Genetic Mapping of Loci for Resistance to Stem Rust in a Tetraploid Wheat Collection

Saccomanno, Antonietta; Matny, Oadi; Marone, Daniela; Laidò, Giovanni; Petruzzino, Giuseppe; Mazzucotelli, Elisabetta; Desiderio, Francesca; Blanco, Antonio; Gadaleta, Ágata; Pecchioni, Nicola; Vita, Pasquale De; Steffenson, Brian J.; Mastrangelo, Anna Maria

doi:10.3390/ijms19123907

Cited by 21 publications

(29 citation statements)

References 60 publications

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“…The genotypic data was already filtered from markers with >10% missing data and with <0.1 minor allele frequency (MAF). The details of SNP genotyping and dataset filtering were described in [32,14].…”

Section: Snp Genotypingmentioning

confidence: 99%

“…Marker-trait associations (MTAs) between SNP markers and agronomic traits were detected by using the mixed linear model (MLM) that based on the kinship matrix (K) and the population structure matrix (Q) [34]. The genetic structure of the collection (Q matrix) was determined with Bayesian methods using the STRUCTURE software [35], with the optimum number of subpopulations (K) equal to three for the whole collection and six for the durum subgroup, as described in [14]. In the current study, each year-location combination was considered as a separate environment.…”

Section: Association Mapping Analysismentioning

confidence: 99%

“…In agreement with the linkage disequilibrium (LD) estimates determined by [14], the value of r 2 = 0.3 was used as the confidence interval to declare significant SNPs associated with the examined yield component traits. The significant associations were selected after the application of a threshold bar at P < 1.96E -4 .…”

Section: Association Mapping Analysismentioning

confidence: 99%

“…The clusterization results for the GWAS were adopted from the original study of the same collection, where the STRUCTURE allowed the revealing that the TWC set has the optimal K value 3, and the DWV set has K value 6 [14]. Overall, GWAS identified 108 significant marker-trait associations (MTAs) using the TWC and DWV sets.…”

Section: Plos Onementioning

confidence: 99%

“…Previously, a wild and domesticated wheat collection was evaluated to identify QTLs for yield components and grain quality [12,13], and for resistance to Puccinia graminis f. sp. tritici (Pgt) [14]. Multiple environment trials, especially for grain yield traits, are commonly used to assess the performance of genotypes across a range of locations and years [15].…”

Section: Introductionmentioning

confidence: 99%

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Quantitative trait loci for agronomic traits in tetraploid wheat for enhancing grain yield in Kazakhstan environments

et al. 2020

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Durum wheat (Triticum turgidum L. ssp. durum) is one of the top crops in Kazakhstan, where it is cultivated in different ecological niches, mainly at higher latitudes in the steppe zone of the northern region. Therefore, local breeding programs for durum wheat are primarily focused on selection for high productivity in Northern Kazakhstan based on the introduction of promising foreign germplasm and the adoption of marker-assisted selection. In this study, a world tetraploid wheat collection consisted of 184 primitive and domesticated accessions, which were previously genotyped using 16,425 polymorphic SNP markers, was field-tested in Northern and Southeastern Kazakhstan. The field tests have allowed the identification of 80 durum wheat promising lines in Northern Kazakhstan in comparison with a local standard cultivar. Also, GGE (Genotype and Genotype by Environment) biplot analyses for yield performance revealed that accessions of T. dicoccum, T. carthlicum, and T. turanicum also have potential to improve durum wheat yield in the region. The genome-wide association study (GWAS) has allowed the identification of 83 MTAs (marker-trait associations) for heading date, seed maturation time, plant height, spike length, number of fertile spikes, number of kernels per spike, and thousand kernel weight. The comparison of the 83 identified MTAs with those previously reported in GWAS for durum wheat suggests that 38 MTAs are presumably novel, while the co-localization of a large number of MTAs with those previously published confirms the validity of the results of this study. The MTAs reported herewith will provide the opportunity to implement marker-assisted selection in ongoing durum wheat breeding projects targeting higher productivity in the region.

