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Genomic resources for a commercial flatfish, the Senegalese sole (Solea senegalensis) : EST sequencing, oligo microarray design, and development of the Soleamold bioinformatic platform
Cerdà Luque, Joan (Institut de Recerca i Tecnologia Agroalimentàries)
Mercadé, Jaume (Parc Científic de Barcelona. Oryzon Genomics)
Lozano, Juan José (Hospital Clínic i Provincial de Barcelona. CIBERehd)
Manchado, Manuel (Andalusia. Junta. IFAPA Centro "El Toruño")
Tingaud-Sequeira, Angèle (Institut de Recerca i Tecnologia Agroalimentàries)
Astola, Antonio (Instituto de Ciencias Marinas de Andalucía)
Infante, Carlos (Andalusia. Junta. IFAPA Centro "El Toruño")
Halm, Silke (Instituto de Ciencias Marinas de Andalucía)
Viñas, Jordi (Institut de Ciències del Mar (Barcelona, Catalunya))
Castellana, Bárbara (Universitat de Barcelona. Departament de Fisiologia)
Asensio, Esther (Andalusia. Junta. IFAPA Centro "El Toruño")
Cañavate, Pedro (Andalusia. Junta. IFAPA Centro "El Toruño")
Martínez-Rodríguez, Gonzalo (Instituto de Ciencias Marinas de Andalucía)
Piferrer i Circuns, Francesc (Institut de Ciències del Mar (Barcelona, Catalunya))
Planas, Josep V. (Universitat de Barcelona. Departament de Fisiologia)
Prat, Francesc (Instituto de Ciencias Marinas de Andalucía)
Yúfera, Manuel (Instituto de Ciencias Marinas de Andalucía)
Durany, Olga (Parc Científic de Barcelona. Oryzon Genomics)
Subirada, Francesc (Parc Científic de Barcelona. Oryzon Genomics)
Rosell, Elisabet (Parc Científic de Barcelona. Oryzon Genomics)
Maes, Tamara (Parc Científic de Barcelona. Oryzon Genomics)

Data: 2008
Resum: 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.
Drets: Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original. Creative Commons
Llengua: Anglès.
Document: article ; publishedVersion
Publicat a: BMC Genomics, Vol. 9, N. 508 (October 2008) , p. 1-14, ISSN 1471-2164

DOI: 10.1186/1471-2164-9-508


14 p, 1.6 MB

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