A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution
We report a high-quality chromosome-scale assembly and analysis of the carrot (Daucus carota) genome, the first sequenced genome to include a comparative evolutionary analysis among members of the euasterid II clade. We characterized two new polyploidization events, both occurring after the divergen...
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| Format: | Artículo |
| Language: | Inglés |
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2017
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| Subjects: | |
| Online Access: | http://hdl.handle.net/20.500.12123/1162 https://www.nature.com/ng/journal/v48/n6/pdf/ng.3565.pdf |
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| author | Iorizzo, Massimo Ellison, Shelby L. Senalik, Douglas A. Peng, Zeng Satapoomin, Pimchanok Jiaying, Huang Bowman, Megan Iovene, Marina Sanseverino, Walter Cavagnaro, Pablo Yildiz, Mehtap Macko-Podgórni, Alicja Moranska, Emilia Grzebelus, Ewa Grzebelus, Dariusz Ashrafi, Hamid Zhijun, Zheng Shifeng, Cheng Spooner, David M. Deynze, Allen Van Simon, Philipp W. |
| author_browse | Ashrafi, Hamid Bowman, Megan Cavagnaro, Pablo Deynze, Allen Van Ellison, Shelby L. Grzebelus, Dariusz Grzebelus, Ewa Iorizzo, Massimo Iovene, Marina Jiaying, Huang Macko-Podgórni, Alicja Moranska, Emilia Peng, Zeng Sanseverino, Walter Satapoomin, Pimchanok Senalik, Douglas A. Shifeng, Cheng Simon, Philipp W. Spooner, David M. Yildiz, Mehtap Zhijun, Zheng |
| author_facet | Iorizzo, Massimo Ellison, Shelby L. Senalik, Douglas A. Peng, Zeng Satapoomin, Pimchanok Jiaying, Huang Bowman, Megan Iovene, Marina Sanseverino, Walter Cavagnaro, Pablo Yildiz, Mehtap Macko-Podgórni, Alicja Moranska, Emilia Grzebelus, Ewa Grzebelus, Dariusz Ashrafi, Hamid Zhijun, Zheng Shifeng, Cheng Spooner, David M. Deynze, Allen Van Simon, Philipp W. |
| author_sort | Iorizzo, Massimo |
| collection | INTA Digital |
| description | We report a high-quality chromosome-scale assembly and analysis of the carrot (Daucus carota) genome, the first sequenced genome to include a comparative evolutionary analysis among members of the euasterid II clade. We characterized two new polyploidization events, both occurring after the divergence of carrot from members of the Asterales order, clarifying the evolutionary scenario before and after radiation of the two main asterid clades. Large- and small-scale lineage-specific duplications have contributed to the expansion of gene families, including those with roles in flowering time, defense response, flavor, and pigment accumulation. We identified a candidate gene, DCAR_032551, that conditions carotenoid accumulation (Y) in carrot taproot and is coexpressed with several isoprenoid biosynthetic genes. The primary mechanism regulating carotenoid accumulation in carrot taproot is not at the biosynthetic level. We hypothesize that DCAR_032551 regulates upstream photosystem development and functional processes, including photomorphogenesis and root de-etiolation. |
| format | Artículo |
| id | INTA1162 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2017 |
| publishDateRange | 2017 |
| publishDateSort | 2017 |
| record_format | dspace |
| spelling | INTA11622018-08-30T16:28:46Z A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution Iorizzo, Massimo Ellison, Shelby L. Senalik, Douglas A. Peng, Zeng Satapoomin, Pimchanok Jiaying, Huang Bowman, Megan Iovene, Marina Sanseverino, Walter Cavagnaro, Pablo Yildiz, Mehtap Macko-Podgórni, Alicja Moranska, Emilia Grzebelus, Ewa Grzebelus, Dariusz Ashrafi, Hamid Zhijun, Zheng Shifeng, Cheng Spooner, David M. Deynze, Allen Van Simon, Philipp W. Zanahoria Genomas Carotenoides Carrots Genomes Carotenoids We report a high-quality chromosome-scale assembly and analysis of the carrot (Daucus carota) genome, the first sequenced genome to include a comparative evolutionary analysis among members of the euasterid II clade. We characterized two new polyploidization events, both occurring after the divergence of carrot from members of the Asterales order, clarifying the evolutionary scenario before and after radiation of the two main asterid clades. Large- and small-scale lineage-specific duplications have contributed to the expansion of gene families, including those with roles in flowering time, defense response, flavor, and pigment accumulation. We identified a candidate gene, DCAR_032551, that