QTL mapping for salt tolerance associated traits in wheat (Triticum aestivum L.)

Devi, Rajni; Ram, Sewa; Rana, Vijay; Malik, Vipin Kumar; Pande, Veena; Singh, Gyanendra Pratap

doi:10.1007/s10681-019-2533-z

Cited by 25 publications

(13 citation statements)

References 66 publications

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“… Ref. No Population QTL References Parents Size Type Marker type Projected number 1 RAC875 × Kukri 368 DH DArT, SSR 7 63 2 Kharchia65 × HD2009 114 RIL SSR 1 64 3 Opata85 × W7984 114 RIL SSR 7 65 4 Iran#49 × Yecora Rojo 168 RIL SSR 3 66 5 Excalibur × Kukri 192 DH DArT, SSR 2 67 6 Berkut × Krichauff 152 DH DArT, SSR 8 68 7 Weebill × Bacanora 105 RIL DArT, SSR, KASP 7 69 8 ND33...…”

Section: Resultsmentioning

confidence: 99%

Detection of genomic regions associated with tiller number in Iranian bread wheat under different water regimes using genome-wide association study

Bilgrami

Ramandi

Shariati

et al. 2020

Sci Rep

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Two of the important traits for wheat yield are tiller and fertile tiller number, both of which have been thought to increase cereal yield in favorable and unfavorable environments. A total of 6,349 single nucleotide polymorphism (SNP) markers from the 15 K wheat Infinium array were employed for genome-wide association study (GWAS) of tillering number traits, generating a physical distance of 14,041.6 Mb based on the IWGSC wheat genome sequence. GWAS analysis using Fixed and random model Circulating Probability Unification (FarmCPU) identified a total of 47 significant marker-trait associations (MTAs) for total tiller number (TTN) and fertile tiller number (FTN) in Iranian bread wheat under different water regimes. After applying a 5% false discovery rate (FDR) threshold, a total of 13 and 11 MTAs distributed on 10 chromosomes were found to be significantly associated with TTN and FTN, respectively. Linked single nucleotide polymorphisms for IWB39005 (2A) and IWB44377 (7A) were highly significantly associated (FDR < 0.01) with TTN and FTN traits. Moreover, to validate GWAS results, meta-analysis was performed and 30 meta-QTL regions were identified on 11 chromosomes. The integration of GWAS and meta-QTLs revealed that tillering trait in wheat is a complex trait which is conditioned by the combined effects of minor changes in multiple genes. The information provided by this study can enrich the currently available candidate genes and genetic resources pools, offering evidence for subsequent analysis of genetic adaptation of wheat to different climatic conditions of Iran and other countries. Bread wheat (Triticum aestivum L., genomes AABBDD, 2n = 6x = 42), is a major cereal crop, supplying 20% of the total energy and protein of the world's diet 1. Its production and productivity, especially in arid and semiarid regions such as Iran, are considerably constrained by extreme drought and heat stresses. Breeding for grain yield is the final step to produce stress-tolerant crop plants, since grain yield is a complex trait with low heritability, which is controlled by multiple genes and is affected by a lot of environmental factors, other traits such as yield components can be employed to overcome the limitations. Tillering is a crucial factor for wheat yield because of its involvement in grain weight and grain number determination. Moreover, it is a determinant of grain yield,

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Section: Resultsmentioning

confidence: 99%

Detection of genomic regions associated with tiller number in Iranian bread wheat under different water regimes using genome-wide association study

Bilgrami

Ramandi

Shariati

et al. 2020

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Additionally, it was noticed that QTL for K + , proline content, tiller number (TN), TKW, days to heading (DTH), and days to anthsis (DTA) were also detected under sodic stress in this region (Devi et al 2019).…”

Section: Discussionmentioning

confidence: 97%

“…Soriano & Alvaro (2019) found that 35 meta-QTL were related to root architecture and/or drought stress response by meta-analysis with many published articles. For salt-tolerance studies in wheat, researchers formerly focused on the QTL for the maximum root length and biomass (Devi et al 2019;Ma et al 2007;Xu et al 2012;Xu et al 2013), but few noticed the variation of RSATs under salt stress such as root diameter, main and lateral root number, length, surface area and so on.…”

Section: Introductionmentioning

confidence: 99%

Mapping QTL For Seedling Morphological and Physiological Traits Under Normal and Salt Treatments in a RIL Wheat Population

