ArticleNucleic acids research2018
The MAR databases: development and implementation of databases specific for marine metagenomics.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 73 papers.
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73 citing papers in PubMed.
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- Diel and eddy driven changes in microbial gene expression and biogeochemistry in the oceanic chlorophyll maximum.Nature communications · 2026Article
- Bioinformatic tools for microbiome analysis: from raw sequences to biological insights.Frontiers in microbiology · 2026Review
- Marine Autographiviridae phages exhibit high genetic diversity and global-scale biogeographic patterns.Communications biology · 2025Article
- Marine Community Metabolomes in the Eastern Tropical North Pacific Oxygen Deficient Zone Reveal Glycine Betaine as a Metabolic Link Between Prochlorococcus and SAR11.Environmental microbiology · 2025Article
- Exploring the Biosynthetic Potential of Microorganisms from the South China Sea Cold Seep Using Culture-Dependent and Culture-Independent Approaches.Marine drugs · 2025Article
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- Abundant and metabolically flexible bacterial lineages underlie a vast potential for rubisco-mediated carbon fixation in the dark ocean.Genome biology · 2025Article
- Genomic evidence on the distribution and ecological function of Pseudomonas in hadal zone.BMC microbiology · 2025Article
- Visualizing metagenomic and metatranscriptomic data: A comprehensive review.Computational and structural biotechnology journal · 2024Review
- Missing microbial eukaryotes and misleading meta-omic conclusions.Nature communications · 2024Article
- The Microbiota of the Outer Gut Mucus Layer of the Migrating Northeast Arctic Cod (Microorganisms · 2024Article
- Biodiversity of microorganisms in the Baltic Sea: the power of novel methods in the identification of marine microbes.FEMS microbiology reviews · 2024Review
- Microeukaryote metabolism across the western North Atlantic Ocean revealed through autonomous underwater profiling.Nature communications · 2024Article
- Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake.Microbiome · 2024Article
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- Exploring the roles of ribosomal peptides in prokaryote-phage interactions through deep learning-enabled metagenome mining.Microbiome · 2024Article
13 more citing papers are in PubMed but not listed here.
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Authors and funding
8 authors.
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Abstract
We introduce the marine databases; MarRef, MarDB and MarCat (https://mmp.sfb.uit.no/databases/), which are publicly available resources that promote marine research and innovation. These data resources, which have been implemented in the Marine Metagenomics Portal (MMP) (https://mmp.sfb.uit.no/), are collections of richly annotated and manually curated contextual (metadata) and sequence databases representing three tiers of accuracy. While MarRef is a database for completely sequenced marine prokaryotic genomes, which represent a marine prokaryote reference genome database, MarDB includes all incomplete sequenced prokaryotic genomes regardless level of completeness. The last database, MarCat, represents a gene (protein) catalog of uncultivable (and cultivable) marine genes and proteins derived from marine metagenomics samples. The first versions of MarRef and MarDB contain 612 and 3726 records, respectively. Each record is built up of 106 metadata fields including attributes for sampling, sequencing, assembly and annotation in addition to the organism and taxonomic information. Currently, MarCat contains 1227 records with 55 metadata fields. Ontologies and controlled vocabularies are used in the contextual databases to enhance consistency. The user-friendly web interface lets the visitors browse, filter and search in the contextual databases and perform BLAST searches against the corresponding sequence databases. All contextual and sequence databases are freely accessible and downloadable from https://s1.sfb.uit.no/public/mar/.
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