%0 Journal Article
%T Characterization of full-length sequenced cDNA inserts (FLIcs) from Atlantic salmon (Salmo salar)
%A Rune Andreassen
%A Sigbj£¿rn Lunner
%A Bj£¿rn H£¿yheim
%J BMC Genomics
%D 2009
%I BioMed Central
%R 10.1186/1471-2164-10-502
%X High quality full-length insert sequences from 560 pre-smolt white muscle tissue specific cDNAs were generated, accession numbers [GenBank: BT043497 - BT044056]. Five hundred and ten (91%) of the transcripts were annotated using Gene Ontology (GO) terms and 440 of the FLIcs are likely to contain a complete coding sequence (cCDS). The sequence information was used to identify putative paralogs, characterize salmon Kozak motifs, polyadenylation signal variation and to identify motifs likely to be involved in the regulation of particular genes. Finally, conserved 7-mers in the 3'UTRs were identified, of which some were identical to miRNA target sequences.This paper describes the first Atlantic salmon FLIcs from a tissue and developmental stage specific cDNA library. We have demonstrated that many FLIcs contained a complete coding sequence (cCDS). This suggests that the remaining cDNA libraries generated by SGP represent a valuable cCDS FLIc source. The conservation of 7-mers in 3'UTRs indicates that these motifs are functionally important. Identity between some of these 7-mers and miRNA target sequences suggests that they are miRNA targets in Salmo salar transcripts as well.Atlantic salmon (Salmo salar) is an important aquaculture species, and there is also a considerable commercial harvesting of wild salmon. As a consequence of the economic interest in salmon, various genomic resources have been developed to identify genes and genomic mechanisms responsible for commercially important traits. These resources include a BAC library, the corresponding physical map and several linkage maps [1-5]. In addition several cDNA libraries have been constructed [6-10] and at present 494,094 ESTs have been submitted to GenBank [11].The salmon genome is complex due to a relatively recent genome duplication believed to have occurred between 25 and 120 million years ago in the common salmonid ancestor [12]. Analysis of segregation ratios in salmonids has revealed disomic inheritance in
%U http://www.biomedcentral.com/1471-2164/10/502