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Journal Articles Nature Year : 2012

Analyses of pig genomes provide insight into porcine demography and evolution

Martien A. M. Groenen , Alan L. Archibald , Hirohide Uenishi , Christopher K. Tuggle , Yasuhiro Takeuchi , Max F. Rothschild , Claire Rogel Gaillard (1) , Chankyu Park , Denis Milan (2) , Hendrik-Jan Megens , Shengting Li , Denis M. Larkin , Heebal Kim , Laurent A. F. Frantz , Mario Caccamo (3) , Hyeonju Ahn , Bronwen L. Aken , Anna Anselmo , Christian Anthon , Loretta Auvil , Bouabid Badaoui (4) , Craig W. Beattie , Christian Bendixen , Daniel Berman , Frank Blecha , Jonas Blomberg , Lars Bolund (5) , Mirte Bosse , Sara Botti , Zhan Bujie , Megan Bystrom , Boris Capitanu , Denise Carvalho-Silva (6) , Patrick Chardon (1) , Celine Chen , Ryan Cheng , Sang-Haeng Choi , William Chow , Richard C. Clark , Christopher Clee , Richard P. M. A. Crooijmans , Harry D. Dawson , Patrice Dehais (2, 7) , Fioravante de Sapio , Bert Dibbits , Nizar Drou , Zhi-Qiang Du , Kellye Eversole , João Fadista , Susan Fairley , Thomas Faraut (2) , Geoffrey J. Faulkner , Katie E. Fowler , Merete Fredholm (8) , Eric Fritz , James G. R. Gilbert , Elisabetta Giuffra (1) , Jan Gorodkin , Darren K. Griffin , Jennifer L. Harrow , Alexander Hayward , Kerstin Howe , Zhi-Liang Hu , Sean J. Humphray , Toby Hunt , Henrik Hornshøj , Jin-Tae Jeon , Patric Jern , Matthew Jones , Jerzy Jurka , Hiroyuki Kanamori , Ronan Kapetanovic , Jaebum Kim , Jae-Hwan Kim , Kyu-Won Kim , Tae-Hun Kim , Greger Larson , Kyooyeol Lee , Kyung-Tai Lee , Richard Leggett (9) , Harris A. Lewin , Yingrui Li (10, 11) , Wansheng Liu , Jane E. Loveland , Yao Lu , Joan K. Lunney , Jian Ma , Ole Madsen (12) , Katherine Mann , Lucy Matthews (13) , Stuart Mclaren , Takeya Morozumi , Michael P. Murtaugh , Jitendra Narayan , Dinh Truong Nguyen , Peixiang Ni , Song-Jung Oh , Suneel Onteru , Frank Panitz , Eung-Woo Park , Hong-Seog Park , Géraldine Pascal (14, 15) , Yogesh Paudel , Miguel Perez-Enciso , Ricardo Ramirez-Gonzalez (3) , James M. Reecy , Sandra Rodriguez-Zas , Gary A. Rohrer , Lauretta Rund , Yongming Sang , Kyle Schachtschneider , Joshua G. Schraiber , John Schwartz , Linda Scobie , Carol Scott , Stephen Searle , Bertrand Servin (2) , Bruce R. Southey , Goran Sperber , Peter Stadler , Jonathan V. Sweedler , Hakim Tafer , Bo Thomsen , Rashmi Wali , Jian Wang (16) , Jun Wang (11) , Simon White , Xun Xu (17) , Martine M. Yerle (2) , Guojie Zhang (11) , Jianguo Zhang (11) , Jie Zhang , Shuhong Zhao , Jane Rogers , Carol Churcher , Lawrence B. Schook
Martien A. M. Groenen
  • Function : Author
Alan L. Archibald
  • Function : Author
Hirohide Uenishi
  • Function : Author
Christopher K. Tuggle
  • Function : Author
Yasuhiro Takeuchi
  • Function : Author
Max F. Rothschild
  • Function : Author
Chankyu Park
  • Function : Author
Denis Milan
Hendrik-Jan Megens
  • Function : Author
Shengting Li
  • Function : Author
Denis M. Larkin
  • Function : Author
Heebal Kim
  • Function : Author
Laurent A. F. Frantz
  • Function : Author
Hyeonju Ahn
  • Function : Author
Bronwen L. Aken
  • Function : Author
Anna Anselmo
  • Function : Author
Christian Anthon
  • Function : Author
Loretta Auvil
  • Function : Author
Craig W. Beattie
  • Function : Author
Christian Bendixen
  • Function : Author
Daniel Berman
  • Function : Author
Frank Blecha
  • Function : Author
Jonas Blomberg
  • Function : Author
Mirte Bosse
  • Function : Author
Sara Botti
  • Function : Author
Zhan Bujie
  • Function : Author
Megan Bystrom
  • Function : Author
Boris Capitanu
  • Function : Author
Celine Chen
  • Function : Author
Ryan Cheng
  • Function : Author
Sang-Haeng Choi
  • Function : Author
William Chow
  • Function : Author
Richard C. Clark
  • Function : Author
Christopher Clee
  • Function : Author
Richard P. M. A. Crooijmans
  • Function : Author
Harry D. Dawson
  • Function : Author
Fioravante de Sapio
  • Function : Author
Bert Dibbits
  • Function : Author
Nizar Drou
  • Function : Author
Zhi-Qiang Du
  • Function : Author
Kellye Eversole
  • Function : Author
João Fadista
  • Function : Author
Susan Fairley
  • Function : Author
Thomas Faraut
Geoffrey J. Faulkner
  • Function : Author
Katie E. Fowler
  • Function : Author
Eric Fritz
  • Function : Author
James G. R. Gilbert
  • Function : Author
Jan Gorodkin
  • Function : Author
Darren K. Griffin
  • Function : Author
Jennifer L. Harrow
  • Function : Author
Alexander Hayward
  • Function : Author
Kerstin Howe
  • Function : Author
Zhi-Liang Hu
  • Function : Author
Sean J. Humphray
  • Function : Author
Toby Hunt
  • Function : Author
Henrik Hornshøj
  • Function : Author
Jin-Tae Jeon
  • Function : Author
Patric Jern
  • Function : Author
Matthew Jones
  • Function : Author
Jerzy Jurka
  • Function : Author
Hiroyuki Kanamori
  • Function : Author
Ronan Kapetanovic
Jaebum Kim
  • Function : Author
Jae-Hwan Kim
  • Function : Author
Kyu-Won Kim
  • Function : Author
Tae-Hun Kim
  • Function : Author
Greger Larson
Kyooyeol Lee
  • Function : Author
Kyung-Tai Lee
  • Function : Author
Harris A. Lewin
  • Function : Author
Wansheng Liu
  • Function : Author
Jane E. Loveland
  • Function : Author
Yao Lu
  • Function : Author
Joan K. Lunney
  • Function : Author
Jian Ma
  • Function : Author
Katherine Mann
  • Function : Author
Stuart Mclaren
  • Function : Author
Takeya Morozumi
  • Function : Author
Michael P. Murtaugh
  • Function : Author
Jitendra Narayan
  • Function : Author
Dinh Truong Nguyen
  • Function : Author
Peixiang Ni
  • Function : Author
Song-Jung Oh
  • Function : Author
Suneel Onteru
  • Function : Author
Frank Panitz
  • Function : Author
Eung-Woo Park
  • Function : Author
Hong-Seog Park
  • Function : Author
Yogesh Paudel
  • Function : Author
Miguel Perez-Enciso
  • Function : Author
James M. Reecy
  • Function : Author
Sandra Rodriguez-Zas
  • Function : Author
Gary A. Rohrer
  • Function : Author
Lauretta Rund
  • Function : Author
Yongming Sang
  • Function : Author
Kyle Schachtschneider
  • Function : Author
Joshua G. Schraiber
  • Function : Author
John Schwartz
  • Function : Author
Linda Scobie
  • Function : Author
Carol Scott
  • Function : Author
Stephen Searle
  • Function : Author
Bertrand Servin
Bruce R. Southey
  • Function : Author
Goran Sperber
  • Function : Author
Peter Stadler
  • Function : Author
Jonathan V. Sweedler
  • Function : Author
Hakim Tafer
  • Function : Author
Bo Thomsen
  • Function : Author
Rashmi Wali
  • Function : Author
Jian Wang
  • Function : Author
  • PersonId : 737345
  • IdHAL : jian-wang
Jun Wang
  • Function : Author
  • PersonId : 881572
Simon White
  • Function : Author
Martine M. Yerle
Jie Zhang
Shuhong Zhao
  • Function : Author
  • PersonId : 947920
Jane Rogers
  • Function : Author
Carol Churcher
  • Function : Author
Lawrence B. Schook
  • Function : Author

