Having a BLAST: Searchable transcriptome resources for the gilthead sea bream and the European sea bass

Bruno Louro; João Pedro Marques; Deborah M Power; Adelino V M Canário

doi:10.1016/j.margen.2016.10.004

Having a BLAST: Searchable transcriptome resources for the gilthead sea bream and the European sea bass

Mar Genomics. 2016 Dec:30:67-71. doi: 10.1016/j.margen.2016.10.004. Epub 2016 Oct 11.

Authors

Bruno Louro¹, João Pedro Marques², Deborah M Power³, Adelino V M Canário³

Affiliations

¹ Centro de Ciências do Mar, Universidade do Algarve, Campus de Gambelas, 8005-139 Faro, Portugal. Electronic address: blouro@ualg.pt.
² CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO, Laboratório Associado, Universidade do Porto. Campus Agrário de Vairão, 4485-661 Vairão, Portugal.
³ Centro de Ciências do Mar, Universidade do Algarve, Campus de Gambelas, 8005-139 Faro, Portugal.

PMID: 27742405
DOI: 10.1016/j.margen.2016.10.004

Abstract

The gilthead sea bream (Sparus aurata) and the European sea bass (Dicentrarchus labrax) are the most important aquaculture species in the Mediterranean Sea and since the last decade it has been seen an exponential increase in their available molecular resources. In order to improve accessibility to transcriptome resources, Expressed Sequence Tags (ESTs), mRNA sequences and raw read sequences were assembled and deposited in BLAST queryable databases. The publicly available sea bream and sea bass sequences (6.4 and 247.5 million) generated 45,094 and 68,117 assembled sequences, with, respectively, arithmetic mean size of 998 and 2125bp and N50 of 1302 and 2966bp. The assemblies will be regularly updated and new analytical tools added to the web server at http://sea.ccmar.ualg.pt.

Keywords: Aquaculture; Assembly; Transcriptome.

MeSH terms

Animals
Aquaculture
Bass / genetics*
Databases, Genetic*
Genomics / instrumentation*
Sea Bream / genetics*
Sequence Analysis, DNA / veterinary
Transcriptome*