ArticleMolecular biology and evolution2013
MitoFish and MitoAnnotator: a mitochondrial genome database of fish with an accurate and automatic annotation pipeline.
Article in Molecular biology and evolution, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 402 papers.
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402 citing papers in PubMed.
- The Complete Chromosome-Level Genome and Mitogenome Assembly ofEcology and evolution · 2026Article
- Mitogenomic Insights into the Tinfoil Barb Barbonymus schwanefeldii from Sumatra, Indonesia: Structural Features, Selective Pressure, Genetic Diversity, and Phylogenetic Placement.Journal of molecular evolution · 2026Article
- Complete Mitochondrial Genomes ofGenes · 2026Article
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- Mitogenomic and phylogenomic analyses identify a cohesive Western Atlantic lineage within the Narcine complex (Torpediniformes: Narcinidae).Molecular biology reports · 2026Article
- Mitogenomic and Ecological Perspectives on the Wide-Ridged Indo-Pacific Finless PorpoiseEcology and evolution · 2026Article
- Mitogenomic Architecture and Phylogenetic Insights Shed Light on the Matrilineal Evolution of the Mahseer Fish Neolissochilus sumatranus (Cyprinidae: Torinae) in Southeast Asia.Biochemical genetics · 2026Article
- Comparative Mitogenome Analyses Uncover Mitogenome Features and Phylogenetic Implications of the Rabbitfishes (Perciformes: Siganidae).Ecology and evolution · 2026Article
- A new record of triggerfish (Tetraodontiformes: Balistidae) from China with a complete mitogenome.Journal of fish biology · 2026Article
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- Characterization of Three Complete Mitochondrial Genomes ofInternational journal of molecular sciences · 2026Article
- Complete mitochondrial genome sequence of yellowtail catfishMicrobiology resource announcements · 2026Article
- Phylogeny of Cutthroat Trout (Evolutionary applications · 2026Article
- Genome Assemblies for Seven Families of Birds From the Global South.Molecular ecology resources · 2026Article
- De novo Genome Assembly, Annotation, and Comparative Analysis of the Lined Sole Achirus lineatus as a Resource for Evolutionary and Environmental Genomics.Marine biotechnology (New York, N.Y.) · 2026Article
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- Novel Mitogenome ofInternational journal of molecular sciences · 2026Article
- Complete Mitochondrial Genome ofGenes · 2026Article
- Complete Mitochondrial Genome ofGenes · 2026Article
342 more citing papers are in PubMed but not listed here.
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11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Mitofish is a database of fish mitochondrial genomes (mitogenomes) that includes powerful and precise de novo annotations for mitogenome sequences. Fish occupy an important position in the evolution of vertebrates and the ecology of the hydrosphere, and mitogenomic sequence data have served as a rich source of information for resolving fish phylogenies and identifying new fish species. The importance of a mitogenomic database continues to grow at a rapid pace as massive amounts of mitogenomic data are generated with the advent of new sequencing technologies. A severe bottleneck seems likely to occur with regard to mitogenome annotation because of the overwhelming pace of data accumulation and the intrinsic difficulties in annotating sequences with degenerating transfer RNA structures, divergent start/stop codons of the coding elements, and the overlapping of adjacent elements. To ease this data backlog, we developed an annotation pipeline named MitoAnnotator. MitoAnnotator automatically annotates a fish mitogenome with a high degree of accuracy in approximately 5 min; thus, it is readily applicable to data sets of dozens of sequences. MitoFish also contains re-annotations of previously sequenced fish mitogenomes, enabling researchers to refer to them when they find annotations that are likely to be erroneous or while conducting comparative mitogenomic analyses. For users who need more information on the taxonomy, habitats, phenotypes, or life cycles of fish, MitoFish provides links to related databases. MitoFish and MitoAnnotator are freely available at http://mitofish.aori.u-tokyo.ac.jp/ (last accessed August 28, 2013); all of the data can be batch downloaded, and the annotation pipeline can be used via a web interface.
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