Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis
- Autores
- Rivarola, Maximo Lisandro; Foster, Jeffrey T.; Chan, Agnes P.; Williams, Amber L.; Rice, Danny W.; Liu, Xinyue; Melake Berhan, Admasu; Creasy, Heather Huot; Puiu, Daniela; Rosovitz, M. J.; Khouri, Hoda M.; Beckstrom Sternberg, Stephen M.; Allan, Gerard J.; Keim, Paul; Ravel, Jacques; Rabinowicz, Pablo D.
- Año de publicación
- 2011
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- Castor bean is an important oil-producing plant in the Euphorbiaceae family. Its high-quality oil contains up to 90% of the unusual fatty acid ricinoleate, which has many industrial and medical applications. Castor bean seeds also contain ricin, a highly toxic Type 2 ribosome-inactivating protein, which has gained relevance in recent years due to biosafety concerns. In order to gain knowledge on global genetic diversity in castor bean and to ultimately help the development of breeding and forensic tools, we carried out an extensive chloroplast sequence diversity analysis. Taking advantage of the recently published genome sequence of castor bean, we assembled the chloroplast and mitochondrion genomes extracting selected reads from the available whole genome shotgun reads. Using the chloroplast reference genome we used the methylation filtration technique to readily obtain draft genome sequences of 7 geographically and genetically diverse castor bean accessions. These sequence data were used to identify single nucleotide polymorphism markers and phylogenetic analysis resulted in the identification of two major clades that were not apparent in previous population genetic studies using genetic markers derived from nuclear DNA. Two distinct sub-clades could be defined within each major clade and large-scale genotyping of castor bean populations worldwide confirmed previously observed low levels of genetic diversity and showed a broad geographic distribution of each sub-clade.
Fil: Rivarola, Maximo Lisandro. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Foster, Jeffrey T.. Northern Arizona University; Estados Unidos
Fil: Chan, Agnes P.. No especifíca;
Fil: Williams, Amber L.. Northern Arizona University; Estados Unidos
Fil: Rice, Danny W.. Indiana University; Estados Unidos
Fil: Liu, Xinyue. University of Maryland; Estados Unidos
Fil: Melake Berhan, Admasu. No especifíca;
Fil: Creasy, Heather Huot. University of Maryland; Estados Unidos
Fil: Puiu, Daniela. No especifíca;
Fil: Rosovitz, M. J.. No especifíca;
Fil: Khouri, Hoda M.. University of Maryland; Estados Unidos
Fil: Beckstrom Sternberg, Stephen M.. Northern Arizona University; Estados Unidos
Fil: Allan, Gerard J.. Northern Arizona University; Estados Unidos
Fil: Keim, Paul. Northern Arizona University; Estados Unidos
Fil: Ravel, Jacques. University of Maryland; Estados Unidos
Fil: Rabinowicz, Pablo D.. University of Maryland; Estados Unidos - Materia
-
Genomics
Organelle
Functional - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
- Repositorio
- Institución
- Consejo Nacional de Investigaciones Científicas y Técnicas
- OAI Identificador
- oai:ri.conicet.gov.ar:11336/192771
Ver los metadatos del registro completo
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oai:ri.conicet.gov.ar:11336/192771 |
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CONICETDig |
repository_id_str |
3498 |
network_name_str |
CONICET Digital (CONICET) |
spelling |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysisRivarola, Maximo LisandroFoster, Jeffrey T.Chan, Agnes P.Williams, Amber L.Rice, Danny W.Liu, XinyueMelake Berhan, AdmasuCreasy, Heather HuotPuiu, DanielaRosovitz, M. J.Khouri, Hoda M.Beckstrom Sternberg, Stephen M.Allan, Gerard J.Keim, PaulRavel, JacquesRabinowicz, Pablo D.GenomicsOrganelleFunctionalhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Castor bean is an important oil-producing plant in the Euphorbiaceae family. Its high-quality oil contains up to 90% of the unusual fatty acid ricinoleate, which has many industrial and medical applications. Castor bean seeds also contain ricin, a highly toxic Type 2 ribosome-inactivating protein, which has gained relevance in recent years due to biosafety concerns. In order to gain knowledge on global genetic diversity in castor bean and to ultimately help the development of breeding and forensic tools, we carried out an extensive chloroplast sequence diversity analysis. Taking advantage of the recently published genome sequence of castor bean, we assembled the chloroplast and mitochondrion genomes extracting selected reads from the available whole genome shotgun reads. Using the chloroplast reference genome we used the methylation filtration technique to readily obtain draft genome sequences of 7 geographically and genetically diverse castor bean accessions. These sequence data were used to identify single nucleotide polymorphism markers and phylogenetic analysis resulted in the identification of two major clades that were not apparent in previous population genetic studies using genetic markers derived from nuclear DNA. Two distinct sub-clades could be defined within each major clade and large-scale genotyping of castor bean populations worldwide confirmed previously observed low levels of genetic diversity and showed a broad geographic distribution of each sub-clade.Fil: Rivarola, Maximo Lisandro. