Wheat Estimated Transcript Server (WhETS): a tool to provide best estimate of hexaploid wheat transcript sequence

Wheat biologists face particular problems because of the lack of genomic sequence and the three homoeologous genomes which give rise to three very similar forms for many transcripts. However, over 1.3 million available public-domain Triticeae ESTs (of which ∼850 000 are wheat) and the full rice genomic sequence can be used to estimate likely transcript sequences present in any wheat cDNA sample to which PCR primers may then be designed. Wheat Estimated Transcript Server (WhETS) is designed to do this in a convenient form, and to provide information on the number of matching EST and high quality cDNA (hq-cDNA) sequences, tissue distribution and likely intron position inferred from rice. Triticeae EST and hq-cDNA sequences are mapped onto rice loci and stored in a database. The user selects a rice locus (directly or via Arabidopsis) and the matching Triticeae sequences are assembled according to user-defined filter and stringency settings. Assembly is achieved initially with the CAP3 program and then with a single nucleotide polymorphism (SNP)-analysis algorithm designed to separate homoeologues. Alignment of the resulting contigs and singlets against the rice template sequence is then displayed. Sequences and assembly details are available for download in fasta and ace formats, respectively. WhETS is accessible at http://www4.rothamsted.bbsrc.ac.uk/whets

eRADOCPoster-May2018.pdf

<p>With the 175th anniversary of the Broadbalk experiment in 2018, we celebrate the longevity of Rothamsted’s influence on research. Until recently, Rothamsted's historical documents relating to the Long-Term Experiments (LTEs) were only available on paper, on site and at limited locations. They were doomed to a dusty shelf, seldom visited and even less used. However, these unique documents are of huge importance to current international research (Perryman1 et al. 2018). They contain vital background information, including maps, plans, cropping details, and papers published in the Rothamsted reports. With eRAdoc, we can now provide electronic access to the documents related to the Rothamsted LTEs making this significant scientific and cultural resource available to a far larger audience.</p> <p></p> <p>eRAdoc is a lot more than a repository of PDFs. The process through which each document is curated and imported gives each book a full table of contents, divides the books into individual articles, and assigns keywords and DOIs to relevant documents, thus making pertinent information easier to find. </p><p><br></p

Wheat Estimated Transcript Server (WhETS): a tool

to provide best estimate of hexaploid wheat transcript sequenc