RAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas

Handle URI:
http://hdl.handle.net/10754/612968
Title:
RAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas
Authors:
Díaz-Arce, Natalia; Arrizabalaga, Haritz; Murua, Hilario; Irigoien, Xabier ( 0000-0002-5411-6741 ) ; Rodríguez-Ezpeleta, Naiara
Abstract:
Although species from the genus Thunnus include some of the most commercially important and most severely overexploited fishes, the phylogeny of this genus is still unresolved, hampering evolutionary and traceability studies that could help improve conservation and management strategies for these species. Previous attempts based on mitochondrial and nuclear markers were unsuccessful in inferring a congruent and reliable phylogeny, probably due to mitochondrial introgression events and lack of enough phylogenetically informative markers. Here we infer the first genome-wide nuclear marker-based phylogeny of tunas using restriction site associated DNA sequencing (RAD-seq) data. Our results, derived from phylogenomic inferences obtained from 128 nucleotide matrices constructed using alternative data assembly procedures, support a single Thunnus evolutionary history that challenges previous assumptions based on morphological and molecular data.
KAUST Department:
Biological and Environmental Sciences and Engineering (BESE) Division
Citation:
RAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas 2016 Molecular Phylogenetics and Evolution
Publisher:
Elsevier BV
Journal:
Molecular Phylogenetics and Evolution
Issue Date:
7-Jun-2016
DOI:
10.1016/j.ympev.2016.06.002
Type:
Article
ISSN:
10557903
Sponsors:
We wish to thank Iñaki Mendibil (AZTI) for excellent technical assistance, Jon Ruiz, Mikel Basterretxea and Iñaki Oyarzabal (AZTI) for collecting samples, and Pete Grewe (CSIRO) for sharing samples. Natalia Díaz-Arce is supported by “Ayudas de formación a jóvenes investigadores y tecnólogos en el entorno científico-tecnológico y empresarial del sector agropesquero y alimentario vasco” (Basque Government). This manuscript is contribution X from the Marine Research Division of AZTI.
Additional Links:
http://linkinghub.elsevier.com/retrieve/pii/S1055790316301385
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Articles

Full metadata record

DC FieldValue Language
dc.contributor.authorDíaz-Arce, Nataliaen
dc.contributor.authorArrizabalaga, Haritzen
dc.contributor.authorMurua, Hilarioen
dc.contributor.authorIrigoien, Xabieren
dc.contributor.authorRodríguez-Ezpeleta, Naiaraen
dc.date.accessioned2016-06-14T08:30:13Z-
dc.date.available2016-06-14T08:30:13Z-
dc.date.issued2016-06-07-
dc.identifier.citationRAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas 2016 Molecular Phylogenetics and Evolutionen
dc.identifier.issn10557903-
dc.identifier.doi10.1016/j.ympev.2016.06.002-
dc.identifier.urihttp://hdl.handle.net/10754/612968-
dc.description.abstractAlthough species from the genus Thunnus include some of the most commercially important and most severely overexploited fishes, the phylogeny of this genus is still unresolved, hampering evolutionary and traceability studies that could help improve conservation and management strategies for these species. Previous attempts based on mitochondrial and nuclear markers were unsuccessful in inferring a congruent and reliable phylogeny, probably due to mitochondrial introgression events and lack of enough phylogenetically informative markers. Here we infer the first genome-wide nuclear marker-based phylogeny of tunas using restriction site associated DNA sequencing (RAD-seq) data. Our results, derived from phylogenomic inferences obtained from 128 nucleotide matrices constructed using alternative data assembly procedures, support a single Thunnus evolutionary history that challenges previous assumptions based on morphological and molecular data.en
dc.description.sponsorshipWe wish to thank Iñaki Mendibil (AZTI) for excellent technical assistance, Jon Ruiz, Mikel Basterretxea and Iñaki Oyarzabal (AZTI) for collecting samples, and Pete Grewe (CSIRO) for sharing samples. Natalia Díaz-Arce is supported by “Ayudas de formación a jóvenes investigadores y tecnólogos en el entorno científico-tecnológico y empresarial del sector agropesquero y alimentario vasco” (Basque Government). This manuscript is contribution X from the Marine Research Division of AZTI.en
dc.language.isoenen
dc.publisherElsevier BVen
dc.relation.urlhttp://linkinghub.elsevier.com/retrieve/pii/S1055790316301385en
dc.rightsNOTICE: this is the author’s version of a work that was accepted for publication in Molecular Phylogenetics and Evolution. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. A definitive version was subsequently published in Molecular Phylogenetics and Evolution, 7 June 2016. DOI: 10.1016/j.ympev.2016.06.002en
dc.subjectPhylogenyen
dc.subjectRestriction-site Associated DNA sequencingen
dc.subjectGenome-wide markersen
dc.subjectPhylogenomicsen
dc.subjectTunaen
dc.titleRAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunasen
dc.typeArticleen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.identifier.journalMolecular Phylogenetics and Evolutionen
dc.eprint.versionPost-printen
dc.contributor.institutionAZTI, Marine Research Division, Sukarrieta, Bizkaia, Spainen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorIrigoien, Xabieren
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