Association mapping for photosynthesis and yield traits under two moisture conditions and their drought indices in winter bread wheat (Triticum aestivum L.) using SSR markers

Iqbal, Saeed; Chen, Xiaojie; Bachir, Daoura Goudia; Chen, Liang; Hu, Yin‐Gang

doi:10.21475/ajcs.17.11.03.pne252

Cited by 12 publications

(7 citation statements)

References 35 publications

(37 reference statements)

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“…There have been conflicting reports on the phenotypic variation explained by the markers (e.g., SSR, RFLP, AFLP and our results with SNP markers) for traits involved in drought stress indices. The findings reported by Saeed et al (2017) and Edae et al (2014) are consistent with the present study. On the other hand, Jaganathan et al (2015) detected one SNP associated with GY-SSI and three associated with GY-STI using GBS technology, explaining between 10 % and 13 %, respectively, of the phenotypic variation in chickpea.…”

Section: Resultssupporting

confidence: 93%

“…Consistently, Mora et al (2015) reported eight SNPs over the growing seasons associated with TKW in a non-stress site (irrigated site). Interestingly, Saeed et al (2017) also detected SNPs associated with TKW-STI and GY-STI in more than one growing season in wheat. The early detection of QTL and evaluation of their stability .…”

Section: Resultsmentioning

confidence: 94%

“…One SSR located on chromosome 2D was associated with GY-SSI and GY-TOL, and an exclusive SNP for GY-TOL was located on chromosome 2B. Saeed et al (2017) dis- (2), 3B(4), 3D(1), 4A(1), 5A(3), 6A(4), 6B(2), 6D(9), 7B(1), 7D(1) 2-4 TKW-TOL 1A(1), 1D(1), 2B(1), 5A(1), 6A(1), 6B(1) 3-5…”

Section: Resultsmentioning

confidence: 98%

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Association mapping of drought tolerance indices in wheat: QTL-rich regions on chromosome 4A

Ballesta

Mora

Pozo

2020

Sci. agric. (Piracicaba, Braz.)

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Drought is likely the main abiotic stress that affects wheat yield. The identification of drought-tolerant genotypes represents an effective way of dealing with the continuous decrease in water resources as well as the increase in world population. The aim of this study was to identify single nucleotide polymorphisms (SNP) associated with drought tolerance indices in wheat by using a genome-wide association study (GWAS) under fully irrigated and rain-fed conditions. The drought tolerance indices (i.e., Stress Susceptibility Index, Stress Tolerance Index, Tolerance Index and Yield Stability Index) were calculated based on grain yield, 1,000-kernel weight and kernels per spike. The association panel was genotyped using genotyping-bysequencing (GBS). A total of 175 SNPs exhibited statistical evidence of association with at least one drought tolerance index, explaining up to 6 % of the phenotypic variation. Forty-five SNPs were associated with more than one tolerance index (up to 4 agronomic traits). Most associations were located on chromosome 4A, supporting the hypothesis that this chromosome has a key role in drought tolerance which should be exploited for wheat improvement. In addition, statistical analysis detected SNPs associated with tolerance indices in both growing seasons, providing information about genetic regions with stable effects under different environmental conditions. This GWAS experiment serves as one of the few studies on association mapping for drought tolerance indices in wheat, which could increase the efficiency of rain-fed and irrigated crop production.

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Section: Resultssupporting

confidence: 93%

Section: Resultsmentioning

confidence: 94%

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Association mapping of drought tolerance indices in wheat: QTL-rich regions on chromosome 4A

Ballesta

Mora

Pozo

2020

Sci. agric. (Piracicaba, Braz.)

