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

Ballesta, Paulina; Mora, Freddy; Pozo, Alejandro del

doi:10.1590/1678-992x-2018-0153

Cited by 46 publications

(37 citation statements)

References 46 publications

(59 reference statements)

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“…Both single marker and haplotype-based GWAS revealed the association of Y on chromosome 4A in both the years under irrigated and drought conditions (Figure 1.b-e, percentage variation explained as large as 41% in some studies [34]. The present and previous studies therefore suggest an important role of 4A chromosome in drought adaptation in wheat.…”

Section: 4in Silico Resultssupporting

confidence: 68%

GWAS Analysis of Wheat Pre-breeding Germplasm for Terminal Drought Stress Using Next Generation Sequencing Technology

Shokat¹,

Sehgal²,

F³

et al. 2020

Preprint

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Bread wheat (Triticum aestivum L.) is one of the most important cereal crops for food security. Of all the stresses that curtail wheat productivity, drought has the most detrimental effects. Especially terminal drought stress i.e. at the time of flowering imposes a big challenge to sustain grain production. In the current study, 339 pre-breeding lines derived from three-way crosses of exotics x elite lines were evaluated in the irrigated and drought stress environments at Obregon, Mexico for the year 2016 and 2018. Drought significantly reduced yield (Y), spike length (SL), number of grains per spikes (NGS) and thousand kernel weight (TKW) by 46.4, 19.2, 23.5 and 25.9%, respectively in comparison to irrigated conditions. Kernel abortion (KA), highly correlated with Y, increased significantly (11.6%) under drought stress environment. Population structure analysis in this panel revealed three sub-populations and a genome wide linkage disequilibrium (LD) decay was at 2.5 cM. Single marker and haplotypes-based genome wide association study (GWAS) revealed significant associations on three chromosomes; 4A (HB10.7), 2D (HB6.10) and 3B (HB8.12) with Y, SL and TKW, respectively. Likewise, associations on chromosomes 6B (HB17.1) and 3A (HB7.11) were identified for NGS and on 3A (HB7.12) for KA. Five traits i.e. normalized difference vegetation index (NDVI), canopy temperature depression (CTD) days to heading (DTH), NGS, KA were associated at chromosome 3A both under irrigated and drought conditions however, different haplotypes were estimated. Twenty-six SNPs were part of 10 haplotype blocks associated with Y, SL, TKW, NGS and KA. In silico analysis of the associated SNPs/haplotypes showed hits with candidate genes known to confer abiotic stress resistance in model species and crops. Potential candidate genes include those coding for sulfite exporter TauE/SafE family in Arabidopsis thaliana, TBC domain containing protein in Oryza sativa subsp. Japonica and heat shock proteins in Aegilops tauschii subsp. tauschii were revealed. The SNPs linked to the promising genes identified in the study can be used for marker-assisted selection.

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Section: 4in Silico Resultssupporting

confidence: 68%

GWAS Analysis of Wheat Pre-breeding Germplasm for Terminal Drought Stress Using Next Generation Sequencing Technology

Shokat¹,

Sehgal²,

F³

et al. 2020

Preprint

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“…The marker Xgwm299 on 3B in association with QMP_S2.NIAB-3B.1 and QST_S2.NIAB-3B co-locates with Phr, Sw and Sps QTLs. Furthermore, the same marker is linked with Tkw [51] and Phr at late growing stages [40] in other studies. Furthermore, the interval of QDRI_S1.NIAB-5B (Xwmc28-Xgwm1072) is linked with HI, spike HI and spike number QTLs in durum wheat [52].…”

Section: Stress Indicessupporting

confidence: 55%

Mapping of QTLs Associated with Yield and Yield Related Traits in Durum Wheat (Triticum durum Desf.) Under Irrigated and Drought Conditions

Arif

Attaria

Shokat

et al. 2020

IJMS

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Global durum wheat consumption (Triticum durum Desf.) is ahead of its production. One reason for this is abiotic stress, e.g., drought. Breeding for resistance to drought is complicated by the lack of fast, reproducible screening techniques and the inability to routinely create defined and repeatable water stress conditions. Here, we report the first analysis of dissection of yield and yield-related traits in durum wheat in Pakistan, seeking to elucidate the genetic components of yield and agronomic traits. Analysis of several traits revealed a total of 221 (160 with logarithm of odds (LOD) > 2 ≤ 3 and 61 with LOD > 3) quantitative trait loci (QTLs) distributed on all fourteen durum wheat chromosomes, of which 109 (78 with LOD > 2 ≤ 3 and 31 with LOD > 3) were observed in 2016-17 (S1) and 112 (82 with LOD > 2 ≤ 3 and 30 with LOD > 3) were observed in 2017-18 (S2). Allelic profiles of yield QTLs on chromosome 2A and 7B indicate that allele A of Xgwm895 and allele B of Xbarc276 can enhance the Yd up to 6.16% in control and 5.27% under drought. Moreover, if combined, a yield gain of up to 11% would be possible.

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“…Farmers have reported an 83% increase in the frequency of droughts in the central zone of Chile, which has had a significant impact on agricultural production [ 6 ]. Therefore, plant species that can tolerate environments with low water availability must be studied [ 7 ].…”

Section: Introductionmentioning

confidence: 99%

Haplotype- and SNP-Based GWAS for Growth and Wood Quality Traits in Eucalyptus cladocalyx Trees under Arid Conditions

Valenzuela

Ballesta²,

Ahmar

et al. 2021

Plants

Self Cite

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The agricultural and forestry productivity of Mediterranean ecosystems is strongly threatened by the adverse effects of climate change, including an increase in severe droughts and changes in rainfall distribution. In the present study, we performed a genome-wide association study (GWAS) to identify single-nucleotide polymorphisms (SNPs) and haplotype blocks associated with the growth and wood quality of Eucalyptus cladocalyx, a tree species suitable for low-rainfall sites. The study was conducted in a progeny-provenance trial established in an arid site with Mediterranean patterns located in the southern Atacama Desert, Chile. A total of 87 SNPs and 3 haplotype blocks were significantly associated with the 6 traits under study (tree height, diameter at breast height, slenderness coefficient, first bifurcation height, stem straightness, and pilodyn penetration). In addition, 11 loci were identified as pleiotropic through Bayesian multivariate regression and were mainly associated with wood hardness, height, and diameter. In general, the GWAS revealed associations with genes related to primary metabolism and biosynthesis of cell wall components. Additionally, associations coinciding with stress response genes, such as GEM-related 5 and prohibitin-3, were detected. The findings of this study provide valuable information regarding genetic control of morphological traits related to adaptation to arid environments.

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

Cited by 46 publications

References 46 publications

GWAS Analysis of Wheat Pre-breeding Germplasm for Terminal Drought Stress Using Next Generation Sequencing Technology

GWAS Analysis of Wheat Pre-breeding Germplasm for Terminal Drought Stress Using Next Generation Sequencing Technology

Mapping of QTLs Associated with Yield and Yield Related Traits in Durum Wheat (Triticum durum Desf.) Under Irrigated and Drought Conditions

Haplotype- and SNP-Based GWAS for Growth and Wood Quality Traits in Eucalyptus cladocalyx Trees under Arid Conditions

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