Cargando…

The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers

Antarctic krill (Euphausia superba) is a crucial component of the Southern Ocean ecosystem, acting as the major link between primary production and higher trophic levels with an annual predator demand of up to 470 million tonnes. It also acts as an ecosystem engineer, affecting carbon sequestration...

Descripción completa

Detalles Bibliográficos
Autores principales: Hunt, Benjamin J., Özkaya, Özge, Davies, Nathaniel J., Gaten, Edward, Seear, Paul, Kyriacou, Charalambos P., Tarling, Geraint, Rosato, Ezio
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6077532/
https://www.ncbi.nlm.nih.gov/pubmed/30094004
http://dx.doi.org/10.1002/ece3.3168
_version_ 1783344934331351040
author Hunt, Benjamin J.
Özkaya, Özge
Davies, Nathaniel J.
Gaten, Edward
Seear, Paul
Kyriacou, Charalambos P.
Tarling, Geraint
Rosato, Ezio
author_facet Hunt, Benjamin J.
Özkaya, Özge
Davies, Nathaniel J.
Gaten, Edward
Seear, Paul
Kyriacou, Charalambos P.
Tarling, Geraint
Rosato, Ezio
author_sort Hunt, Benjamin J.
collection PubMed
description Antarctic krill (Euphausia superba) is a crucial component of the Southern Ocean ecosystem, acting as the major link between primary production and higher trophic levels with an annual predator demand of up to 470 million tonnes. It also acts as an ecosystem engineer, affecting carbon sequestration and recycling iron and nitrogen, and has increasing importance as a commercial product in the aquaculture and health industries. Here we describe the creation of a de novo assembled head transcriptome for E. superba. As an example of its potential as a molecular resource, we relate its exploitation in identifying and characterizing numerous genes related to the circadian clock in E. superba, including the major components of the central feedback loop. We have made the transcriptome openly accessible for a wider audience of ecologists, molecular biologists, evolutionary geneticists, and others in a user‐friendly format at SuperbaSE, hosted at http://www.krill.le.ac.uk.
format Online
Article
Text
id pubmed-6077532
institution National Center for Biotechnology Information
language English
publishDate 2017
publisher John Wiley and Sons Inc.
record_format MEDLINE/PubMed
spelling pubmed-60775322018-08-09 The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers Hunt, Benjamin J. Özkaya, Özge Davies, Nathaniel J. Gaten, Edward Seear, Paul Kyriacou, Charalambos P. Tarling, Geraint Rosato, Ezio Ecol Evol Original Research Antarctic krill (Euphausia superba) is a crucial component of the Southern Ocean ecosystem, acting as the major link between primary production and higher trophic levels with an annual predator demand of up to 470 million tonnes. It also acts as an ecosystem engineer, affecting carbon sequestration and recycling iron and nitrogen, and has increasing importance as a commercial product in the aquaculture and health industries. Here we describe the creation of a de novo assembled head transcriptome for E. superba. As an example of its potential as a molecular resource, we relate its exploitation in identifying and characterizing numerous genes related to the circadian clock in E. superba, including the major components of the central feedback loop. We have made the transcriptome openly accessible for a wider audience of ecologists, molecular biologists, evolutionary geneticists, and others in a user‐friendly format at SuperbaSE, hosted at http://www.krill.le.ac.uk. John Wiley and Sons Inc. 2017-06-28 /pmc/articles/PMC6077532/ /pubmed/30094004 http://dx.doi.org/10.1002/ece3.3168 Text en © 2017 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Research
Hunt, Benjamin J.
Özkaya, Özge
Davies, Nathaniel J.
Gaten, Edward
Seear, Paul
Kyriacou, Charalambos P.
Tarling, Geraint
Rosato, Ezio
The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers
title The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers
title_full The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers
title_fullStr The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers
title_full_unstemmed The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers
title_short The Euphausia superba transcriptome database, SuperbaSE: An online, open resource for researchers
title_sort euphausia superba transcriptome database, superbase: an online, open resource for researchers
topic Original Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6077532/
https://www.ncbi.nlm.nih.gov/pubmed/30094004
http://dx.doi.org/10.1002/ece3.3168
work_keys_str_mv AT huntbenjaminj theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT ozkayaozge theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT daviesnathanielj theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT gatenedward theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT seearpaul theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT kyriacoucharalambosp theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT tarlinggeraint theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT rosatoezio theeuphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT huntbenjaminj euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT ozkayaozge euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT daviesnathanielj euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT gatenedward euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT seearpaul euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT kyriacoucharalambosp euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT tarlinggeraint euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers
AT rosatoezio euphausiasuperbatranscriptomedatabasesuperbaseanonlineopenresourceforresearchers