Dec2023 reference datasets for Mitohelper

Reference datasets (Dec2023 update) for Mitohelper (https://github.com/aomlomics/mitohelper)

Dec 2023 update: COI dataset was cleaned up in Dec2023 to remove non-COI records.
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.Dec2023.tsv (835,391 records)
mitofish.12S.Dec2023.tsv (53,390 records)
mitofish.12S.Dec2023_NR.fasta (FASTA file of 12S rRNA gene records)
mitofish.COI.Dec2023.tsv (304,094 records; non-COI records removed in this version)
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

适用于Mitohelper（https://github.com/aomlomics/mitohelper）的参考数据集（2023年12月更新版）

2023年12月更新说明：COI数据集已于2023年12月完成清理，移除了所有非COI序列记录。

Mitohelper是专为鱼类环境DNA（eDNA）研究中的实验设计、序列比对可视化及参考序列分析打造的工具库。有关数据库构建流程，请参阅本团队的研究论文及Mitohelper的维基文档。

一、 制表符分隔格式参考数据库文件
此类文件包含基因、分类学及序列信息，具体如下：
1. mitofish.all.Dec2023.tsv（共835,391条记录）
2. mitofish.12S.Dec2023.tsv（共53,390条记录）
3. mitofish.12S.Dec2023_NR.fasta：12S核糖体RNA（rRNA）基因序列的FASTA格式文件
4. mitofish.COI.Dec2023.tsv（共304,094条记录；本版本已移除非COI序列记录）

二、 去重且兼容QIIME 2的12S/12S+16S+18S rRNA参考数据集
1. 12S-seqs-derep-uniq.qza
2. 12S-tax-derep-uniq.qza
3. 12S-16S-18S-seqs.qza
4. 12S-16S-18S-tax.qza

若您使用Mitohelper，请引用如下文献：
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