Genome-wide association of yield traits in a nested association mapping population of barley reveals new gene diversity for future breeding

Sharma, Rajiv; Draicchio, Fulvia; Bull, Hazel; Herzig, Paul; Maurer, Andreas; Pillen, Klaus; Thomas, William; Flavell, Andrew J.

doi:10.1093/jxb/ery178

Cited by 68 publications

(81 citation statements)

References 63 publications

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“…Previously reported loci associated with agronomic traits in barley that were also detected in the current study indicate the potential durability of these genetic regions across environments and would be important regions to target for barley cultivar development. Specifically, the locus on 2H at 29.1 Mbp was significantly associated with HD, HT, and other grain size traits and was correlated with higher yield and TWT across treatments in this study and other studies (Muñoz‐Amatriaín et al., 2014; Sharma et al., 2018). Unreported genetic Loci 6 and 9 that are associated with increased TWT and low PRO across treatments in the present study may be novel, and biparental populations could be developed to validate these loci and explore the effects in additional detail.…”

Section: Discussionsupporting

confidence: 76%

Agronomic and genetic assessment of terminal drought tolerance in two‐row spring barley

et al. 2020

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Barley (Hordeum vulgare L.) ranks fourth in global cereal grain production and is an important crop for animal feed, malting, and human consumption. Identification of two-row barley germplasm with drought tolerance can increase genetic diversity and facilitate future barley breeding efforts. The present study evaluated 480 two-row spring barley accessions from the USDA National Small Grains Collection across two years of irrigated and terminal drought trials for grain yield, test weight, protein content, thousand-kernel weight, and kernel size. Twenty accessions were identified that showed stable high yield, high test weights, and low protein content across trials. An additional 10 accessions were identified with stable high yield, high test weights, and high protein across trials. Genome-wide association mapping with 6,366 single nucleotide polymorphism (SNP) markers revealed 15 drought-stable genetic loci significantly (false discovery rate-adjusted P < .05) associated with at least one agronomic trait across and within treatments. One locus, on chromosome 2H between 27.2 and 29.8 Mbp, was significantly associated with heading date, plant height, and kernel size across treatments in this study, and the PPD-H1 mutation in a previous study. Genetic loci on chromosomes 2H and 3H were significantly associated with increased test weight, and loci on chromosomes 3H and 5H were significantly associated with decreased grain protein content across treatments. Accessions and SNP markers significantly associated with agronomic trait stability across terminal drought and irrigated environments can assist with the development of drought-tolerant barley germplasm.

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Section: Discussionsupporting

confidence: 76%

Agronomic and genetic assessment of terminal drought tolerance in two‐row spring barley

et al. 2020

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“…The online version of this article (https ://doi.org/10.1007/s0012 2-020-03579 -z) contains supplementary material, which is available to authorized users. 1 3 harvest index, enabling lodging resistance and more efficient grain filling (Hill and Li 2016;Prince et al 2001;Sharma et al 2018). Despite this, year-on-year yield improvements have begun to stagnate because desirable allelic combinations have largely been captured in current cultivars, and this yield growth stagnation is reflected in increasing numbers of undernourished people globally (FAOSTAT 2019;Ray et al 2012;Schauberger et al 2018;Xu et al 2018a).…”

Section: Electronic Supplementary Materialsmentioning

confidence: 99%

Fine mapping qGL2H, a major locus controlling grain length in barley (Hordeum vulgare L.)

et al. 2020

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Key message A major grain length QTL on chromosome 2H was fine mapped to a 140.9 Kb region containing three genes. Abstract Increasing yield is an important target for barley breeding programs. One approach to increase yield is by enhancing individual grain weights through the regulation of grain size. Fine mapping major grain size-related quantitative trait loci is necessary for future marker-assisted selection strategies, yet studies of this nature are limited in barley. In the present study, we utilised a doubled haploid population derived from two Australian malt barley varieties, Vlamingh and Buloke, coupled with extensive genotypic and phenotypic data from three independent environments. A major grain length locus identified on chromosome 2H designated qGL2H was fine mapped to a 140.9 Kb interval. qGL2H was able to account for 25.4% of the phenotypic variation for grain length and 10.2% for grain yield. Underlying qGL2H were three high-confidence predicted genes. One of these genes encodes a MYB transcription factor and represents a promising candidate for further genetic research.

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“…Natural diversity is of particular interest as a potential source of different selected adaptive traits resulting from adaptive plasticity (Via and Conner 1995) or local adaptation due to genotype by environment interactions (G × E). The diversity of adaptive phenotypes resulting from a variety of originated habitats should be a source of new physiotypes and associated functional traits, as well as causal genes responsible for natural variation resulting from historical recombination that can be identified (Morrison and Linder 2014, Sharma et al 2018). In this context, model plants such as Arabidopsis thaliana and Medicago truncatula are interesting to investigate because of their wide range of genetic and trait variation among accessions derived from ecotypes (Chardon et al 2010, De Pessemier et al 2013, Yoder et al 2014, Gentzbittel et al 2015).…”

Section: Introductionmentioning

confidence: 99%

Exploring natural diversity of Medicago truncatula reveals physiotypes and loci associated with the response of seedling performance to nitrate supply

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et al. 2020

Physiologia Plantarum

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Seedling pre‐emergence is a critical phase of development for successful crop establishment because of its susceptibility to environmental conditions. In a context of reduced use of inorganic fertilizers, the genetic bases of the response of seedlings to nitrate supply received little attention. This issue is important even in legumes where nitrate absorption starts early after germination, before nodule development. Natural variation of traits characterizing seedling growth in the absence or presence of nitrate was investigated in a core collection of 192 accessions of Medicago truncatula. Plasticity indexes to the absence of nitrate were calculated. The genetic determinism of the traits was dissected by genome‐wide association study (GWAS). The absence of nitrate affected seed biomass mobilization and root/shoot length ratio. However, the large range of genetic variability revealed different seedling performances within natural diversity. A principal component analysis (PCA) carried out with plasticity indexes highlighted four physiotypes of accessions differing in relationships between seedling elongation and seed biomass partitioning traits in response to the absence of nitrate. Finally, GWAS revealed 45 associations with single or combined traits corresponding to coordinates of accessions on PCA, as well as two clusters of genes encoding sugar transporters and glutathione transferases surrounding loci associated with seedling elongation traits.

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Genome-wide association of yield traits in a nested association mapping population of barley reveals new gene diversity for future breeding

Abstract: Discovering QTL hotspots for yield-related grain traits in a population developed from 25 diverse wild barley lines reveals new opportunities for improving cultivated barley.

Cited by 68 publications

References 63 publications

Agronomic and genetic assessment of terminal drought tolerance in two‐row spring barley

Agronomic and genetic assessment of terminal drought tolerance in two‐row spring barley

Fine mapping qGL2H, a major locus controlling grain length in barley (Hordeum vulgare L.)

Exploring natural diversity of Medicago truncatula reveals physiotypes and loci associated with the response of seedling performance to nitrate supply

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