Genomic resources for a commercial flatfish, the Senegalese sole (Solea senegalensis): EST sequencing, oligo microarray design, and development of the Soleamold bioinformatic platform

Background: The Senegalese sole, Solea senegalensis, is a highly prized 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. Results: Sequencing of a S. senegalensis multi-tissue normalized cDNA library, from adult tissues (brain, stomach, intestine, liver, ovary, and testis), larval stages (pre-metamorphosis, metamorphosis), juvenile stages (post-metamorphosis, abnormal fish), 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 and validate an oligonucleotide microarray representing 5,087 unique Senegalese sole transcripts. Finally, a novel interactive bioinformatic platform, Soleamold, was developed for the Senegalese sole EST collection as well as microarray and ISH data. Conclusion: New genomic resources have been developed for S. senegalensis, an economically important fish in aquaculture, which include a collection of expressed genes, an oligonucleotide microarray, and a publicly available bioinformatic platform that can be used to study gene expression in this species. These resources will help elucidate transcriptional regulation in wild and captive Senegalese sole for optimization of its production under intensive culture conditions

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

Genomics in Aquaculture (GIA) International Symposium. Bodø University College (Norway), 5-7 july 2009.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.Financed by Genome Spain-Genome Canada (PleurogeneTM).Peer Reviewe

Genomic resources for a commercial flatfish, the Senegalese sole (Solea senegalensis) : EST sequencing, oligo microarray design, and development of the Soleamold bioinformatic platform

Background: The Senegalese sole, Solea senegalensis, is a highly prized 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. Results: Sequencing of a S. senegalensis multi-tissue normalized cDNA library, from adult tissues (brain, stomach, intestine, liver, ovary, and testis), larval stages (pre-metamorphosis, metamorphosis), juvenile stages (post-metamorphosis, abnormal fish), 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 and validate an oligonucleotide microarray representing 5,087 unique Senegalese sole transcripts. Finally, a novel interactive bioinformatic platform, Soleamold, was developed for the Senegalese sole EST collection as well as microarray and ISH data. Conclusion: New genomic resources have been developed for S. senegalensis, an economically important fish in aquaculture, which include a collection of expressed genes, an oligonucleotide microarray, and a publicly available bioinformatic platform that can be used to study gene expression in this species. These resources will help elucidate transcriptional regulation in wild and captive Senegalese sole for optimization of its production under intensive culture conditions

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El trabajo obtuvo el primer premio de la modalidad B: 'Una escuela más cooperativa y equitativa', de los Premios Joaquín Sama 2007. Se recogen páginas web de interés sobre la temática del trabajoSe describen un conjunto de actividades desarrolladas en el IES Siberia Extremeña (Talarrubias, Badajoz) para concienciar a los alumnos y a la comunidad educativa sobre los efectos nocivos del tabaco, el alcohol y otras drogas.ExtremaduraConsejería de Educación. Dirección General de Política Educativa; Calle Delgado Valencia, 6; 06800 Mérida (Badajoz); Tel. +34924006714; Fax +34924006716; [email protected]