Journal article
A platinum standard pan-genome resource that represents the population structure of Asian rice
Scientific Data, Vol.7(1), pp.113-113
07/04/2020
PMCID: PMC7138821
PMID: 32265447
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Abstract
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 Asian 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 template to map resequencing data to detect virtually all standing natural variation that exists in the pan-genome of cultivated Asian rice.
Details
- Title
- A platinum standard pan-genome resource that represents the population structure of Asian rice
- Creators
- Yong Zhou - King Abdullah University of Science and TechnologyDmytro Chebotarov - International Rice Research InstituteDave Kudrna - University of ArizonaVictor Llaca - CortevaSeunghee Lee - University of ArizonaShanmugam Rajasekar - University of ArizonaNahed Mohammed - King Abdullah University of Science and TechnologyNoor Al-Bader - Center for Desert Agriculture, Biological and Environmental Sciences & Engineering Division (BESE), King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Saudi ArabiaChandler Sobel-Sorenson - Arizona Genomics Institute, School of Plant Sciences, University of Arizona, Tucson, Arizona, 85721, USAPraveena Parakkal - CortevaLady Johanna Arbelaez - International Center for Tropical AgricultureNatalia Franco - International Center for Tropical AgricultureNickolai Alexandrov - International Rice Research InstituteN Ruaraidh Sackville Hamilton - International Rice Research InstituteHei Leung - International Rice Research Institute (Phillipines)Ramil Mauleon - International Rice Research InstituteMathias Lorieux - International Center for Tropical AgricultureAndrea Zuccolo - Sant'Anna School of Advanced StudiesKenneth McNally - International Rice Research InstituteJianwei Zhang - University of ArizonaRod A Wing - International Rice Research Institute
- Publication Details
- Scientific Data, Vol.7(1), pp.113-113
- Publisher
- Nature Publishing Group
- Identifiers
- 991012978037902368
- Academic Unit
- Faculty of Science and Engineering; Science
- Language
- English
- Resource Type
- Journal article