ArticleBMC genomics2011
Transcriptome sequencing of lentil based on second-generation technology permits large-scale unigene assembly and SSR marker discovery.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 82 papers.
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Who cites it
82 citing papers in PubMed.
- Functional Genomics: From Soybean to Legume.International journal of molecular sciences · 2025Review
- Omics-Driven Strategies for Developing Saline-Smart Lentils: A Comprehensive Review.International journal of molecular sciences · 2024Review
- De novo transcriptome assembly of Dalbergia sissoo Roxb. (Fabaceae) under Botryodiplodia theobromae-induced dieback disease.Scientific reports · 2023Article
- Next-Generation-Sequencing-Based Simple Sequence Repeat (SSR) Marker Development and Linkage Mapping in Lentil (Life (Basel, Switzerland) · 2023Article
- The Prospects of gene introgression from crop wild relatives into cultivated lentil for climate change mitigation.Frontiers in plant science · 2023Review
- Article
- Morpho-biochemical characterization of a RIL population for seed parameters and identification of candidate genes regulating seed size trait in lentil (Frontiers in plant science · 2023Article
- De novo assembly of Iron-Heart Cunninghamia lanceolata transcriptome and EST-SSR marker development for genetic diversity analysis.PloS one · 2023Article
- Entailing the Next-Generation Sequencing and Metabolome for Sustainable Agriculture by Improving Plant Tolerance.International journal of molecular sciences · 2022Review
- Transcriptome Profiling to the Effects of Drought Stress on Different Propagation Modes of Tea Plant (Frontiers in genetics · 2022Article
- Omics Path to Increasing Productivity in Less-Studied Crops Under Changing Climate-Lentil a Case Study.Frontiers in plant science · 2022Review
- Genomics Associated Interventions for Heat Stress Tolerance in Cool Season Adapted Grain Legumes.International journal of molecular sciences · 2021Review
- Transcriptome and metabolite analysis related to branch development in two genotypes of Eucalyptus urophylla.Molecular genetics and genomics : MGG · 2021Article
- Development of an SSR marker-based genetic linkage map and identification of a QTL associated with flowering time inBreeding science · 2021Article
- Prospects of next generation sequencing in lentil breeding.Molecular biology reports · 2020Review
- Raw transcriptomics data to gene specific SSRs: a validated free bioinformatics workflow for biologists.Scientific reports · 2020Article
- Article
- Characterization of Genetic and Allelic Diversity Amongst Cultivated and Wild Lentil Accessions for Germplasm Enhancement.Frontiers in genetics · 2020Article
- Legume genomics and transcriptomics: From classic breeding to modern technologies.Saudi journal of biological sciences · 2020Review
- Genome wide transcriptome analysis reveals vital role of heat responsive genes in regulatory mechanisms of lentil (Lens culinaris Medikus).Scientific reports · 2019Article
22 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundLentil (Lens culinaris Medik.) is a cool-season grain legume which provides a rich source of protein for human consumption. In terms of genomic resources, lentil is relatively underdeveloped, in comparison to other Fabaceae species, with limited available data. There is hence a significant need to enhance such resources in order to identify novel genes and alleles for molecular breeding to increase crop productivity and quality.
resultsTissue-specific cDNA samples from six distinct lentil genotypes were sequenced using Roche 454 GS-FLX Titanium technology, generating c. 1.38 × 106 expressed sequence tags (ESTs). De novo assembly generated a total of 15,354 contigs and 68,715 singletons. The complete unigene set was sequence-analysed against genome drafts of the model legume species Medicago truncatula and Arabidopsis thaliana to identify 12,639, and 7,476 unique matches, respectively. When compared to the genome of Glycine max, a total of 20,419 unique hits were observed corresponding to c. 31% of the known gene space. A total of 25,592 lentil unigenes were subsequently annoated from GenBank. Simple sequence repeat (SSR)-containing ESTs were identified from consensus sequences and a total of 2,393 primer pairs were designed. A subset of 192 EST-SSR markers was screened for validation across a panel 12 cultivated lentil genotypes and one wild relative species. A total of 166 primer pairs obtained successful amplification, of which 47.5% detected genetic polymorphism.
conclusionsA substantial collection of ESTs has been developed from sequence analysis of lentil genotypes using second-generation technology, permitting unigene definition across a broad range of functional categories. As well as providing resources for functional genomics studies, the unigene set has permitted significant enhancement of the number of publicly-available molecular genetic markers as tools for improvement of this species.
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