ArticleBMC plant biology2011
Construction and EST sequencing of full-length, drought stress cDNA libraries for common beans (Phaseolus vulgaris L.).
Article in BMC plant biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed, 37 citations in OpenAlex.
- Genomics Associated Interventions for Heat Stress Tolerance in Cool Season Adapted Grain Legumes.International journal of molecular sciences · 2021Review
- Genome-wide transcriptional changes triggered by water deficit on a drought-tolerant common bean cultivar.BMC plant biology · 2020Article
- Genome-wide analysis of the transcriptional response to drought stress in root and leaf of common bean.Genetics and molecular biology · 2020Article
- Identification of Differentially Expressed Drought-Responsive Genes in Guar [International journal of genomics · 2020Article
- Transcriptome profiling illustrates expression signatures of dehydration tolerance in developing grasspea seedlings.Planta · 2019Article
- Construction of a cDNA library and preliminary analysis of the expressed sequence tags of the earthworm Eisenia fetida (Savigny, 1826).Molecular medicine reports · 2019Article
- Transcriptome sequencing of mung bean (Vigna radiate L.) genes and the identification of EST-SSR markers.PloS one · 2015Article
- Virus-induced gene silencing is a versatile tool for unraveling the functional relevance of multiple abiotic-stress-responsive genes in crop plants.Frontiers in plant science · 2014Review
- High-throughput sequencing and de novo assembly of Brassica oleracea var. Capitata L. for transcriptome analysis.PloS one · 2014Article
- Construction of a full-length enriched cDNA library and preliminary analysis of expressed sequence tags from Bengal Tiger Panthera tigris tigris.International journal of molecular sciences · 2013Article
- Small RNA and transcriptome deep sequencing proffers insight into floral gene regulation in Rosa cultivars.BMC genomics · 2012Article
- Dissecting Phaseolus vulgaris innate immune system against Colletotrichum lindemuthianum infection.PloS one · 2012Article
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCommon bean is an important legume crop with only a moderate number of short expressed sequence tags (ESTs) made with traditional methods. The goal of this research was to use full-length cDNA technology to develop ESTs that would overlap with the beginning of open reading frames and therefore be useful for gene annotation of genomic sequences. The library was also constructed to represent genes expressed under drought, low soil phosphorus and high soil aluminum toxicity. We also undertook comparisons of the full-length cDNA library to two previous non-full clone EST sets for common bean.
resultsTwo full-length cDNA libraries were constructed: one for the drought tolerant Mesoamerican genotype BAT477 and the other one for the acid-soil tolerant Andean genotype G19833 which has been selected for genome sequencing. Plants were grown in three soil types using deep rooting cylinders subjected to drought and non-drought stress and tissues were collected from both roots and above ground parts. A total of 20,000 clones were selected robotically, half from each library. Then, nearly 10,000 clones from the G19833 library were sequenced with an average read length of 850 nucleotides. A total of 4,219 unigenes were identified consisting of 2,981 contigs and 1,238 singletons. These were functionally annotated with gene ontology terms and placed into KEGG pathways. Compared to other EST sequencing efforts in common bean, about half of the sequences were novel or represented the 5' ends of known genes.
conclusionsThe present full-length cDNA libraries add to the technological toolbox available for common bean and our sequencing of these clones substantially increases the number of unique EST sequences available for the common bean genome. All of this should be useful for both functional gene annotation, analysis of splice site variants and intron/exon boundary determination by comparison to soybean genes or with common bean whole-genome sequences. In addition the library has a large number of transcription factors and will be interesting for discovery and validation of drought or abiotic stress related genes in common bean.
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