Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice
As the human population grows from 7.8 billion to 10 billion over the next 30 years, breeders must do everything possible to create crops that are highly productive and nutritious, while simultaneously having less of an environmental footprint. Rice will play a critical role in meeting this demand a...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , |
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| Formato: | Preprint |
| Lenguaje: | Inglés |
| Publicado: |
Cold Spring Harbor Laboratory
2019
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| Acceso en línea: | https://hdl.handle.net/10568/164581 |
| _version_ | 1855517614330085376 |
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| author | Zhou, Yong Chebotarov, Dmytro Kudrna, Dave Llaca, Victor Lee, Seunghee Rajasekar, Shanmugam Mohammed, Nahed Al-Bader, Noor Sobel-Sorenson, Chandler Parakkal, Praveena Arbelaez, Lady Johanna Franco, Natalia Alexandrov, Nickolai Hamilton, Ruaraidh Sackville Leung, Hei Mauleon, Ramil Lorieux, Mathias Zuccolo, Andrea McNally, Kenneth Zhang, Jianwei Wing, Rod A. |
| author_browse | Al-Bader, Noor Alexandrov, Nickolai Arbelaez, Lady Johanna Chebotarov, Dmytro Franco, Natalia Hamilton, Ruaraidh Sackville Kudrna, Dave Lee, Seunghee Leung, Hei Llaca, Victor Lorieux, Mathias Mauleon, Ramil McNally, Kenneth Mohammed, Nahed Parakkal, Praveena Rajasekar, Shanmugam Sobel-Sorenson, Chandler Wing, Rod A. Zhang, Jianwei Zhou, Yong Zuccolo, Andrea |
| author_facet | Zhou, Yong Chebotarov, Dmytro Kudrna, Dave Llaca, Victor Lee, Seunghee Rajasekar, Shanmugam Mohammed, Nahed Al-Bader, Noor Sobel-Sorenson, Chandler Parakkal, Praveena Arbelaez, Lady Johanna Franco, Natalia Alexandrov, Nickolai Hamilton, Ruaraidh Sackville Leung, Hei Mauleon, Ramil Lorieux, Mathias Zuccolo, Andrea McNally, Kenneth Zhang, Jianwei Wing, Rod A. |
| author_sort | Zhou, Yong |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | As the human population grows from 7.8 billion to 10 billion over the next 30 years, breeders must do everything possible to create crops that are highly productive and nutritious, while simultaneously having less of an environmental footprint. Rice will play a critical role in meeting this demand and thus, knowledge of the full repertoire of genetic diversity that exists in germplasm banks across the globe is required. To meet this demand, we describe the generation, validation and preliminary analyses of transposable element and long-range structural variation content of 12 near-gap-free reference genome sequences (RefSeqs) from representatives of 12 of 15 subpopulations of cultivated rice. When combined with 4 existing RefSeqs, that represent the 3 remaining rice subpopulations and the largest admixed population, this collection of 16 Platinum Standard RefSeqs (PSRefSeq) can be used as a pan-genome template to map resequencing data to detect virtually all standing natural variation that exists in the pan-cultivated rice genome. |
| format | Preprint |
| id | CGSpace164581 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2019 |
| publishDateRange | 2019 |
| publishDateSort | 2019 |
| publisher | Cold Spring Harbor Laboratory |
| publisherStr | Cold Spring Harbor Laboratory |
| record_format | dspace |
| spelling | CGSpace1645812025-05-14T10:23:55Z Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice Zhou, Yong Chebotarov, Dmytro Kudrna, Dave Llaca, Victor Lee, Seunghee Rajasekar, Shanmugam Mohammed, Nahed Al-Bader, Noor Sobel-Sorenson, Chandler Parakkal, Praveena Arbelaez, Lady Johanna Franco, Natalia Alexandrov, Nickolai Hamilton, Ruaraidh Sackville Leung, Hei Mauleon, Ramil Lorieux, Mathias Zuccolo, Andrea McNally, Kenneth Zhang, Jianwei Wing, Rod A. As the human population grows from 7.8 billion to 10 billion over the next 30 years, breeders must do everything possible to create crops that are highly productive and nutritious, while simultaneously having less of an environmental footprint. Rice will play a critical role in meeting this demand and thus, knowledge of the full repertoire of genetic diversity that exists in germplasm banks across the globe is required. To meet this demand, we describe the generation, validation and preliminary analyses of transposable element and long-range structural variation content of 12 near-gap-free reference genome sequences (RefSeqs) from representatives of 12 of 15 subpopulations of cultivated rice. When combined with 4 existing RefSeqs, that represent the 3 remaining rice subpopulations and the largest admixed population, this collection of 16 Platinum Standard RefSeqs (PSRefSeq) can be used as a pan-genome template to map resequencing data to detect virtually all standing natural variation that exists in the pan-cultivated rice genome. 2019-12-31 2024-12-19T12:54:05Z 2024-12-19T12:54:05Z Preprint https://hdl.handle.net/10568/164581 en Cold Spring Harbor Laboratory Zhou, Yong; Chebotarov, Dmytro; Kudrna, Dave; Llaca, Victor; Lee, Seunghee; Rajasekar, Shanmugam; Mohammed, Nahed; Al-Bader, Noor; Sobel-Sorenson, Chandler; Parakkal, Praveena; Arbelaez, Lady Johanna; Franco, Natalia; Alexandrov, Nickolai; Hamilton, N. Ruaraidh Sackville; Leung, Hei; Mauleon, Ramil; Lorieux, Mathias; Zuccolo, Andrea; McNally, Kenneth; Zhang, Jianwei and Wing, Rod A. 2019. Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice. bioRxiv, 27 pages |
| spellingShingle | Zhou, Yong Chebotarov, Dmytro Kudrna, Dave Llaca, Victor Lee, Seunghee Rajasekar, Shanmugam Mohammed, Nahed Al-Bader, Noor Sobel-Sorenson, Chandler Parakkal, Praveena Arbelaez, Lady Johanna Franco, Natalia Alexandrov, Nickolai Hamilton, Ruaraidh Sackville Leung, Hei Mauleon, Ramil Lorieux, Mathias Zuccolo, Andrea McNally, Kenneth Zhang, Jianwei Wing, Rod A. Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice |
| title | Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice |
| title_full | Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice |
| title_fullStr | Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice |
| title_full_unstemmed | Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice |
| title_short | Twelve Platinum-Standard Reference Genomes Sequences (PSRefSeq) that complete the full range of genetic diversity of Asian rice |
| title_sort | twelve platinum standard reference genomes sequences psrefseq that complete the full range of genetic diversity of asian rice |
| url | https://hdl.handle.net/10568/164581 |
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