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- Title
Rice Stress-Resistant SNP Database.
- Authors
Tareke Woldegiorgis, Samuel; Wang, Shaobo; He, Yiruo; Xu, Zhenhua; Chen, Lijuan; Tao, Huan; Zhang, Yu; Zou, Yang; Harrison, Andrew; Zhang, Lina; Ai, Yufang; Liu, Wei; He, Huaqin
- Abstract
Background: Rice (Oryza sativa L.) yield is limited inherently by environmental stresses, including biotic and abiotic stresses. Thus, it is of great importance to perform in-depth explorations on the genes that are closely associated with the stress-resistant traits in rice. The existing rice SNP databases have made considerable contributions to rice genomic variation information but none of them have a particular focus on integrating stress-resistant variation and related phenotype data into one web resource. Results: Rice Stress-Resistant SNP database (http://bioinformatics.fafu.edu.cn/RSRS) mainly focuses on SNPs specific to biotic and abiotic stress-resistant ability in rice, and presents them in a unified web resource platform. The Rice Stress-Resistant SNP (RSRS) database contains over 9.5 million stress-resistant SNPs and 797 stress-resistant candidate genes in rice, which were detected from more than 400 stress-resistant rice varieties. We incorporated the SNPs function, genome annotation and phenotype information into this database. Besides, the database has a user-friendly web interface for users to query, browse and visualize a specific SNP efficiently. RSRS database allows users to query the SNP information and their relevant annotations for individual variety or more varieties. The search results can be visualized graphically in a genome browser or displayed in formatted tables. Users can also align SNPs between two or more rice accessions. Conclusion: RSRS database shows great utility for scientists to further characterize the function of variants related to environmental stress-resistant ability in rice.
- Subjects
RICE; RICE quality; DATABASES; ABIOTIC stress; INTERNET users; SCIENTISTS
- Publication
Rice (19398425), 2019, Vol 12, Issue 1, p1
- ISSN
1939-8425
- Publication type
Article
- DOI
10.1186/s12284-019-0356-0