Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)

Autores
Estrada Santamarina, Oscar; Breen, James; Mitchell, Kieren J.; Babot, Maria del Pilar; Hocsman, Salomón; Jarvis, David; Tester, David; Cooper, Alan
Año de publicación
2020
Idioma
inglés
Tipo de recurso
documento de conferencia
Estado
versión publicada
Descripción
Quinoa (Chenopodium quinoa), an important crop for the global food security, was domesticated in the Andean highlands of South America about 7,000 years ago, where wild relatives still grow today. Archaeological studies have reported quinoa remains dating back to 4,000 years before present, but the ancient genetic diversity remains uncharacterised. Recent sequencing studies of the quinoa nuclear genome suggested domestication took place independently in highland and coastal environments. However, the origin and exact timing of domestication, and the genomic relationships among the tetraploid relatives (C. hircinumand C. berlandieri) of quinoa are not fully understood. Here, we report the nuclear and chloroplast genome sequences of four ~1,400 years old archaeological samples of C. quinoa from the highlands of northern Argentina. Phylogenetic analyses show thatwild, weedy and cultivated accessions from different species cluster in a monophyletic clade, indicative of historical hybridisation of closely related tetraploid species of Chenopodium. Two of the identified chloroplast haplogroups in the ancient samples appear to be absent from modern quinoa accessions, indicating a genetic bottleneck in the recent past. Further, sequence alignment to the nuclear and chloroplast reference genomes of C. quinoa identified a large number of nucleotide polymorphisms in the ancient specimens, providing resources for further analysis of domestication history as well as genetic changes in loci of breeding value.
Fil: Estrada Santamarina, Oscar. University of Adelaide; Australia
Fil: Breen, James. University of Adelaide; Australia
Fil: Mitchell, Kieren J.. University of Adelaide; Australia
Fil: Babot, Maria del Pilar. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucumán. Instituto Superior de Estudios Sociales. Universidad Nacional de Tucumán. Instituto Superior de Estudios Sociales; Argentina
Fil: Hocsman, Salomón. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucumán. Instituto Superior de Estudios Sociales. Universidad Nacional de Tucumán. Instituto Superior de Estudios Sociales; Argentina
Fil: Jarvis, David. University Brigham Young; Estados Unidos
Fil: Tester, David. King Abdullah University of Science and Technology; Arabia Saudita
Fil: Cooper, Alan. University of Adelaide; Australia
Plant and Animal Genome Conference XXVII
San Diego
Estados Unidos
International Plant and Animal Genome Conference
Materia
QUINOA
ANCIENT DNA
ARCHAEOLOGICAL QUINOA
HIGHLANDS OF NORTHERN ARGENTINA
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/196167
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/196167
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)Estrada Santamarina, OscarBreen, JamesMitchell, Kieren J.Babot, Maria del PilarHocsman, SalomónJarvis, DavidTester, DavidCooper, AlanQUINOAANCIENT DNAARCHAEOLOGICAL QUINOAHIGHLANDS OF NORTHERN ARGENTINAhttps://purl.org/becyt/ford/6.1https://purl.org/becyt/ford/6Quinoa (Chenopodium quinoa), an important crop for the global food security, was domesticated in the Andean highlands of South America about 7,000 years ago, where wild relatives still grow today. Archaeological studies have reported quinoa remains dating back to 4,000 years before present, but the ancient genetic diversity remains uncharacterised. Recent sequencing studies of the quinoa nuclear genome suggested domestication took place independently in highland and coastal environments. However, the origin and exact timing of domestication, and the genomic relationships among the tetraploid relatives (C. hircinumand C. berlandieri) of quinoa are not fully understood. Here, we report the nuclear and chloroplast genome sequences of four ~1,400 years old archaeological samples of C. quinoa from the highlands of northern Argentina. Phylogenetic analyses show thatwild, weedy and cultivated accessions from different species cluster in a monophyletic clade, indicative of historical hybridisation of closely related tetraploid species of Chenopodium. Two of the identified chloroplast haplogroups in the ancient samples appear to be absent from modern quinoa accessions, indicating a genetic bottleneck in the recent past. Further, sequence alignment to the nuclear and chloroplast reference genomes of C. quinoa identified a large number of nucleotide polymorphisms in the ancient specimens, providing resources for further analysis of domestication history as well as genetic changes in loci of breeding value.Fil: Estrada Santamarina, Oscar. University of Adelaide; AustraliaFil: Breen, James. University of Adelaide; AustraliaFil: Mitchell, Kieren J.. University of Adelaide; AustraliaFil: Babot, Maria del Pilar. