The complete mitochondrial genome of Accipiter virgatus and evolutionary history of the pseudo-control regions in Falconiformes

Song, Xuhao; Huang, Jie; Yan, Chaochao; Xu, Gaobo; Zhang, Xiuyue; Yue, Bisong

doi:10.1016/j.bse.2014.10.013

Cited by 23 publications

(23 citation statements)

References 44 publications

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“…Clade Sagittaridae comprised of S. serpentarius as the sister taxon to the Accipitridae and Pandionidae (1.00, 98.5%). Also, this result was consistent with those of the previous studies (Lerner, Klaver, & Mindell, ; Liu et al, ; Song et al, ), but differed from those of Hackett et al () and Pacheco et al (). The difference is mainly due to the different samples used and molecular markers, and their evolutionary relationships need further investigating and searching for more evidences from binding nuclear gene data and morphological characters.…”

Section: Resultssupporting

confidence: 91%

“…The base composition of the 12S rRNA was 20.2%T, 28.4%C, 30.7%A, and 20.7%G, with an A + T content of 50.9%, while the 16S ribosomal gene composition was 20.4%T, 27.2%C, 33.1%A, and 19.3%G, with an A + T content of 53.4%. The gene order and arrangement of two rRNA genes, including gene length, base composition, and RNA structure, were similar to those in other Accipitridae birds (Jiang et al, ; Li, Liu, et al, ; Li, Liu, et al, ; Song et al, ).…”

Section: Resultssupporting

confidence: 74%

“…The 12S rRNA gene is situated between tRNA-Phe and tRNA-Val, while the 16S rRNA gene is located between tRNA-Val and tRNA-Leu ( Figure 3). The length of 12S rRNA and 16S RNA were 985 bp and 1,630bp, respectively ( were similar to those in other Accipitridae birds Li, Liu, et al, 2015;Li, Liu, et al, 2015;Song et al, 2015).…”

Section: Transfer and Ribosomal Rna Genessupporting

confidence: 77%

“…Due to its simple genomic organization, high rates of evolution and maternal inheritance mode, complete mitochondrial genomes have been proposed to show potential in resolving evolutionary history and taxonomic status (Arshad, Gonzalez, El‐Sayed, Osborne & Wink,; Boore, ; Dowton, Castro, & Austin, ; Gibb, Kardailsky, Kimball, Braun, & Penny, ; Kan, Yang, et al, ; Ren et al, ). In the past 10 years, a number of studies performed using mitochondrial genome sequences to clarify avian phylogeny (Kan, Li, et al, ; Li, Liu, Zhou, & Gu, ; Li, Liu, et al, ; Song et al, ; Zhang et al, ).…”

Section: Introductionmentioning

confidence: 99%

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Complete mitochondrial genome sequence of the Himalayan Griffon, Gyps himalayensis (Accipitriformes: Accipitridae): Sequence, structure, and phylogenetic analyses

Jiang

Peng

Tang

et al. 2019

Ecology and Evolution

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This is the first study to describe the mitochondrial genome of the Himalayan Griffon, Gyps himalayensis , which is an Old World vulture belonging to the family Accipitridae and occurring along the Himalayas and the adjoining Tibetan Plateau. Its mitogenome is a closed circular molecule 17,381 bp in size containing 13 protein‐coding genes, 22 tRNA coding genes, two rRNA‐coding genes, a control region (CR), and an extra pseudo‐control region (CCR) that are conserved in most Accipitridae mitogenomes. The overall base composition of the G. himalayensis mitogenome is 24.55% A, 29.49% T, 31.59% C, and 14.37% G, which is typical for bird mitochondrial genomes. The alignment of the Accipitridae species control regions showed high levels of genetic variation and abundant AT content. At the 5′ end of the domain I region, a long continuous poly‐C sequence was found. Two tandem repeats were found in the pseudo‐control regions. Phylogenetic analysis with Bayesian inference and maximum likelihood based on 13 protein‐coding genes indicated that the relationships at the family level were (Falconidae + (Cathartidae + (Sagittariidae + (Accipitridae + Pandionidae))). In the Accipitridae clade, G. himalayensis is more closely related to Aegypius monachus than to Spilornis cheela . The complete mitogenome of G. himalayensis provides a potentially useful resource for further exploration of the taxonomic status and phylogenetic history of Gyps species.

