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Mitochondrial DNA

Alireza Pesarakloo, Eskandar Rastegar-Pouyani, Nasrollah Rastegar-Pouyani, Hajigholi Kami, Masoumeh Najibzadeh, Azar Khosravani, Hamzeh Oraie
The Eurasian water frog species and their geographic ranges have undergone considerable changes in the last four decades, but the Iranian populations have largely remained unknown. All the Iranian populations of water frogs, despite their vast distribution range have attributed to a single species: Rana ridibunda. In order to understand the phylogenetic relationships and taxonomic status of water frogs of Iran, we collected samples from many populations across the country and used the mitochondrial DNA sequence variation...
January 5, 2016: Mitochondrial DNA
Máney Sveinsdóttir, Lára Guðmundsdóttir, Kristinn P Magnússon
The complete mitochondrial genome sequence of gyrfalcon (Falco rusticolus), the largest of the true falcons, was characterized using next generation sequencing. The mitogenome was 18 218 bp long, and comprised of 13 protein-coding genes (PCGs), 22 tRNA, 2 rRNA and two non-coding regions; a control region (D-loop) harboring two tandem repeats 80 bp and 56 bp long and a pseudo-control region (ΨD-loop) with a tandem repeat 27 bp long. All genes were encoded on the + strand except ND6 and 8 tRNA genes...
January 5, 2016: Mitochondrial DNA
Jipeng Mao, Feng Zhou, Tianyi Liu, Zhengyu Wu, Ting Zhong, Chunxin Liu, Qiang Wei, Jiehu Chen, Shaowei Huang
The complete chloroplast sequence of Gnetum montanum (GenBank accession number: NC_021438.1) was determined and characterized in this study. The size of the chloroplast genome of Gnetum montanum is 115 019 bp. Including a large single copy (LSC) region of 66 697 bp and a small single copy (SSC) region of 9494 bp separated by a pair of identical inverted repeat regions (IRs) of 19 414 bp each. A total of 108 genes that were successfully annotated contains 65 protein-coding genes, 40 tRNA genes and 3 rRNA genes...
January 5, 2016: Mitochondrial DNA
Yong Zou, Fei Wu, Ya-Xu Guo, Hui-Bao Wang, Yan-Qin Fang, Ming Kang, Qing Lin
The sequence diversities in three mitochondrial DNA (mtDNA) regions, namely portions of NADH dehydrogenase subunit 1 (pnad1), cytochrome c oxidase subunit 1 (pcox1), and NADH dehydrogenase subunit 4 (pnad4), were investigated in all Ascaris suum samples isolated from four regions in northwestern China. Those genes were amplified by PCR method and the lengths of pnad1, pcox1, and pnad4 were 419 bp, 711 bp, and 723 bp, respectively. The intraspecific sequence variations within A. suum samples were 0-2.9% for pnad1, 0-2...
January 5, 2016: Mitochondrial DNA
Wenjuan Zhu, Taiyi Liu, Chunxin Liu, Feng Zhou, Xu En Lai, Dehuo Hu, Jiehu Chen, Shaowei Huang
We determined the complete chloroplast genome sequence of Cunninghamia lanceolata (GenBank accession: NC_021437.1) in this study. The total length of the chloroplast genome is 135 334 bp. The GC content is 35%. A total of 119 genes are successfully annotated, including 35 tRNA (20 tRNA species), 3 rRNA (3 rRNA species) and 81 protein-coding genes (81 PCG species). Twelve protein-coding genes (rps16, ycf3, rpoC1, atpF, rps12, ndhB, rpl2, rpl16, petD, petB, ndhA, rps15) contain one or two introns. A maximum likelihood phylogenetic analysis showed that this newly characterized Cunninghamia lanceolata chloroplast genome will provide essential data for further study on phylogenetic resolution, biodiversity for the genus Cunninghamia and Taxodiacea...
January 5, 2016: Mitochondrial DNA
Yandong Niu, Xiquan Li, Canming Zhang, Ying Wei
In our research, 16 sets of primers were used to amplify contiguous, overlapping segments of the complete mitochondrial DNA (mtDNA) of Odontobutis obscura. The aim of our research was to provide some important genetic background information for conservational practice of these valuable fish species. The total length of the mitochondrial genome is 16 864 bp and deposited in the GenBank with accession numbers KT438552. The gene arrangement and transcriptional direction were similar to other bony fishes which contained 37 genes (13 protein-coding genes, 2 ribosomal RNA, and 22 transfer RNAs) and a major non-coding control region...
