AdaptMap: Exploring goat diversity and adaptation

Alessandra Stella; Ezequiel Luis Nicolazzi; Curtis P. Van Tassell; Max F. Rothschild; Licia Colli; Benjamin D. Rosen; Tad S. Sonstegard; Paola Crepaldi; Gwenola Tosser-Klopp; Stephane Joost; Marcel Amills; Paolo Ajmone Marsan; Francesca Bertolini; Paul Boettcher; Robert Boyle Onzima; Dan Bradley; Diana Buja; Margarita Ema Cano Pereira; Antonello Carta; Gennaro Catillo; Alessandra Crisà; Marcello Del Corvo; Kevin Daly; Cord Droegemueller; Solange Duruz; Ahmed Elbeltagi; Ali Esmailizadeh; Olivardo Faco; Taina Figueiredo Cardoso; Christine Flury; Josè Fernando Garcia; Bernt Guldbrandtsen; Aynalem Haile; Jon Hallsteinn Hallsson; Michael Heaton; Vivi Hunnicke Nielsen; Heather Huson; James Kijas; Johannes A. Lenstra; Gabriele Marras; Marco Milanesi; Chen Minhui; Muhammad Moaeen-Ud-Din; Romy Morry O'Donnell; Ogah Moses Danlami; Joram Mwacharo; Isabelle Palhière; Fabio Pilla; Mario Poli; Jim Reecy; Barbara Ann Rischkowsky; Estelle Rochat; Rachel Rupp; Brian Sayre; Bertrand Servin; Kleibe Silva; Gordon Spangler; Roberto Steri; Andrea Talenti; Flavie Tortereau; Elia Vajana; Wenguang Zhang

doi:10.1186/s12711-018-0427-5

AdaptMap: Exploring goat diversity and adaptation

Alessandra Stella^*
, Ezequiel Luis Nicolazzi
, Curtis P. Van Tassell
, Max F. Rothschild
, Licia Colli
, Benjamin D. Rosen
, Tad S. Sonstegard
, Paola Crepaldi
, Gwenola Tosser-Klopp
, Stephane Joost
, Marcel Amills
, Paolo Ajmone Marsan
, Francesca Bertolini
, Paul Boettcher
, Robert Boyle Onzima
, Dan Bradley
, Diana Buja
, Margarita Ema Cano Pereira
, Antonello Carta
, Gennaro Catillo

Alessandra Crisà, Marcello Del Corvo, Kevin Daly, Cord Droegemueller, Solange Duruz, Ahmed Elbeltagi, Ali Esmailizadeh, Olivardo Faco, Taina Figueiredo Cardoso, Christine Flury, Josè Fernando Garcia, Bernt Guldbrandtsen, Aynalem Haile, Jon Hallsteinn Hallsson, Michael Heaton, Vivi Hunnicke Nielsen, Heather Huson, James Kijas, Johannes A. Lenstra, Gabriele Marras, Marco Milanesi, Chen Minhui, Muhammad Moaeen-Ud-Din, Romy Morry O'Donnell, Ogah Moses Danlami, Joram Mwacharo, Isabelle Palhière, Fabio Pilla, Mario Poli, Jim Reecy, Barbara Ann Rischkowsky, Estelle Rochat, Rachel Rupp, Brian Sayre, Bertrand Servin, Kleibe Silva, Gordon Spangler, Roberto Steri, Andrea Talenti, Flavie Tortereau, Elia Vajana, Wenguang Zhang

^*Corresponding author

National Research Council of Italy
Parco Tecnologico Padano
United States Department of Agriculture
Iowa State University
Recombinetics Inc
University of Milan
Génétique Physiologie et Systèmes d'Elevage - (GenPhyse)
Swiss Federal Institute of Technology Lausanne

