Novel quantitative trait loci underlying major domestication traits in tetraploid wheat

Tzarfati, Raanan; Barak, Vered; Krugman, Tamar; Fahima, Tzion; Abbo, Shahal; Saranga, Yehoshua; Korol, Abraham B.

doi:10.1007/s11032-014-0182-4

Cited by 24 publications

(20 citation statements)

References 53 publications

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“…In previous studies of kernel traits in durum, only kernel weight-related QTLs have been identified using traditional linkage mapping and genome-wide association mapping [38][39][40][41][42][43][44][45][46][47][48][49][50][51][52][53][54]. After searching QTL identified here with previously reported QTL in durum wheat genome, most of the SNPs identified from kernel-related traits in this study were close to or overlapped with the positions of kernel weight-related QTL reported in previous studies.…”

Section: Combination Analysis Of Loci Identified Here With Previouslysupporting

confidence: 61%

SNP-based association study of kernel architecture in a worldwide collection of durum wheat germplasm

et al. 2020

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Durum wheat, genetic resource with favorable alleles is considered as natural gene pool for wheat breeding. Kernel size and weight are important factors affecting grain yield in crops. Here, association analysis was performed to dissect the genetic constitution of kernelrelated traits in 150 lines collected from 46 countries and regions using a set of EST-derived and genome-wide SNP markers with five consecutive years of data. Total 109 significant associations for eight kernel-related traits were detected under a mix linear model, generating 54 unique SNP markers distributed on 13 of 14 chromosomes. Of which, 19 marker-trait associations were identified in two or more environments, including one stable and pleiotropic SNP BE500291_5_A_37 on chromosome 5A correlated with six kernel traits. Although most of our SNP loci were overlapped with the previously known kernel weight QTLs, several novel loci for kernel traits in durum were reported. Correlation analysis implied that the moderate climatic variables during growth and development of durum are needed for the large grain size and high grain weight. Combined with our previous studies, we found that chromosome 5A might play an important role in durum growth and development.

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Section: Combination Analysis Of Loci Identified Here With Previouslysupporting

confidence: 61%

SNP-based association study of kernel architecture in a worldwide collection of durum wheat germplasm

et al. 2020

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“…DIC chromosome segments introgressed into a hexaploid (AABBDD) bread wheat background were also used (88). Most of these studies described QTLs related to yield, yield components, grain quality (46), domestication-related traits (110,134), and disease resistance (4), whereas QTL mapping aiming to dissect drought-adaptive mechanisms in DIC are scarce (103,106). Using a recombinant inbred line (RIL) population, Peleg et al (103,106) have identified a total of 110 QTLs for 11 drought-related traits (yield, drought-adaptive traits, and phenology) (106) and 82 QTLs for grain protein and mineral content (103).…”

Section: Genomic Dissection Of Drought Tolerance and Productivity In Dicmentioning

confidence: 99%

Evolution and Adaptation of Wild Emmer Wheat Populations to Biotic and Abiotic Stresses

Huang

Raats

Sela

et al. 2016

Annu. Rev. Phytopathol.

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The genetic bottlenecks associated with plant domestication and subsequent selection in man-made agroecosystems have limited the genetic diversity of modern crops and increased their vulnerability to environmental stresses. Wild emmer wheat, the tetraploid progenitor of domesticated wheat, distributed along a wide range of ecogeographical conditions in the Fertile Crescent, has valuable "left behind" adaptive diversity to multiple diseases and environmental stresses. The biotic and abiotic stress responses are conferred by series of genes and quantitative trait loci (QTLs) that control complex resistance pathways. The study of genetic diversity, genomic organization, expression profiles, protein structure and function of biotic and abiotic stress-resistance genes, and QTLs could shed light on the evolutionary history and adaptation mechanisms of wild emmer populations for their natural habitats. The continuous evolution and adaptation of wild emmer to the changing environment provide novel solutions that can contribute to safeguarding food for the rapidly growing human population.

