sep 2013

Fingerprint

Hordeum
quantitative traits
chromosome mapping
temporal variation
barley
genetic variation
spring barley
cultivars
germplasm
Breeding
alleles
genomics
Alleles
breeding
Statistical Data Interpretation
agronomic traits
Hordeum vulgare
single nucleotide polymorphism
Population Genetics
population genetics

Cite this

Tondelli, Alessandro ; Xu, Xin ; Moragues, Marc ; Sharma, Rajiv ; Schnaithmann, Florian ; Ingvardsen, Christina ; Manninen, Outi ; Comadran, Jordi ; Russell, Joanne ; Waugh, Robbie ; Schulman, Alan H. ; Pillen, Klaus ; Rasmussen, Søren K. ; Kilian, Benjamin ; Cattivelli, Luigi ; Thomas, William T.B. ; Flavell, Andrew J. / Structural and temporal variation in genetic diversity of European spring two-row barley cultivars and association mapping of quantitative traits. In: Plant Genome. 2013 ; Vol. 6, No. 2. pp. 1-14.
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abstract = "Two hundred sixteen barley (Hordeum vulgare L.) cultivars were selected to represent the diversity and history of European spring two-row barley breeding and to search for alleles controlling agronomic traits by association genetics. The germplasm was genotyped with 7864 gene-based single nucleotide polymorphism markers and corresponding field trial trait data relating to growth and straw strength were obtained at multiple European sites. Analysis of the marker data by statistical population genetics approaches revealed two important trends in the genetic diversity of European two-row spring barley, namely, i) directional selection for approximately 14{\%} of total genetic variation of the population in the last approximately 50 yr and ii) highly uneven genomic distribution of genetic diversity. Association analysis of the phenotypic and genotypic data identified multiple loci affecting the traits investigated, some of which co-map with selected regions. Collectively, these data show that the genetic makeup of European two-row spring barley is evolving under breeder selection, with signs of extinction of diversity in some genomic regions, suggesting that {"}breeding the best with the best{"} is leading towards fixation of some breeder targets. Nevertheless, modern germplasm also retains many regions of high diversity, suggesting that site-specific genetic approaches for allele identification and crop improvement such as association genetics are likely to be successful.",
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Tondelli, A, Xu, X, Moragues, M, Sharma, R, Schnaithmann, F, Ingvardsen, C, Manninen, O, Comadran, J, Russell, J, Waugh, R, Schulman, AH, Pillen, K, Rasmussen, SK, Kilian, B, Cattivelli, L, Thomas, WTB & Flavell, AJ 2013, 'Structural and temporal variation in genetic diversity of European spring two-row barley cultivars and association mapping of quantitative traits', Plant Genome, vol. 6, no. 2, pp. 1-14. https://doi.org/10.3835/plantgenome2013.03.0007

Structural and temporal variation in genetic diversity of European spring two-row barley cultivars and association mapping of quantitative traits. / Tondelli, Alessandro; Xu, Xin; Moragues, Marc; Sharma, Rajiv; Schnaithmann, Florian; Ingvardsen, Christina; Manninen, Outi; Comadran, Jordi; Russell, Joanne; Waugh, Robbie; Schulman, Alan H.; Pillen, Klaus; Rasmussen, Søren K.; Kilian, Benjamin; Cattivelli, Luigi; Thomas, William T.B.; Flavell, Andrew J.

In: Plant Genome, Vol. 6, No. 2, 17.09.2013, p. 1-14.

Research output: Contribution to journalArticle

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T1 - Structural and temporal variation in genetic diversity of European spring two-row barley cultivars and association mapping of quantitative traits

AU - Tondelli, Alessandro

AU - Xu, Xin

AU - Moragues, Marc

AU - Sharma, Rajiv

AU - Schnaithmann, Florian

AU - Ingvardsen, Christina

AU - Manninen, Outi

AU - Comadran, Jordi

AU - Russell, Joanne

AU - Waugh, Robbie

AU - Schulman, Alan H.

AU - Pillen, Klaus

AU - Rasmussen, Søren K.

AU - Kilian, Benjamin

AU - Cattivelli, Luigi

AU - Thomas, William T.B.

AU - Flavell, Andrew J.

PY - 2013/9/17

Y1 - 2013/9/17

N2 - Two hundred sixteen barley (Hordeum vulgare L.) cultivars were selected to represent the diversity and history of European spring two-row barley breeding and to search for alleles controlling agronomic traits by association genetics. The germplasm was genotyped with 7864 gene-based single nucleotide polymorphism markers and corresponding field trial trait data relating to growth and straw strength were obtained at multiple European sites. Analysis of the marker data by statistical population genetics approaches revealed two important trends in the genetic diversity of European two-row spring barley, namely, i) directional selection for approximately 14% of total genetic variation of the population in the last approximately 50 yr and ii) highly uneven genomic distribution of genetic diversity. Association analysis of the phenotypic and genotypic data identified multiple loci affecting the traits investigated, some of which co-map with selected regions. Collectively, these data show that the genetic makeup of European two-row spring barley is evolving under breeder selection, with signs of extinction of diversity in some genomic regions, suggesting that "breeding the best with the best" is leading towards fixation of some breeder targets. Nevertheless, modern germplasm also retains many regions of high diversity, suggesting that site-specific genetic approaches for allele identification and crop improvement such as association genetics are likely to be successful.

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