Genetic population structure of the Pacific bluefin tuna Thunnus orientalis and the yellowfin tuna Thunnus albacares in the North Pacific Ocean

Nomura, Shohei; Kobayashi, Toru; Agawa, Yasuo; Margulies, Daniel; Scholey, Vernon P.; Sawada, Yoshifumi; Yagishita, Naoki

doi:10.1007/s12562-014-0789-8

Cited by 14 publications

(12 citation statements)

References 33 publications

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“…Within oceans, the results of genetic studies are even more diverse, ranging from the identification of distinct populations within a relatively confined area along the coast of India and Sri Lanka based on D-loop sequences ( Kunal et al. 2013 ) to the observation of homogeneity across large spatial scales in microsatellites and D-loop sequences for pan-Pacific samples ( Nomura et al. 2014 ).…”

Section: Introductionmentioning

confidence: 99%

Genomic Differentiation and Demographic Histories of Atlantic and Indo-Pacific Yellowfin Tuna (Thunnus albacares) Populations

Barth

Damerau

Matschiner

et al. 2017

Genome Biology and Evolution

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Recent developments in the field of genomics have provided new and powerful insights into population structure and dynamics that are essential for the conservation of biological diversity. As a commercially highly valuable species, the yellowfin tuna (Thunnus albacares) is intensely exploited throughout its distribution in tropical oceans around the world, and is currently classified as near threatened. However, conservation efforts for this species have so far been hampered by limited knowledge of its population structure, due to incongruent results of previous investigations. Here, we use whole-genome sequencing in concert with a draft genome assembly to decipher the global population structure of the yellowfin tuna, and to investigate its demographic history. We detect significant differentiation of Atlantic and Indo-Pacific yellowfin tuna populations as well as the possibility of a third diverged yellowfin tuna group in the Arabian Sea. We further observe evidence for past population expansion as well as asymmetric gene flow from the Indo-Pacific to the Atlantic.

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Section: Introductionmentioning

confidence: 99%

Genomic Differentiation and Demographic Histories of Atlantic and Indo-Pacific Yellowfin Tuna (Thunnus albacares) Populations

Barth

Damerau

Matschiner

et al. 2017

Genome Biology and Evolution

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“…While population genetic structure enables a definition of populations, that can be linked to the stock or management unit concept, N e determines how vulnerable these populations are to losing genetic diversity due to genetic drift [ 42 ] and consequently, this variable assesses their responsiveness and adaptation capabilities. Despite the importance of this parameter for populations’ conservation, few studies have estimated N e for tunas [ 36 , 43 , 44 , 45 , 46 ].…”

Section: Introductionmentioning

confidence: 99%

New Nuclear SNP Markers Unravel the Genetic Structure and Effective Population Size of Albacore Tuna (Thunnus alalunga)

et al. 2015

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In the present study we have investigated the population genetic structure of albacore (Thunnus alalunga, Bonnaterre 1788) and assessed the loss of genetic diversity, likely due to overfishing, of albacore population in the North Atlantic Ocean. For this purpose, 1,331 individuals from 26 worldwide locations were analyzed by genotyping 75 novel nuclear SNPs. Our results indicated the existence of four genetically homogeneous populations delimited within the Mediterranean Sea, the Atlantic Ocean, the Indian Ocean and the Pacific Ocean. Current definition of stocks allows the sustainable management of albacore since no stock includes more than one genetic entity. In addition, short- and long-term effective population sizes were estimated for the North Atlantic Ocean albacore population, and results showed no historical decline for this population. Therefore, the genetic diversity and, consequently, the adaptive potential of this population have not been significantly affected by overfishing.

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“…Some research papers already isolated PBF DNA microsatellite markers for population analysis (Takagi, Okamura, Chow & Taniguchi ; Appleyard, Grewe, Innes & Ward ; Carlsson, McDowell, Diaz‐Jaimes, Carlsson, Boles, Gold & Graves and Nomura, Kobayashi, Agawa, Margulies, Scholey, Sawada & Yagishita ). In the present study, we identified a 630‐bp polymorphic DNA fragment from Pacific bluefin tuna, which was observed in PBF of the superior and average growth groups (Fig.…”

Section: Discussionmentioning

confidence: 99%

Identification of growth-related nucleotide polymorphism in cultured Pacific bluefin tuna, Thunnus orientalis

et al. 2016

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Pacific bluefin tuna (PBF), Thunnus orientalis, is commercially one of the most important species of tuna. In this study, amplified fragment length polymorphism (AFLP) screening was conducted to find the growth‐related polymorphic DNA in cultured PBF. Fish hatched in 2007 were harvested at an age of 818–1994 days. They were categorized into superior, average and inferior growth groups, depending on their growth score at the time of harvest. On AFLP screening of 24 fish, with eight fish from each group, 215 polymorphic DNA fragments were observed. A second amplification, with EcoRI + ACC and MseI + CCC primers, generated a polymorphic fragment of 630 bp at a rate of 80.0% (n = 15) in the superior, 56.3% (n = 16) in the average and 20.0% (n = 15) in the inferior growth groups. Polymerase chain reaction (PCR) primers, which could amplify both AFLP‐positive and AFLP‐negative loci, were developed using the consensus sequence outside the AFLP target fragment. Eleven haplotypes were obtained by sequence analysis of the PCR product at the AFLP target loci. Among those, haplotype 1 was statistically significant in the superior and average growth groups and could be used as a molecular marker for distinguishing the individuals with superior and average growth from those with inferior growth.

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Genetic population structure of the Pacific bluefin tuna Thunnus orientalis and the yellowfin tuna Thunnus albacares in the North Pacific Ocean

Cited by 14 publications

References 33 publications

Genomic Differentiation and Demographic Histories of Atlantic and Indo-Pacific Yellowfin Tuna (Thunnus albacares) Populations

Genomic Differentiation and Demographic Histories of Atlantic and Indo-Pacific Yellowfin Tuna (Thunnus albacares) Populations

New Nuclear SNP Markers Unravel the Genetic Structure and Effective Population Size of Albacore Tuna (Thunnus alalunga)

Identification of growth-related nucleotide polymorphism in cultured Pacific bluefin tuna, Thunnus orientalis

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