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Section: Resultssupporting

confidence: 91%

Section: Resultssupporting

confidence: 74%

Section: Transfer and Ribosomal Rna Genessupporting

confidence: 77%

Section: Introductionmentioning

confidence: 99%

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Complete mitochondrial genome sequence of the Himalayan Griffon, Gyps himalayensis (Accipitriformes: Accipitridae): Sequence, structure, and phylogenetic analyses

Jiang

Peng

Tang

et al. 2019

Ecology and Evolution

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“…The canonical termination codon (TAA or TAG) occurs in seven PCGs in the P. clarkii mt genome. The remaining PCGs including cox2, nad3, and cob genes were terminated with a single T; nad4, nad4L, and nad6 genes were terminated with a single TA, which are widely reported in other invertebrates (Lin et al, 2012;Liu et al, 2014Liu et al, , 2015Song et al, 2015;Yang et al, 2013). The 22 tRNAs with the ranging from 61 to 70 bp have a typical clover-leaf secondary structure, except for trnS1 (AGN) lacking a stable dihydrouridine (DHU) arm, which has been observed in several animals Zhu et al, 2013).…”

mentioning

confidence: 97%

Characterization of the complete mitochondrial genome of the red crayfish, Procambarus clarkii (Decapoda: Cambaridae)

Liu

Chai

Jiang

et al. 2015

Mitochondrial DNA Part A

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Here we present the complete mitochondrial (mt) genome of Procambarus clarkii (Decapoda: Cambaridae) and provide its annotation. The complete mt genome was determined to be 15 929 bp and contains 22 tRNA genes, 13 protein-coding genes (PCGs), two rRNA genes, and a D-loop region. The nucleotide composition was biased toward A + T nucleotides (72.91%) and the AT skew of this mt genome was slightly negative. All the 22 tRNA genes displayed a typical clover-leaf structure, with the exception of trnS1 (AGN). About 13 PCGs were initiated by ATN codons, except for cox1 and nad2 genes which were initiated by ACG and GTG, respectively. Six of the 13 PCGs harbor the incomplete termination codon by T or TA. The D-loop region of the mt genome was 1188 bp in length and the A + T content was 81.08%. Phylogenetic analysis showed that the placement of P. clarkii was within the Cambaridae. This mt genome sequence will provide a better understanding for crayfish evolution in the future.

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Mitochondrial genome of Pteronotus personatus (Chiroptera: Mormoopidae): comparison with selected bats and phylogenetic considerations

2016

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We described the complete mitochondrial genome (mitogenome) of the Wagner's mustached bat, Pteronotus personatus, a species belonging to the family Mormoopidae, and compared it with other published mitogenomes of bats (Chiroptera). The mitogenome of P. personatus was 16,570 bp long and contained a typically conserved structure including 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and one control region (D-loop). Most of the genes were encoded on the H-strand, except for eight tRNA and the ND6 genes. The order of protein-coding and rRNA genes was highly conserved in all mitogenomes. All protein-coding genes started with an ATG codon, except for ND2, ND3, and ND5, which initiated with ATA, and terminated with the typical stop codon TAA/TAG or the codon AGA. Phylogenetic trees constructed using Maximum Parsimony, Maximum Likelihood, and Bayesian inference methods showed an identical topology and indicated the monophyly of different families of bats (Mormoopidae, Phyllostomidae, Vespertilionidae, Rhinolophidae, and Pteropopidae) and the existence of two major clades corresponding to the suborders Yangochiroptera and Yinpterochiroptera. The mitogenome sequence provided here will be useful for further phylogenetic analyses and population genetic studies in mormoopid bats.

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The complete mitochondrial genome of Accipiter virgatus and evolutionary history of the pseudo-control regions in Falconiformes

Cited by 23 publications

References 44 publications

Complete mitochondrial genome sequence of the Himalayan Griffon, Gyps himalayensis (Accipitriformes: Accipitridae): Sequence, structure, and phylogenetic analyses

Complete mitochondrial genome sequence of the Himalayan Griffon, Gyps himalayensis (Accipitriformes: Accipitridae): Sequence, structure, and phylogenetic analyses

Characterization of the complete mitochondrial genome of the red crayfish, Procambarus clarkii (Decapoda: Cambaridae)

Mitochondrial genome of Pteronotus personatus (Chiroptera: Mormoopidae): comparison with selected bats and phylogenetic considerations

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