title: Transcriptomic characterization of the larval stage in gilthead seabream (Sparus aurata) by 454 pyrosequencing.
abstract: Gilthead seabream (Sparus aurata) is a teleost belonging to the family Sparidae with a high economical relevance in the Mediterranean countries. Although genomic tools have been developed in this species in order to investigate its physiology at the molecular level and consequently its culture, genomic information on post-embryonic development is still scarce. In this study, we have investigated the transcriptome of a marine teleost during the larval stage (from hatching to 60 days after hatching) by the use of 454 pyrosequencing technology. We obtained a total of 68,289 assembled contigs, representing putative transcripts, belonging to 54,606 different clusters. Comparison against all S. aurata expressed sequenced tags (ESTs) from the NCBI database revealed that up to 34,722 contigs, belonging to about 61% of gene clusters, are sequences previously not described. Contigs were annotated through an iterative Blast pipeline by comparison against databases such as NCBI RefSeq from Danio rerio, SwissProt or NCBI teleost ESTs. Our results indicate that we have enriched the number of annotated sequences for this species by more than 50% compared with previously existing databases for the gilthead seabream. Gene Ontology analysis of these novel sequences revealed that there is a statistically significant number of transcripts with key roles in larval development, differentiation, morphology, and growth. Finally, all information has been made available online through user-friendly interfaces such as GBrowse and a Blast server with a graphical frontend.
authors.affiliation: Instituto de Ciencias Marinas de Andalucía (ICMAN-CSIC), Apartado Oficial 11510 Puerto Real, Cádiz, Spain. manuel.yufera@icman.csic.es
authors.forename: Manuel
authors.initials: M
authors.lastname: Yúfera
authors.forename: Silke
authors.initials: S
authors.lastname: Halm
authors.forename: Sergi
authors.initials: S
authors.lastname: Beltran
authors.forename: Berta
authors.initials: B
authors.lastname: Fusté
authors.forename: Josep V
authors.initials: JV
authors.lastname: Planas
authors.forename: Gonzalo
authors.initials: G
authors.lastname: Martínez-Rodríguez
mesh_terms: D000818:Animals; D020869:Gene Expression Profiling; D018507:Gene Expression Regulation, Developmental / Q000502:physiology; D007814:Larva / Q000378:metabolism; D020543:Proteome / Q000378:metabolism*; D021541:Sea Bream / Q000378:metabolism*; D020539:Sequence Analysis, Protein / Q000379:methods*; D014157:Transcription Factors / Q000378:metabolism*; D059467:Transcriptome / Q000502:physiology*
chemical_list: D020543:Proteome; D014157:Transcription Factors