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Background <p>Chickpea (<i>Cicer arietinum</i> L.) is vital for global food security; however, its productivity is limited by genotype-environment interactions and restricted genetic diversity. This study dissected the genetic architecture of six agronomic traits in chickpea using genome-wide association studies (GWAS) to identify stable quantitative trait loci (QTLs).</p> Results <p>Phenotypic analysis of 238 chickpea accessions across three growing seasons revealed significant variation in plant height (PH), height to lowest pod (HLP), number of lateral branches (NLB), number of seeds per plant (NSP), thousand-seed weight (TSW), and yield per plant (YP). Broad-sense heritability (<i>h</i><sup>2</sup>) ranged from 0.15 (NSP) to 0.88 (TSW). GWAS identified 40 stable QTLs, including major-effect loci on chromosomes 2 (<i>Q_YP_2.1</i>, <i>R</i>² = 0.45) and 4 (<i>Q_TSW_4.1</i>, <i>R</i>² = 0.22). Candidate genes linked to polyamine biosynthesis (LOC101508792) and carbohydrate metabolism (LOC101492955) were implicated.</p> Conclusions <p>The study highlights the potential of marker-assisted selection for enhancing chickpea resilience and productivity, particularly in drought-prone regions such as Kazakhstan.</p>

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GWAS for QTLs associated with agronomic traits in Chickpea (Cicer arietinum L.) harvested in South-East Kazakhstan

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年12月3日

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  • Alibek Zatybekov,
  • Yuliya Genievskaya,
  • Shynar Anuarbek,
  • Rajeev K. Varshney,
  • Rutwik Barmukh,
  • Mukhtar Kudaibergenov,
  • Yerlan Turuspekov,
  • Saule Abugalieva

摘要

Background

Chickpea (Cicer arietinum L.) is vital for global food security; however, its productivity is limited by genotype-environment interactions and restricted genetic diversity. This study dissected the genetic architecture of six agronomic traits in chickpea using genome-wide association studies (GWAS) to identify stable quantitative trait loci (QTLs).

Results

Phenotypic analysis of 238 chickpea accessions across three growing seasons revealed significant variation in plant height (PH), height to lowest pod (HLP), number of lateral branches (NLB), number of seeds per plant (NSP), thousand-seed weight (TSW), and yield per plant (YP). Broad-sense heritability (h2) ranged from 0.15 (NSP) to 0.88 (TSW). GWAS identified 40 stable QTLs, including major-effect loci on chromosomes 2 (Q_YP_2.1, R² = 0.45) and 4 (Q_TSW_4.1, R² = 0.22). Candidate genes linked to polyamine biosynthesis (LOC101508792) and carbohydrate metabolism (LOC101492955) were implicated.

Conclusions

The study highlights the potential of marker-assisted selection for enhancing chickpea resilience and productivity, particularly in drought-prone regions such as Kazakhstan.