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“…The meta-QTL analysis integrated TKW QTL mapping results from both the current study and 8 previously published studies, including: five durum × WEW populations (Peng et [4,8,9,22,25], two DEW × durum populations (Faris et al 2014;Russo et al 2014) [23][24], and one DEW × WEW population (Thanh et al 2013) [11]. To facilitate the identification of common QTLs, the peak markers for all detected QTLs were anchored to the Zv reference genome (Avni et al 2017) [27] using BLAST.…”

Section: Genome-based Meta-qtl Analysismentioning

confidence: 99%

“…For the meta-QTL analysis we used TKW data from the following published studies: [25]: Same population as Peleg et al 2011 [8]…”

Section: Mapping Populationsmentioning

confidence: 99%

“…In the meta-QTL analysis, we included the results of the QTL analysis described above (Sv × Zv RIL population), along with those of eight other previously published studies (Peng et [4,8,9,11,22,23,24,25]. Across these nine independent studies, mean TKW ranged between 10 -48 g among wild emmer parents and 30 -74 g among domesticated parents (including DEW), while population means ranged from 29.9 g -58.9 g (Table S2.…”

Section: Meta-qtl Analysismentioning

confidence: 99%

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Genome Based Meta-QTL Analysis of Grain Weight in Tetraploid Wheat Identifies Rare Alleles of <em>GRF4</em> Associated with Larger Grains

Avni¹,

Oren²,

Shabtai³

et al. 2018

Preprint

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The domestication and subsequent genetic improvement of wheat led to the development of large-seeded cultivated wheat species relative to their smaller-seeded wild progenitors. While increased grain weight (GW) continues to be an important goal of many wheat breeding programs, few genes underlying this trait have been identified despite an abundance of studies reporting quantitative trait loci (QTLs) for GW. Here we perform a QTL analysis for GW using a population of recombinant inbred lines (RILs) derived from the cross between wild emmer wheat accession 'Zavitan' and durum wheat variety 'Svevo'. Identified QTLs in this population were anchored to the recent Zavitan reference genome, along with previously published QTLs for GW in tetraploid wheat. This genome-based, meta-QTL analysis enabled the identification of a locus on chromosome 6A whose introgression from wild wheat positively affects GW. The locus was validated using an introgression line carrying the 6A GW QTL region from Zavitan in a Svevo background, resulting in >8% increase in GW compared to Svevo. Using the reference sequence for the 6A QTL region, we identified a wheat ortholog to OsGRF4, a rice gene previously associated with GW. The coding sequence of this gene (TtGRF4-A) contains four SNPs between Zavitan and Svevo, one of which reveals the Zavitan allele to be rare in a core collection of wild emmer and completely absent from the domesticated emmer genepool. Similarly, another wild emmer accession (G18-16) was found to carry a rare allele of TtGRF4-A that also positively affects GW and is characterized by a unique SNP absent from the entire core collection. These results exemplify the rich genetic diversity of wild wheat, posit TtGRF4-A as a candidate gene underlying the 6A GW QTL, and suggest that the natural Zavitan and G18-16 alleles of TtGRF4-A have potential to increase wheat yields in breeding programs. Keywords: keyword 1; keyword 2; keyword 3 (List three to ten pertinent keywords specific to the article; yet reasonably common within the subject discipline.) Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted:

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Novel quantitative trait loci underlying major domestication traits in tetraploid wheat

Cited by 24 publications

References 53 publications

SNP-based association study of kernel architecture in a worldwide collection of durum wheat germplasm

SNP-based association study of kernel architecture in a worldwide collection of durum wheat germplasm

Evolution and Adaptation of Wild Emmer Wheat Populations to Biotic and Abiotic Stresses

Genome Based Meta-QTL Analysis of Grain Weight in Tetraploid Wheat Identifies Rare Alleles of <em>GRF4</em> Associated with Larger Grains

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