Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression

Vlatka Cubric-Curik; Dinko Novosel; Vladimir Brajkovic; Omar Rota Stabelli; Stefan Krebs; Johann Solkner; Dragica Salamon; Strahil Ristov; Beate Berger; Stamatina Trivizaki; Iosif Bizelis; Maja Ferencakovic; Sophie Rothammer; Elisabeth Kunz; Mojca Simcic; Peter Dovc; Gojko Bunevski; Hysen Bytyqi; Bozidarka Markovic; Muhamed Brka; Kristaq Kume; Srctan Stojanovid; Vasil Nikolov; Natalia Zinovieva; Anna Amanda Schonherz; Bernt Guldbrandtsen; Mato Cacic; Sinisa Radovic; Preston Miracle; Cristiano Vernesi; Ino Curik; Ivica Medugorac

doi:10.1111/eva.13315

Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression

Vlatka Cubric-Curik^*, Dinko Novosel, Vladimir Brajkovic, Omar Rota Stabelli, Stefan Krebs, Johann Solkner, Dragica Salamon, Strahil Ristov, Beate Berger, Stamatina Trivizaki, Iosif Bizelis, Maja Ferencakovic, Sophie Rothammer, Elisabeth Kunz, Mojca Simcic, Peter Dovc, Gojko Bunevski, Hysen Bytyqi, Bozidarka Markovic, Muhamed BrkaKristaq Kume, Srctan Stojanovid, Vasil Nikolov, Natalia Zinovieva, Anna Amanda Schonherz, Bernt Guldbrandtsen, Mato Cacic, Sinisa Radovic, Preston Miracle, Cristiano Vernesi, Ino Curik^*, Ivica Medugorac^*

^*Corresponding author af dette arbejde

Institut for Husdyr- og Veterinærvidenskab - ANIVET Sundhed for tarm og vært (GHH)

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avis › Tidsskriftartikel › Forskning › peer review

22 Citationer (Scopus)

Abstract

The contribution of domestic cattle in human societies is enormous, making cattle, along with other essential benefits, the economically most important domestic animal in the world today. To expand existing knowledge on cattle domestication and mitogenome diversity, we performed a comprehensive complete mitogenome analysis of the species (802 sequences, 114 breeds). A large sample was collected in Southeast Europe, an important agricultural gateway to Europe during Neolithization and a region rich in cattle biodiversity. We found 1725 polymorphic sites (810 singletons, 853 parsimony-informative sites and 57 indels), 701 unique haplotypes, a haplotype diversity of 0.9995 and a nucleotide diversity of 0.0015. In addition to the dominant T-3 and several rare haplogroups (Q, T-5, T-4, T-2 and T-1), we have identified maternal line in Austrian Murbodner cattle that possess surviving aurochs' mitochondria haplotype P-1 that diverged prior to the Neolithization process. This is convincing evidence for rare female-mediated adaptive introgression of wild aurochs into domesticated cattle in Europe. We revalidated the existing haplogroup classification and provided Bayesian phylogenetic inference with a more precise estimated divergence time than previously available. Occasionally, classification based on partial mitogenomes was not reliable; for example, some individuals with haplogroups P and T-5 were not recognized based on D-loop information. Bayesian skyline plot estimates (median) show that the earliest population growth began before domestication in cattle with haplogroup T-2, followed by Q (-10.0-9.5 kyBP), whereas cattle with T-3 (similar to 7.5 kyBP) and T-1 (similar to 3.0-2.5 kyBP) expanded later. Overall, our results support the existence of interactions between aurochs and cattle during domestication and dispersal of cattle in the past, contribute to the conservation of maternal cattle diversity and enable functional analyses of the surviving aurochs P-1 mitogenome.

Originalsprog	Engelsk
Tidsskrift	Evolutionary Applications
Vol/bind	15
Nummer	4
Sider (fra-til)	663-678
Antal sider	16
ISSN	1752-4571
DOI	https://doi.org/10.1111/eva.13315
Status	Udgivet - apr. 2022

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10.1111/eva.13315Licens: CC BY

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Cubric-Curik, V., Novosel, D., Brajkovic, V., Stabelli, O. R., Krebs, S., Solkner, J., Salamon, D., Ristov, S., Berger, B., Trivizaki, S., Bizelis, I., Ferencakovic, M., Rothammer, S., Kunz, E., Simcic, M., Dovc, P., Bunevski, G., Bytyqi, H., Markovic, B., ... Medugorac, I. (2022). Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression. Evolutionary Applications, 15(4), 663-678. https://doi.org/10.1111/eva.13315