Abstract

For 10,000 years pigs and humans have shared a close and complex relationship. From domestication to modern breeding practices, humans have shaped the genomes of domestic pigs. Here we present the assembly and analysis of the genome sequence of a female domestic Duroc pig (Sus scrofa) and a comparison with the genomes of wild and domestic pigs from Europe and Asia. Wild pigs emerged in South East Asia and subsequently spread across Eurasia. Our results reveal a deep phylogenetic split between European and Asian wild boars ~1 million years ago, and a selective sweep analysis indicates selection on genes involved in RNA processing and regulation. Genes associated with immune response and olfaction exhibit fast evolution. Pigs have the largest repertoire of functional olfactory receptor genes, reflecting the importance of smell in this scavenging animal. The pig genome sequence provides an important resource for further improvements of this important livestock species, and our identification of many putative disease-causing variants extends the potential of the pig as a biomedical model

Domains

Animal biology

Dates and versions

cea-00880676 , version 1 (06-11-2013)

Identifiers

Cite

Martien A. M. Groenen, Alan L. Archibald, Hirohide Uenishi, Christopher K. Tuggle, Yasuhiro Takeuchi, et al.. Analyses of pig genomes provide insight into porcine demography and evolution. Nature, 2012, 491 (7426), pp.393-398. ⟨10.1038/nature11622⟩. ⟨cea-00880676⟩
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