SparComp: Comparative transcriptomics in four sparid species using next-generation sequencing and comparative mapping based on available genetic information from model fish species

Project info
Description: 

The Sparidae family (sparids or porgies) is an excellent case of species-rich marine group of recent evolutionary origin, with high economic importance for small-scale and semi-industrial fisheries around the world and mainly for aquaculture throughout the Mediterranean and the Eastern Atlantic areas. The project aims to report the functional annotation and comparative analyses of transcriptome data sets using the Next Generation Sequencing (NGS) technologies for four recently reared sparids with high commercial interest but very limited sequence information available: the common sea bream (Pagrus pagrus), the sharpsnout sea bream (Diplodus puntazzo), the common Pandora (Pagellus erythrinus) and the common dentex (Dentex dentex). The spawning kinetics of the four sparids will be monitored using microsatellite genotyping to determine the number of spawning events per female and male participation. Furthermore, a linkage map will be generated for each species using F1 full-sib families coming from wild broodstock, with cross-species amplification of co-dominant genetic markers. Candidate genes for economically important traits are also going to be mapped, defined by the proximity to proposed QTL markers of the gilthead sea bream and sequence data of model fish species, for which synteny has already been established. Based on these syntenies and the sex specific analysis of recombination, differences in recombination per chromosome for each species with contrasting sex determination mechanisms will be studied. Comparative analyses across the Sparidae and the model fish species is expected to demonstrate sparid-specific signature of selection. Overall, the project is expected to benefit the aquaculture industry but also the basic research since these data sets will offer the genetic platform for future comparative analyses in light of the upcoming genomes for this taxonomic group and for the study of genome organization and evolution

Coordinating Institute: 
IMBG
Time Frame
Begin of project (Year): 
2012
End of project (Year): 
2015
Financing
Funding Source: 
Aristeia I, GSRT, Greece
Total Budget (€): 
400.000
Budget for IMBBC (€): 
400.000
Involved persons from IMBBC
NameRoleResponsibilities
Role: 
Project coordinator
Role: 
Participation
Role: 
Participation
Role: 
Participation

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