High-Density Genetic Linkage Map Construction and QTL Mapping of Grain Shape and Size in the Wheat Population Yanda1817 × Beinong6

Wu, Qiuhong; Chen, Yongxing; Zhou, Shumin; Lin, Fei; Chen, Jiaojiao; Xiao, Yumei; Zhang, Dong; Ouyang, Shuai; Zhao, Xin; Cui, Yu; Zhang, Deyun; Liang, Yong; Wang, Zhenzhong; Xie, Jingzhong; Qin, Jinxia; Wang, Guoxin; Li, Delin; Huang, Yinlian; Yu, Meihua; Lü, Ping; Wang, Lili; Wang, Ling; Wang, Hao; Dang, Chen; Li, Jie; Zhang, Yan; Peng, Huiru; Yuan, Chunlong; You, Minsheng; Sun, Qixin; Wang, Jirui; Wang, Lixin; Luo, Ming‐Cheng; Han, Joan C.; Liu, Zhiyong

doi:10.1371/journal.pone.0118144

Cited by 110 publications

(102 citation statements)

References 59 publications

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“…It comprised 2575 markers spanning 5008.3 cM, with an average distance of 1.9 cM between adjacent markers. The B genome contained the maximum number of markers, followed by the A and D genomes, in accordance with earlier studies (Hao et al 2003;Xue et al 2008;Wang et al 2014;Wu et al 2015).…”

Section: Discussionsupporting

confidence: 91%

“…This lower number in the D genome was consistent with previous studies (Allen et al 2011(Allen et al , 2013Cavanagh et al 2013;Wu et al 2015). This might be due to the higher diversity of the A and B genomes compared to the D genome, which has lower diversity (Ling et al 2013;Jia et al 2013;Brenchley et al 2012).…”

Section: Deficiency Of Markers In the D Genomesupporting

confidence: 91%

“…As in previous reports (Allen et al 2011(Allen et al , 2013Wu et al 2015) the SNP clusters were integrated with SSR and AFLP markers. This clustering phenomenon might be related to the origins of the SNP, which were developed from the transcriptomes of only 26 hexaploid wheat accessions with most SNP being in gene regions (Cavanagh et al 2013).…”

Section: Discussionmentioning

confidence: 99%

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Mapping QTL for stay-green and agronomic traits in wheat under diverse water regimes

Shi

Azam

et al. 2017

Euphytica

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Wheat (Triticum aestivum L.) yield is directly proportional to physio-morphological traits. A high-density genetic map consisting of 2575 markers was used for mapping QTL controlling stay-green and agronomic traits in wheat grown under four diverse water regimes. A total of 108 additive QTL were identified in target traits. Among them, 28 QTL for chlorophyll content (CC) were detected on 11 chromosomes, 43 for normalized difference vegetation index (NDVI) on all chromosomes except 5B, 5D, and 7D, five for spikes per plant (NSP) on different chromosomes, nine for plant height (PH) on four chromosomes, and 23 for thousand-kernel weight (TKW) on 11 chromosomes. Considering all traits, the phenotypic variation explained (PVE) ranged from 3.61 to 41.62%. A major QTL, QNDVI.cgb-5A.7, for NDVI with a maximum PVE of 20.21%, was located on chromosome 5A. A stable and major PH QTL was observed on chromosome 4D with a PVE close to 40%. Most distances between QTL and corresponding flanking markers were less than 1 cM, and approximately one-third of the QTL coincided with markers. Each of 16 QTL clusters on 10 chromosomes controlled more than one trait and therefore could be regarded as pleiotropic regions in response to different water regimes. Forty-one epistatic QTL were identified for all traits having PVE of 6.00 to 25.07%. Validated QTL closely linked to flanking markers will be beneficial for marker-assisted selection in improving drought-tolerance in wheat.

