ArticleBMC genomics2006
Wheat EST resources for functional genomics of abiotic stress.
Article in BMC genomics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed, 119 citations in OpenAlex.
- Association mapping of autumn-seeded rye (Secale cereale L.) reveals genetic linkages between genes controlling winter hardiness and plant development.Scientific reports · 2022Article
- Genome-wide analysis and transcript profiling of PSKR gene family members in Oryza sativa.PloS one · 2020Article
- Identification of Wheat Inflorescence Development-Related Genes Using a Comparative Transcriptomics Approach.International journal of genomics · 2018Article
- Genetic architecture of seed longevity in bread wheat (Triticum aestivum L.).Journal of biosciences · 2017Article
- Faba bean drought responsive gene identification and validation.Saudi journal of biological sciences · 2017Article
- Genomics Approaches For Improving Salinity Stress Tolerance in Crop Plants.Current genomics · 2016Article
- Ectopic expression of Pokkali phosphoglycerate kinase-2 (OsPGK2-P) improves yield in tobacco plants under salinity stress.Plant cell reports · 2016Article
- Characterization of Arabidopsis sterol glycosyltransferase TTG15/UGT80B1 role during freeze and heat stress.Plant signaling & behavior · 2015Article
- ESTs analysis of putative genes engaged in Polyporus umbellatus sclerotial development.International journal of molecular sciences · 2014Article
- Transcriptome analysis of an mvp mutant reveals important changes in global gene expression and a role for methyl jasmonate in vernalization and flowering in wheat.Journal of experimental botany · 2014Article
- Gene expression analysis in the roots of salt-stressed wheat and the cytogenetic derivatives of wheat combined with the salt-tolerant wheatgrass, Lophopyrum elongatum.Plant cell reports · 2014Article
- Analysis of expression profiles of selected genes associated with the regenerative property and the receptivity to gene transfer during somatic embryogenesis in Triticum aestivum L.Molecular biology reports · 2013Article
- Induction of DREB2A pathway with repression of E2F, jasmonic acid biosynthetic and photosynthesis pathways in cold acclimation-specific freeze-resistant wheat crown.Functional & integrative genomics · 2013Article
- Identification of new aquaporin genes and single nucleotide polymorphism in bread wheat.Evolutionary bioinformatics online · 2013Article
- Article
- Sterol glycosyltransferases-identification of members of gene family and their role in stress in Withania somnifera.Molecular biology reports · 2012Article
- Genes tagging and molecular diversity of red rot susceptible/tolerant sugarcane hybrids using c-DNA and unigene derived markers.World journal of microbiology & biotechnology · 2012Article
- Heterotrimeric Gα subunit from wheat (Triticum aestivum), GA3, interacts with the calcium-binding protein, Clo3, and the phosphoinositide-specific phospholipase C, PI-PLC1.Plant molecular biology · 2011Article
- Modulation of transcription factor and metabolic pathway genes in response to water-deficit stress in rice.Functional & integrative genomics · 2011Article
- TaCHP: a wheat zinc finger protein gene down-regulated by abscisic acid and salinity stress plays a positive role in stress tolerance.Plant physiology · 2010Article
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Authors and funding
13 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWheat is an excellent species to study freezing tolerance and other abiotic stresses. However, the sequence of the wheat genome has not been completely characterized due to its complexity and large size. To circumvent this obstacle and identify genes involved in cold acclimation and associated stresses, a large scale EST sequencing approach was undertaken by the Functional Genomics of Abiotic Stress (FGAS) project.
resultsWe generated 73,521 quality-filtered ESTs from eleven cDNA libraries constructed from wheat plants exposed to various abiotic stresses and at different developmental stages. In addition, 196,041 ESTs for which tracefiles were available from the National Science Foundation wheat EST sequencing program and DuPont were also quality-filtered and used in the analysis. Clustering of the combined ESTs with d2_cluster and TGICL yielded a few large clusters containing several thousand ESTs that were refractory to routine clustering techniques. To resolve this problem, the sequence proximity and "bridges" were identified by an e-value distance graph to manually break clusters into smaller groups. Assembly of the resolved ESTs generated a 75,488 unique sequence set (31,580 contigs and 43,908 singletons/singlets). Digital expression analyses indicated that the FGAS dataset is enriched in stress-regulated genes compared to the other public datasets. Over 43% of the unique sequence set was annotated and classified into functional categories according to Gene Ontology.
conclusionWe have annotated 29,556 different sequences, an almost 5-fold increase in annotated sequences compared to the available wheat public databases. Digital expression analysis combined with gene annotation helped in the identification of several pathways associated with abiotic stress. The genomic resources and knowledge developed by this project will contribute to a better understanding of the different mechanisms that govern stress tolerance in wheat and other cereals.
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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.