Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species

Phillip A Morin; Frederick I. Archer; Andrew David Foote; Julia Thidamarth Vilstrup Mouatt; Eric E. Allen; Paul Wade; John Durban; Kim Parsons; Robert Pitman; Lewyn Li; Pascal Bouffard; Sandra Cathrine Abel Nielsen; Morten Rasmussen; Eske Willerslev; Tom Gilbert; Timothy Harkins

doi:10.1101/gr.102954.109

Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species

Phillip A Morin, Frederick I. Archer, Andrew David Foote, Julia Thidamarth Vilstrup Mouatt, Eric E. Allen, Paul Wade, John Durban, Kim Parsons, Robert Pitman, Lewyn Li, Pascal Bouffard, Sandra Cathrine Abel Nielsen, Morten Rasmussen, Eske Willerslev, Tom Gilbert, Timothy Harkins

264 Citationer (Scopus)

Abstract

Killer whales (Orcinus orca) Hcurrently comprise a single, cosmopolitan species with a diverse diet. However, studies over the last 30 yr have revealed populations of sympatric "ecotypes" with discrete prey preferences, morphology, and behaviors. Although these ecotypes avoid social interactions and are not known to interbreed, genetic studies to date have found extremely low levels of diversity in the mitochondrial control region, and few clear phylogeographic patterns worldwide. This low level of diversity is likely due to low mitochondrial mutation rates that are common to cetaceans. Using killer whales as a case study, we have developed a method to readily sequence, assemble, and analyze complete mitochondrial genomes from large numbers of samples to more accurately assess phylogeography and estimate divergence times. This represents an important tool for wildlife management, not only for killer whales but for many marine taxa. We used high-throughput sequencing to survey whole mitochondrial genome variation of 139 samples from the North Pacific, North Atlantic, and southern oceans. Phylogenetic analysis indicated that each of the known ecotypes represents a strongly supported clade with divergence times ranging from ∼150,000 to 700,000 yr ago. We recommend that three named ecotypes be elevated to full species, and that the remaining types be recognized as subspecies pending additional data. Establishing appropriate taxonomic designations will greatly aid in understanding the ecological impacts and conservation needs of these important marine predators. We predict that phylogeographic mitogenomics will become an important tool for improved statistical phylogeography and more precise estimates of divergence times.

Originalsprog	Engelsk
Tidsskrift	Genome Research
Vol/bind	20
Udgave nummer	7
Sider (fra-til)	908-916
Antal sider	9
ISSN	1088-9051
DOI	https://doi.org/10.1101/gr.102954.109
Status	Udgivet - 1 jul. 2010

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10.1101/gr.102954.109

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Morin, P. A., Archer, F. I., Foote, A. D., Mouatt, J. T. V., Allen, E. E., Wade, P., Durban, J., Parsons, K., Pitman, R., Li, L., Bouffard, P., Nielsen, S. C. A., Rasmussen, M., Willerslev, E., Gilbert, T., & Harkins, T. (2010). Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species. Genome Research, 20(7), 908-916. https://doi.org/10.1101/gr.102954.109

Morin, PA, Archer, FI, Foote, AD, Mouatt, JTV, Allen, EE, Wade, P, Durban, J, Parsons, K, Pitman, R, Li, L, Bouffard, P, Nielsen, SCA, Rasmussen, M, Willerslev, E , Gilbert, T & Harkins, T 2010, 'Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species', Genome Research, bind 20, nr. 7, s. 908-916. https://doi.org/10.1101/gr.102954.109

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title = "Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species",

abstract = "Killer whales (Orcinus orca) Hcurrently comprise a single, cosmopolitan species with a diverse diet. However, studies over the last 30 yr have revealed populations of sympatric {"}ecotypes{"} with discrete prey preferences, morphology, and behaviors. Although these ecotypes avoid social interactions and are not known to interbreed, genetic studies to date have found extremely low levels of diversity in the mitochondrial control region, and few clear phylogeographic patterns worldwide. This low level of diversity is likely due to low mitochondrial mutation rates that are common to cetaceans. Using killer whales as a case study, we have developed a method to readily sequence, assemble, and analyze complete mitochondrial genomes from large numbers of samples to more accurately assess phylogeography and estimate divergence times. This represents an important tool for wildlife management, not only for killer whales but for many marine taxa. We used high-throughput sequencing to survey whole mitochondrial genome variation of 139 samples from the North Pacific, North Atlantic, and southern oceans. Phylogenetic analysis indicated that each of the known ecotypes represents a strongly supported clade with divergence times ranging from ∼150,000 to 700,000 yr ago. We recommend that three named ecotypes be elevated to full species, and that the remaining types be recognized as subspecies pending additional data. Establishing appropriate taxonomic designations will greatly aid in understanding the ecological impacts and conservation needs of these important marine predators. We predict that phylogeographic mitogenomics will become an important tool for improved statistical phylogeography and more precise estimates of divergence times.",

keywords = "Animals, Base Sequence, Genetic Speciation, Genetic Variation, Genome, Mitochondrial, Geography, Molecular Sequence Data, Oceans and Seas, Phylogeny, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Species Specificity, Whale, Killer",

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doi = "10.1101/gr.102954.109",

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T1 - Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species

AU - Morin, Phillip A

AU - Archer, Frederick I.

