NOAA/AOML 'Omics
Published November 20, 2025 | Version v1
Dataset Open

12S rRNA V5-V6 (Fish-12S-MiFish-Miya) amplicon reference sequence database

Authors/Creators

  • 1. NOAA Atlantic Oceanographic and Meteorological Laboratories
  • 2. ROR icon Northern Gulf Institute

Contributors

  • 1. ROR icon NOAA National Marine Fisheries Service
  • 2. ROR icon NOAA National Marine Fisheries Service Southeast Fisheries Science Center

Description

12S rRNA MiFish amplicon reference sequence database in QIIME2 .qza format.  

Includes a previously published rCRUX-generated database leveraging NCBI nucleotide database (nt) sequences as of December. 2022 (Gold, Curd, et al., 2023), sequences from the MitoFish database (Zhu et al., 2023) missing from the rCRUX database, 148 recently generated sequences across 68 Gulf fish taxa (Janosik et al., in review), and 15 new reference fish sequences from the Gulf of Mexico/Gulf of America.

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Additional details

Funding

NOAA RESTORE Science Program
Trophic Dynamics of Gulf of Mexico Rice’s Whale Study
NOAA Oceanic and Atmospheric Research
Northern Gulf Institute NA16OAR4320199
NOAA Oceanic and Atmospheric Research
Cooperative Institute for Marine and Atmospheric Studies (CIMAS) NA20OAR4320472

References

  • Gold, Z., Curd, E., Gallego, R., Gal, L., & Nielsen, S. (2023). rCRUX Generated MiFish Universal 12S Expanded Reference Database [Dataset]. Zenodo. https://doi.org/10.5281/ZENODO.8409202
  • Zhu, T., Sato, Y., Sado, T., Miya, M., & Iwasaki, W. (2023). MitoFish, MitoAnnotator, and MiFish Pipeline: Updates in 10 Years. Molecular Biology and Evolution, 40(3). https://doi.org/10.1093/molbev/msad035
  • Curd, E. E., Gal, L., Gallego, R., Silliman, K., Nielsen, S., & Gold, Z. (2023). rCRUX: A rapid and versatile tool for generating metabarcoding reference libraries in R. Environmental DNA (Hoboken, N.J.). https://doi.org/10.1002/edn3.489