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

19 Citations (Scopus)

Abstract

Goats are bred worldwide and present in a wide variety of production environments. Local breeds, which are well adapted to a range of agro-ecological conditions, contribute to ensuring the sustainability of livestock farming in marginal and difficult areas in both developed and developing countries. Compared to other livestock species, goats have been domesticated in a single region and subject to a limited amount of hybridization between breeds, thus they represent one of the best species for the study of genetic diversity and adaptation.\r\n\r\nThe International Goat Genome Consortium (IGGC, http://www.goatgenome.org) was created in 2012 with the general goal of increasing the range of genomic tools and publicly available information for the goat. In 2013, the 50 K goat single nucleotide polymorphism (SNP) panel was developed (http://www.goatgenome.org; [3]) by combining whole-genome sequencing and reduced representation libraries from eight breeds/populations from Europe and Asia through the cooperation of the Institut National de la Recherche Agronomique (Inra) in France, Utrecht University in The Netherlands, the Malaysian Agricultural Research and Development Institute (MARDI) in Malaysia, and DNA Landmarks in Canada.\r\n\r\nSeveral large projects took advantage of this newly-developed SNP panel to genotype many goat populations across the world with a range of objectives and hypotheses: genome-wide association analyses across a spectrum of research and production traits, germplasm characterization and diversity studies, and genetic prediction for selection in commercial populations.\r\n\r\nThe AdaptMap project started as a voluntary consortium in 2014, with the aim of improving coordination among these otherwise independent projects for genotyping, resequencing and phenotyping of goat breeds. AdaptMap was promoted by the International Goat Genome Consortium (IGGC), the African Goat Improvement Network (AGIN), which is a group resulting from the USAID Feed the Future (FtF), the USDA Livestock Improvement Project, the European Union sponsored, 3SR—Sustainable Solutions for Small ruminants and NEXTGEN projects.

Original language	English
Pages (from-to)	N/A-N/A
Journal	Genetics Selection Evolution
Volume	50
Issue number	1
DOIs	https://doi.org/10.1186/s12711-018-0427-5
Publication status	Published - 2018

All Science Journal Classification (ASJC) codes

Ecology, Evolution, Behavior and Systematics
Animal Science and Zoology
Genetics

Keywords

Adaptation
Animal Science and Zoology
Animals
Behavior and Systematics
Databases
Ecology
Evolution
Genetic
Genetic Variation
Genetics
Genomics
Goats
Physiological
Polymorphism
Population
Single Nucleotide

Access to Document

10.1186/s12711-018-0427-5

Cite this

Stella, A., Nicolazzi, E. L., Van Tassell, C. P., Rothschild, M. F., Colli, L., Rosen, B. D., Sonstegard, T. S., Crepaldi, P., Tosser-Klopp, G., Joost, S., Amills, M., Ajmone Marsan, P., Bertolini, F., Boettcher, P., Boyle Onzima, R., Bradley, D., Buja, D., Cano Pereira, M. E., Carta, A., ... Zhang, W. (2018). AdaptMap: Exploring goat diversity and adaptation. Genetics Selection Evolution, 50(1), N/A-N/A. https://doi.org/10.1186/s12711-018-0427-5

@article{e1a1decfbed74c2ba9e4ea149a94947b,

title = "AdaptMap: Exploring goat diversity and adaptation",

abstract = "Goats are bred worldwide and present in a wide variety of production environments. Local breeds, which are well adapted to a range of agro-ecological conditions, contribute to ensuring the sustainability of livestock farming in marginal and difficult areas in both developed and developing countries. Compared to other livestock species, goats have been domesticated in a single region and subject to a limited amount of hybridization between breeds, thus they represent one of the best species for the study of genetic diversity and adaptation.\textbackslash{}r\textbackslash{}n\textbackslash{}r\textbackslash{}nThe International Goat Genome Consortium (IGGC, http://www.goatgenome.org) was created in 2012 with the general goal of increasing the range of genomic tools and publicly available information for the goat. In 2013, the 50 K goat single nucleotide polymorphism (SNP) panel was developed (http://www.goatgenome.org; [3]) by combining whole-genome sequencing and reduced representation libraries from eight breeds/populations from Europe and Asia through the cooperation of the Institut National de la Recherche Agronomique (Inra) in France, Utrecht University in The Netherlands, the Malaysian Agricultural Research and Development Institute (MARDI) in Malaysia, and DNA Landmarks in Canada.\textbackslash{}r\textbackslash{}n\textbackslash{}r\textbackslash{}nSeveral large projects took advantage of this newly-developed SNP panel to genotype many goat populations across the world with a range of objectives and hypotheses: genome-wide association analyses across a spectrum of research and production traits, germplasm characterization and diversity studies, and genetic prediction for selection in commercial populations.\textbackslash{}r\textbackslash{}n\textbackslash{}r\textbackslash{}nThe AdaptMap project started as a voluntary consortium in 2014, with the aim of improving coordination among these otherwise independent projects for genotyping, resequencing and phenotyping of goat breeds. AdaptMap was promoted by the International Goat Genome Consortium (IGGC), the African Goat Improvement Network (AGIN), which is a group resulting from the USAID Feed the Future (FtF), the USDA Livestock Improvement Project, the European Union sponsored, 3SR—Sustainable Solutions for Small ruminants and NEXTGEN projects.",

