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Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process
Domestication has had a strong impact on the development of modern societies. We sequenced 200 genomes of the chocolate plant Theobroma cacao L. to show for the first time to our knowledge that a single population, the Criollo population, underwent strong domestication ~3600 years ago (95% CI: 2481–...
Autores principales: | , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Nature Publishing Group UK
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6191438/ https://www.ncbi.nlm.nih.gov/pubmed/30345393 http://dx.doi.org/10.1038/s42003-018-0168-6 |
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author | Cornejo, Omar E. Yee, Muh-Ching Dominguez, Victor Andrews, Mary Sockell, Alexandra Strandberg, Erika Livingstone, Donald Stack, Conrad Romero, Alberto Umaharan, Pathmanathan Royaert, Stefan Tawari, Nilesh R. Ng, Pauline Gutierrez, Osman Phillips, Wilbert Mockaitis, Keithanne Bustamante, Carlos D. Motamayor, Juan C. |
author_facet | Cornejo, Omar E. Yee, Muh-Ching Dominguez, Victor Andrews, Mary Sockell, Alexandra Strandberg, Erika Livingstone, Donald Stack, Conrad Romero, Alberto Umaharan, Pathmanathan Royaert, Stefan Tawari, Nilesh R. Ng, Pauline Gutierrez, Osman Phillips, Wilbert Mockaitis, Keithanne Bustamante, Carlos D. Motamayor, Juan C. |
author_sort | Cornejo, Omar E. |
collection | PubMed |
description | Domestication has had a strong impact on the development of modern societies. We sequenced 200 genomes of the chocolate plant Theobroma cacao L. to show for the first time to our knowledge that a single population, the Criollo population, underwent strong domestication ~3600 years ago (95% CI: 2481–13,806 years ago). We also show that during the process of domestication, there was strong selection for genes involved in the metabolism of the colored protectants anthocyanins and the stimulant theobromine, as well as disease resistance genes. Our analyses show that domesticated populations of T. cacao (Criollo) maintain a higher proportion of high-frequency deleterious mutations. We also show for the first time the negative consequences of the increased accumulation of deleterious mutations during domestication on the fitness of individuals (significant reduction in kilograms of beans per hectare per year as Criollo ancestry increases, as estimated from a GLM, P = 0.000425). |
format | Online Article Text |
id | pubmed-6191438 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-61914382018-10-19 Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process Cornejo, Omar E. Yee, Muh-Ching Dominguez, Victor Andrews, Mary Sockell, Alexandra Strandberg, Erika Livingstone, Donald Stack, Conrad Romero, Alberto Umaharan, Pathmanathan Royaert, Stefan Tawari, Nilesh R. Ng, Pauline Gutierrez, Osman Phillips, Wilbert Mockaitis, Keithanne Bustamante, Carlos D. Motamayor, Juan C. Commun Biol Article Domestication has had a strong impact on the development of modern societies. We sequenced 200 genomes of the chocolate plant Theobroma cacao L. to show for the first time to our knowledge that a single population, the Criollo population, underwent strong domestication ~3600 years ago (95% CI: 2481–13,806 years ago). We also show that during the process of domestication, there was strong selection for genes involved in the metabolism of the colored protectants anthocyanins and the stimulant theobromine, as well as disease resistance genes. Our analyses show that domesticated populations of T. cacao (Criollo) maintain a higher proportion of high-frequency deleterious mutations. We also show for the first time the negative consequences of the increased accumulation of deleterious mutations during domestication on the fitness of individuals (significant reduction in kilograms of beans per hectare per year as Criollo ancestry increases, as estimated from a GLM, P = 0.000425). Nature Publishing Group UK 2018-10-16 /pmc/articles/PMC6191438/ /pubmed/30345393 http://dx.doi.org/10.1038/s42003-018-0168-6 Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as 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 images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Cornejo, Omar E. Yee, Muh-Ching Dominguez, Victor Andrews, Mary Sockell, Alexandra Strandberg, Erika Livingstone, Donald Stack, Conrad Romero, Alberto Umaharan, Pathmanathan Royaert, Stefan Tawari, Nilesh R. Ng, Pauline Gutierrez, Osman Phillips, Wilbert Mockaitis, Keithanne Bustamante, Carlos D. Motamayor, Juan C. Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process |
title | Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process |
title_full | Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process |
title_fullStr | Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process |
title_full_unstemmed | Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process |
title_short | Population genomic analyses of the chocolate tree, Theobroma cacao L., provide insights into its domestication process |
title_sort | population genomic analyses of the chocolate tree, theobroma cacao l., provide insights into its domestication process |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6191438/ https://www.ncbi.nlm.nih.gov/pubmed/30345393 http://dx.doi.org/10.1038/s42003-018-0168-6 |
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