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

Natalia Díaz-Arce; Haritz Arrizabalaga; Hilario Murua; Xabier Irigoien; Naiara Rodríguez-Ezpeleta

doi:10.1016/j.ympev.2016.06.002

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

Natalia Díaz-Arce, Haritz Arrizabalaga, Hilario Murua, Xabier Irigoien, Naiara Rodríguez-Ezpeleta

Research output: Contribution to journal › Article › peer-review

52 Scopus citations

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.

Original language	English (US)
Pages (from-to)	202-207
Number of pages	6
Journal	Molecular Phylogenetics and Evolution
Volume	102
DOIs	https://doi.org/10.1016/j.ympev.2016.06.002
State	Published - Jun 7 2016

Bibliographical note

KAUST Repository Item: Exported on 2020-10-01
Acknowledgements: 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.

ASJC Scopus subject areas

Ecology, Evolution, Behavior and Systematics
Genetics
Molecular Biology

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10.1016/j.ympev.2016.06.002

https://repository.kaust.edu.sa/bitstream/10754/612968/1/1-s2.0-S1055790316301385-main.pdf

Cite this

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title = "RAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas",

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.",

author = "Natalia D{\'i}az-Arce and Haritz Arrizabalaga and Hilario Murua and Xabier Irigoien and Naiara Rodr{\'i}guez-Ezpeleta",

note = "KAUST Repository Item: Exported on 2020-10-01 Acknowledgements: We wish to thank I{\~n}aki Mendibil (AZTI) for excellent technical assistance, Jon Ruiz, Mikel Basterretxea and I{\~n}aki Oyarzabal (AZTI) for collecting samples, and Pete Grewe (CSIRO) for sharing samples. Natalia D{\'i}az-Arce is supported by “Ayudas de formaci{\'o}n a j{\'o}venes investigadores y tecn{\'o}logos en el entorno cient{\'i}fico-tecnol{\'o}gico y empresarial del sector agropesquero y alimentario vasco” (Basque Government). This manuscript is contribution X from the Marine Research Division of AZTI.",

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doi = "10.1016/j.ympev.2016.06.002",

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AU - Díaz-Arce, Natalia

AU - Arrizabalaga, Haritz

AU - Murua, Hilario

AU - Irigoien, Xabier

AU - Rodríguez-Ezpeleta, Naiara

N1 - KAUST Repository Item: Exported on 2020-10-01 Acknowledgements: 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.

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AB - 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.

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JO - Molecular Phylogenetics and Evolution

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ER -

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

Abstract

Bibliographical note

ASJC Scopus subject areas

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