論文 - 詳細
| RRC ID | 87699 |
|---|---|
| 著者 | Guo D, Li Y, Lu H, Zhao Y, Kurata N, Wei X, Wang A, Wang Y, Zhan Q, Fan D, Zhou C, Lu Y, Tian Q, Weng Q, Feng Q, Huang T, Zhang L, Gu Z, Wang C, Wang Z, Wang Z, Huang X, Zhao Q, Han B. |
| タイトル | A pangenome reference of wild and cultivated rice. |
| ジャーナル | Nature |
| Abstract |
Oryza rufipogon, the wild progenitor of Asian cultivated rice Oryza sativa, is an important resource for rice breeding1. Here we present a wild-cultivated rice pangenome based on 145 chromosome-level assemblies, comprising 129 genetically diverse O. rufipogon accessions and 16 diverse varieties of O. sativa. This pangenome contains 3.87 Gb of sequences that are absent from the O. sativa ssp. japonica cv. Nipponbare reference genome. We captured alternate assemblies that include heterozygous information missing in the primary assemblies, and identified a total of 69,531 pan-genes, with 28,907 core genes and 13,728 wild-rice-specific genes. We observed a higher abundance and a significantly greater diversity of resistance-gene analogues in wild rice than in cultivars. Our analysis indicates that two cultivated subpopulations, intro-indica and basmati, were generated through gene flows among cultivars in South Asia. We also provide strong evidence to support the theory that the initial domestication of all Asian cultivated rice occurred only once. Furthermore, we captured 855,122 differentiated single-nucleotide polymorphisms and 13,853 differentiated presence-absence variations between indica and japonica, which could be traced to the divergence of their respective ancestors and the existence of a larger genetic bottleneck in japonica. This study provides reference resources for enhancing rice breeding, and enriches our understanding of the origins and domestication process of rice. |
| 巻・号 | 642(8068) |
| ページ | 662-671 |
| 公開日 | 2025-6-1 |
| DOI | 10.1038/s41586-025-08883-6 |
| PII | 10.1038/s41586-025-08883-6 |
| PMID | 40240605 |
| PMC | PMC12176639 |
| MeSH | Asia Chromosomes, Plant / genetics Crops, Agricultural / genetics Disease Resistance / genetics Domestication Gene Flow / genetics Genes, Plant / genetics Genetic Variation Genome, Plant* / genetics Genomics* Oryza* / classification Oryza* / genetics Phylogeny Plant Breeding Polymorphism, Single Nucleotide / genetics Reference Standards |
| IF | 42.779 |
| オルトメトリクス指標 |
オルトメトリクス指標項目
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| 最多言及媒体 | X(Twitter) |
| 各媒体での言及数の合計 | 71 |
| 過去6か月間でのオルトメトリクス指標の変動値 | 0.0 |
| リソース情報 | |
| イネ | W1943 BPH34 W0704 |