AU - Foote, Andrew David

AU - Mouatt, Julia Thidamarth Vilstrup

AU - Allen, Eric E.

AU - Wade, Paul

AU - Durban, John

AU - Parsons, Kim

AU - Pitman, Robert

AU - Li, Lewyn

AU - Bouffard, Pascal

AU - Nielsen, Sandra Cathrine Abel

AU - Rasmussen, Morten

AU - Willerslev, Eske

AU - Gilbert, Tom

AU - Harkins, Timothy

PY - 2010/7/1

Y1 - 2010/7/1

N2 - Killer whales (Orcinus orca) Hcurrently comprise a single, cosmopolitan species with a diverse diet. However, studies over the last 30 yr have revealed populations of sympatric "ecotypes" with discrete prey preferences, morphology, and behaviors. Although these ecotypes avoid social interactions and are not known to interbreed, genetic studies to date have found extremely low levels of diversity in the mitochondrial control region, and few clear phylogeographic patterns worldwide. This low level of diversity is likely due to low mitochondrial mutation rates that are common to cetaceans. Using killer whales as a case study, we have developed a method to readily sequence, assemble, and analyze complete mitochondrial genomes from large numbers of samples to more accurately assess phylogeography and estimate divergence times. This represents an important tool for wildlife management, not only for killer whales but for many marine taxa. We used high-throughput sequencing to survey whole mitochondrial genome variation of 139 samples from the North Pacific, North Atlantic, and southern oceans. Phylogenetic analysis indicated that each of the known ecotypes represents a strongly supported clade with divergence times ranging from ∼150,000 to 700,000 yr ago. We recommend that three named ecotypes be elevated to full species, and that the remaining types be recognized as subspecies pending additional data. Establishing appropriate taxonomic designations will greatly aid in understanding the ecological impacts and conservation needs of these important marine predators. We predict that phylogeographic mitogenomics will become an important tool for improved statistical phylogeography and more precise estimates of divergence times.

AB - Killer whales (Orcinus orca) Hcurrently comprise a single, cosmopolitan species with a diverse diet. However, studies over the last 30 yr have revealed populations of sympatric "ecotypes" with discrete prey preferences, morphology, and behaviors. Although these ecotypes avoid social interactions and are not known to interbreed, genetic studies to date have found extremely low levels of diversity in the mitochondrial control region, and few clear phylogeographic patterns worldwide. This low level of diversity is likely due to low mitochondrial mutation rates that are common to cetaceans. Using killer whales as a case study, we have developed a method to readily sequence, assemble, and analyze complete mitochondrial genomes from large numbers of samples to more accurately assess phylogeography and estimate divergence times. This represents an important tool for wildlife management, not only for killer whales but for many marine taxa. We used high-throughput sequencing to survey whole mitochondrial genome variation of 139 samples from the North Pacific, North Atlantic, and southern oceans. Phylogenetic analysis indicated that each of the known ecotypes represents a strongly supported clade with divergence times ranging from ∼150,000 to 700,000 yr ago. We recommend that three named ecotypes be elevated to full species, and that the remaining types be recognized as subspecies pending additional data. Establishing appropriate taxonomic designations will greatly aid in understanding the ecological impacts and conservation needs of these important marine predators. We predict that phylogeographic mitogenomics will become an important tool for improved statistical phylogeography and more precise estimates of divergence times.

KW - Animals

KW - Base Sequence

KW - Genetic Speciation

KW - Genetic Variation

KW - Genome, Mitochondrial

KW - Geography

KW - Molecular Sequence Data

KW - Oceans and Seas

KW - Phylogeny

KW - Sequence Analysis, DNA

KW - Sequence Homology, Nucleic Acid

KW - Species Specificity

KW - Whale, Killer

U2 - 10.1101/gr.102954.109

DO - 10.1101/gr.102954.109

M3 - Journal article

C2 - 20413674

SN - 1088-9051

VL - 20

SP - 908

EP - 916

JO - Genome Research

JF - Genome Research

IS - 7

ER -

Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species

Abstract

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