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucumán. Instituto Superior de Estudios Sociales. Universidad Nacional de Tucumán. Instituto Superior de Estudios Sociales; ArgentinaFil: Hocsman, Salomón. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucumán. Instituto Superior de Estudios Sociales. Universidad Nacional de Tucumán. Instituto Superior de Estudios Sociales; ArgentinaFil: Jarvis, David. University Brigham Young; Estados UnidosFil: Tester, David. King Abdullah University of Science and Technology; Arabia SauditaFil: Cooper, Alan. University of Adelaide; AustraliaPlant and Animal Genome Conference XXVIISan DiegoEstados UnidosInternational Plant and Animal Genome ConferencePlan & Genome Plant Genome2020info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/conferenceObjectConferenciaBookhttp://purl.org/coar/resource_type/c_5794info:ar-repo/semantics/documentoDeConferenciaapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/196167Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.); Plant and Animal Genome Conference XXVII; San Diego; Estados Unidos; 2020; 1-1CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://plan.core-apps.com/pag_2020/event/0440b0d19152860f8c0d9eca09534044Internacionalinfo:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T09:49:23Zoai:ri.conicet.gov.ar:11336/196167instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-29 09:49:24.032CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
title Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
spellingShingle Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
Estrada Santamarina, Oscar
QUINOA
ANCIENT DNA
ARCHAEOLOGICAL QUINOA
HIGHLANDS OF NORTHERN ARGENTINA
title_short Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
title_full Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
title_fullStr Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
title_full_unstemmed Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
title_sort Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.)
dc.creator.none.fl_str_mv Estrada Santamarina, Oscar
Breen, James
Mitchell, Kieren J.
Babot, Maria del Pilar
Hocsman, Salomón
Jarvis, David
Tester, David
Cooper, Alan
author Estrada Santamarina, Oscar
author_facet Estrada Santamarina, Oscar
Breen, James
Mitchell, Kieren J.
Babot, Maria del Pilar
Hocsman, Salomón
Jarvis, David
Tester, David
Cooper, Alan
author_role author
author2 Breen, James
Mitchell, Kieren J.
Babot, Maria del Pilar
Hocsman, Salomón
Jarvis, David
Tester, David
Cooper, Alan
author2_role author
author
author
author
author
author
author
dc.subject.none.fl_str_mv QUINOA
ANCIENT DNA
ARCHAEOLOGICAL QUINOA
HIGHLANDS OF NORTHERN ARGENTINA
topic QUINOA
ANCIENT DNA
ARCHAEOLOGICAL QUINOA
HIGHLANDS OF NORTHERN ARGENTINA
purl_subject.fl_str_mv https://purl.org/becyt/ford/6.1
https://purl.org/becyt/ford/6
dc.description.none.fl_txt_mv Quinoa (Chenopodium quinoa), an important crop for the global food security, was domesticated in the Andean highlands of South America about 7,000 years ago, where wild relatives still grow today. Archaeological studies have reported quinoa remains dating back to 4,000 years before present, but the ancient genetic diversity remains uncharacterised. Recent sequencing studies of the quinoa nuclear genome suggested domestication took place independently in highland and coastal environments. However, the origin and exact timing of domestication, and the genomic relationships among the tetraploid relatives (C. hircinumand C. berlandieri) of quinoa are not fully understood. Here, we report the nuclear and chloroplast genome sequences of four ~1,400 years old archaeological samples of C. quinoa from the highlands of northern Argentina. Phylogenetic analyses show thatwild, weedy and cultivated accessions from different species cluster in a monophyletic clade, indicative of historical hybridisation of closely related tetraploid species of Chenopodium. Two of the identified chloroplast haplogroups in the ancient samples appear to be absent from modern quinoa accessions, indicating a genetic bottleneck in the recent past. Further, sequence alignment to the nuclear and chloroplast reference genomes of C. quinoa identified a large number of nucleotide polymorphisms in the ancient specimens, providing resources for further analysis of domestication history as well as genetic changes in loci of breeding value.
