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Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation
Pepper (Capsicum spp.) is one of the earliest cultivated crops and includes five domesticated species, C. annuum var. annuum, C. chinense, C. frutescens, C. baccatum var. pendulum and C. pubescens. Here, we report a pepper graph pan-genome and a genome variation map of 500 accessions from the five d...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10484947/ https://www.ncbi.nlm.nih.gov/pubmed/37679363 http://dx.doi.org/10.1038/s41467-023-41251-4 |
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author | Liu, Feng Zhao, Jiantao Sun, Honghe Xiong, Cheng Sun, Xuepeng Wang, Xin Wang, Zhongyi Jarret, Robert Wang, Jin Tang, Bingqian Xu, Hao Hu, Bowen Suo, Huan Yang, Bozhi Ou, Lijun Li, Xuefeng Zhou, Shudong Yang, Sha Liu, Zhoubing Yuan, Fang Pei, Zhenming Ma, Yanqing Dai, Xiongze Wu, Shan Fei, Zhangjun Zou, Xuexiao |
author_facet | Liu, Feng Zhao, Jiantao Sun, Honghe Xiong, Cheng Sun, Xuepeng Wang, Xin Wang, Zhongyi Jarret, Robert Wang, Jin Tang, Bingqian Xu, Hao Hu, Bowen Suo, Huan Yang, Bozhi Ou, Lijun Li, Xuefeng Zhou, Shudong Yang, Sha Liu, Zhoubing Yuan, Fang Pei, Zhenming Ma, Yanqing Dai, Xiongze Wu, Shan Fei, Zhangjun Zou, Xuexiao |
author_sort | Liu, Feng |
collection | PubMed |
description | Pepper (Capsicum spp.) is one of the earliest cultivated crops and includes five domesticated species, C. annuum var. annuum, C. chinense, C. frutescens, C. baccatum var. pendulum and C. pubescens. Here, we report a pepper graph pan-genome and a genome variation map of 500 accessions from the five domesticated Capsicum species and close wild relatives. We identify highly differentiated genomic regions among the domesticated peppers that underlie their natural variations in flowering time, characteristic flavors, and unique resistances to biotic and abiotic stresses. Domestication sweeps detected in C. annuum var. annuum and C. baccatum var. pendulum are mostly different, and the common domestication traits, including fruit size, shape and pungency, are achieved mainly through the selection of distinct genomic regions between these two cultivated species. Introgressions from C. baccatum into C. chinense and C. frutescens are detected, including those providing genetic sources for various biotic and abiotic stress tolerances. |
format | Online Article Text |
id | pubmed-10484947 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-104849472023-09-09 Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation Liu, Feng Zhao, Jiantao Sun, Honghe Xiong, Cheng Sun, Xuepeng Wang, Xin Wang, Zhongyi Jarret, Robert Wang, Jin Tang, Bingqian Xu, Hao Hu, Bowen Suo, Huan Yang, Bozhi Ou, Lijun Li, Xuefeng Zhou, Shudong Yang, Sha Liu, Zhoubing Yuan, Fang Pei, Zhenming Ma, Yanqing Dai, Xiongze Wu, Shan Fei, Zhangjun Zou, Xuexiao Nat Commun Article Pepper (Capsicum spp.) is one of the earliest cultivated crops and includes five domesticated species, C. annuum var. annuum, C. chinense, C. frutescens, C. baccatum var. pendulum and C. pubescens. Here, we report a pepper graph pan-genome and a genome variation map of 500 accessions from the five domesticated Capsicum species and close wild relatives. We identify highly differentiated genomic regions among the domesticated peppers that underlie their natural variations in flowering time, characteristic flavors, and unique resistances to biotic and abiotic stresses. Domestication sweeps detected in C. annuum var. annuum and C. baccatum var. pendulum are mostly different, and the common domestication traits, including fruit size, shape and pungency, are achieved mainly through the selection of distinct genomic regions between these two cultivated species. Introgressions from C. baccatum into C. chinense and C. frutescens are detected, including those providing genetic sources for various biotic and abiotic stress tolerances. Nature Publishing Group UK 2023-09-07 /pmc/articles/PMC10484947/ /pubmed/37679363 http://dx.doi.org/10.1038/s41467-023-41251-4 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/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/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Liu, Feng Zhao, Jiantao Sun, Honghe Xiong, Cheng Sun, Xuepeng Wang, Xin Wang, Zhongyi Jarret, Robert Wang, Jin Tang, Bingqian Xu, Hao Hu, Bowen Suo, Huan Yang, Bozhi Ou, Lijun Li, Xuefeng Zhou, Shudong Yang, Sha Liu, Zhoubing Yuan, Fang Pei, Zhenming Ma, Yanqing Dai, Xiongze Wu, Shan Fei, Zhangjun Zou, Xuexiao Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation |
title | Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation |
title_full | Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation |
title_fullStr | Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation |
title_full_unstemmed | Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation |
title_short | Genomes of cultivated and wild Capsicum species provide insights into pepper domestication and population differentiation |
title_sort | genomes of cultivated and wild capsicum species provide insights into pepper domestication and population differentiation |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10484947/ https://www.ncbi.nlm.nih.gov/pubmed/37679363 http://dx.doi.org/10.1038/s41467-023-41251-4 |
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