Mar2025 reference datasets for Mitohelper

Reference datasets (Mar 2025 update) for Mitohelper (https://github.com/aomlomics/mitohelper)

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.Mar2025.tsv (883,519 records)

mitofish.12S.Mar2025.tsv (61,379 records of 12S rRNA gene >50 bp long)

mitofish.12S.Mar2025_NR.fasta (FASTA file of 12S rRNA gene records)

mitofish.COI.Mar2025.tsv (323,337 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