ArticleScientific data2020
MARES, a replicable pipeline and curated reference database for marine eukaryote metabarcoding.
Article in Scientific data, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Navigating Cetacean Mitochondrial Genome Data: Identifying Coverage and Deficiencies in Public Repositories.Molecular ecology resources · 2026Article
- How low can you go? Establishing detection limits for rare eukaryotes in Southern Ocean sedimentary ancient DNA.Bioinformatics advances · 2026Article
- The Core of the Matter-Importance of Identification Method and Biological Replication for Benthic Marine Monitoring.Ecology and evolution · 2024Article
- Principles for Constructing DNA Barcode Reference Libraries.Methods in molecular biology (Clifton, N.J.) · 2024Article
- rCRUX: A Rapid and Versatile Tool for Generating Metabarcoding Reference libraries in R.Environmental DNA (Hoboken, N.J.) · 2024Article
- Yeast metagenomics: analytical challenges in the analysis of the eukaryotic microbiome.Microbiome research reports · 2024Review
- Profiling Walnut Fungal Pathobiome Associated with Walnut Dieback Using Community-Targeted DNA Metabarcoding.Plants (Basel, Switzerland) · 2023Article
- rCRUX: A Rapid and Versatile Tool for Generating Metabarcoding Reference libraries in R.bioRxiv : the preprint server for biology · 2023Article
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- Niche partitioning between planktivorous fish in the pelagic Baltic Sea assessed by DNA metabarcoding, qPCR and microscopy.Scientific reports · 2022Article
- MetaCOXI: an integrated collection of metazoan mitochondrial cytochrome oxidase subunit-I DNA sequences.Database : the journal of biological databases and curation · 2022Article
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4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
The use of DNA metabarcoding to characterise the biodiversity of environmental and community samples has exploded in recent years. However, taxonomic inferences from these studies are contingent on the quality and completeness of the sequence reference database used to characterise sample species-composition. In response, studies often develop custom reference databases to improve species assignment. The disadvantage of this approach is that it limits the potential for database re-use, and the transferability of inferences across studies. Here, we present the MARine Eukaryote Species (MARES) reference database for use in marine metabarcoding studies, created using a transparent and reproducible pipeline. MARES includes all COI sequences available in GenBank and BOLD for marine taxa, unified into a single taxonomy. Our pipeline facilitates the curation of sequences, synonymization of taxonomic identifiers used by different repositories, and formatting these data for use in taxonomic assignment tools. Overall, MARES provides a benchmark COI reference database for marine eukaryotes, and a standardised pipeline for (re)producing reference databases enabling integration and fair comparison of marine DNA metabarcoding results.
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