Published July 12, 2026 | Version v43
Dataset Open

Jul2026 reference datasets for Mitohelper

Authors/Creators

  • 1. University of Miami
  • 2. Mississippi State University

Description

Reference datasets (Jul 2026 update) for Mitohelper (https://github.com/aomlomics/mitohelper)

Jul 2026 update: Added new NCBI records. Database further deduplicated. 

Mitohelper is a repository built to facilitate experimental design, alignment visualization, and reference sequence analysis in fish eDNA studies. Refer to our paper and Mitohelper's wiki for database construction pipeline.

I. Reference database files in tab-separated format, containing gene, taxonomy, and sequence information:

  • mitofish.all.Jul.2026.tsv (594,266 de-duplicated records)
  • mitofish.12S.Jul2026.tsv (66,798 records of 12S rRNA gene >50 bp long)
  • mitofish.12S.Jul2026_NR.fasta (FASTA file of 12S rRNA gene records)
  • mitofish.COI.Jul2026.tsv (229,609 de-duplicated records)

II. De-replicated QIIME 2-compatible 12S/12S+16S+18S rRNA reference datasets:

  • 12S-seqs-derep-uniq.qza
  • 12S-tax-derep-uniq.qza
  • 12S-16S-18S-seqs.qza
  • 12S-16S-18S-tax.qza

If you use Mitohelper, please cite:
Jean Lim, S, Thompson, LR. Mitohelper: A mitochondrial reference sequence analysis tool for fish eDNA studies. Environmental DNA. 2021; 00: 1– 10.  https://doi.org/10.1002/edn3.187

Files

Files (1.6 GB)

Name Size
md5:d5c960dc9f423f032e54fd0c8199a90f
102.8 MB Download
md5:bf3d4b0f643e7b5f230f77d5c859c6c5
7.8 MB Download
md5:430e19bb1501d97621e5dc329ced7677
5.8 MB Download
md5:b3862eb950069473863892fc288f00d9
1.0 MB Download
md5:7a273ba497fbe0f212c8f6085d36db08
112.5 MB Download
md5:6911681bf9c75e0e8daaf51f2b5ae627
887.1 MB Download
md5:e7e653c2c907ca0e6d7f7c3f310dc0b8
525.6 MB Download

Additional details

Identifiers

DOI
10.1002/edn3.187

Related works

Is published in
Publication: 10.1002/edn3.187 (DOI)

Dates

Accepted
2021-02-21
Publication date

Software

Repository URL
https://github.com/aomlomics/mitohelper

References

  • Jean Lim, S, Thompson, LR. Mitohelper: A mitochondrial reference sequence analysis tool for fish eDNA studies. Environmental DNA. 2021; 00: 1– 10.