keywords = "Adaptation, Animal Science and Zoology, Animals, Behavior and Systematics, Databases, Ecology, Evolution, Genetic, Genetic Variation, Genetics, Genomics, Goats, Physiological, Polymorphism, Population, Single Nucleotide, Adaptation, Animal Science and Zoology, Animals, Behavior and Systematics, Databases, Ecology, Evolution, Genetic, Genetic Variation, Genetics, Genomics, Goats, Physiological, Polymorphism, Population, Single Nucleotide",

author = "Alessandra Stella and Nicolazzi, \{Ezequiel Luis\} and \{Van Tassell\}, \{Curtis P.\} and Rothschild, \{Max F.\} and Licia Colli and Rosen, \{Benjamin D.\} and Sonstegard, \{Tad S.\} and Paola Crepaldi and Gwenola Tosser-Klopp and Stephane Joost and Marcel Amills and \{Ajmone Marsan\}, Paolo and Francesca Bertolini and Paul Boettcher and \{Boyle Onzima\}, Robert and Dan Bradley and Diana Buja and \{Cano Pereira\}, \{Margarita Ema\} and Antonello Carta and Gennaro Catillo and Alessandra Cris{\`a} and \{Del Corvo\}, Marcello and Kevin Daly and Cord Droegemueller and Solange Duruz and Ahmed Elbeltagi and Ali Esmailizadeh and Olivardo Faco and \{Figueiredo Cardoso\}, Taina and Christine Flury and Garcia, \{Jos{\`e} Fernando\} and Bernt Guldbrandtsen and Aynalem Haile and \{Hallsteinn Hallsson\}, Jon and Michael Heaton and \{Hunnicke Nielsen\}, Vivi and Heather Huson and James Kijas and Lenstra, \{Johannes A.\} and Gabriele Marras and Marco Milanesi and Chen Minhui and Muhammad Moaeen-Ud-Din and \{Morry O'Donnell\}, Romy and \{Moses Danlami\}, Ogah and Joram Mwacharo and Isabelle Palhi{\`e}re and Fabio Pilla and Mario Poli and Jim Reecy and Rischkowsky, \{Barbara Ann\} and Estelle Rochat and Rachel Rupp and Brian Sayre and Bertrand Servin and Kleibe Silva and Gordon Spangler and Roberto Steri and Andrea Talenti and Flavie Tortereau and Elia Vajana and Wenguang Zhang",

