Jun2024 reference datasets for Mitohelper

Reference datasets (Jun 2024 update) for Mitohelper (https://github.com/aomlomics/mitohelper)

Jun2024: Some duplicate records were found. De-duplicated all records in TSV file.

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.Jun2024.tsv (855,806 records; de-duplicated June2024)

mitofish.12S.Jun2024.tsv (59,809 records; de-duplicated June2024)

mitofish.12S.Jun2024_NR.fasta (FASTA file of 12S rRNA gene records)

mitofish.COI.Jun2024.tsv (308,354 records; de-duplicated June2024)

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