Genome-wide association mapping of bread wheat genotypes for sustainable food security and yield potential under limited water conditions

Ahmed, Hafiz Ghulam Muhu-Din; Zeng, Yawen; Iqbal, Muhammad; Rashid, Muhammad Abdul Rehman; Raza, Humayun; Ullah, Aziz; Ali, Muhammad; Yar, Muhammad Majid; Shah, Adnan Noor

doi:10.1371/journal.pone.0263263

Cited by 7 publications

(7 citation statements)

References 53 publications

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“…Pleiotropic maker AX-94598030 was mapped near the proteins involved in stress tolerance, such as peroxisomal membrane protein ( Table 6 ), which are involved in the mitigation of protein degradation and oxidative stress tolerance (Palma et al, 2002 ), in turn may have influence on yield parameters in stress. The pleiotropic effect between stress tolerance and grain traits are previously reported in many studies (Ahmed et al, 2022b ). Markers such as AX-94578563 and AX-94941121 associated with DH were present near the gene coding for Invertase/pectin methylesterase inhibitor domain superfamily and sugar-1-phosphate guanyl transferase, respectively.…”

Section: Discussionmentioning

confidence: 57%

Genome-wide association mapping for component traits of drought and heat tolerance in wheat

et al. 2022

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Identification of marker trait association is a prerequisite for marker-assisted breeding. To find markers linked with traits under heat and drought stress in bread wheat (Triticum aestivum L.), we performed a genome-wide association study (GWAS). GWAS mapping panel used in this study consists of advanced breeding lines from the IARI stress breeding programme produced by pairwise and complex crosses. Phenotyping was done at multi locations namely New Delhi, Karnal, Indore, Jharkhand and Pune with augmented-RCBD design under different moisture and heat stress regimes, namely timely sown irrigated (IR), timely sown restricted irrigated (RI) and late sown (LS) conditions. Yield and its component traits, viz., Days to Heading (DH), Days to Maturity (DM), Normalized Difference Vegetation Index (NDVI), Chlorophyll Content (SPAD), Canopy temperature (CT), Plant Height (PH), Thousand grain weight (TGW), Grain weight per spike (GWPS), Plot Yield (PLTY) and Biomass (BMS) were phenotyped. Analysis of variance and descriptive statistics revealed significant differences among the studied traits. Genotyping was done using the 35k SNP Wheat Breeder's Genotyping Array. Population structure and diversity analysis using filtered 10,546 markers revealed two subpopulations with sufficient diversity. A large whole genome LD block size of 7.15 MB was obtained at half LD decay value. Genome-wide association search identified 57 unique markers associated with various traits across the locations. Twenty-three markers were identified to be stable, among them nine pleiotropic markers were also identified. In silico search of the identified markers against the IWGSC ref genome revealed the presence of a majority of the SNPs at or near the gene coding region. These SNPs can be used for marker-assisted transfer of genes/QTLs after validation to develop climate-resilient cultivars.

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Section: Discussionmentioning

confidence: 57%

Genome-wide association mapping for component traits of drought and heat tolerance in wheat

et al. 2022

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“…Molecular markers are crucial for understanding genome organization and provide important advantages in the means of development of new lines and determination of differentiation between initial germplasm [ 34 , 35 ]. The development of molecular markers in sunflower is at an advanced level and different types of markers have been developed for marker-assisted selection (MAS) over the years [ 7 ].…”

Section: Discussionmentioning

confidence: 99%

Molecular characterization and validation of sunflower (Helianthus annuus L.) hybrids through SSR markers

