Mitogenome Sequencing and Annotation Pipeline Evaluation

Newly sequenced mitogenomes from 42 diverse fish species were used in evaluating the performance of the MitoAnnotator pipeline. The 42 species are as follows (the International Nucleotide Sequence Database Collaboration accession numbers are provided): Acanthocybium solandri (AP012945), Anchoviella sp. (AP012524), Aphanopus carbo (AP012944), Ariomma indica (AP012513), Ariomma lurida (AP012512), Assurger anzac (AP012508), Benthodesmus tenuis (AP012522), Dionda episcopa (AP012077), Diplospinus multistriatus (AP012523), Epinnula magistralis (AP012943), Eumegistus illustris (AP012497), Euthynnus affinis (AP012946), Evoxymetopon poeyi (AP012509), Gempylus serpens (AP012502), Gymnosarda unicolor (AP012510), Hemitremia flammea (AP012078), Icichthys lockingtoni (AP012511), Kali indica (AP012500), Luciocyprinus striolatus (AP012525), Luxilus chrysocephalus (AP012079), Macrhybopsis gelida (AP012080), Margariscus margarita (AP012081), Microphysogobio yaluensis (AP012073), Nesiarchus nasutus (AP012503), Nocomis biguttatus (AP012082), Notropis atherinoides (AP012083), Notropis baileyi (AP012084), Opsopoeodus emiliae (AP012085), Pampus punctatissimus (AP012516), Peprilus burti (AP012947), Promethichthys prometheus (AP012504), Pteraclis aesticola (AP012499), Rastrelliger kanagurta (AP012948), Ruvettus pretiosus (AP012506), Sarda orientalis (AP012949), Scombrolabrax heterolepis (AP012517), Sphyraena japonica (AP012501), Tanakia tanago (AP012526), Taractes asper (AP012498), Tetragonurus atlanticus (AP012515), Tetragonurus cuvieri (AP012514), and Thyrsitoides marleyi (AP012505). The extracted mitogenomes were amplified via the long PCR technique (Miya and Nishida 1999 ; Inoue et al. 2003a (link)) and sequenced with the Sanger sequencing technique.

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Iwasaki W., Fukunaga T., Isagozawa R., Yamada K., Maeda Y., Satoh T.P., Sado T., Mabuchi K., Takeshima H., Miya M, & Nishida M. (2013). MitoFish and MitoAnnotator: A Mitochondrial Genome Database of Fish with an Accurate and Automatic Annotation Pipeline. Molecular Biology and Evolution, 30(11), 2531-2540.

Publication 2013

Affinis Carbo Fish Nucleotide Nucleotide sequence

Corresponding Organization : The University of Tokyo

Other organizations : National Museum of Nature and Science, Natural History Museum and Institute

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