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

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

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...

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Main Authors: André M. Machado, Mónica Felício, Elza Fonseca, Rute R. da Fonseca, L. Filipe C. Castro
Format: Article
Language:English
Published: Elsevier 2018-06-01
Series:Data in Brief
Online Access:http://www.sciencedirect.com/science/article/pii/S2352340918302178
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spelling doaj-f722647799974004a9f368ce976ccae72020-11-25T01:17:02ZengElsevierData in Brief2352-34092018-06-0118276284A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber coliasAndré M. Machado0Mónica Felício1Elza Fonseca2Rute R. da Fonseca3L. Filipe C. Castro4CIIMAR – Interdisciplinary Centre of Marine and Environmental Research, U. Porto – University of Porto, Porto, PortugalPortuguese Institute for the Sea and Atmosphere, I.P. (IPMA), PortugalPortuguese Institute for the Sea and Atmosphere, I.P. (IPMA), Portugal; Department of Biology, Faculty of Sciences, U. Porto – University of Porto, PortugalThe Bioinformatics Centre, Department of Biology, University of Copenhagen, Denmark; Corresponding author.CIIMAR – Interdisciplinary Centre of Marine and Environmental Research, U. Porto – University of Porto, Porto, Portugal; Department of Biology, Faculty of Sciences, U. Porto – University of Porto, Portugal; Corresponding author at: CIIMAR – Interdisciplinary Centre of Marine and Environmental Research, U. Porto – University of Porto, Porto, Portugal.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: RNA-Seq, Scombridae, Stock management, Atlantic chub mackerel, Liverhttp://www.sciencedirect.com/science/article/pii/S2352340918302178
collection DOAJ
language English
format Article
sources DOAJ
author André M. Machado
Mónica Felício
Elza Fonseca
Rute R. da Fonseca
L. Filipe C. Castro
spellingShingle André M. Machado
Mónica Felício
Elza Fonseca
Rute R. da Fonseca
L. Filipe C. Castro
A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias
Data in Brief
author_facet André M. Machado
Mónica Felício
Elza Fonseca
Rute R. da Fonseca
L. Filipe C. Castro
author_sort André M. Machado
title A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias
title_short A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias
title_full A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias
title_fullStr A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias
title_full_unstemmed A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias
title_sort resource for sustainable management: de novo assembly and annotation of the liver transcriptome of the atlantic chub mackerel, scomber colias
publisher Elsevier
series Data in Brief
issn 2352-3409
publishDate 2018-06-01
description 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: RNA-Seq, Scombridae, Stock management, Atlantic chub mackerel, Liver
url http://www.sciencedirect.com/science/article/pii/S2352340918302178
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