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Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico
BACKGROUND: The coffee species Coffea canephora is commercially identified as “Conilon” when produced in Brazil, or “Robusta” when produced elsewhere in the world. It represents approximately 40 % of coffee production worldwide. While the genetic diversity of wild C. canephora has been well studied...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5096298/ https://www.ncbi.nlm.nih.gov/pubmed/27814672 http://dx.doi.org/10.1186/s12870-016-0933-y |
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author | Garavito, Andrea Montagnon, Christophe Guyot, Romain Bertrand, Benoît |
author_facet | Garavito, Andrea Montagnon, Christophe Guyot, Romain Bertrand, Benoît |
author_sort | Garavito, Andrea |
collection | PubMed |
description | BACKGROUND: The coffee species Coffea canephora is commercially identified as “Conilon” when produced in Brazil, or “Robusta” when produced elsewhere in the world. It represents approximately 40 % of coffee production worldwide. While the genetic diversity of wild C. canephora has been well studied in the past, only few studies have addressed the genetic diversity of currently cultivated varieties around the globe. Vietnam is the largest Robusta producer in the world, while Mexico is the only Latin American country, besides Brazil, that has a significant Robusta production. Knowledge of the genetic origin of Robusta cultivated varieties in countries as important as Vietnam and Mexico is therefore of high interest. RESULTS: Through the use of Sequencing-based diversity array technology-DArTseq method-on a collection of C. canephora composed of known accessions and accessions cultivated in Vietnam and Mexico, 4,021 polymorphic SNPs were identified. We used a multivariate analysis using SNP data from reference accessions in order to confirm and further fine-tune the genetic diversity of C. canephora. Also, by interpolating the data obtained for the varieties from Vietnam and Mexico, we determined that they are closely related to each other, and identified that their genetic origin is the Robusta Congo – Uganda group. CONCLUSIONS: The genetic characterization based on SNP markers of the varieties grown throughout the world, increased our knowledge on the genetic diversity of C. canephora, and contributed to the understanding of the genetic background of varieties from very important coffee producers. Given the common genetic origin of the Robusta varieties cultivated in Vietnam, Mexico and Uganda, and the similar characteristics of climatic areas and relatively high altitude where they are grown, we can state that the Vietnamese and the Mexican Robusta have the same genetic potential to produce good cup quality. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12870-016-0933-y) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-5096298 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-50962982016-11-07 Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico Garavito, Andrea Montagnon, Christophe Guyot, Romain Bertrand, Benoît BMC Plant Biol Research Article BACKGROUND: The coffee species Coffea canephora is commercially identified as “Conilon” when produced in Brazil, or “Robusta” when produced elsewhere in the world. It represents approximately 40 % of coffee production worldwide. While the genetic diversity of wild C. canephora has been well studied in the past, only few studies have addressed the genetic diversity of currently cultivated varieties around the globe. Vietnam is the largest Robusta producer in the world, while Mexico is the only Latin American country, besides Brazil, that has a significant Robusta production. Knowledge of the genetic origin of Robusta cultivated varieties in countries as important as Vietnam and Mexico is therefore of high interest. RESULTS: Through the use of Sequencing-based diversity array technology-DArTseq method-on a collection of C. canephora composed of known accessions and accessions cultivated in Vietnam and Mexico, 4,021 polymorphic SNPs were identified. We used a multivariate analysis using SNP data from reference accessions in order to confirm and further fine-tune the genetic diversity of C. canephora. Also, by interpolating the data obtained for the varieties from Vietnam and Mexico, we determined that they are closely related to each other, and identified that their genetic origin is the Robusta Congo – Uganda group. CONCLUSIONS: The genetic characterization based on SNP markers of the varieties grown throughout the world, increased our knowledge on the genetic diversity of C. canephora, and contributed to the understanding of the genetic background of varieties from very important coffee producers. Given the common genetic origin of the Robusta varieties cultivated in Vietnam, Mexico and Uganda, and the similar characteristics of climatic areas and relatively high altitude where they are grown, we can state that the Vietnamese and the Mexican Robusta have the same genetic potential to produce good cup quality. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12870-016-0933-y) contains supplementary material, which is available to authorized users. BioMed Central 2016-11-04 /pmc/articles/PMC5096298/ /pubmed/27814672 http://dx.doi.org/10.1186/s12870-016-0933-y Text en © The Author(s). 2016 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Article Garavito, Andrea Montagnon, Christophe Guyot, Romain Bertrand, Benoît Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico |
title | Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico |
title_full | Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico |
title_fullStr | Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico |
title_full_unstemmed | Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico |
title_short | Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico |
title_sort | identification by the dartseq method of the genetic origin of the coffea canephora cultivated in vietnam and mexico |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5096298/ https://www.ncbi.nlm.nih.gov/pubmed/27814672 http://dx.doi.org/10.1186/s12870-016-0933-y |
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