QTLs associated with yield attributing traits under drought stress in upland rice cultivar of Assam

Sharma, Vinay; Verma, Rahul Kumar; Dey, P. C.; Chetia, S. K.; Baruah, AR; Modi, M. K.

doi:10.5958/2249-5266.2017.00034.0

Cited by 9 publications

(2 citation statements)

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“…At the same time, under WW conditions, another QTL for pod weight (qPW-A03.2) was identified on the same chromosome A03 flanked by the same marker loci with favorable allele contribution from parent TAG 24. The QTLs under two water regimes remained consistent and flanked by the same markers on the same chromosome, thereby showing the stability in its expression and not essentially affected by environmental factors as reported in rice [52,53]. QTL for dry weight increase, dry matter, leaf area, and canopy conductance coincided with the QTLs detected earlier using the same mapping population [16,18,21].…”

Section: Discussionsupporting

confidence: 74%

Improved Genetic Map Identified Major QTLs for Drought Tolerance- and Iron Deficiency Tolerance-Related Traits in Groundnut

Pandey

Gangurde

Sharma

et al. 2020

Genes

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A deep understanding of the genetic control of drought tolerance and iron deficiency tolerance is essential to hasten the process of developing improved varieties with higher tolerance through genomics-assisted breeding. In this context, an improved genetic map with 1205 loci was developed spanning 2598.3 cM with an average 2.2 cM distance between loci in the recombinant inbred line (TAG 24 × ICGV 86031) population using high-density 58K single nucleotide polymorphism (SNP) “Axiom_Arachis” array. Quantitative trait locus (QTL) analysis was performed using extensive phenotyping data generated for 20 drought tolerance- and two iron deficiency tolerance-related traits from eight seasons (2004–2015) at two locations in India, one in Niger, and one in Senegal. The genome-wide QTL discovery analysis identified 19 major main-effect QTLs with 10.0–33.9% phenotypic variation explained (PVE) for drought tolerance- and iron deficiency tolerance- related traits. Major main-effect QTLs were detected for haulm weight (20.1% PVE), SCMR (soil plant analytical development (SPAD) chlorophyll meter reading, 22.4% PVE), and visual chlorosis rate (33.9% PVE). Several important candidate genes encoding glycosyl hydrolases; malate dehydrogenases; microtubule-associated proteins; and transcription factors such as MADS-box, basic helix-loop-helix (bHLH), NAM, ATAF, and CUC (NAC), and myeloblastosis (MYB) were identified underlying these QTL regions. The putative function of these genes indicated their possible involvement in plant growth, development of seed and pod, and photosynthesis under drought or iron deficiency conditions in groundnut. These genomic regions and candidate genes, after validation, may be useful to develop molecular markers for deploying genomics-assisted breeding for enhancing groundnut yield under drought stress and iron-deficient soil conditions.

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Section: Discussionsupporting

confidence: 74%

Improved Genetic Map Identified Major QTLs for Drought Tolerance- and Iron Deficiency Tolerance-Related Traits in Groundnut

Pandey

Gangurde

Sharma

et al. 2020

Genes

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“…These QTLs were stable and flanked by the same nearest markers on the chromosome across two environments (L2 and L3). This showed their expression was not affected by environmental factors, as found in other crops ( Sharma et al., 2017 ). Similarly, four stable QTLs ( qShWAh20.1 , qShWAh20.2 , qSLAAh20.1 , and qSLAAh20.2 ) for two traits (ShW and SLA) were identified on Cluster-3-Ah20.…”

Section: Discussionsupporting

confidence: 64%

Genetic mapping identified three hotspot genomic regions and candidate genes controlling heat tolerance-related traits in groundnut

et al. 2023

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Groundnut productivity and quality have been impeded by rising temperatures in semi-arid environments. Hence, understanding the effects and molecular mechanisms of heat stress tolerance will aid in tackling yield losses. In this context, a recombinant inbred line (RIL) population was developed and phenotyped for eight seasons at three locations for agronomic, phenological, and physiological traits under heat stress. A genetic map was constructed using genotyping-by-sequencing with 478 single-nucleotide polymorphism (SNP) loci spanning a map distance of 1,961.39 cM. Quantitative trait locus (QTL) analysis using phenotypic and genotypic data identified 45 major main-effect QTLs for 21 traits. Intriguingly, three QTL clusters (Cluster-1-Ah03, Cluster-2-Ah12, and Cluster-3-Ah20) harbor more than half of the major QTLs (30/45, 66.6%) for various heat tolerant traits, explaining 10.4%–38.6%, 10.6%–44.6%, and 10.1%–49.5% of phenotypic variance, respectively. Furthermore, important candidate genes encoding DHHC-type zinc finger family protein (arahy.J0Y6Y5), peptide transporter 1 (arahy.8ZMT0C), pentatricopeptide repeat-containing protein (arahy.4A4JE9), Ulp1 protease family (arahy.X568GS), Kelch repeat F-box protein (arahy.I7X4PC), FRIGIDA-like protein (arahy.0C3V8Z), and post-illumination chlorophyll fluorescence increase (arahy.92ZGJC) were the underlying three QTL clusters. The putative functions of these genes suggested their involvement in seed development, regulating plant architecture, yield, genesis and growth of plants, flowering time regulation, and photosynthesis. Our results could provide a platform for further fine mapping, gene discovery, and developing markers for genomics-assisted breeding to develop heat-tolerant groundnut varieties.

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Molecular Breeding Approaches for Biofortification of Cereal Crops

Sharma

Prakash

Kumar

2023

Biofortification in Cereals

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QTLs associated with yield attributing traits under drought stress in upland rice cultivar of Assam

Cited by 9 publications

References 0 publications

Improved Genetic Map Identified Major QTLs for Drought Tolerance- and Iron Deficiency Tolerance-Related Traits in Groundnut

Improved Genetic Map Identified Major QTLs for Drought Tolerance- and Iron Deficiency Tolerance-Related Traits in Groundnut

Genetic mapping identified three hotspot genomic regions and candidate genes controlling heat tolerance-related traits in groundnut

Molecular Breeding Approaches for Biofortification of Cereal Crops

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