The complete mitochondrial genome of a basal teleost, the Asian arowana (Scleropages formosus, Osteoglossidae)

Yue, Gen Hua; Liew, Woei Chang; Orbán, László

doi:10.1186/1471-2164-7-242

Cited by 76 publications

(41 citation statements)

References 51 publications

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“…1), similar to those found in other vertebrates, and their gene arrangements were identical to those found in the typical gene order of Osteoglossidae fishes (Inoue et al 2001;Yue et al 2006;Hrbek & Farias 2008). The gene order was identical, and the structure of the mitogenome was similar to the typical pattern of fishes.…”

Section: Resultssupporting

confidence: 59%

“…We designed 15 overlapping amplification primers based on previous studies (Inoue et al 2001;Yue et al 2006;Hrbek & Farias 2008) (Table S1), and TaiHe Biotechnology Co. Ltd. (Beijing, China) synthesized the oligos. The PCR reactions were prepared in a total volume of 20 µl as follows: 2.0 µl 10× PCR buffer, 1.2 mM MgCl2, 1.0 µM each primer, 0.2 µM each dNTP, 1.25 U Taq DNA polymerase, and 20-50 ng DNA sample.…”

Section: Pcr Amplification and Sequencingmentioning

confidence: 99%

“…One tRNA (tRNA Ser ), which was not found by tRNAscan-SE, was identified visually through a comparison with other Osteoglossidae mitogenomes based on the secondary structure followed by inference using RNAstructure Ver.5.5. The putative control region was defined by aligning it with the closely related species O. bicirrhosum (Inoue et al 2001) and S. formosus (Yue et al 2006). The map of the species was visualized using the GenomeVx online tool (http://wolfe.ucd.ie/GenomeVx/) (Conant & Wolfe 2008) with further manual corrections.…”

Section: Pcr Amplification and Sequencingmentioning

confidence: 99%

“…The 13 proteincoding genes, two ribosomal RNAs, and the control region for the species were initially determined using DOGMA (http://dogma.ccbb. utexas.edu/ data/) (Wyman et al 2004) with the default settings and were refined through a comparison with the GenBank DNA sequences from Osteoglossidae fish mitogenomes (Inoue et al 2001;Yue et al 2006;Hrbek & Farias 2008). The genomic positions and secondary structures of 21 of the 22 tRNAs were identified using the tRNAscan-SE 1.2.1 program (http://lowelab.…”

Section: Pcr Amplification and Sequencingmentioning

confidence: 99%

“…We subsequently compared these sequences with the published mitochondrial genome data of the family Osteoglossidae, including O. bicirrhosum Cuvier (ex Vandelli), 1829 (Inoue et al 2001), Scleropages formosus Sa. Müller & Schlegel, 1840(Yue et al 2006, and Arapaima gigas Cuvier, 1817 (Hrbek & Farias 2008), and clarified the phylogenetic relationships among the family Osteoglossidae.…”

Section: Introductionmentioning

confidence: 99%

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Characterization of the mitochondrial genome and phylogeny of the black arowana (Osteoglossum ferreirai)

Liu

Wang

et al. 2014

Biologia

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In this study, we sequenced and assembled the mitochondrial (mt) genome of Osteoglossum ferreirai to re-assess the phylogenetic relationship of the family Osteoglossidae. We determined that the mitogenome of O. ferreirai contains the entire set of 37 mt genes, and the nucleotide composition and gene arrangement were similar to those of other bonytongues. Our phylogenetic analyses exhibited monophyly of the family Osteoglossidae with high bootstrap support, which is in agreement with the currently accepted phylogenetic viewpoint that is based on both morphological and molecular approaches. These findings provide additional informative data for the further study of phylogenetic relationships and help to elucidate a key component of the species radiation process within the family Osteoglossidae.

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Section: Resultssupporting

confidence: 59%

Section: Pcr Amplification and Sequencingmentioning

confidence: 99%

Section: Pcr Amplification and Sequencingmentioning

confidence: 99%

Section: Pcr Amplification and Sequencingmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Characterization of the mitochondrial genome and phylogeny of the black arowana (Osteoglossum ferreirai)

Liu

Wang

et al. 2014

Biologia

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Structure and Conservation of Tandem Repeats in the Mitochondrial DNA Control Region of the Least Brook Lamprey (Lampetra aepyptera)

White

Martin

2009

J Mol Evol

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Tandemly repeated sequences are a common feature of vertebrate mitochondrial DNA control regions. However, questions still remain about their mode of evolution, function, and phylogenetic distribution. We report phylogenetic and geographic patterns of variation of control region repeat sequence and number in a nonparasitic lamprey, Lampetra aepyptera. A survey of populations from throughout the species' range revealed remarkably low repeat sequence polymorphism but some interpopulation variation in repeat number. The high sequence similarity extended to repeats observed in other species in the genus Lampetra and other lamprey genera. The very low levels of variation suggest a high copy turnover. Our data are consistent with the illegitimate elongation model of repeat gain and loss and further suggest that repeat change occurs at internal copies. However, the limited variation across some species of lamprey suggests that functional constraints may further limit variation.

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The complete mitochondrial genome of the brown leg mite, Aleuroglyphus ovatus (Acari: Sarcoptiformes): evaluation of largest non-coding region and unique tRNAs

et al. 2014

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The circular mitochondrial genome (mitogenome) of Aleuroglyphus ovatus was sequenced. It was 14,328 bp long, and consisted of 37 coding genes including 13 protein-coding genes, two ribosomal RNA genes, and 22 transfer RNA genes. This is the first description of the complete mitogenome of a species in the Acaridae (Acari: Sarcoptiformes). The mtDNA gene order for A. ovatus is identical to those of Dermatophagoides farinae and D. pteronyssinus, but distinctly different from the mtDNA of other Acari. Most inferred tRNA genes of A. ovatus are extremely truncated (48-62 bp), lack stem-loops on either the T- or D-arm (except the trnK), and are unable to fold into the canonical tRNA cloverleaf structure. The largest non-coding region (378 bp) contained several conserved sequences involved in the regulation of mitogenome replication, including one core sequence (ACAT) associated with termination of the J-strand replication and several hypothetical stem-loop structures. The microsatellite-like (AT)n sequence in the largest non-coding region was observed in two other Astigmata species, but it has not been found in other Acari.

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The complete mitochondrial genome of a basal teleost, the Asian arowana (Scleropages formosus, Osteoglossidae)

Cited by 76 publications

References 51 publications

Characterization of the mitochondrial genome and phylogeny of the black arowana (Osteoglossum ferreirai)

Characterization of the mitochondrial genome and phylogeny of the black arowana (Osteoglossum ferreirai)

Structure and Conservation of Tandem Repeats in the Mitochondrial DNA Control Region of the Least Brook Lamprey (Lampetra aepyptera)

The complete mitochondrial genome of the brown leg mite, Aleuroglyphus ovatus (Acari: Sarcoptiformes): evaluation of largest non-coding region and unique tRNAs

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