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Mare-MAGE curated reference database of fish mitochondrial genes.
Yassine Kasmi1, Erik Eschbach2, Reinhold Hanel2
1Thünen Institute of Fisheries Ecology, Herwigstraße 31, 27572, Bremerhaven, Germany. yassine.kasmi@thuenen.de.
BMC Genomic Data
|March 18, 2023
Summary
A new fish reference database, Mare-MAGE, aids biodiversity assessments in aquatic ecosystems. It provides quality-checked mitochondrial gene sequences for metabarcoding, enhancing marine and freshwater species identification.
Area of Science:
- Marine biology
- Molecular ecology
- Bioinformatics
Background:
- Molecular techniques like metabarcoding are vital for aquatic biodiversity assessments.
- Existing reference databases may lack comprehensive, quality-controlled fish genetic data.
Purpose of the Study:
- To introduce the Mare-MAGE database, a new resource for fish metabarcoding.
- To provide a curated collection of mitochondrial gene sequences for accurate fish identification.
Main Methods:
- Compiled fish mitochondrial 12S ribosomal RNA and Cytochrome c Oxidase I gene sequences from major genetic databases.
- Performed rigorous quality control, including checking for false annotations and non-target anomalies, referencing ITIS and FishBase.
- Formatted the data into ARB-Home, FASTA, and Qiime2 formats for broad accessibility.
Main Results:
- The Mare-MAGE database contains 231,333 quality-checked fish gene sequences.
- These sequences represent 19,506 species, 4,058 genera, and 586 families.
- The database is publicly available online.
Conclusions:
- Mare-MAGE significantly enhances the accuracy and scope of fish biodiversity assessments using molecular methods.
- This resource facilitates more reliable ecological monitoring and taxonomic studies in aquatic environments.
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