January 5, 2016: Mitochondrial DNA
Jing-Hua Meng, Jun Yao, Jia-Xin Xing, Jin-Feng Xuan, Bao-Jie Wang, Mei Ding
DNA sequences in the control region of mitochondrial DNA (mtDNA) were investigated in 206 unrelated individuals living in Huanjiang Maonan Autonomous County in the People's Republic of China. DNA was extracted from blood-stained filter papers. Hypervariable regions, including HVI and HVII, were amplified and sequenced and sequences aligned and compared with the revised Cambridge sequence (rCRS). One hundred and seventy-two polymorphic sites were identified that defined 170 haplotypes. Of these, 143 were unique and 27 were shared by more than one individual...
December 29, 2015: Mitochondrial DNA
Ye Xiong, Yuxia Qin, Liyun Liu, Jing Liu, Jie Jiang, Pei Liu, Lian-Qin Zhang, Dashi Qi, Zongyun Li
The Placidochromis longimanus (P. longimanus), one species of Cichlidae, resides in the Lake Malawi in East Africa. In present study, for the first time, we reported the complete mitochondrial genome of P. longimanus, which has 16 581 bp in length, including 13 protein-coding genes, 2 ribosomal RNA, 22 transfer RNA genes, and 1 control zone. Moreover, its GC content is 45.99% (27.44% A, 26.58% T, 30.11% C, and 15.87% G), similar to that of Astatotilapia calliptera (the GC content of 45.90%). We further made the phylogenetic tree on the complete mitochondrial genomes of the above two species and other 11 closely related species to show their phylogenic relationship...
December 29, 2015: Mitochondrial DNA
Guolei Sun, Xiufeng Yang, Yongqiang Lu, Xiaodong Gao, Chao Zhao, Huashan Dou, Honghai Zhang
In this study, the complete mitochondrial genome of the Upland Buzzard (Buteo hemilasius) was sequenced and reported for the first time using the muscle tissue. The mitochondrial genome is a circular molecule of 18 079 bp in length, consisting of 13 protein-coding genes, 22 transfer RNA genes, 2 ribosomal RNA genes, 1 control region, and 1 extra pseudo-control region. A phylogenetic analysis on the basis of 12 protein-coding genes (except ND6 gene) of 14 Falconiformes species' mitochondrial genomes using maximum-likelihood (ML) and Bayesian inference (BI) demonstrated that all species cluster into two clades and B...
December 29, 2015: Mitochondrial DNA
Zhiqiang Wu, Luke R Tembrock
In this study, we assembled two individuals' complete chloroplast genomes with one male and one female from the dioecious plant species white campion (Silene latifolia). The two chloroplast genomes have an identical composition with each other as a circular molecule of 150 931 bp in length, with an overall GC content of 36.4%. The genomes consist of a pair of inverted repeats (IRs) of 25 503 bp, separated by a large single-copy (LSC) region and a small single-copy (SSC) region of 82 708 and 17 217 bp, respectively...
December 29, 2015: Mitochondrial DNA
Xiaona Song, Yanpeng Li, Guojie Xu, Chunsheng Liu, Yong Liu, Xiaoqin Zhang, Ying Liu, Siqi Liu, Xuan Gu
Notoginseng powder is a medicine form of Notoginseng radix et rhizoma in Chinese Pharmacopeia. Common adulterants of Notoginseng powder appeared in the market include powder of Panax ginseng and Panax quinquefolius. Here, "DNA Barcoding Core-Genotype (DBCG)" based on ITS sequences was developed for authenticating Notoginseng powder. DBCG was the genotype with the highest frequency of DNA barcoding in species. The DBCG was found as the reference sequence and minimal-similarity to identify species was calculated by large sample analysis...
December 29, 2015: Mitochondrial DNA
Adam Dawid Urantowka, Paweł Mackiewicz, Tomasz Strzała
Six genera of the Arini tribe form morphologically diverse group termed as Macaws. The presence of bare facial area distinguishes them from other members of the tribe. Genera and species of Macaw group differ in pattern of this bare skin as well as in body size. The genus Ara contains eight extant species. Two of them are classified as medium-sized Macaws and other six species are classified as large Macaws. Based on morphological similarities and differences, large Macaw species can be segregated into three pairs according to their plumage coloration...