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Section: Snp Genotypingmentioning

confidence: 99%

Section: Association Mapping Analysismentioning

confidence: 99%

Section: Association Mapping Analysismentioning

confidence: 99%

Section: Plos Onementioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Quantitative trait loci for agronomic traits in tetraploid wheat for enhancing grain yield in Kazakhstan environments

et al. 2020

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A new wild emmer wheat panel allows to map new loci associated with resistance to stem rust at seedling stage

Mastrangelo,

Roncallo,

Matny

et al. 2023

The Plant Genome

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Wheat stem rust, caused by Puccinia graminis f. sp. tritici (Pgt), is a major wheat disease worldwide. A collection of 283 wild emmer wheat [Triticum turgidum L. subsp. dicoccoides (Körn. ex Asch. & Graebn.) Thell] accessions, representative of the entire Fertile Crescent region where wild emmer naturally occurs, was assembled, genotyped, and characterized for population structure, genetic diversity, and rate of linkage disequilibrium (LD) decay. Then, the collection was employed for mapping Pgt resistance genes, as a proof of concept of the effectiveness of genome‐wide association studies in wild emmer. The collection was evaluated in controlled conditions for reaction to six common Pgt pathotypes (TPMKC, TTTTF, JRCQC, TRTTF, TTKSK/Ug99, and TKTTF). Most resistant accessions originated from the Southern Levant wild emmer lineage, with some showing a resistance reaction toward three to six tested races. Association analysis was conducted considering a 12K polymorphic single‐nucleotide polymorphisms dataset, kinship relatedness between accessions, and population structure. Eleven significant marker–trait associations (MTA) were identified across the genome, which explained from 17% to up to 49% of phenotypic variance with an average 1.5 additive effect (based on the 1–9 scoring scale). The identified loci were either effective against single or multiple races. Some MTAs colocalized with known Pgt resistance genes, while others represent novel resistance loci useful for durum and bread wheat prebreeding. Candidate genes with an annotated function related to plant response to pathogens were identified at the regions linked to the resistance and defined according to the estimated small LD (about 126 kb), as typical of wild species.

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Future of durum wheat research and breeding: Insights from early career researchers

Peters Haugrud,

Achilli,

Martínez‐Peña

et al. 2024

The Plant Genome

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Durum wheat (Triticum turgidum ssp. durum) is globally cultivated for pasta, couscous, and bulgur production. With the changing climate and growing world population, the need to significantly increase durum production to meet the anticipated demand is paramount. This review summarizes recent advancements in durum research, encompassing the exploitation of existing and novel genetic diversity, exploration of potential new diversity sources, breeding for climate‐resilient varieties, enhancements in production and management practices, and the utilization of modern technologies in breeding and cultivar development. In comparison to bread wheat (T. aestivum), the durum wheat community and production area are considerably smaller, often comprising many small‐family farmers, notably in African and Asian countries. Public breeding programs such as the International Maize and Wheat Improvement Center (CIMMYT) and the International Center for Agricultural Research in the Dry Areas (ICARDA) play a pivotal role in providing new and adapted cultivars for these small‐scale growers. We spotlight the contributions of these and others in this review. Additionally, we offer our recommendations on key areas for the durum research community to explore in addressing the challenges posed by climate change while striving to enhance durum production and sustainability. As part of the Wheat Initiative, the Expert Working Group on Durum Wheat Genomics and Breeding recognizes the significance of collaborative efforts in advancing toward a shared objective. We hope the insights presented in this review stimulate future research and deliberations on the trajectory for durum wheat genomics and breeding.

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Genetic Mapping of Loci for Resistance to Stem Rust in a Tetraploid Wheat Collection

Cited by 21 publications

References 60 publications

Quantitative trait loci for agronomic traits in tetraploid wheat for enhancing grain yield in Kazakhstan environments

Quantitative trait loci for agronomic traits in tetraploid wheat for enhancing grain yield in Kazakhstan environments

A new wild emmer wheat panel allows to map new loci associated with resistance to stem rust at seedling stage

Future of durum wheat research and breeding: Insights from early career researchers

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