RSIADB, a collective resource for genome and transcriptome analyses in Rhizoctonia solani AG1 IA.

Abstract

Rice [Oryza sativa (L.)] feeds more than half of the world's population. Rhizoctonia solaniis a major fungal pathogen of rice causing extreme crop losses in all rice-growing regions of the world. R. solani AG1 IA is a major cause of sheath blight in rice. In this study, we constructed a comprehensive and user-friendly web-based database, RSIADB, to analyse its draft genome and transcriptome. The database was built using the genome sequence (10,489 genes) and annotation information for R. solani AG1 IA. A total of six RNAseq samples of R. solani AG1 IA were also analysed, corresponding to 10, 18, 24, 32, 48 and 72 h after infection of rice leaves. The RSIADB database enables users to search, browse, and download gene sequences for R. solani AG1 IA, and mine the data using BLAST, Sequence Extractor, Browse and Construction Diagram tools that were integrated into the database. RSIADB is an important genomic resource for scientists working with R. solani AG1 IA and will assist researchers in analysing the annotated genome and transcriptome of this pathogen. This resource will facilitate studies on gene function, pathogenesis factors and secreted proteins, as well as provide an avenue for comparative analyses of genes expressed during different stages of infection. Database URL:http://genedenovoweb.ticp.net:81/rsia/index.php.

• Authors: Lei Chen, Peng Ai, Jinfeng Zhang, Qiming Deng, Shiquan Wang, Shuangcheng Li, Jun Zhu, Ping Li, Aiping Zheng
• Journal: Database : the journal of biological databases and curation (Database (Oxford)) Vol. 2016 ( 2016) ISSN: 1758-0463 [Electronic] England
• PMID: 27022158 (Publication Type: Journal Article, Research Support, Non-U.S. Gov't)
• Copyright: © The Author(s) 2016. Published by Oxford University Press.

Topics

• Databases, Genetic
• Gene Expression Profiling
• Genome, Fungal
• Rhizoctonia (genetics)
• Search Engine
• User-Computer Interface