year = "2018",

doi = "10.1186/s12711-018-0427-5",

language = "English",

volume = "50",

pages = "N/A--N/A",

journal = "Genetics Selection Evolution",

issn = "0999-193X",

publisher = "BioMed Central",

number = "1",

}

Stella, A, Nicolazzi, EL, Van Tassell, CP, Rothschild, MF, Colli, L, Rosen, BD, Sonstegard, TS, Crepaldi, P, Tosser-Klopp, G, Joost, S, Amills, M, Ajmone Marsan, P, Bertolini, F, Boettcher, P, Boyle Onzima, R, Bradley, D, Buja, D, Cano Pereira, ME, Carta, A, Catillo, G, Crisà, A, Del Corvo, M, Daly, K, Droegemueller, C, Duruz, S, Elbeltagi, A, Esmailizadeh, A, Faco, O, Figueiredo Cardoso, T, Flury, C, Garcia, JF, Guldbrandtsen, B, Haile, A, Hallsteinn Hallsson, J, Heaton, M, Hunnicke Nielsen, V, Huson, H, Kijas, J, Lenstra, JA, Marras, G, Milanesi, M, Minhui, C, Moaeen-Ud-Din, M, Morry O'Donnell, R, Moses Danlami, O, Mwacharo, J, Palhière, I, Pilla, F, Poli, M, Reecy, J, Rischkowsky, BA, Rochat, E, Rupp, R, Sayre, B, Servin, B, Silva, K, Spangler, G, Steri, R, Talenti, A, Tortereau, F, Vajana, E & Zhang, W 2018, 'AdaptMap: Exploring goat diversity and adaptation', Genetics Selection Evolution, vol. 50, no. 1, pp. N/A-N/A. https://doi.org/10.1186/s12711-018-0427-5

TY - JOUR

T1 - AdaptMap: Exploring goat diversity and adaptation

AU - Stella, Alessandra

AU - Nicolazzi, Ezequiel Luis

AU - Van Tassell, Curtis P.

AU - Rothschild, Max F.

AU - Colli, Licia

AU - Rosen, Benjamin D.

AU - Sonstegard, Tad S.

AU - Crepaldi, Paola

AU - Tosser-Klopp, Gwenola

AU - Joost, Stephane

AU - Amills, Marcel

AU - Ajmone Marsan, Paolo

AU - Bertolini, Francesca

AU - Boettcher, Paul

AU - Boyle Onzima, Robert

AU - Bradley, Dan

AU - Buja, Diana

AU - Cano Pereira, Margarita Ema

AU - Carta, Antonello

AU - Catillo, Gennaro

AU - Crisà, Alessandra

AU - Del Corvo, Marcello

AU - Daly, Kevin

AU - Droegemueller, Cord

AU - Duruz, Solange

AU - Elbeltagi, Ahmed

AU - Esmailizadeh, Ali

AU - Faco, Olivardo

AU - Figueiredo Cardoso, Taina

AU - Flury, Christine

AU - Garcia, Josè Fernando

AU - Guldbrandtsen, Bernt

AU - Haile, Aynalem

AU - Hallsteinn Hallsson, Jon

AU - Heaton, Michael

AU - Hunnicke Nielsen, Vivi

AU - Huson, Heather

AU - Kijas, James

AU - Lenstra, Johannes A.