Yang

et al. 2021

Preprint

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Soil salinity seriously constrains wheat (Triticum aestivum L.) production globally by influencing its growth and development. To explore the genetic base of salt tolerance in wheat, a recombinant inbred line (RIL) population derived from a cross between high-yield wheat cultivar Zhongmai 175 (ZM175) and salt tolerant cultivar Xiaoyan 60 (XY60) was used to map QTL for seedling traits under normal and salt treatments based on a high-density genetic linkage map. A total of 158 stable additive QTL for 27 morphological and physiological traits were identified and distributed on all wheat chromosomes except 3A and 4D. They explained 2.35%–46.43% of the phenotypic variation with a LOD score range of 2.61–40.38. Among them, 39 QTL were detected under both normal and salt treatments, while 80 and another 39 QTL were detected under only normal and salt treatment, respectively. The alleles from XY60 increased corresponding traits for 100 QTL, while the alleles from ZM175 had positive effects for the other 58 QTL. Nearly half of the QTL (78/158) were mapped in nine QTL clusters on chromosomes 2A, 2B, 2D, 4B, 5A, 5B, 5D, and 7D (2), respectively. To prove the reliability and potentiality in molecular marker-assisted selection (MAS), seven QTL intervals were validated in two other genetic populations. In addition, besides additive QTL (a), epistatic (aa) and QTL-by-environment (at) interaction effects were also analyzed here. It was shown that 94 pairs of loci were detected with significant epistatic effect and 20 QTL were found to interact with treatment. This study provides a full elucidation of the genetic base of seedling traits (especially root system related traits) associated with salt tolerance in wheat, and the developed kompetitive allele specific PCR markers closely linked to stable QTL would supply strong supports to MAS in salt tolerant wheat breeding.

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“…Plant height, tiller number, leaf injury, Na + and K + concentration, K + /Na + ratio, plant dry weights, water content, chlorophyll, seedling biomass, grain yield, spikelet number and germination have been widely used for QTL mapping (Chaurasia et al 2020;Díaz De León et al 2011). For example, 25 QTL were identified on seven chromosomal regions that were associated with eleven salinity tolerance related traits including Na + and K + content in wheat (Devi et al 2019). A total of ninety stable QTL were mapped against fifteen agronomic traits in a wheat recombinant inbred line (RIL) population (Luo et al 2021).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide association study reveals a genomic region on 5AL for salinity tolerance in wheat

et al. 2021

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Soil salinity is a major threat to crop productivity and quality worldwide. In order to reduce the negative effects of salinity stress, it is important to understand the genetic basis of salinity tolerance. Identifying new salinity tolerance QTL or genes is crucial for breeders to pyramid different tolerance mechanisms to improve crop adaptability to salinity. Being one of the major cereal crops, wheat is known as a salt-sensitive glycophyte and subject to substantial yield losses when grown in the presence of salt. In this study, both pot and tank experiments were conducted to investigate the genotypic variation present in 328 wheat varieties in their salinity tolerance at the vegetative stage. A Genome-Wide Association Studies (GWAS) were carried out to identify QTL conferring salinity tolerance through a mixed linear model. Six, five and eight significant marker-trait associations (MTAs) were identified from pot experiments, tank experiments and average damage scores, respectively. These markers are located on the wheat chromosomes 1B, 2B, 2D, 3A, 4B, and 5A. These tolerance alleles were additive in their effects and, when combined, increased tolerance to salinity. Candidate genes identified in these QTL regions encoded a diverse class of proteins involved in salinity tolerance in plants. A Na + /H + exchanger and a potassium transporter on chromosome 5A (IWB30519) will be of a potential value for improvement of salt tolerance of wheat cultivars using marker assisted selection programs. Some useful genotypes, which showed consistent tolerance in different trials, can also be effectively used in breeding programs.

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QTL mapping for salt tolerance associated traits in wheat (Triticum aestivum L.)

Cited by 25 publications

References 66 publications

Detection of genomic regions associated with tiller number in Iranian bread wheat under different water regimes using genome-wide association study

Detection of genomic regions associated with tiller number in Iranian bread wheat under different water regimes using genome-wide association study

Mapping QTL For Seedling Morphological and Physiological Traits Under Normal and Salt Treatments in a RIL Wheat Population

Genome-wide association study reveals a genomic region on 5AL for salinity tolerance in wheat

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QTL mapping for salt tolerance associated traits in wheat (Triticum aestivum L.)

Cited by 25 publications

References 66 publications

Detection of genomic regions associated with tiller number in Iranian bread wheat under different water regimes using genome-wide association study

Detection of genomic regions associated with tiller number in Iranian bread wheat under different water regimes using genome-wide association study

Mapping QTL For Seedling Morphological and Physiological Traits Under Normal and Salt Treatments&nbsp;in a RIL Wheat Population

Genome-wide association study reveals a genomic region on 5AL for salinity tolerance in wheat

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Mapping QTL For Seedling Morphological and Physiological Traits Under Normal and Salt Treatments in a RIL Wheat Population