@article{e53b6da144074202bf205dea26f1c4fd,

title = "Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression",

abstract = "The contribution of domestic cattle in human societies is enormous, making cattle, along with other essential benefits, the economically most important domestic animal in the world today. To expand existing knowledge on cattle domestication and mitogenome diversity, we performed a comprehensive complete mitogenome analysis of the species (802 sequences, 114 breeds). A large sample was collected in Southeast Europe, an important agricultural gateway to Europe during Neolithization and a region rich in cattle biodiversity. We found 1725 polymorphic sites (810 singletons, 853 parsimony-informative sites and 57 indels), 701 unique haplotypes, a haplotype diversity of 0.9995 and a nucleotide diversity of 0.0015. In addition to the dominant T-3 and several rare haplogroups (Q, T-5, T-4, T-2 and T-1), we have identified maternal line in Austrian Murbodner cattle that possess surviving aurochs' mitochondria haplotype P-1 that diverged prior to the Neolithization process. This is convincing evidence for rare female-mediated adaptive introgression of wild aurochs into domesticated cattle in Europe. We revalidated the existing haplogroup classification and provided Bayesian phylogenetic inference with a more precise estimated divergence time than previously available. Occasionally, classification based on partial mitogenomes was not reliable; for example, some individuals with haplogroups P and T-5 were not recognized based on D-loop information. Bayesian skyline plot estimates (median) show that the earliest population growth began before domestication in cattle with haplogroup T-2, followed by Q (-10.0-9.5 kyBP), whereas cattle with T-3 (similar to 7.5 kyBP) and T-1 (similar to 3.0-2.5 kyBP) expanded later. Overall, our results support the existence of interactions between aurochs and cattle during domestication and dispersal of cattle in the past, contribute to the conservation of maternal cattle diversity and enable functional analyses of the surviving aurochs P-1 mitogenome.",

keywords = "aurochs introgression, cattle, diversity, domestication, mitogenome, phylogenetics",

author = "Vlatka Cubric-Curik and Dinko Novosel and Vladimir Brajkovic and Stabelli, {Omar Rota} and Stefan Krebs and Johann Solkner and Dragica Salamon and Strahil Ristov and Beate Berger and Stamatina Trivizaki and Iosif Bizelis and Maja Ferencakovic and Sophie Rothammer and Elisabeth Kunz and Mojca Simcic and Peter Dovc and Gojko Bunevski and Hysen Bytyqi and Bozidarka Markovic and Muhamed Brka and Kristaq Kume and Srctan Stojanovid and Vasil Nikolov and Natalia Zinovieva and Schonherz, {Anna Amanda} and Bernt Guldbrandtsen and Mato Cacic and Sinisa Radovic and Preston Miracle and Cristiano Vernesi and Ino Curik and Ivica Medugorac",

year = "2022",

month = apr,

doi = "10.1111/eva.13315",

language = "English",

volume = "15",

pages = "663--678",

journal = "Evolutionary Applications",

issn = "1752-4571",

publisher = "John Wiley & Sons Inc.",

number = "4",

}

Cubric-Curik, V, Novosel, D, Brajkovic, V, Stabelli, OR, Krebs, S, Solkner, J, Salamon, D, Ristov, S, Berger, B, Trivizaki, S, Bizelis, I, Ferencakovic, M, Rothammer, S, Kunz, E, Simcic, M, Dovc, P, Bunevski, G, Bytyqi, H, Markovic, B, Brka, M, Kume, K, Stojanovid, S, Nikolov, V, Zinovieva, N, Schonherz, AA, Guldbrandtsen, B, Cacic, M, Radovic, S, Miracle, P, Vernesi, C, Curik, I & Medugorac, I 2022, 'Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression', Evolutionary Applications, bind 15, nr. 4, s. 663-678. https://doi.org/10.1111/eva.13315

Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression. / Cubric-Curik, Vlatka; Novosel, Dinko; Brajkovic, Vladimir et al.
I: Evolutionary Applications, Bind 15, Nr. 4, 04.2022, s. 663-678.

