ArticleFrontiers in plant science2015
A Genome-wide Combinatorial Strategy Dissects Complex Genetic Architecture of Seed Coat Color in Chickpea.
Article in Frontiers in plant science, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 35 citations in OpenAlex.
- Article
- A genome-wide association analysis identifies a key candidate gene controlling plant growth habit in chickpea.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- A transcription factor gene CaMYB114 associated with black seed coat in chickpea.BMC plant biology · 2025Article
- Genome-Wide Association Study on Cowpea seed coat color using RGB images.Molecular breeding : new strategies in plant improvement · 2024Article
- CaLAP1 and CaLAP2 orchestrate anthocyanin biosynthesis in the seed coat of Cicer arietinum.Planta · 2024Article
- Genetic dissection of domestication traits in interspecific chickpea populations.The plant genome · 2024Article
- Genomic insights into genetic diversity and seed coat color change in common bean composite populations.Frontiers in plant science · 2024Article
- Genome-wide association study as a powerful tool for dissecting competitive traits in legumes.Frontiers in plant science · 2023Review
- Genetic Augmentation of Legume Crops Using Genomic Resources and Genotyping Platforms for Nutritional Food Security.Plants (Basel, Switzerland) · 2022Review
- Harnessing the hidden allelic diversity of wild Cicer to accelerate genomics-assisted chickpea crop improvement.Molecular biology reports · 2022Review
- Genome-wide cis-regulatory signatures for modulation of agronomic traits as exemplified by drought yield index (DYI) in chickpea.Functional & integrative genomics · 2019Article
- Is Chickpea a Potential Substitute for Soybean? Phenolic Bioactives and Potential Health Benefits.International journal of molecular sciences · 2019Review
- Co-localization of genomic regions associated with seed morphology and composition in a desi chickpea (Cicer arietinum L.) population varying in seed protein concentration.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2019Article
- Influence of the preparation process on the chemical composition and nutritional value of canned purée ofHeliyon · 2019Article
- Population structure and association analysis of heat stress relevant traits in chickpea (3 Biotech · 2018Article
- Genetic dissection of plant growth habit in chickpea.Functional & integrative genomics · 2017Article
- Potential Uses of Wild Germplasms of Grain Legumes for Crop Improvement.International journal of molecular sciences · 2017Review
- A Combined Comparative Transcriptomic, Metabolomic, and Anatomical Analyses of Two Key Domestication Traits: Pod Dehiscence and Seed Dormancy in Pea (Frontiers in plant science · 2017Article
- A Multiple QTL-Seq Strategy Delineates Potential Genomic Loci Governing Flowering Time in Chickpea.Frontiers in plant science · 2017Article
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Authors and funding
12 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The study identified 9045 high-quality SNPs employing both genome-wide GBS- and candidate gene-based SNP genotyping assays in 172, including 93 cultivated (desi and kabuli) and 79 wild chickpea accessions. The GWAS in a structured population of 93 sequenced accessions detected 15 major genomic loci exhibiting significant association with seed coat color. Five seed color-associated major genomic loci underlying robust QTLs mapped on a high-density intra-specific genetic linkage map were validated by QTL mapping. The integration of association and QTL mapping with gene haplotype-specific LD mapping and transcript profiling identified novel allelic variants (non-synonymous SNPs) and haplotypes in a MATE secondary transporter gene regulating light/yellow brown and beige seed coat color differentiation in chickpea. The down-regulation and decreased transcript expression of beige seed coat color-associated MATE gene haplotype was correlated with reduced proanthocyanidins accumulation in the mature seed coats of beige than light/yellow brown seed colored desi and kabuli accessions for their coloration/pigmentation. This seed color-regulating MATE gene revealed strong purifying selection pressure primarily in LB/YB seed colored desi and wild Cicer reticulatum accessions compared with the BE seed colored kabuli accessions. The functionally relevant molecular tags identified have potential to decipher the complex transcriptional regulatory gene function of seed coat coloration and for understanding the selective sweep-based seed color trait evolutionary pattern in cultivated and wild accessions during chickpea domestication. The genome-wide integrated approach employed will expedite marker-assisted genetic enhancement for developing cultivars with desirable seed coat color types in chickpea.
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