CyanoCyc cyanobacterial web portal

Moore, Lisa R.; Caspi, Ron; Campbell, Douglas A.; Casey, John R.; Crevecoeur, Sophie; Lea-Smith, David J.; Long, Bin; Omar, Naaman M.; Paley, Suzanne M.; Schmelling, Nicolas M.; Torrado, Alejandro; Zehr, Jonathan P.; Karp, Peter D.

doi:10.3389/fmicb.2024.1340413

Title: CyanoCyc cyanobacterial web portal

Journal Article · Tue Jan 30 00:00:00 EST 2024 · Frontiers in Microbiology

DOI:https://doi.org/10.3389/fmicb.2024.1340413· OSTI ID:2325317

Moore, Lisa R. ^[1]; Caspi, Ron ^[1]; Campbell, Douglas A. ^[2]; Casey, John R. ^[3]; Crevecoeur, Sophie ^[4]; Lea-Smith, David J. ^[5]; Long, Bin ^[6]; Omar, Naaman M. ^[2]; Paley, Suzanne M. ^[1]; Schmelling, Nicolas M. ^[7]; Torrado, Alejandro ^[8]; Zehr, Jonathan P. ^[9]; Karp, Peter D. ^[1]

SRI International, Menlo Park, CA (United States)
Mount Allison University, Sackville, NB (Canada)
Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States)
Environment and Climate Change Canada, Burlington, ON (Canada)
Univ. of East Anglia, Norwich (United Kingdom)
Texas A & M Univ., College Station, TX (United States)
Krauts and Sprouts, Duesseldorf (Germany)
University of Seville and Spanish National Research Council, Seville (Spain)
Univ. of California, Santa Cruz, CA (United States)

CyanoCyc is a web portal that integrates an exceptionally rich database collection of information about cyanobacterial genomes with an extensive suite of bioinformatics tools. It was developed to address the needs of the cyanobacterial research and biotechnology communities. The 277 annotated cyanobacterial genomes currently in CyanoCyc are supplemented with computational inferences including predicted metabolic pathways, operons, protein complexes, and orthologs; and with data imported from external databases, such as protein features and Gene Ontology (GO) terms imported from UniProt. Five of the genome databases have undergone manual curation with input from more than a dozen cyanobacteria experts to correct errors and integrate information from more than 1,765 published articles. CyanoCyc has bioinformatics tools that encompass genome, metabolic pathway and regulatory informatics; omics data analysis; and comparative analyses, including visualizations of multiple genomes aligned at orthologous genes, and comparisons of metabolic networks for multiple organisms. CyanoCyc is a high-quality, reliable knowledgebase that accelerates scientists’ work by enabling users to quickly find accurate information using its powerful set of search tools, to understand gene function through expert mini-reviews with citations, to acquire information quickly using its interactive visualization tools, and to inform better decision-making for fundamental and applied research.

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Research Organization:: Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States)

Sponsoring Organization:: USDOE National Nuclear Security Administration (NNSA); USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC52-07NA27344; FWP SCW1039

OSTI ID:: 2325317

Report Number(s):: LLNL-JRNL-859262; 1089265

Journal Information:: Frontiers in Microbiology, Vol. 15; ISSN 1664-302X

Publisher:: Frontiers Research FoundationCopyright Statement

Country of Publication:: United States

Language:: English

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59 BASIC BIOLOGICAL SCIENCES
CyanoCyc
cyanobacteria
genomes
metabolism
bioinformatics
database
curation
biotechnology

Title: CyanoCyc cyanobacterial web portal

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