ArticleNucleic acids research2021
Cyanorak v2.1: a scalable information system dedicated to the visualization and expert curation of marine and brackish picocyanobacteria genomes.
Article in Nucleic acids research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 67 citations in OpenAlex.
- Terpene-based biofuels production: a revolutionizing role of cyanobacteria through metabolic engineering, opportunities and challenges.Archives of microbiology · 2026Review
- Diazotrophy affects the state transitions in unicellular nitrogen fixing cyanobacteria.Photosynthesis research · 2026Article
- Environmental disturbances and cyanobacterial traits shape prokaryotic dynamics in a eutrophic Mediterranean coastal lagoon.Environmental microbiome · 2026Article
- EnhancedISME communications · 2026Article
- A curated protein dataset for taxonomic classification of Prochlorococcus and Synechococcus in metagenomes.Scientific data · 2025Article
- Article
- Competition for light color between marineApplied and environmental microbiology · 2025Article
- Simultaneous acclimation to nitrogen and iron scarcity in open ocean cyanobacteria revealed by sparse tensor decomposition of metatranscriptomes.Science advances · 2025Article
- Uncovering the genomic basis of symbiotic interactions and niche adaptations in freshwater picocyanobacteria.Microbiome · 2024Article
- Substrate specificity and ecological significance of PstS homologs in phosphorus uptake in marineMicrobiology spectrum · 2024Article
- Coordinated transcriptional response to environmental stress by a Synechococcus virus.The ISME journal · 2024Article
- Loss of Biliverdin Reductase Increases Oxidative Stress in the CyanobacteriumMicroorganisms · 2023Article
- Marine picocyanobacterial PhnD1 shows specificity for various phosphorus sources but likely represents a constitutive inorganic phosphate transporter.The ISME journal · 2023Article
- Differential global distribution of marine picocyanobacteria gene clusters reveals distinct niche-related adaptive strategies.The ISME journal · 2023Article
- Disentangling temporal associations in marine microbial networks.Microbiome · 2023Article
- Genomic and Transcriptomic Insights into Salinity Tolerance-Based Niche Differentiation ofmSystems · 2023Article
- ProX from marine Synechococcus spp. show a sole preference for glycine-betaine with differential affinity between ecotypes.Environmental microbiology · 2022Article
- An unexpected role for leucyl aminopeptidase in UV tolerance revealed by a genome-wide fitness assessment in a model cyanobacterium.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Plastic leachates impair picophytoplankton and dramatically reshape the marine microbiome.Microbiome · 2022Article
- α-cyanobacteria possessing form IA RuBisCO globally dominate aquatic habitats.The ISME journal · 2022Article
Corrections and comments
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Authors and funding
21 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cyanorak v2.1 (http://www.sb-roscoff.fr/cyanorak) is an information system dedicated to visualizing, comparing and curating the genomes of Prochlorococcus, Synechococcus and Cyanobium, the most abundant photosynthetic microorganisms on Earth. The database encompasses sequences from 97 genomes, covering most of the wide genetic diversity known so far within these groups, and which were split into 25,834 clusters of likely orthologous groups (CLOGs). The user interface gives access to genomic characteristics, accession numbers as well as an interactive map showing strain isolation sites. The main entry to the database is through search for a term (gene name, product, etc.), resulting in a list of CLOGs and individual genes. Each CLOG benefits from a rich functional annotation including EggNOG, EC/K numbers, GO terms, TIGR Roles, custom-designed Cyanorak Roles as well as several protein motif predictions. Cyanorak also displays a phyletic profile, indicating the genotype and pigment type for each CLOG, and a genome viewer (Jbrowse) to visualize additional data on each genome such as predicted operons, genomic islands or transcriptomic data, when available. This information system also includes a BLAST search tool, comparative genomic context as well as various data export options. Altogether, Cyanorak v2.1 constitutes an invaluable, scalable tool for comparative genomics of ecologically relevant marine microorganisms.
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Registered trials
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.