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Open Access item Genomic resources for a commercial flatfish, the senegalese sole (Solea senegalensis): EST sequencing, oligo microarray design, and development of the soleamold bioinformatic platform

Authors:Cerdà, Joan
Mercadé, Jaume
Lozano, Juan José
Manchado, Manuel
Tingaud-Sequeira, Angèle
Astola, A.
Infante, Carlos
Halm, Silke
Viñas, Jordi
Castellana, Bárbara
Asensio, Esther
Cañavate, J. Pedro
Martínez-Rodríguez, Gonzalo
Piferrer, Francesc
Planas, Josep V.
Prat, Francisco
Yúfera, Manuel
Durany, Olga
Subirada, Francesc
Rosell, Elisabet
Maes, Tamara
Keywords:Flastfish, Functional genomics, Bioinformatics, Aquaculture
Issue Date:7-Jul-2009
Citation:Genomics in Aquaculture (GIA) International Symposium: abstracts : (2009)
Abstract:The Senegalese sole, Solea senegalensis, is a flatfish of growing commercial interest for aquaculture in Southern Europe. However, despite the industrial production of Senegalese sole being hampered primarily by lack of information on the physiological mechanisms involved in reproduction, growth and immunity, very limited genomic information is available on this species. The international consortium Pleurogene was aimed to improve this knowledge by using functional genomics and proteomics approaches. Sequencing of a S. senegalensis multi-tissue normalized cDNA library, from adult tissues, larval and juvenile stages, and undifferentiated gonads, generated 10,185 expressed sequence tags (ESTs). Clones were sequenced from the 3¿-end to identify isoform specific sequences. Assembly of the entire EST collection into contigs gave 5,208 unique sequences of which 1,769 (34%) had matches in GenBank, thus showing a low level of redundancy. The sequence of the 5,208 unigenes was used to design an oligonucleotide microarray representing 5,087 unique sole transcripts. This platform was validated and employed to determine global patterns of gene expression during gonad growth and maturation, sex differentiation and larval development. Proteomic analysis during spermatogenesis, and of specific larval stages, was also carried out using conventional 2-DE methods and 2-D DIGE. Finally, a novel interactive bioinformatic platform, named Soleamold, which integrates EST sequences, microarray and in situ hybridization data on an anatomical basis, has been developed. These resources will help elucidate transcriptional regulation in wild and captive Senegalese sole for optimization of its production under intensive culture conditions.
Description:Genomics in Aquaculture (GIA) International Symposium. Bodø University College (Norway), 5-7 july 2009.
Appears in Collections:(ICMAN) Comunicaciones congresos
(ICM) Comunicaciones congresos

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