CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes

Takatomo Fujisawa, Shinobu Okamoto, Toshiaki Katayama, Mitsuteru Nakao, Hidehisa Yoshimura, Hiromi Kajiya-Kanegae, Sumiko Yamamoto, Chiyoko Yano, Yuka Yanaka, Hiroko Maita, Takakazu Kaneko, Satoshi Tabata (+1 others)
2013 Nucleic Acids Research  
To understand newly sequenced genomes of closely related species, comprehensively curated reference genome databases are becoming increasingly important. We have extended CyanoBase (http://gen, a genome database for cyanobacteria, and newly developed RhizoBase (, a genome database for rhizobia, nitrogen-fixing bacteria associated with leguminous plants. Both databases focus on the representation and reusability of reference genome
more » ... annotations, which are continuously updated by manual curation. Domain experts have extracted names, products and functions of each gene reported in the literature. To ensure effectiveness of this procedure, we developed the TogoAnnotation system offering a web-based user interface and a uniform storage of annotations for the curators of the CyanoBase and RhizoBase databases. The number of references investigated for CyanoBase increased from 2260 in our previous report to 5285, and for RhizoBase, we perused 1216 references. The results of these intensive annotations are displayed on the GeneView pages of each database. Advanced users can also retrieve this information through the representational state transfer-based web application programming interface in an automated manner.
doi:10.1093/nar/gkt1145 pmid:24275496 pmcid:PMC3965071 fatcat:uaecsgyddfav5bssxeyvbtcnou