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Foster, Jeffrey T.. Northern Arizona University; Estados UnidosFil: Chan, Agnes P.. No especifíca;Fil: Williams, Amber L.. Northern Arizona University; Estados UnidosFil: Rice, Danny W.. Indiana University; Estados UnidosFil: Liu, Xinyue. University of Maryland; Estados UnidosFil: Melake Berhan, Admasu. No especifíca;Fil: Creasy, Heather Huot. University of Maryland; Estados UnidosFil: Puiu, Daniela. No especifíca;Fil: Rosovitz, M. J.. No especifíca;Fil: Khouri, Hoda M.. University of Maryland; Estados UnidosFil: Beckstrom Sternberg, Stephen M.. Northern Arizona University; Estados UnidosFil: Allan, Gerard J.. Northern Arizona University; Estados UnidosFil: Keim, Paul. Northern Arizona University; Estados UnidosFil: Ravel, Jacques. University of Maryland; Estados UnidosFil: Rabinowicz, Pablo D.. University of Maryland; Estados UnidosPublic Library of Science2011-07info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/192771Rivarola, Maximo Lisandro; Foster, Jeffrey T.; Chan, Agnes P.; Williams, Amber L.; Rice, Danny W.; et al.; Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis; Public Library of Science; Plos One; 6; 7; 7-2011; 1-91932-6203CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0021743info:eu-repo/semantics/altIdentifier/doi/10.1371/journal.pone.0021743info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:08:56Zoai:ri.conicet.gov.ar:11336/192771instacron: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 10:08:56.851CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse |
dc.title.none.fl_str_mv |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis |
title |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis |
spellingShingle |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis Rivarola, Maximo Lisandro Genomics Organelle Functional |
title_short |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis |
title_full |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis |
title_fullStr |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis |
title_full_unstemmed |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis |
title_sort |
Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis |
dc.creator.none.fl_str_mv |
Rivarola, Maximo Lisandro Foster, Jeffrey T. Chan, Agnes P. Williams, Amber L. Rice, Danny W. Liu, Xinyue Melake Berhan, Admasu Creasy, Heather Huot Puiu, Daniela Rosovitz, M. J. Khouri, Hoda M. Beckstrom Sternberg, Stephen M. Allan, Gerard J. Keim, Paul Ravel, Jacques Rabinowicz, Pablo D. |
author |
Rivarola, Maximo Lisandro |
author_facet |
Rivarola, Maximo Lisandro Foster, Jeffrey T. Chan, Agnes P. Williams, Amber L. Rice, Danny W. Liu, Xinyue Melake Berhan, Admasu Creasy, Heather Huot Puiu, Daniela Rosovitz, M. J. Khouri, Hoda M. Beckstrom Sternberg, Stephen M. Allan, Gerard J. Keim, Paul Ravel, Jacques Rabinowicz, Pablo D. |
author_role |
author |
author2 |
Foster, Jeffrey T. Chan, Agnes P. Williams, Amber L. Rice, Danny W. Liu, Xinyue Melake Berhan, Admasu Creasy, Heather Huot Puiu, Daniela Rosovitz, M. J. Khouri, Hoda M. Beckstrom Sternberg, Stephen M. Allan, Gerard J. Keim, Paul Ravel, Jacques Rabinowicz, Pablo D. |
author2_role |
author author author author author author author author author author author author author author author |
dc.subject.none.fl_str_mv |
Genomics Organelle Functional |
topic |
Genomics Organelle Functional |
purl_subject.fl_str_mv |
https://purl.org/becyt/ford/1.6 https://purl.org/becyt/ford/1 |
dc.description.none.fl_txt_mv |