et al. 2022

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Genetic purity is a prerequisite for exploiting the potential of hybrids in cross-pollinated crops, such as sunflower. In this regard DNA-based study was conducted using 110 simple sequence repeat (SSR) markers to check the genetic purity of 23 parents and their 60 hybrids in sunflower. The polymorphism was shown in 92 markers with value 83.63%. The SSR markers ORS-453 and CO-306 showed the highest PIC values of 0.76 and 0.74, respectively. The primer ORS-453 amplified allele size of 310 base pairs (bp) for female parent L6 and 320 bp for L11, while for male parents, T1 and T2 had allele size 350 bp and 340 bp, respectively. The hybrids from these parents showed a similar size of alleles with parents, including hybrids L6×T1 (310 bp and 350 bp), L6×T2 (310 bp and 340 bp), and L11×T2 (320 bp and 340 bp). Similarly, the primer CO-306 amplified allele size 350 bp and 330 bp for female parents L6 and L11, respectively, while, allele size 300 bp and 310 bp for male parents T1 and T2, respectively. The hybrids’ allele size was like the parents viz., L6×T1 (350 bp and 300 bp), L6×T2 (350 bp and 310 bp), and L11×T2 (330 bp and 310 bp). All 60 hybrids and their 23 parents were grouped into three main clusters (A, B and C) based upon DARWIN v.6.0 and STRUCTURE v.2.3 Bayesian analyses using genotypic data. Further, each main cluster was divided into two sub-divisions. Each sub-division showed the relatedness of parents and their hybrids, thus authenticating the genetic purity of hybrids. In conclusion, this study provides useful for accurate and effective identification of hybrids, which will help to improve seed genetic purity testing globally.

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“…2 and S5 ), and high (>60%) broad-sense heritability (H 2 ) across the years suggests less environmental effect in the observed changes of the SRIs and yield traits. Significant variations in grain yield and its attributes were also kept referring to rainfed bread wheats ( Ahmed et al, 2022 ; Mwadzingeni et al, 2016 ; Prasad et al, 2007 ). The present study stipulated that plant vegetation and water indices were decreased under drought, however, except for PRI, a substantial increase in the pigment-specific spectral indices was recorded across growing years in our study.…”

Section: Discussionmentioning

confidence: 99%

Canopy spectral reflectance indices correlate with yield traits variability in bread wheat genotypes under drought stress

Mohiuddin

Hossain

Rohman

et al. 2022

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Drought stress is a major issue impacting wheat growth and yield worldwide, and it is getting worse as the world’s climate changes. Thus, selection for drought-adaptive traits and drought-tolerant genotypes are essential components in wheat breeding programs. The goal of this study was to explore how spectral reflectance indices (SRIs) and yield traits in wheat genotypes changed in irrigated and water-limited environments. In two wheat-growing seasons, we evaluated 56 preselected wheat genotypes for SRIs, stay green (SG), canopy temperature depression (CTD), biological yield (BY), grain yield (GY), and yield contributing traits under control and drought stress, and the SRIs and yield traits exhibited higher heritability (H2) across the growing years. Diverse SRIs associated with SG, pigment content, hydration status, and aboveground biomass demonstrated a consistent response to drought and a strong association with GY. Under drought stress, GY had stronger phenotypic correlations with SG, CTD, and yield components than in control conditions. Three primary clusters emerged from the hierarchical cluster analysis, with cluster I (15 genotypes) showing minimal changes in SRIs and yield traits, indicating a relatively higher level of drought tolerance than clusters II (26 genotypes) and III (15 genotypes). The genotypes were appropriately assigned to distinct clusters, and linear discriminant analysis (LDA) demonstrated that the clusters differed significantly. It was found that the top five components explained 73% of the variation in traits in the principal component analysis, and that vegetation and water-based indices, as well as yield traits, were the most important factors in explaining genotypic drought tolerance variation. Based on the current study’s findings, it can be concluded that proximal canopy reflectance sensing could be used to screen wheat genotypes for drought tolerance in water-starved environments.

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Genome-wide association mapping of bread wheat genotypes for sustainable food security and yield potential under limited water conditions

Cited by 7 publications

References 53 publications

Genome-wide association mapping for component traits of drought and heat tolerance in wheat

Genome-wide association mapping for component traits of drought and heat tolerance in wheat

Molecular characterization and validation of sunflower (Helianthus annuus L.) hybrids through SSR markers

Canopy spectral reflectance indices correlate with yield traits variability in bread wheat genotypes under drought stress

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