ArticleScientific data2018
A database of metazoan cytochrome c oxidase subunit I gene sequences derived from GenBank with CO-ARBitrator.
Article in Scientific data, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Relative performance of three phylogenetic methods based on complete mitochondrial genomes of barnacle.Scientific reports · 2025Article
- A novel taxonomic database for eukaryotic mitochondrial cytochrome oxidase subunit I gene (eKOI), with a focus on protists diversity.Database : the journal of biological databases and curation · 2025Article
- Evaluation of DNA barcoding reference databases for marine species in the western and central Pacific Ocean.PeerJ · 2025Article
- Chemical pollution drives taxonomic and functional shifts in marine sediment microbiome, influencing benthic metazoans.ISME communications · 2025Article
- Integrated multi-approaches reveal unique metabolic mechanisms of Vestimentifera to adapt to deep sea.Microbiome · 2024Article
- Effects of mining activities on fish communities and food web dynamics in a lowland river.Ecology and evolution · 2024Article
- rCRUX: A Rapid and Versatile Tool for Generating Metabarcoding Reference libraries in R.Environmental DNA (Hoboken, N.J.) · 2024Article
- CRISPR-Cas-Based Biomonitoring for Marine Environments: Toward CRISPR RNA Design Optimization Via Deep Learning.The CRISPR journal · 2023Article
- rCRUX: A Rapid and Versatile Tool for Generating Metabarcoding Reference libraries in R.bioRxiv : the preprint server for biology · 2023Article
- Trophic level and proteobacteria abundance drive antibiotic resistance levels in fish from coastal New England.Animal microbiome · 2023Article
- Article
- MetaCOXI: an integrated collection of metazoan mitochondrial cytochrome oxidase subunit-I DNA sequences.Database : the journal of biological databases and curation · 2022Article
- RESCRIPt: Reproducible sequence taxonomy reference database management.PLoS computational biology · 2021Article
- Identification of plastic-associated species in the Mediterranean Sea using DNA metabarcoding with Nanopore MinION.Scientific reports · 2020Article
- ACDC, a global database of amphibian cytochrome-b sequences using reproducible curation for GenBank records.Scientific data · 2020Article
- A reference library for Canadian invertebrates with 1.5 million barcodes, voucher specimens, and DNA samples.Scientific data · 2019Article
- A database of metazoan cytochrome c oxidase subunit I gene sequences derived from GenBank with CO-ARBitrator.Scientific data · 2018Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The Cytochrome C Oxidase subunit I gene ("COI") is the de facto standard for animal DNA barcoding. Organism identification based on COI requires an accurate and extensive annotated database of COI sequences. Such a database can also be of value in reconstructing evolutionary history and in diversity studies. Two COI databases are currently available: BOLD and Midori. BOLD's submissions conform to stringent sequence and metadata requirements; BOLD is specific to COI but makes no attempt to be comprehensive. Midori, derived from GenBank, has more sequences but less stringent standards than BOLD, resulting in higher error rates. To address the need for a comprehensive and accurate COI database, we adapted the ARBitrator algorithm, which classifies based only on sequence properties and has successfully auto-curated bacterial genes mined from GenBank. The adapted algorithm, which we call CO-ARBitrator, built a database of over a million metazoan COI sequences. Sensitivity and specificity are significantly higher than Midori. Specificity is comparable to what BOLD achieves with data quality prerequisites. Results and software are publicly available.
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