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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  
Both databases focus on the representation and reusability of reference genome annotations, which are continuously updated by manual curation.  ...  We have extended CyanoBase (http://gen ome.microbedb.jp/cyanobase), a genome database for cyanobacteria, and newly developed RhizoBase (http://genome.microbedb.jp/rhizobase), a genome database for rhizobia  ...  ACKNOWLEDGEMENTS The authors thank Eli Kaminuma for suggestions and comments on the database development, Yasuhiro Tanizawa for the operation of the CyanoBase and RhizoBase web services and members of  ... 
doi:10.1093/nar/gkt1145 pmid:24275496 pmcid:PMC3965071 fatcat:uaecsgyddfav5bssxeyvbtcnou

Diverse molecular processes of chromatic acclimation in the cyanobacteria phylum

Yuu Hirose, Masahiko Ikeuchi, Toshihiko Eki
2017 PLANT MORPHOLOGY  
The complete genome sequence of cyanobacteria was reported in 1990s as the first genome of photosynthetic organism.  ...  Since then, researchers have sequenced several cyanobacterial strains, and utilize them as 'model' organisms.  ...  ., and Nakamura, Y. (2014) CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes. Nucleic Acids Res 42: D666-670. Grossman, A. R., Schaefer, M.  ... 
doi:10.5685/plmorphol.29.41 fatcat:ej73ka3ifjh7bnefj4uoaxvhce

Two strictly polyphosphate-dependent gluco(manno)kinases from diazotrophic Cyanobacteria with potential to phosphorylate hexoses from polyphosphates

Tomás Albi, Aurelio Serrano
2014 Applied Microbiology and Biotechnology  
They also 33 provide evidence for a novel group-specific subfamily of strictly polyP-dependent gluco(manno)kinases 34 with ancestral features and high biotechnological potential, capable of efficiently  ...  Based on databases searches and experimental data from Southern blots 30 and activity assays, closely-related PPGK homologs appear to be widespread among unicellular and 31 filamentous mostly nitrogen-fixing  ...  Y, Maita H, Kaneko T, Tabata S, Nakamura Y (2014) CyanoBase and RhizoBase: databases 10 of manually curated annotations for cyanobacterial and rhizobial genomes.  ... 
doi:10.1007/s00253-014-6184-7 pmid:25381489 fatcat:rx6w5a65dzfszj5h3uljggm2re

Two exopolyphosphatases with distinct molecular architectures and substrate specificities from the thermophilic green-sulfur bacterium Chlorobium tepidum TLS

T. Albi, A. Serrano
2014 Microbiology  
CyanoBase and RhizoBase: 5 3 8 databases of manually curated annotations for cyanobacterial and rhizobial genomes. Gomez-Garcia, M. R., Losada, M. & Serrano, A. (2003).  ...  UniProtKG retrieved sequences were aligned using CLUSTAL X , then manually curated, and the final alignment was formatted with the ExPASy BoxShade server.  ...  Amplification reactions were performed with 6 7 7 specific primers pairs (Table S1 ) and bacterial genomic DNA as a template, as described in 6 7 8 Materials and Methods, and subsequently loaded onto  ... 
doi:10.1099/mic.0.080952-0 pmid:24969471 fatcat:p3vqfylvxjglppvfapcvvi6pza