Development of a high-density SNP-based linkage map and detection of yellow pigment content QTLs in durum wheat

Colasuonno, Pasqualina; Gadaleta, Ágata; Giancaspro, Angelica; Nigro, Domenica; Giove, Stefania Lucia; Incerti, Ornella; Mangini, Giacomo; Signorile, A.; Simeone, Rosanna; Blanco, A.

doi:10.1007/s11032-014-0183-3

Cited by 58 publications

(69 citation statements)

References 58 publications

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“…The average number of mapped markers per chromosome was 389, with a range from 230 SNPs on chromosome 4B to 536 on chromosome 7B. More markers were mapped on the B genome as observed in other linkage studies [2,3,13]. Chromosome 1A was represented by only one LG [15].…”

Section: Discussionmentioning

confidence: 88%

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Development of a High-Density SNP-Based Linkage Map and Detection of QTL for β-Glucans, Protein Content, Grain Yield per Spike and Heading Time in Durum Wheat

Marcotuli

Gadaleta

Mangini

et al. 2017

IJMS

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High-density genetic linkage maps of crop species are particularly useful in detecting qualitative and quantitative trait loci for important agronomic traits and in improving the power of classical approaches to identify candidate genes. The aim of this study was to develop a high-density genetic linkage map in a durum wheat recombinant inbred lines population (RIL) derived from two elite wheat cultivars and to identify, characterize and correlate Quantitative Trait Loci (QTL) for β-glucan, protein content, grain yield per spike and heading time. A dense map constructed by genotyping the RIL population with the wheat 90K iSelect array included 5444 single nucleotide polymorphism (SNP) markers distributed in 36 linkage groups. Data for β-glucan and protein content, grain yield per spike and heading time were obtained from replicated trials conducted at two locations in southern Italy. A total of 19 QTL were detected in different chromosome regions. In particular, three QTL for β-glucan content were detected on chromosomes 2A and 2B (two loci); eight QTL controlling grain protein content were detected on chromosomes 1B, 2B, 3B (two loci), 4A, 5A, 7A and 7B; seven QTL for grain yield per spike were identified on chromosomes 1A, 2B, 3A (two loci), 3B (two loci) and 6B; and one marker-trait association was detected on chromosome 2A for heading time. The last was co-located with a β-glucan QTL, and the two QTL appeared to be negatively correlated. A genome scan for genomic regions controlling the traits and SNP annotated sequences identified five putative candidate genes involved in different biosynthesis pathways (β-glucosidase, GLU1a; APETALA2, TaAP2; gigantea 3, TaGI3; 14-3-3 protein, Ta14A; and photoperiod sensitivity, Ppd-A1). This study provides additional information on QTL for important agronomic traits that could be useful for marker-assisted breeding to obtain new genotypes with commercial and nutritional relevance.

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Section: Discussionmentioning

confidence: 88%

“…Linkage groups were assigned to the A and B genome chromosomes using the physical position of SNP reported in Colasuonno et al [13] and the SNP anchor loci reported in the durum consensus map of Maccaferri et al [15] (Figure 2, Table S1). …”

Section: Resultsmentioning

confidence: 99%

Development of a High-Density SNP-Based Linkage Map and Detection of QTL for β-Glucans, Protein Content, Grain Yield per Spike and Heading Time in Durum Wheat

Marcotuli

Gadaleta

Mangini

et al. 2017

IJMS

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show abstract

“…6A (Table S2). Although 89.4% of mapped SNPs displayed redundancy, only 10.6% was used to construct the linkage map, similarly as in previous studies, since many SNPs were co-located at the same loci [11,57].…”

Section: Linkage Map Constructionmentioning

confidence: 99%

Genome-Wide Linkage Mapping of Quantitative Trait Loci for Late-Season Physiological and Agronomic Traits in Spring Wheat under Irrigated Conditions

Liu

Wang

et al. 2018

Agronomy

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Many late-season physiological traits affect grain yield in wheat, either directly or indirectly. However, information on the genetic control of yield-related traits is still limited. In this study, we aimed to identify quantitative trait loci (QTL) for canopy temperature and chlorophyll content index during anthesis (CTa and CCIa, respectively), the mid grain-filling stage (CTg1 and CCIg1, respectively), and the late grain-filling stage (CTg2 and CCIg2, respectively) as well as for plant height (PH), thousand kernels weight (TKW), and grain yield (GY) using genome-wide linkage mapping. To this end, a double haploid population derived from a cross between two high yielding wheat cultivars, UI Platinum and SY Capstone, was phenotyped in four irrigated environments and genotyped using the wheat 90K iSelect platform and simple sequence repeats. The genotypic data were used to construct a high-density genetic map of 43 linkage groups (LGs) with a total length of 3594.0 cm and a marker density of 0.37 cm. A total of 116 QTL for all nine traits was detected on 33 LGs, spreading to all wheat chromosomes, except for Chr. 7D. Of these, six QTL (CTa.ui-4B.1, Q.CTg1.ui-5B-2.1, Q.CTg2.ui-6B.1, Q.PH.ui-6A-2.1, Q.TKW.ui-2D-1, and Q.GY.ui-6B) were consistently detected in more than three irrigated environments, called as stable QTL. Additionally, we identified 26 QTL clusters for more than two traits, of which the top four were located on Chromosomes 4A-1, 1B-1, 5B-2, and 2D-1. Overall, the stable QTL significantly related with grain yield, QTL clusters, and linked molecular markers identified in this study, may be useful in marker-assisted selection in early generation and early growth stage for grain yield improvement.

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“…DNA genotyping by SNPs has successfully been applied to the construction of high density genetic maps in wheat (Cavanagh et al, 2013;Colasuonno et al, 2014;Gadaleta et al, 2014;Maccaferri et al, 2014;Wang et al, 2014) and to varietal traceability in the food-chain with examples reported for olive oil (Consolandi et al, 2008) but, up to now, not in case of wheatbased foods.…”

Section: Introductionmentioning

confidence: 99%

Varietal traceability of bread ‘Pane Nero di Castelvetrano’ by denaturing high pressure liquid chromatography analysis of single nucleotide polymorphisms

et al. 2016

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Development of a high-density SNP-based linkage map and detection of yellow pigment content QTLs in durum wheat

Cited by 58 publications

References 58 publications

Development of a High-Density SNP-Based Linkage Map and Detection of QTL for β-Glucans, Protein Content, Grain Yield per Spike and Heading Time in Durum Wheat

Development of a High-Density SNP-Based Linkage Map and Detection of QTL for β-Glucans, Protein Content, Grain Yield per Spike and Heading Time in Durum Wheat

Genome-Wide Linkage Mapping of Quantitative Trait Loci for Late-Season Physiological and Agronomic Traits in Spring Wheat under Irrigated Conditions

Varietal traceability of bread ‘Pane Nero di Castelvetrano’ by denaturing high pressure liquid chromatography analysis of single nucleotide polymorphisms

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