ArticleDNA research : an international journal for rapid publication of reports on genes and genomes2015
Deploying QTL-seq for rapid delineation of a potential candidate gene underlying major trait-associated QTL in chickpea.
Article in DNA research : an international journal for rapid publication of reports on genes and genomes, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 88 papers, 1 of them a synthesis that pooled it.
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Who cites it
88 citing papers in PubMed, 1 synthesis or guideline pooled it, 168 citations in OpenAlex.
- Exploring Chickpea Germplasm Diversity for Broadening the Genetic Base Utilizing Genomic Resourses.Frontiers in genetics · 2022Pooled it
- Pan-transcriptome analysis of diverse chickpea accessions reveals specific expression patterns and genetic variations associated with agronomic traits.Plant molecular biology · 2026Article
- QTL-Seq Identifies Extra QTLs and Candidate Genes Controlling High Haploid Induction Rate in Maize.Plants (Basel, Switzerland) · 2026Article
- 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
- Regulatory networks and molecular mechanisms underlying salt stress tolerance in rice.Frontiers in plant science · 2026Review
- QTLs and Genes for Salt Stress Tolerance: A Journey from Seed to Seed Continued.Plants (Basel, Switzerland) · 2024Review
- Delineation of genes for a major QTL governing heat stress tolerance in chickpea.Plant molecular biology · 2024Article
- Whole-genome sequencing based discovery of candidate genes and diagnostic markers for seed weight in groundnut.The plant genome · 2023Article
- Mitochondrial Inner Membrane ABC Transporter Bcmdl1 Is Involved in Conidial Germination, Virulence, and Resistance to Anilinopyrimidine Fungicides in Botrytis cinerea.Microbiology spectrum · 2023Article
- Fine mapping and causal gene identification of a novel QTL for early flowering by QTL-seq, Target-seq and RNA-seq in spring oilseed rape.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Identification of Candidate Genes for Rind Color and Bloom Formation in Watermelon Fruits Based on a Quantitative Trait Locus-Seq.Plants (Basel, Switzerland) · 2022Article
- Discovery of stripe rust resistance with incomplete dominance in wild emmer wheat using bulked segregant analysis sequencing.Communications biology · 2022Article
- Evaluation of nine statistics to identify QTLs in bulk segregant analysis using next generation sequencing approaches.BMC genomics · 2022Article
- Article
- Harnessing the potential of bulk segregant analysis sequencing and its related approaches in crop breeding.Frontiers in genetics · 2022Review
- Whole genome resequencing identifies candidate genes and allelic diagnostic markers for resistance toFrontiers in plant science · 2022Article
- The genetics of vigour-related traits in chickpea (Cicer arietinum L.): insights from genomic data.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Identification of blossom-end rot loci using joint QTL-seq and linkage-based QTL mapping in tomato.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Comparative QTL mapping for male sterility of cultivated strawberry (Breeding science · 2021Article
- Combining QTL-seq and linkage mapping to fine map a candidate gene in qCTS6 for cold tolerance at the seedling stage in rice.BMC plant biology · 2021Article
28 more citing papers are in PubMed but not listed here.
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Authors and funding
13 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A rapid high-resolution genome-wide strategy for molecular mapping of major QTL(s)/gene(s) regulating important agronomic traits is vital for in-depth dissection of complex quantitative traits and genetic enhancement in chickpea. The present study for the first time employed a NGS-based whole-genome QTL-seq strategy to identify one major genomic region harbouring a robust 100-seed weight QTL using an intra-specific 221 chickpea mapping population (desi cv. ICC 7184 × desi cv. ICC 15061). The QTL-seq-derived major SW QTL (CaqSW1.1) was further validated by single-nucleotide polymorphism (SNP) and simple sequence repeat (SSR) marker-based traditional QTL mapping (47.6% R(2) at higher LOD >19). This reflects the reliability and efficacy of QTL-seq as a strategy for rapid genome-wide scanning and fine mapping of major trait regulatory QTLs in chickpea. The use of QTL-seq and classical QTL mapping in combination narrowed down the 1.37 Mb (comprising 177 genes) major SW QTL (CaqSW1.1) region into a 35 kb genomic interval on desi chickpea chromosome 1 containing six genes. One coding SNP (G/A)-carrying constitutive photomorphogenic9 (COP9) signalosome complex subunit 8 (CSN8) gene of these exhibited seed-specific expression, including pronounced differential up-/down-regulation in low and high seed weight mapping parents and homozygous individuals during seed development. The coding SNP mined in this potential seed weight-governing candidate CSN8 gene was found to be present exclusively in all cultivated species/genotypes, but not in any wild species/genotypes of primary, secondary and tertiary gene pools. This indicates the effect of strong artificial and/or natural selection pressure on target SW locus during chickpea domestication. The proposed QTL-seq-driven integrated genome-wide strategy has potential to delineate major candidate gene(s) harbouring a robust trait regulatory QTL rapidly with optimal use of resources. This will further assist us to extrapolate the molecular mechanism underlying complex quantitative traits at a genome-wide scale leading to fast-paced marker-assisted genetic improvement in diverse crop plants, including chickpea.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.