Related Experiment Video
Updated: Jul 15, 2026
08:36
Development of Targeting Induced Local Lesions IN Genomes (TILLING) Populations in Small Grain Crops by Ethyl Methanesulfonate Mutagenesis
Published on: July 16, 2019
Wheat Estimated Transcript Server (WhETS): a tool to provide best estimate of hexaploid wheat transcript sequence
Rowan A C Mitchell1, Nathalie Castells-Brooke, Jan Taubert
1Biomathematics and Bioinformatics Division, Rothamsted Research, Harpenden, Hertfordshire AL5 2JQ, UK. rowan.mitchell@bbsrc.ac.uk
Nucleic Acids Research
|April 19, 2007
Summary
Wheat biologists can now estimate transcript sequences using the Wheat Estimated Transcript Server (WhETS). This tool aids in designing PCR primers by analyzing expressed sequence tags (ESTs) and rice genomic data.
Area of Science:
- Plant Genomics
- Bioinformatics
- Wheat Biology
Background:
- Wheat's complex genome with three homoeologous genomes hinders transcript analysis.
- Limited genomic sequence data presents challenges for wheat biologists.
- Large public-domain Triticeae expressed sequence tag (EST) datasets are available.
Purpose of the Study:
- To develop a convenient tool for estimating wheat transcript sequences.
- To aid in the design of PCR primers for wheat research.
- To provide data on EST and high-quality cDNA (hq-cDNA) matches, tissue distribution, and intron positions.
Main Methods:
- Utilizing over 1.3 million Triticeae ESTs and the rice genomic sequence.
- Mapping Triticeae EST and hq-cDNA sequences onto rice loci.
- Employing the CAP3 program and a single nucleotide polymorphism (SNP)-analysis algorithm for sequence assembly and homoeologue separation.
- Aligning assembled sequences against the rice template.
Main Results:
- The Wheat Estimated Transcript Server (WhETS) provides estimated transcript sequences.
- Information on matching EST and hq-cDNA sequences, tissue distribution, and intron positions is available.
- Sequences and assembly details can be downloaded in fasta and ace formats.
Conclusions:
- WhETS offers a valuable resource for wheat biologists facing genomic complexity.
- The server facilitates the design of effective PCR primers by leveraging public data and comparative genomics.
- WhETS enhances wheat research by providing accessible and analyzed transcript sequence information.
