ArticleFunctional & integrative genomics2006
Transcriptome analysis of salinity stress responses in common wheat using a 22k oligo-DNA microarray.
Article in Functional & integrative genomics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- Ameliorating the effects of multiple stresses on agronomic traits in crops: modern biotechnological and omics approaches.Molecular biology reports · 2023Review
- Omics for the Improvement of Abiotic, Biotic, and Agronomic Traits in Major Cereal Crops: Applications, Challenges, and Prospects.Plants (Basel, Switzerland) · 2021Review
- Effect of salt-stress on gene expression in citrus roots revealed by RNA-seq.Functional & integrative genomics · 2018Article
- Redox and Ionic Homeostasis Regulations against Oxidative, Salinity and Drought Stress in Wheat (A Systems Biology Approach).Frontiers in genetics · 2017Review
- Genomics Approaches For Improving Salinity Stress Tolerance in Crop Plants.Current genomics · 2016Article
- Expression partitioning of homeologs and tandem duplications contribute to salt tolerance in wheat (Triticum aestivum L.).Scientific reports · 2016Article
- Global Scale Transcriptional Profiling of Two Contrasting Barley Genotypes Exposed to Moderate Drought Conditions: Contribution of Leaves and Crowns to Water Shortage Coping Strategies.Frontiers in plant science · 2016Article
- De Novo Transcriptional Analysis of Alfalfa in Response to Saline-Alkaline Stress.Frontiers in plant science · 2016Article
- A comparative analysis of insertional effects in genetically engineered plants: considerations for pre-market assessments.Transgenic research · 2015Review
- Unlocking Triticeae genomics to sustainably feed the future.Plant & cell physiology · 2013Review
- Article
- Heterologous expression of the wheat aquaporin gene TaTIP2;2 compromises the abiotic stress tolerance of Arabidopsis thaliana.PloS one · 2013Article
- Comprehensive functional analyses of expressed sequence tags in common wheat (Triticum aestivum).DNA research : an international journal for rapid publication of reports on genes and genomes · 2012Article
- Transcriptional profile analysis of E3 ligase and hormone-related genes expressed during wheat grain development.BMC plant biology · 2012Article
- Advances in omics and bioinformatics tools for systems analyses of plant functions.Plant & cell physiology · 2011Review
- Alkaline-stress response in Glycine soja leaf identifies specific transcription factors and ABA-mediated signaling factors.Functional & integrative genomics · 2011Article
- Global transcriptome profiling of wild soybean (Glycine soja) roots under NaHCO3 treatment.BMC plant biology · 2010Article
- Genomics and bioinformatics resources for crop improvement.Plant & cell physiology · 2010Review
- Microarray analysis of gene expression in seeds of Brassica napus planted in Nanjing (altitude: 8.9 m), Xining (altitude: 2261.2 m) and Lhasa (altitude: 3658 m) with different oil content.Molecular biology reports · 2009Article
- Comparative transcriptomic characterization of aluminum, sodium chloride, cadmium and copper rhizotoxicities in Arabidopsis thaliana.BMC plant biology · 2009Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In this study, we constructed a 22k wheat oligo-DNA microarray. A total of 148,676 expressed sequence tags of common wheat were collected from the database of the Wheat Genomics Consortium of Japan. These were grouped into 34,064 contigs, which were then used to design an oligonucleotide DNA microarray. Following a multistep selection of the sense strand, 21,939 60-mer oligo-DNA probes were selected for attachment on the microarray slide. This 22k oligo-DNA microarray was used to examine the transcriptional response of wheat to salt stress. More than 95% of the probes gave reproducible hybridization signals when targeted with RNAs extracted from salt-treated wheat shoots and roots. With the microarray, we identified 1,811 genes whose expressions changed more than 2-fold in response to salt. These included genes known to mediate response to salt, as well as unknown genes, and they were classified into 12 major groups by hierarchical clustering. These gene expression patterns were also confirmed by real-time reverse transcription-PCR. Many of the genes with unknown function were clustered together with genes known to be involved in response to salt stress. Thus, analysis of gene expression patterns combined with gene ontology should help identify the function of the unknown genes. Also, functional analysis of these wheat genes should provide new insight into the response to salt stress. Finally, these results indicate that the 22k oligo-DNA microarray is a reliable method for monitoring global gene expression patterns in wheat.
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Registered trials
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.