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“…GWAS utilizes linkage disequilibrium to dissect the genetic architecture of complex traits by correlating phenotypes to genotypes [ 18 , 19 ]. It has been utilized successfully in wheat to identify QTL linked to many important agronomic traits such as flowering time, plant height, grain yield, milling quality and disease resistance [ 18 , 20 , 21 , 22 , 23 , 24 , 25 , 26 , 27 , 28 ].…”

Section: Introductionmentioning

confidence: 99%

Identification of Novel Quantitative Trait Loci Linked to Crown Rot Resistance in Spring Wheat

Erginbaş-Orakci¹,

Sehgal

Sohail

et al. 2018

IJMS

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Crown rot (CR), caused by various Fusarium species, is a major disease in many cereal-growing regions worldwide. Fusarium culmorum is one of the most important species, which can cause significant yield losses in wheat. A set of 126 advanced International Maize and Wheat Improvement Center (CIMMYT) spring bread wheat lines were phenotyped against CR for field crown, greenhouse crown and stem, and growth room crown resistance scores. Of these, 107 lines were genotyped using Diversity Array Technology (DArT) markers to identify quantitative trait loci linked to CR resistance by genome-wide association study. Results of the population structure analysis grouped the accessions into three sub-groups. Genome wide linkage disequilibrium was large and declined on average within 20 cM (centi-Morgan) in the panel. General linear model (GLM), mixed linear model (MLM), and naïve models were tested for each CR score and the best model was selected based on quarantine-quarantine plots. Three marker-trait associations (MTAs) were identified linked to CR resistance; two of these on chromosome 3B were associated with field crown scores, each explaining 11.4% of the phenotypic variation and the third MTA on chromosome 2D was associated with greenhouse stem score and explained 11.6% of the phenotypic variation. Together, these newly identified loci provide opportunity for wheat breeders to exploit in enhancing CR resistance via marker-assisted selection or deployment in genomic selection in wheat breeding programs.

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“…In this study, 2 markers showed stable association with different traits under both screen house conditions, notably markers 100051488|F|0-49 and 14083801|F|0-28. The detection of genomic regions associated with multiple traits across variable environments is essential in breeding crops for wide adaptation and yield stability (27).…”

Section: Discussionmentioning

confidence: 99%

Association Mapping for Drought Tolerance and Yield-Related Traits in Cowpea Accessions

Nkomo¹,

Sedibe²,

Mofokeng³

et al. 2020

Preprint

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The objective of this study were to conduct association mapping for drought tolerance at the seedling stage and yield-related traits. 60 cowpea accessions were used in the study. Single-nucleotide polymorphisms (SNPs) discovered through genotyping by sequencing (GBS) were used for genotyping. Association mapping was conducted using single-marker regression (SMR) in Q Gene, and general linear model (GLM) and mixed linear model (MLM) built in TASSEL. The population of the cowpea accessions were analysed using STRUCTURE 2.3.4 and the peak of delta K in the greenhouse showed seven population types, whereas the peak of delta K in the glasshouse indicated the presence of six population types. One SNP marker, 14083649|F|0-9 was associated with NP with a p value <0.001. Fifty SNP markers were associated with PWT at p <0.001. Four SNP markers, 14074781|F|0-16, 100047392|F|0-36, 14083801|F|0-28 and 100051488|F|0-49 were associated with AVSPD at p <0.001. SNP markers, 14074781|F|0-16, 14083801|F|0-28 and 100051488|F|0-49 were associated with PL at P <0.001. Five SNP markers, 100047392|F|0-36, 14083801|F|0-28, 100072738|F|0-34, 14076881|F|0-49 and 14076881|F|0-49 were associated with PWDTH at p <0.001. The 65 SNP markers identified can be used in cowpea molecular breeding to select for AVSPD, NP, PL, PWDTH, PWT, and RR through marker assisted selection (MAS).

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Association mapping for photosynthesis and yield traits under two moisture conditions and their drought indices in winter bread wheat (Triticum aestivum L.) using SSR markers

Cited by 12 publications

References 35 publications

Association mapping of drought tolerance indices in wheat: QTL-rich regions on chromosome 4A

Association mapping of drought tolerance indices in wheat: QTL-rich regions on chromosome 4A

Identification of Novel Quantitative Trait Loci Linked to Crown Rot Resistance in Spring Wheat

Association Mapping for Drought Tolerance and Yield-Related Traits in Cowpea Accessions

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