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avis › Tidsskriftartikel › Forskning › peer review

TY - JOUR

T1 - Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression

AU - Cubric-Curik, Vlatka

AU - Novosel, Dinko

AU - Brajkovic, Vladimir

AU - Stabelli, Omar Rota

AU - Krebs, Stefan

AU - Solkner, Johann

AU - Salamon, Dragica

AU - Ristov, Strahil

AU - Berger, Beate

AU - Trivizaki, Stamatina

AU - Bizelis, Iosif

AU - Ferencakovic, Maja

AU - Rothammer, Sophie

AU - Kunz, Elisabeth

AU - Simcic, Mojca

AU - Dovc, Peter

AU - Bunevski, Gojko

AU - Bytyqi, Hysen

AU - Markovic, Bozidarka

AU - Brka, Muhamed

AU - Kume, Kristaq

AU - Stojanovid, Srctan

AU - Nikolov, Vasil

AU - Zinovieva, Natalia

AU - Schonherz, Anna Amanda

AU - Guldbrandtsen, Bernt

AU - Cacic, Mato

AU - Radovic, Sinisa

AU - Miracle, Preston

AU - Vernesi, Cristiano

AU - Curik, Ino

AU - Medugorac, Ivica

PY - 2022/4

Y1 - 2022/4

N2 - The contribution of domestic cattle in human societies is enormous, making cattle, along with other essential benefits, the economically most important domestic animal in the world today. To expand existing knowledge on cattle domestication and mitogenome diversity, we performed a comprehensive complete mitogenome analysis of the species (802 sequences, 114 breeds). A large sample was collected in Southeast Europe, an important agricultural gateway to Europe during Neolithization and a region rich in cattle biodiversity. We found 1725 polymorphic sites (810 singletons, 853 parsimony-informative sites and 57 indels), 701 unique haplotypes, a haplotype diversity of 0.9995 and a nucleotide diversity of 0.0015. In addition to the dominant T-3 and several rare haplogroups (Q, T-5, T-4, T-2 and T-1), we have identified maternal line in Austrian Murbodner cattle that possess surviving aurochs' mitochondria haplotype P-1 that diverged prior to the Neolithization process. This is convincing evidence for rare female-mediated adaptive introgression of wild aurochs into domesticated cattle in Europe. We revalidated the existing haplogroup classification and provided Bayesian phylogenetic inference with a more precise estimated divergence time than previously available. Occasionally, classification based on partial mitogenomes was not reliable; for example, some individuals with haplogroups P and T-5 were not recognized based on D-loop information. Bayesian skyline plot estimates (median) show that the earliest population growth began before domestication in cattle with haplogroup T-2, followed by Q (-10.0-9.5 kyBP), whereas cattle with T-3 (similar to 7.5 kyBP) and T-1 (similar to 3.0-2.5 kyBP) expanded later. Overall, our results support the existence of interactions between aurochs and cattle during domestication and dispersal of cattle in the past, contribute to the conservation of maternal cattle diversity and enable functional analyses of the surviving aurochs P-1 mitogenome.

AB - The contribution of domestic cattle in human societies is enormous, making cattle, along with other essential benefits, the economically most important domestic animal in the world today. To expand existing knowledge on cattle domestication and mitogenome diversity, we performed a comprehensive complete mitogenome analysis of the species (802 sequences, 114 breeds). A large sample was collected in Southeast Europe, an important agricultural gateway to Europe during Neolithization and a region rich in cattle biodiversity. We found 1725 polymorphic sites (810 singletons, 853 parsimony-informative sites and 57 indels), 701 unique haplotypes, a haplotype diversity of 0.9995 and a nucleotide diversity of 0.0015. In addition to the dominant T-3 and several rare haplogroups (Q, T-5, T-4, T-2 and T-1), we have identified maternal line in Austrian Murbodner cattle that possess surviving aurochs' mitochondria haplotype P-1 that diverged prior to the Neolithization process. This is convincing evidence for rare female-mediated adaptive introgression of wild aurochs into domesticated cattle in Europe. We revalidated the existing haplogroup classification and provided Bayesian phylogenetic inference with a more precise estimated divergence time than previously available. Occasionally, classification based on partial mitogenomes was not reliable; for example, some individuals with haplogroups P and T-5 were not recognized based on D-loop information. Bayesian skyline plot estimates (median) show that the earliest population growth began before domestication in cattle with haplogroup T-2, followed by Q (-10.0-9.5 kyBP), whereas cattle with T-3 (similar to 7.5 kyBP) and T-1 (similar to 3.0-2.5 kyBP) expanded later. Overall, our results support the existence of interactions between aurochs and cattle during domestication and dispersal of cattle in the past, contribute to the conservation of maternal cattle diversity and enable functional analyses of the surviving aurochs P-1 mitogenome.

KW - aurochs introgression

KW - cattle

KW - diversity

KW - domestication

KW - mitogenome

KW - phylogenetics

U2 - 10.1111/eva.13315

DO - 10.1111/eva.13315

M3 - Journal article

C2 - 35505892

SN - 1752-4571

VL - 15

SP - 663

EP - 678

JO - Evolutionary Applications

JF - Evolutionary Applications

IS - 4

ER -

Large-scale mitogenome sequencing reveals consecutive expansions of domestic taurine cattle and supports sporadic aurochs introgression

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