A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias

André M Machado; Mónica Felício; Elza Fonseca; Rute R da Fonseca; L Filipe C Castro

doi:10.1016/j.dib.2018.03.013

A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias

Data Brief. 2018 Mar 13:18:276-284. doi: 10.1016/j.dib.2018.03.013. eCollection 2018 Jun.

Authors

André M Machado¹, Mónica Felício², Elza Fonseca^{2

3}, Rute R da Fonseca⁴, L Filipe C Castro^{1

3}

Affiliations

¹ CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, U. Porto - University of Porto, Porto, Portugal.
² Portuguese Institute for the Sea and Atmosphere, I.P. (IPMA), Portugal.
³ Department of Biology, Faculty of Sciences, U. Porto - University of Porto, Portugal.
⁴ The Bioinformatics Centre, Department of Biology, University of Copenhagen, Denmark.

Abstract

Mackerels represent a valuable fishery worldwide. Their ample geographic distribution and capture levels make them an insightful model to address stock management strategies in the context of global changes. Yet, and despite recent impressive genome and transcriptome sequencing efforts from teleost species, available resources from the Scombridae family are comparatively scarce. Here, we generated the first high-quality de novo assembly of the liver transcriptome of the Atlantic chub mackerel (Scomber colias). Through the use of RNA-Seq Illumina technology, 111,124,228 clean reads were obtained for the liver transcriptome. De novo assembly resulted in 93,731 transcripts with an N50 of 1462 bp. This dataset provides an important insight into the context of fisheries management.

Keywords: Atlantic chub mackerel; Liver; RNA-Seq; Scombridae; Stock management.