ArticleNucleic acids research2014
CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed.
- metagRoot: a comprehensive database of protein families associated with plant root microbiomes.Nucleic acids research · 2026Article
- Acclimation and stress response ofFrontiers in microbiology · 2022Article
- Genome sequencing of the NIES Cyanobacteria collection with a focus on the heterocyst-forming clade.DNA research : an international journal for rapid publication of reports on genes and genomes · 2021Article
- Genetic, Genomics, and Responses to Stresses in Cyanobacteria: Biotechnological Implications.Genes · 2021Review
- Transcriptomic Changes inInternational journal of molecular sciences · 2019Article
- Deletion ofApplied and environmental microbiology · 2018Article
- SolCyc: a database hub at the Sol Genomics Network (SGN) for the manual curation of metabolic networks in Solanum and Nicotiana specific databases.Database : the journal of biological databases and curation · 2018Article
- Complete Genome Sequence of a Coastal Cyanobacterium,Genome announcements · 2017Article
- The Complex Transcriptional Response ofG3 (Bethesda, Md.) · 2017Article
- The use of genome-scale metabolic network reconstruction to predict fluxes and equilibrium composition of N-fixing versus C-fixing cells in a diazotrophic cyanobacterium, Trichodesmium erythraeum.BMC systems biology · 2017Article
- CyanoBase: a large-scale update on its 20th anniversary.Nucleic acids research · 2017Article
- The 24th annual Nucleic Acids Research database issue: a look back and upcoming changes.Nucleic acids research · 2017Article
- A Proteomic View on the Role of Legume Symbiotic Interactions.Frontiers in plant science · 2017Review
- Diversity in photosynthetic electron transport under [COPhotosynthesis research · 2016Article
- Oxidation of P700 in Photosystem I Is Essential for the Growth of Cyanobacteria.Plant physiology · 2016Article
- Type II Toxin-Antitoxin Systems in the Unicellular Cyanobacterium Synechocystis sp. PCC 6803.Toxins · 2016Article
- Complete Genome Sequence of Cyanobacterium Leptolyngbya sp. NIES-3755.Genome announcements · 2016Article
- Article
- Integrating DNA Methylation and Gene Expression Data in the Development of the Soybean-Bradyrhizobium N2-Fixing Symbiosis.Frontiers in microbiology · 2016Article
- Identification of Genes Involved in Indole-3-Acetic Acid Biosynthesis byFrontiers in microbiology · 2016Article
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Authors and funding
13 authors.
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Abstract
To understand newly sequenced genomes of closely related species, comprehensively curated reference genome databases are becoming increasingly important. We have extended CyanoBase (http://genome.microbedb.jp/cyanobase), a genome database for cyanobacteria, and newly developed RhizoBase (http://genome.microbedb.jp/rhizobase), a genome database for rhizobia, nitrogen-fixing bacteria associated with leguminous plants. Both databases focus on the representation and reusability of reference genome 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.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.