conditions carotenoid accumulation (Y) in carrot taproot and is coexpressed with several isoprenoid biosynthetic genes. The primary mechanism regulating carotenoid accumulation in carrot taproot is not at the biosynthetic level. We hypothesize that DCAR_032551 regulates upstream photosystem development and functional processes, including photomorphogenesis and root de-etiolation. EEA La Consulta Fil: Iorizzo, Massimo. University of Wisconsin. Department of Horticulture; Estados Unidos. North Carolina State University. Plants for Human Health Institute, Department of Horticultural Science; Estados Unidos Fil: Ellison, Shelby L. University of Wisconsin. Department of Horticulture; Estados Unidos Fil: Senalik, Douglas A. University of Wisconsin. Department of Horticulture; Estados Unidos. United States Department of Agriculture–Agricultural Research Service. Vegetable Crops Research Unit; Estados Unidos Fil: Peng, Zeng. Beijing Genomics Institute–Shenzhen; China Fil: Satapoomin, Pimchanok. University of Wisconsin. Department of Horticulture; Estados Unidos Fil: Jiaying, Huang. Beijing Genomics Institute–Shenzhen; China Fil: Bowman, Megan. Michigan State University. Department of Plant Biology; Estados Unidos Fil: Iovene, Marina. Consiglio Nazionale delle Ricerche. Istituto di Bioscienze e Biorisorse; Italia Fil: Sanseverino, Walter. Sequentia Biotech; España Fil: Cavagnaro, Pablo Federico. . Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria La Consulta; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Yildiz, Mehtap. Yuzuncu Yil University. Faculty of Agriculture. Department of Agricultural Biotechnology; Turquía Fil: Macko-Podgórni, Alicja. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia Fil: Moranska, Emilia. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia Fil: Grzebelus, Ewa. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia Fil: Grzebelus, Dariusz. University of Agriculture in Krakow. Institute of Plant Biology and Biotechnology; Polonia Fil: Ashrafi, Hamid. University of California. Seed Biotechnology Center; Estados Unidos. North Carolina State University. Plants for Human Health Institute, Department of Horticultural Science; Estados Unidos Fil: Zhijun, Zheng. Beijing Genomics Institute–Shenzhen; China Fil: Shifeng, Cheng. Beijing Genomics Institute–Shenzhen; China Fil: Spooner, David M. University of Wisconsin. Department of Horticulture; Estados Unidos. United States Department of Agriculture–Agricultural Research Service. Vegetable Crops Research Unit; Estados Unidos Fil: Deynze, Allen Van. University of California. Seed Biotechnology Center; Estados Unidos Fil: Simon, Philipp W. University of Wisconsin. Department of Horticulture; Estados Unidos. United States Department of Agriculture–Agricultural Research Service. Vegetable Crops Research Unit; Estados Unidos 2017-09-07T13:06:48Z 2017-09-07T13:06:48Z 2016 info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion info:ar-repo/semantics/artículo http://hdl.handle.net/20.500.12123/1162 https://www.nature.com/ng/journal/v48/n6/pdf/ng.3565.pdf 1061-4036 (Print) 1546-1718 (Online) doi:10.1038/ng.3565 eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf Nature genetics 48 (6) : 657–666. (June 2016) |
| spellingShingle | Zanahoria Genomas Carotenoides Carrots Genomes Carotenoids Iorizzo, Massimo Ellison, Shelby L. Senalik, Douglas A. Peng, Zeng Satapoomin, Pimchanok Jiaying, Huang Bowman, Megan Iovene, Marina Sanseverino, Walter Cavagnaro, Pablo Yildiz, Mehtap Macko-Podgórni, Alicja Moranska, Emilia Grzebelus, Ewa Grzebelus, Dariusz Ashrafi, Hamid Zhijun, Zheng Shifeng, Cheng Spooner, David M. Deynze, Allen Van Simon, Philipp W. A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution |
| title | A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution |
| title_full | A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution |
| title_fullStr | A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution |
| title_full_unstemmed | A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution |
| title_short | A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution |
| title_sort | high quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution |
| topic | Zanahoria Genomas Carotenoides Carrots Genomes Carotenoids |
| url | http://hdl.handle.net/20.500.12123/1162 https://www.nature.com/ng/journal/v48/n6/pdf/ng.3565.pdf |
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