ArticleBMC genomics2009
A comprehensive resource of drought- and salinity- responsive ESTs for gene discovery and marker development in chickpea (Cicer arietinum L.).
Article in BMC genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 76 papers, 2 of them syntheses that pooled it.
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Who cites it
76 citing papers in PubMed, 2 syntheses or guidelines pooled it, 248 citations in OpenAlex.
- Exploring Chickpea Germplasm Diversity for Broadening the Genetic Base Utilizing Genomic Resourses.Frontiers in genetics · 2022Pooled it
- Epigenomics as Potential Tools for Enhancing Magnitude of Breeding Approaches for Developing Climate Resilient Chickpea.Frontiers in genetics · 2022Pooled it
- Evaluation of Skin Color Supervision Genes in Chickpea Seeds by Multiomics.Molecular biotechnology · 2025Article
- Evaluation of drought-tolerant chickpea genotypes (Frontiers in plant science · 2025Article
- Integrated multi-omics analysis reveals drought stress response mechanism in chickpea (Cicer arietinum L.).The plant genome · 2024Article
- Chickpea: Its Origin, Distribution, Nutrition, Benefits, Breeding, and Symbiotic Relationship withPlants (Basel, Switzerland) · 2024Review
- Disentangling potential genotypes for macro and micro nutrients and polymorphic markers in Chickpea.Scientific reports · 2023Article
- Genome-wide discovery of di-nucleotide SSR markers based on whole genome re-sequencing data of Cicer arietinum L. and Cicer reticulatum Ladiz.Scientific reports · 2023Article
- Breeding and Genomic Approaches towards Development of Fusarium Wilt Resistance in Chickpea.Life (Basel, Switzerland) · 2023Review
- Comprehensive Transcriptome Profiling Uncovers Molecular Mechanisms and Potential Candidate Genes Associated with Heat Stress Response in Chickpea.International journal of molecular sciences · 2023Article
- Phyto-microbiome to mitigate abiotic stress in crop plants.Frontiers in microbiology · 2023Review
- Comparative transcriptome analysis reveals molecular regulation of salt tolerance in two contrasting chickpea genotypes.Frontiers in plant science · 2023Article
- A Comprehensive Review on Chickpea (International journal of molecular sciences · 2022Review
- Transcriptome analysis of Auricularia fibrillifera fruit-body responses to drought stress and rehydration.BMC genomics · 2022Article
- Molecular Characterization Reveals the Involvement of Calcium Dependent Protein Kinases in Abiotic Stress Signaling and Development in Chickpea (Frontiers in plant science · 2022Article
- Unraveling genetics of semi-determinacy and identification of markers for indeterminate stem growth habit in chickpea (Cicer arietinum L.).Scientific reports · 2021Article
- Drought and Heat Stress in Cool-Season Food Legumes in Sub-Tropical Regions: Consequences, Adaptation, and Mitigation Strategies.Plants (Basel, Switzerland) · 2021Review
- A comprehensive RNA-Seq-based gene expression atlas of the summer squash (Cucurbita pepo) provides insights into fruit morphology and ripening mechanisms.BMC genomics · 2021Article
- Functional annotations of ESTs ofSaudi journal of biological sciences · 2021Article
- Introgression of "QTL-hotspot" region enhances drought tolerance and grain yield in three elite chickpea cultivars.The plant genome · 2021Article
16 more citing papers are in PubMed but not listed here.
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Authors and funding
13 authors at 5 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundChickpea (Cicer arietinum L.), an important grain legume crop of the world is seriously challenged by terminal drought and salinity stresses. However, very limited number of molecular markers and candidate genes are available for undertaking molecular breeding in chickpea to tackle these stresses. This study reports generation and analysis of comprehensive resource of drought- and salinity-responsive expressed sequence tags (ESTs) and gene-based markers.
resultsA total of 20,162 (18,435 high quality) drought- and salinity- responsive ESTs were generated from ten different root tissue cDNA libraries of chickpea. Sequence editing, clustering and assembly analysis resulted in 6,404 unigenes (1,590 contigs and 4,814 singletons). Functional annotation of unigenes based on BLASTX analysis showed that 46.3% (2,965) had significant similarity (< or =1E-05) to sequences in the non-redundant UniProt database. BLASTN analysis of unique sequences with ESTs of four legume species (Medicago, Lotus, soybean and groundnut) and three model plant species (rice, Arabidopsis and poplar) provided insights on conserved genes across legumes as well as novel transcripts for chickpea. Of 2,965 (46.3%) significant unigenes, only 2,071 (32.3%) unigenes could be functionally categorised according to Gene Ontology (GO) descriptions. A total of 2,029 sequences containing 3,728 simple sequence repeats (SSRs) were identified and 177 new EST-SSR markers were developed. Experimental validation of a set of 77 SSR markers on 24 genotypes revealed 230 alleles with an average of 4.6 alleles per marker and average polymorphism information content (PIC) value of 0.43. Besides SSR markers, 21,405 high confidence single nucleotide polymorphisms (SNPs) in 742 contigs (with > or = 5 ESTs) were also identified. Recognition sites for restriction enzymes were identified for 7,884 SNPs in 240 contigs. Hierarchical clustering of 105 selected contigs provided clues about stress- responsive candidate genes and their expression profile showed predominance in specific stress-challenged libraries.
conclusionGenerated set of chickpea ESTs serves as a resource of high quality transcripts for gene discovery and development of functional markers associated with abiotic stress tolerance that will be helpful to facilitate chickpea breeding. Mapping of gene-based markers in chickpea will also add more anchoring points to align genomes of chickpea and other legume species.
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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.