Ya-Ting Chao, Shao-Hua Yen, Jen-Hau Yeh, Wan-Chieh Chen, Ming-Che Shih*(2017) Orchidstra 2.0—A Transcriptomics Resource for the Orchid Family Plant & Cell Physiol DOI:10.1093/pcp/pcw220
Orchidaceae, the orchid family, encompasses more than 25,000 species and five subfamilies. Due to their beautiful and exotic flowers, distinct biological and ecological features, orchids have aroused wide interest among both researchers and the general public. We constructed the Orchidstra database, a resource for orchid transcriptome assembly and gene annotations. The Orchistra database has been under active development since 2013. To accommodate the increasing amount of orchid transcriptome data and house more comprehensive information, Orchidstra 2.0 has been built with a new database system to store the annotations of 510,947 protein-coding genes and 161,826 noncoding transcripts, covering 18 orchid species belonging to 12 genera in five subfamilies of Orchidaceae. We have improved the N50 size of protein-coding genes, provided new functional annotations (including protein-coding gene annotations, protein domain/family information, pathways analysis, Gene Ontology term assignments, orthologous genes across orchid species, cross-links to the database of model species, and miRNA information), and improved the user interface with better website performance. We also provide new database functionalities for database searching and sequence retrieval. Moreover, the Orchidstra 2.0 database incorporates detailed RNA-Seq gene expression data from various tissues and developmental stages in different orchid species. The database will be useful for gene prediction and gene family studies, and for exploring gene expression in orchid species. The Orchidstra 2.0 database is freely accessible at http://orchidstra2.abrc.sinica.edu.tw.
2017/08/21 10:30 AM
Dr. Chia-Lin Chung (Associate Professor, Department of Plant Pathology and Microbiology, National Taiwan University)
Bakanae of rice: new insights into an emerging old disease
Dr. Chung uses quantitative genetics approaches such as linkage mapping and genome-wide association mapping, in combined with molecular markers or whole-genome sequencing analysis, to dissect defense mechanisms against blast and bakanae disease in rice.
Auditorium A134, Agricultural Technology Building, Agricultural Biotechnology Research Center 2017/08/28 10:30 AM
Dr. Ho-Ming Chen (Assistant Research Fellow, Agricultural Biotechnology Research Center, Academia Sinica)
Toward RNA interference 2.0: new insights into the biogenesis, action, and movement of plant small RNA
Auditorium A134, Agricultural Technology Building, Agricultural Biotechnology Research Center