Castor bean is an important oil-producing plant in the Euphorbiaceae family. Its high-quality oil contains up to 90% of the unusual fatty acid ricinoleate, which has many industrial and medical applications. Castor bean seeds also contain ricin, a highly toxic Type 2 ribosome-inactivating protein, which has gained relevance in recent years due to biosafety concerns. In order to gain knowledge on global genetic diversity in castor bean and to ultimately help the development of breeding and forensic tools, we carried out an extensive chloroplast sequence diversity analysis. Taking advantage of the recently published genome sequence of castor bean, we assembled the chloroplast and mitochondrion genomes extracting selected reads from the available whole genome shotgun reads. Using the chloroplast reference genome we used the methylation filtration technique to readily obtain draft genome sequences of 7 geographically and genetically diverse castor bean accessions. These sequence data were used to identify single nucleotide polymorphism markers and phylogenetic analysis resulted in the identification of two major clades that were not apparent in previous population genetic studies using genetic markers derived from nuclear DNA. Two distinct sub-clades could be defined within each major clade and large-scale genotyping of castor bean populations worldwide confirmed previously observed low levels of genetic diversity and showed a broad geographic distribution of each sub-clade. Fil: Rivarola, Maximo Lisandro. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Foster, Jeffrey T.. Northern Arizona University; Estados Unidos Fil: Chan, Agnes P.. No especifíca; Fil: Williams, Amber L.. Northern Arizona University; Estados Unidos Fil: Rice, Danny W.. Indiana University; Estados Unidos Fil: Liu, Xinyue. University of Maryland; Estados Unidos Fil: Melake Berhan, Admasu. No especifíca; Fil: Creasy, Heather Huot. University of Maryland; Estados Unidos Fil: Puiu, Daniela. No especifíca; Fil: Rosovitz, M. J.. No especifíca; Fil: Khouri, Hoda M.. University of Maryland; Estados Unidos Fil: Beckstrom Sternberg, Stephen M.. Northern Arizona University; Estados Unidos Fil: Allan, Gerard J.. Northern Arizona University; Estados Unidos Fil: Keim, Paul. Northern Arizona University; Estados Unidos Fil: Ravel, Jacques. University of Maryland; Estados Unidos Fil: Rabinowicz, Pablo D.. University of Maryland; Estados Unidos |
description |
Castor bean is an important oil-producing plant in the Euphorbiaceae family. Its high-quality oil contains up to 90% of the unusual fatty acid ricinoleate, which has many industrial and medical applications. Castor bean seeds also contain ricin, a highly toxic Type 2 ribosome-inactivating protein, which has gained relevance in recent years due to biosafety concerns. In order to gain knowledge on global genetic diversity in castor bean and to ultimately help the development of breeding and forensic tools, we carried out an extensive chloroplast sequence diversity analysis. Taking advantage of the recently published genome sequence of castor bean, we assembled the chloroplast and mitochondrion genomes extracting selected reads from the available whole genome shotgun reads. Using the chloroplast reference genome we used the methylation filtration technique to readily obtain draft genome sequences of 7 geographically and genetically diverse castor bean accessions. These sequence data were used to identify single nucleotide polymorphism markers and phylogenetic analysis resulted in the identification of two major clades that were not apparent in previous population genetic studies using genetic markers derived from nuclear DNA. Two distinct sub-clades could be defined within each major clade and large-scale genotyping of castor bean populations worldwide confirmed previously observed low levels of genetic diversity and showed a broad geographic distribution of each sub-clade. |
publishDate |
2011 |
dc.date.none.fl_str_mv |
2011-07 |
dc.type.none.fl_str_mv |
info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://purl.org/coar/resource_type/c_6501 info:ar-repo/semantics/articulo |
format |
article |
status_str |
publishedVersion |
dc.identifier.none.fl_str_mv |
http://hdl.handle.net/11336/192771 Rivarola, Maximo Lisandro; Foster, Jeffrey T.; Chan, Agnes P.; Williams, Amber L.; Rice, Danny W.; et al.; Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis; Public Library of Science; Plos One; 6; 7; 7-2011; 1-9 1932-6203 CONICET Digital CONICET |
url |
http://hdl.handle.net/11336/192771 |
identifier_str_mv |
Rivarola, Maximo Lisandro; Foster, Jeffrey T.; Chan, Agnes P.; Williams, Amber L.; Rice, Danny W.; et al.; Castor Bean Organelle genome sequencing and worldwide genetic diversity analysis; Public Library of Science; Plos One; 6; 7; 7-2011; 1-9 1932-6203 CONICET Digital CONICET |
dc.language.none.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
info:eu-repo/semantics/altIdentifier/url/http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0021743 info:eu-repo/semantics/altIdentifier/doi/10.1371/journal.pone.0021743 |
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.publisher.none.fl_str_mv |
Public Library of Science |
publisher.none.fl_str_mv |
Public Library of Science |
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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1844613962256089088 |
score |
13.070432 |