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Section: Discussionsupporting

confidence: 91%

Section: Deficiency Of Markers In the D Genomesupporting

confidence: 91%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Mapping QTL for stay-green and agronomic traits in wheat under diverse water regimes

Shi

Azam

et al. 2017

Euphytica

View full text Add to dashboard Cite

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“…The order of SNP markers along the chromosomes was basically consistent with Wang et al (2014). The genetic length of this map was 2875.3 cM, similar to reported maps in hexaploid wheat (Somers et al, 2004; Wu et al, 2015b). Notably, the high number (11,646) of polymorphic SNP markers between Y8679 and J411 is comparable to Jin et al (2016) and Perez-Lara et al (2016), who detected 12,205 and 10,342 polymorphic SNPs between two parental lines, respectively.…”

Section: Discussionsupporting

confidence: 86%

“…The recently developed iSelect 9K and 90K arrays (Cavanagh et al, 2013; Wang et al, 2014) designed to characterize genetic variation in hexaploid wheat populations have extensive applications in QTL mapping (Wu et al, 2015b), genome-wide association studies (GWAS) (Gao et al, 2016), genomic selection (He et al, 2016), and establishment of heterotic groups (Zhao et al, 2015). In the present study, we constructed a dense genetic linkage map for the Y8679/J411 RIL population, using 10,816 polymorphic SNP markers from an iSelect 90K array and 174 polymorphic SSR markers.…”

Section: Discussionmentioning

confidence: 99%

QTL Analysis of Spike Morphological Traits and Plant Height in Winter Wheat (Triticum aestivum L.) Using a High-Density SNP and SSR-Based Linkage Map

et al. 2016

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Wheat yield can be enhanced by modifying the spike morphology and the plant height. In this study, a population of 191 F9 recombinant inbred lines (RILs) was developed from a cross between two winter cultivars Yumai 8679 and Jing 411. A dense genetic linkage map with 10,816 markers was constructed by incorporating single nucleotide polymorphism (SNP) and simple sequence repeat (SSR) marker information. Five spike morphological traits and plant height were evaluated under nine environments for the RILs and parental lines, and the number of detected environmentally stable QTLs were 18 and three, respectively. The 1RS/1BL (rye) translocation increased both spike length and spikelet number with constant spikelet compactness. The QPht.cau-2D.1 was identical to gene Rht8, which decreased spike length without modifying spikelet number. Notably, four novel QTLs locating on chromosomes 1AS (QSc.cau-1A.1), 2DS (QSc.cau-2D.1), and 7BS (QSl.cau-7B.1 and QSl.cau-7B.2) were firstly identified in this study, which provide further insights into the genetic factors that shaped the spike morphology in wheat. Moreover, SNP markers tightly linked to previously reported QTLs will eventually facilitate future studies including their positional cloning or marker-assisted selection.

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Genome‐wide mapping of resistance to stripe rust caused by Puccinia striiformis f. sp. tritici in hexaploid winter wheat

2020

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Stripe rust, caused by the fungus Puccinia striiformis f. sp. tritici (Pst), is a widespread disease and major limit to wheat (Triticum aestivum L.) production worldwide. The USDA‐ARS National Small Grains Germplasm Collection has proven to be a rich source of genetic diversity to improve stripe rust resistance in wheat breeding programs. The objective of the present study was to investigate the genetic diversity and sources of resistance to stripe rust in 441 accessions from the collection representing globally sourced winter wheat germplasm, as a complement to a previous study. A genome‐wide association study was conducted to identify loci conferring resistance to Pst based on phenotypic data from four field experiments and greenhouse seedling resistance screening against three races of the pathogen. A total of 5831 single nucleotide polymorphism markers were used to investigate population structure, linkage disequilibrium, and marker–trait associations. Our results showed 12 and 7 genomic regions significantly associated with Pst resistance based on field adult‐plant and greenhouse seedling responses, respectively, at a false discovery rate adjusted P value of <0.1. Four of the significantly associated genomic regions were mapped far from previously identified Pst resistance genes and quantitative trait loci, indicating that they represent potentially new Pst resistance loci. The present study provides additional insight into the usefulness of wheat germplasm collections as an important resistance source that can be used to incorporate diverse resistance genes into adapted wheat cultivars. Further work should aim to validate the identified genomic regions and the associated molecular markers to enhance their utility in marker‐assisted breeding.

show abstract

High-Density Genetic Linkage Map Construction and QTL Mapping of Grain Shape and Size in the Wheat Population Yanda1817 × Beinong6

Cited by 110 publications

References 59 publications

Mapping QTL for stay-green and agronomic traits in wheat under diverse water regimes

Mapping QTL for stay-green and agronomic traits in wheat under diverse water regimes

QTL Analysis of Spike Morphological Traits and Plant Height in Winter Wheat (Triticum aestivum L.) Using a High-Density SNP and SSR-Based Linkage Map

Genome‐wide mapping of resistance to stripe rust caused by Puccinia striiformis f. sp. tritici in hexaploid winter wheat

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