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The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication
BACKGROUND: As a perennial crop, oil-Camellia possesses a long domestication history and produces high-quality seed oil that is beneficial to human health. Camellia oleifera Abel. is a sister species to the tea plant, which is extensively cultivated for edible oil production. However, the molecular...
Autores principales: | , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8744323/ https://www.ncbi.nlm.nih.gov/pubmed/35012630 http://dx.doi.org/10.1186/s13059-021-02599-2 |
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author | Lin, Ping Wang, Kailiang Wang, Yupeng Hu, Zhikang Yan, Chao Huang, Hu Ma, Xianjin Cao, Yongqing Long, Wei Liu, Weixin Li, Xinlei Fan, Zhengqi Li, Jiyuan Ye, Ning Ren, Huadong Yao, Xiaohua Yin, Hengfu |
author_facet | Lin, Ping Wang, Kailiang Wang, Yupeng Hu, Zhikang Yan, Chao Huang, Hu Ma, Xianjin Cao, Yongqing Long, Wei Liu, Weixin Li, Xinlei Fan, Zhengqi Li, Jiyuan Ye, Ning Ren, Huadong Yao, Xiaohua Yin, Hengfu |
author_sort | Lin, Ping |
collection | PubMed |
description | BACKGROUND: As a perennial crop, oil-Camellia possesses a long domestication history and produces high-quality seed oil that is beneficial to human health. Camellia oleifera Abel. is a sister species to the tea plant, which is extensively cultivated for edible oil production. However, the molecular mechanism of the domestication of oil-Camellia is still limited due to the lack of sufficient genomic information. RESULTS: To elucidate the genetic and genomic basis of evolution and domestication, here we report a chromosome-scale reference genome of wild oil-Camellia (2.95 Gb), together with transcriptome sequencing data of 221 cultivars. The oil-Camellia genome, assembled by an integrative approach of multiple sequencing technologies, consists of a large proportion of repetitive elements (76.1%) and high heterozygosity (2.52%). We construct a genetic map of high-density corrected markers by sequencing the controlled-pollination hybrids. Genome-wide association studies reveal a subset of artificially selected genes that are involved in the oil biosynthesis and phytohormone pathways. Particularly, we identify the elite alleles of genes encoding sugar-dependent triacylglycerol lipase 1, β-ketoacyl-acyl carrier protein synthase III, and stearoyl-acyl carrier protein desaturases; these alleles play important roles in enhancing the yield and quality of seed oil during oil-Camellia domestication. CONCLUSIONS: We generate a chromosome-scale reference genome for oil-Camellia plants and demonstrate that the artificial selection of elite alleles of genes involved in oil biosynthesis contributes to oil-Camellia domestication. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s13059-021-02599-2. |
format | Online Article Text |
id | pubmed-8744323 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-87443232022-01-11 The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication Lin, Ping Wang, Kailiang Wang, Yupeng Hu, Zhikang Yan, Chao Huang, Hu Ma, Xianjin Cao, Yongqing Long, Wei Liu, Weixin Li, Xinlei Fan, Zhengqi Li, Jiyuan Ye, Ning Ren, Huadong Yao, Xiaohua Yin, Hengfu Genome Biol Research BACKGROUND: As a perennial crop, oil-Camellia possesses a long domestication history and produces high-quality seed oil that is beneficial to human health. Camellia oleifera Abel. is a sister species to the tea plant, which is extensively cultivated for edible oil production. However, the molecular mechanism of the domestication of oil-Camellia is still limited due to the lack of sufficient genomic information. RESULTS: To elucidate the genetic and genomic basis of evolution and domestication, here we report a chromosome-scale reference genome of wild oil-Camellia (2.95 Gb), together with transcriptome sequencing data of 221 cultivars. The oil-Camellia genome, assembled by an integrative approach of multiple sequencing technologies, consists of a large proportion of repetitive elements (76.1%) and high heterozygosity (2.52%). We construct a genetic map of high-density corrected markers by sequencing the controlled-pollination hybrids. Genome-wide association studies reveal a subset of artificially selected genes that are involved in the oil biosynthesis and phytohormone pathways. Particularly, we identify the elite alleles of genes encoding sugar-dependent triacylglycerol lipase 1, β-ketoacyl-acyl carrier protein synthase III, and stearoyl-acyl carrier protein desaturases; these alleles play important roles in enhancing the yield and quality of seed oil during oil-Camellia domestication. CONCLUSIONS: We generate a chromosome-scale reference genome for oil-Camellia plants and demonstrate that the artificial selection of elite alleles of genes involved in oil biosynthesis contributes to oil-Camellia domestication. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s13059-021-02599-2. BioMed Central 2022-01-10 /pmc/articles/PMC8744323/ /pubmed/35012630 http://dx.doi.org/10.1186/s13059-021-02599-2 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis 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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Lin, Ping Wang, Kailiang Wang, Yupeng Hu, Zhikang Yan, Chao Huang, Hu Ma, Xianjin Cao, Yongqing Long, Wei Liu, Weixin Li, Xinlei Fan, Zhengqi Li, Jiyuan Ye, Ning Ren, Huadong Yao, Xiaohua Yin, Hengfu The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication |
title | The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication |
title_full | The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication |
title_fullStr | The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication |
title_full_unstemmed | The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication |
title_short | The genome of oil-Camellia and population genomics analysis provide insights into seed oil domestication |
title_sort | genome of oil-camellia and population genomics analysis provide insights into seed oil domestication |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8744323/ https://www.ncbi.nlm.nih.gov/pubmed/35012630 http://dx.doi.org/10.1186/s13059-021-02599-2 |
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