Construction of dense linkage maps “on the fly” using early generation wheat breeding populations

Eckard, Jonathan Tyler; Gonzalez-Hernandez, Jose L.; Chao, Shiaoman; Amand, Paul St.; Bai, Guihua

doi:10.1007/s11032-014-0116-1

Cited by 2 publications

(1 citation statement)

References 26 publications

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“…These results were consistent with previous results (Li et al, 2015) and in accordance with previously reported genetic maps (Sansaloni et al, 2011; Cavanagh et al, 2013; Rosewarne et al, 2013; Li et al, 2014; Wang et al, 2014; Yu et al, 2014). The D genome contained 12.8% of total markers and 7 out of 34 QTL detected, which reinforced that genomic variation in the D genome of bread wheat is consistently low (Singh et al, 2013; Eckard et al, 2014; Wang et al, 2014). The number of linkage groups for the consensus map and each of the nine RIL family was 34, 20, 18, 28, 23, 23, 21, 25, 41, and 30, respectively (Table 5; Supplementary Table 3).…”

Section: Discussionmentioning

confidence: 60%

Identification of Genomic Associations for Adult Plant Resistance in the Background of Popular South Asian Wheat Cultivar, PBW343

Singh

Bhavani

et al. 2016

Front. Plant Sci.

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Rusts, a fungal disease as old as its host plant wheat, has caused havoc for over 8000 years. As the rust pathogens can evolve into new virulent races which quickly defeat the resistance that primarily rely on race specificity, adult plant resistance (APR) has often been found to be race non-specific and hence is considered to be a more reliable and durable strategy to combat this malady. Over decades sets of donor lines have been identified at International Maize and Wheat Improvement Center (CIMMYT) representing a wide range of APR sources in wheat. In this study, using nine donors and a common parent “PBW343,” a popular Green Revolution variety at CIMMYT, the nested association mapping (NAM) population of 1122 lines was constructed to understand the APR genetics underlying these founder lines. Thirty-four QTL were associated with APR to rusts, and 20 of 34 QTL had pleiotropic effects on SR, YR and LR resistance. Three chromosomal regions, associated with known APR genes (Sr58/Yr29/Lr46, Sr2/Yr30/Lr27, and Sr57/Yr18/Lr34), were also identified, and 13 previously reported QTL regions were validated. Of the 18 QTL first detected in this study, 7 were pleiotropic QTL, distributing on chromosomes 3A, 3B, 6B, 3D, and 6D. The present investigation revealed the genetic relationship of historical APR donor lines, the novel knowledge on APR, as well as the new analytical methodologies to facilitate the applications of NAM design in crop genetics. Results shown in this study will aid the parental selection for hybridization in wheat breeding, and envision the future rust management breeding for addressing potential threat to wheat production and food security.

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Section: Discussionmentioning

confidence: 60%

Identification of Genomic Associations for Adult Plant Resistance in the Background of Popular South Asian Wheat Cultivar, PBW343

Singh

Bhavani

et al. 2016

Front. Plant Sci.

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A high density GBS map of bread wheat and its application for dissecting complex disease resistance traits

et al. 2015

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BackgroundGenotyping-by-sequencing (GBS) is a high-throughput genotyping approach that is starting to be used in several crop species, including bread wheat. Anchoring GBS tags on chromosomes is an important step towards utilizing them for wheat genetic improvement. Here we use genetic linkage mapping to construct a consensus map containing 28644 GBS markers.ResultsThree RIL populations, PBW343 × Kingbird, PBW343 × Kenya Swara and PBW343 × Muu, which share a common parent, were used to minimize the impact of potential structural genomic variation on consensus-map quality. The consensus map comprised 3757 unique positions, and the average marker distance was 0.88 cM, obtained by calculating the average distance between two adjacent unique positions. Significant variation of segregation distortion was observed across the three populations. The consensus map was validated by comparing positions of known rust resistance genes, and comparing them to wheat reference genome sequences recently published by the International Wheat Genome Sequencing Consortium, Rye and Ae. tauschii genomes. Three well-characterized rust resistance genes (Sr58/Lr46/Yr29, Sr2/Yr30/Lr27, and Sr57/Lr34/Yr18) and 15 published QTLs for wheat rusts were validated with high resolution. Fifty-two per cent of GBS tags on the consensus map were successfully aligned through BLAST to the right chromosomes on the wheat reference genome sequence.ConclusionThe consensus map should provide a useful basis for analyzing genome-wide variation of complex traits. The identified genes can then be explored as genetic markers to be used in genomic applications in wheat breeding.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-015-1424-5) contains supplementary material, which is available to authorized users.

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Construction of dense linkage maps “on the fly” using early generation wheat breeding populations

Cited by 2 publications

References 26 publications

Identification of Genomic Associations for Adult Plant Resistance in the Background of Popular South Asian Wheat Cultivar, PBW343

Identification of Genomic Associations for Adult Plant Resistance in the Background of Popular South Asian Wheat Cultivar, PBW343

A high density GBS map of bread wheat and its application for dissecting complex disease resistance traits

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