Fil: Estrada Santamarina, Oscar. University of Adelaide; Australia
Fil: Breen, James. University of Adelaide; Australia
Fil: Mitchell, Kieren J.. University of Adelaide; Australia
Fil: Babot, Maria del Pilar. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucumán. Instituto Superior de Estudios Sociales. Universidad Nacional de Tucumán. Instituto Superior de Estudios Sociales; Argentina
Fil: Hocsman, Salomón. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Tucumán. Instituto Superior de Estudios Sociales. Universidad Nacional de Tucumán. Instituto Superior de Estudios Sociales; Argentina
Fil: Jarvis, David. University Brigham Young; Estados Unidos
Fil: Tester, David. King Abdullah University of Science and Technology; Arabia Saudita
Fil: Cooper, Alan. University of Adelaide; Australia
Plant and Animal Genome Conference XXVII
San Diego
Estados Unidos
International Plant and Animal Genome Conference
description Quinoa (Chenopodium quinoa), an important crop for the global food security, was domesticated in the Andean highlands of South America about 7,000 years ago, where wild relatives still grow today. Archaeological studies have reported quinoa remains dating back to 4,000 years before present, but the ancient genetic diversity remains uncharacterised. Recent sequencing studies of the quinoa nuclear genome suggested domestication took place independently in highland and coastal environments. However, the origin and exact timing of domestication, and the genomic relationships among the tetraploid relatives (C. hircinumand C. berlandieri) of quinoa are not fully understood. Here, we report the nuclear and chloroplast genome sequences of four ~1,400 years old archaeological samples of C. quinoa from the highlands of northern Argentina. Phylogenetic analyses show thatwild, weedy and cultivated accessions from different species cluster in a monophyletic clade, indicative of historical hybridisation of closely related tetraploid species of Chenopodium. Two of the identified chloroplast haplogroups in the ancient samples appear to be absent from modern quinoa accessions, indicating a genetic bottleneck in the recent past. Further, sequence alignment to the nuclear and chloroplast reference genomes of C. quinoa identified a large number of nucleotide polymorphisms in the ancient specimens, providing resources for further analysis of domestication history as well as genetic changes in loci of breeding value.
publishDate 2020
dc.date.none.fl_str_mv 2020
dc.type.none.fl_str_mv info:eu-repo/semantics/publishedVersion
info:eu-repo/semantics/conferenceObject
Conferencia
Book
http://purl.org/coar/resource_type/c_5794
info:ar-repo/semantics/documentoDeConferencia
status_str publishedVersion
format conferenceObject
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/196167
Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.); Plant and Animal Genome Conference XXVII; San Diego; Estados Unidos; 2020; 1-1
CONICET Digital
CONICET
url http://hdl.handle.net/11336/196167
identifier_str_mv Ancient chloroplast and nuclear genomes provide insights into the evolutionary history of quinoa (chenopodium quinoa willd.); Plant and Animal Genome Conference XXVII; San Diego; Estados Unidos; 2020; 1-1
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://plan.core-apps.com/pag_2020/event/0440b0d19152860f8c0d9eca09534044
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.coverage.none.fl_str_mv Internacional
dc.publisher.none.fl_str_mv Plan & Genome Plant Genome
publisher.none.fl_str_mv Plan & Genome Plant Genome
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.070432

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