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Mol Biol Evol. 2018 Jun 1;35(6):1553-1555. doi: 10.1093/molbev/msy074.

MitoFish and MiFish Pipeline: A Mitochondrial Genome Database of Fish with an Analysis Pipeline for Environmental DNA Metabarcoding.

Author information

1
Center for Strategic Research Project, Organization for Research Promotion, University of the Ryukyus, Okinawa, Japan.
2
Department of Integrative Genomics, Tohoku Medial Megabank Organization, Tohoku University, Miyagi, Japan.
3
Department of Ecology and Environmental Sciences, Natural History Museum and Institute, Chiba, Chiba, Japan.
4
Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba, Japan.
5
Department of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.
6
Center for Earth Surface System Dynamics, Atmosphere and Ocean Research Institute, The University of Tokyo, Chiba, Japan.

Abstract

Fish mitochondrial genome (mitogenome) data form a fundamental basis for revealing vertebrate evolution and hydrosphere ecology. Here, we report recent functional updates of MitoFish, which is a database of fish mitogenomes with a precise annotation pipeline MitoAnnotator. Most importantly, we describe implementation of MiFish pipeline for metabarcoding analysis of fish mitochondrial environmental DNA, which is a fast-emerging and powerful technology in fish studies. MitoFish, MitoAnnotator, and MiFish pipeline constitute a key platform for studies of fish evolution, ecology, and conservation, and are freely available at http://mitofish.aori.u-tokyo.ac.jp/ (last accessed April 7th, 2018).

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