Plant & Animal Genomes XI Conference Plant & Animal Genomes XI ConferenceJanuary 11-15, 2003
Town & Country Convention Center
San Diego, CA
Poster: Genome Sequencing & ESTs
To identify all of the genes within the salmon genome and to provide an initial characterization of their expression in different tissues, we have initiated an EST sequencing project. More than 100 cDNA libraries have been constructed representing over 30 different tissues and developmental stages from Atlantic salmon, as well as several libraries from rainbow trout. Some of these libraries have been obtained using high, medium and low molecular weight (MW), suppression subtractive hybridized and normalized cDNA methods. Normalized and high MW libraries showed relatively few duplicates in comparison to prenormalized and low MW libraries. For example, the maximum % of sequences representing distinct transcripts for a prenormalized versus normalized pyloric caeca library was 19.2% versus 45.4%, respectively. Also, several high MW libraries provided identification of novel genes at levels equal to or greater than that of some normalized libraries. High complexity mixed or single-tissue libraries were selected and subjected to deep sequencing. Characterization of these libraries provide an initial gene survey of the different tissues and development stages. We have completed more than 50,000 3’-end expressed sequence tag reads that constitute approximately 19,000 contigs or independent gene products. In rainbow trout we have an additional 5000 sequence reads. Pairwise alignment of all cluster consensus sequences show that trout orthologues are 92 to 94% similar to Atlantic salmon in the 3’-untranslated regions. This information is useful in that it shows our data should provide researchers with the opportunity to initiate expression studies on most salmonids.