AU - Marras, Gabriele

AU - Milanesi, Marco

AU - Minhui, Chen

AU - Moaeen-Ud-Din, Muhammad

AU - Morry O'Donnell, Romy

AU - Moses Danlami, Ogah

AU - Mwacharo, Joram

AU - Palhière, Isabelle

AU - Pilla, Fabio

AU - Poli, Mario

AU - Reecy, Jim

AU - Rischkowsky, Barbara Ann

AU - Rochat, Estelle

AU - Rupp, Rachel

AU - Sayre, Brian

AU - Servin, Bertrand

AU - Silva, Kleibe

AU - Spangler, Gordon

AU - Steri, Roberto

AU - Talenti, Andrea

AU - Tortereau, Flavie

AU - Vajana, Elia

AU - Zhang, Wenguang

PY - 2018

Y1 - 2018

N2 - Goats are bred worldwide and present in a wide variety of production environments. Local breeds, which are well adapted to a range of agro-ecological conditions, contribute to ensuring the sustainability of livestock farming in marginal and difficult areas in both developed and developing countries. Compared to other livestock species, goats have been domesticated in a single region and subject to a limited amount of hybridization between breeds, thus they represent one of the best species for the study of genetic diversity and adaptation.\r\n\r\nThe International Goat Genome Consortium (IGGC, http://www.goatgenome.org) was created in 2012 with the general goal of increasing the range of genomic tools and publicly available information for the goat. In 2013, the 50 K goat single nucleotide polymorphism (SNP) panel was developed (http://www.goatgenome.org; [3]) by combining whole-genome sequencing and reduced representation libraries from eight breeds/populations from Europe and Asia through the cooperation of the Institut National de la Recherche Agronomique (Inra) in France, Utrecht University in The Netherlands, the Malaysian Agricultural Research and Development Institute (MARDI) in Malaysia, and DNA Landmarks in Canada.\r\n\r\nSeveral large projects took advantage of this newly-developed SNP panel to genotype many goat populations across the world with a range of objectives and hypotheses: genome-wide association analyses across a spectrum of research and production traits, germplasm characterization and diversity studies, and genetic prediction for selection in commercial populations.\r\n\r\nThe AdaptMap project started as a voluntary consortium in 2014, with the aim of improving coordination among these otherwise independent projects for genotyping, resequencing and phenotyping of goat breeds. AdaptMap was promoted by the International Goat Genome Consortium (IGGC), the African Goat Improvement Network (AGIN), which is a group resulting from the USAID Feed the Future (FtF), the USDA Livestock Improvement Project, the European Union sponsored, 3SR—Sustainable Solutions for Small ruminants and NEXTGEN projects.

AB - Goats are bred worldwide and present in a wide variety of production environments. Local breeds, which are well adapted to a range of agro-ecological conditions, contribute to ensuring the sustainability of livestock farming in marginal and difficult areas in both developed and developing countries. Compared to other livestock species, goats have been domesticated in a single region and subject to a limited amount of hybridization between breeds, thus they represent one of the best species for the study of genetic diversity and adaptation.\r\n\r\nThe International Goat Genome Consortium (IGGC, http://www.goatgenome.org) was created in 2012 with the general goal of increasing the range of genomic tools and publicly available information for the goat. In 2013, the 50 K goat single nucleotide polymorphism (SNP) panel was developed (http://www.goatgenome.org; [3]) by combining whole-genome sequencing and reduced representation libraries from eight breeds/populations from Europe and Asia through the cooperation of the Institut National de la Recherche Agronomique (Inra) in France, Utrecht University in The Netherlands, the Malaysian Agricultural Research and Development Institute (MARDI) in Malaysia, and DNA Landmarks in Canada.\r\n\r\nSeveral large projects took advantage of this newly-developed SNP panel to genotype many goat populations across the world with a range of objectives and hypotheses: genome-wide association analyses across a spectrum of research and production traits, germplasm characterization and diversity studies, and genetic prediction for selection in commercial populations.\r\n\r\nThe AdaptMap project started as a voluntary consortium in 2014, with the aim of improving coordination among these otherwise independent projects for genotyping, resequencing and phenotyping of goat breeds. AdaptMap was promoted by the International Goat Genome Consortium (IGGC), the African Goat Improvement Network (AGIN), which is a group resulting from the USAID Feed the Future (FtF), the USDA Livestock Improvement Project, the European Union sponsored, 3SR—Sustainable Solutions for Small ruminants and NEXTGEN projects.

KW - Adaptation

KW - Animal Science and Zoology

KW - Animals

KW - Behavior and Systematics

KW - Databases

KW - Ecology

KW - Evolution

KW - Genetic

KW - Genetic Variation

KW - Genetics

KW - Genomics

KW - Goats

KW - Physiological

KW - Polymorphism

KW - Population

KW - Single Nucleotide

KW - Adaptation

KW - Animal Science and Zoology

KW - Animals

KW - Behavior and Systematics

KW - Databases

KW - Ecology

KW - Evolution

KW - Genetic

KW - Genetic Variation

KW - Genetics

KW - Genomics

KW - Goats

KW - Physiological

KW - Polymorphism

KW - Population

KW - Single Nucleotide

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U2 - 10.1186/s12711-018-0427-5

DO - 10.1186/s12711-018-0427-5

M3 - Article

SN - 0999-193X

VL - 50

SP - N/A-N/A

JO - Genetics Selection Evolution

JF - Genetics Selection Evolution

IS - 1

ER -

AdaptMap: Exploring goat diversity and adaptation

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