A genomic perspective on the important genetic mechanisms of upland adaptation of rice
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- 作者：Jun Lyu (3)
Baoye Li (4)
Weiming He (5)
Shilai Zhang (4)
Zhiheng Gou (3)
Jing Zhang (4)
Liyun Meng (6)
Xin Li (7)
Dayun Tao (4)
Wangqi Huang (4)
Fengyi Hu (4)
Wen Wang (3)
3. CAS-Max Planck Junior Research Group ; State Key Laboratory of Genetic Resources and Evolution ; Kunming Institute of Zoology ; Chinese Academy of Sciences ; Kunming ; 650223 ; China
4. Food Crops Research Institute ; Yunnan Academy of Agricultural Sciences ; Kunming ; 650205 ; China
5. BGI-Shenzhen ; Shenzhen ; 518083 ; China
6. Inner Mongolia Agricultural University ; Hohhot ; 010018 ; China
7. Center for Epigenetics ; Johns Hopkins University School of Medicine Baltimore ; MD ; Baltimore ; 21205 ; USA - 关键词：Upland rice ; Upland adaptation ; Genetic mechanisms ; Phylogenetics ; Population structure ; Artificial selection
- 刊名：BMC Plant Biology
- 出版年：2014
- 出版时间：December 2014
- 年：2014
- 卷：14
- 期：1
- 全文大小：1,020 KB
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- 出版者：BioMed Central
- ISSN：1471-2229
文摘
Background Cultivated rice consists of two important ecotypes, upland and irrigated, that have respectively adapted to either dry land or irrigated cultivation. Upland rice, widely adopted in rainfed upland areas in virtue of its little water requirement, contains abundant untapped genetic resources, such as genes for drought adaptation. With water shortage exacerbated and population expanding, the need for breeding crop varieties with drought adaptation becomes more and more urgent. However, a previous oversight in upland rice research reveals little information regarding its genetic mechanisms for upland adaption, greatly hindering progress in harnessing its genetic resources for breeding and cultivation. Results In this study, we selected 84 upland and 82 irrigated accessions from all over the world, phenotyped them under both irrigated and dry land environments, and investigated the phylogenetic relations and population structure of the upland ecotype using whole genome variation data. Further comparative analysis yields a list of differentiated genes that may account for the phenotypic and physiological differences between upland and irrigated rice. Conclusions This study represents the first genomic investigation in a large sample of upland rice, providing valuable gene list for understanding upland rice adaptation, especially drought-related adaptation, and its subsequent utilization in modern agriculture.