December 29, 2015: Mitochondrial DNA
Jun-Feng Gao, Mei-Ru Hou, Yu-Chao Cui, Li-Kun Wang, Chun-Ren Wang
The complete mitochondrial genome of Drepanidotaenia lanceolata was sequenced. The complete mtDNA sequence is 13 573 bp long and contains 12 protein-coding genes (cox1-3, nad1-6, nad4L, atp6, and cytb), two ribosomal RNA (rRNA) genes, 22 transfer RNA (tRNA) genes, and 2 non-coding regions (NCR). Phylogenetic analysis using three methods (Bayesian inference, maximum parsimony, and maximum likelihood) demonstrates with high statistical support that D. lanceolata is closely related to the genus Hymenolepis...
December 29, 2015: Mitochondrial DNA
Weiwei Zhou, Lan Yu, Buyuan Tan, Yutang Liu, Lina Zhang, Yan Hua
The Asian badger (Meles leucurus amurensis) is widely distributed throughout the northeast of China, and plays an important role in regulating the prey population stability of forest eco-system as mesopredators. We first determined and annotated the whole mtDNA genome of the Asian badger Meles leucurus amurensis to better understand the evolutionary relationship of this subspecies. The complete mitogenome is 16 497 bp in length, includes 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and 1 control region...
December 29, 2015: Mitochondrial DNA
Yan Zhang, Tianjuan Su, Bo He, Ping Gu, Dunyuan Huang, Chaodong Zhu
The mitochondrial genome (mitogenome) of Megachile sculpturalis (Hymenoptera: Megachilidae) has been reported in this study. This is the first sequenced mitogenome from the family Megachilidae. The sequenced region of this mitochondrial genome is determined to be 16 581 bp in length, including 13 protein-coding genes, 2 ribosomal RNAs, 22 transfer RNAs, and a partial sequence of the AT-rich region, and the AT-rich region contains several characteristic repeated sequences. Additionally, we conducted a phylogenetic analysis using all the mitochondrial genomes of Apoidea that are available in Genbank...
December 29, 2015: Mitochondrial DNA
Lihua Meng, Ruijuan Liu, Jianbing Chen, Chenxu Ding
The complete nucleotide sequence of the Sinopodophyllum hexandrum Ying chloroplast genome (cpDNA) was determined based on next-generation sequencing technologies in this study. The genome was 157 203 bp in length, containing a pair of inverted repeat (IRa and IRb) regions of 25 960 bp, which were separated by a large single-copy (LSC) region of 87 065 bp and a small single-copy (SSC) region of 18 218 bp, respectively. The cpDNA contained 148 genes, including 96 protein-coding genes, 8 ribosomal RNA genes, and 44 tRNA genes...
December 29, 2015: Mitochondrial DNA
Shijiang Chen, Ping Shi, Deli Zhang, Zenghui Lu, Longyun Li
Although Hepialus xiaojinensis is important as the host of Ophiocordyceps sinensis, it remains poorly known especially in genetic structure and phylogeny status. To get a better understanding of it, the complete mitochondrial genome sequence of H. xiaojinensis was sequenced for the first time. The genome was 15 397 bp in size and contained 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes, and an AT-rich region, and the gene composition and the arrangement of which were consistent with other insects of Hepialidae...
December 29, 2015: Mitochondrial DNA
Aifen Yan, Fang Liu, Hong Jiang, Cuilan Feng, Dongsheng Tang
The complete mitochondrial genome of Paracheirodon innesi was determined using the next-generation sequencing (NGS). The mitochondrial genome was 16 962 bp long and consisted of 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes and a control region. The gene arrangement and composition of P. Innesi mitochondrial genome was similar to that of most other vertebrates. Phylogenetic tree was constructed based on the complete mitogenomes of the species and closely related 13 teleost species to assess their phylogenetic relationship and evolution...
December 29, 2015: Mitochondrial DNA
Chen Hou, Niklas Wikström, Catarina Rydin
This study presents the chloroplast genome of Ephedra foeminea, an entomophilous gymnosperm, sister to the remaining (wind-pollinated) species of Ephedra (Ephedraceae, Gnetales). Based on the reference-guided assembly, the length of the chloroplast genome was estimated to be 109 584 bp, comprising a large single copy region of 60 027 bp, a small single copy 8079 bp, and inverted repeat regions of 20 739 bp. In total, 118 genes were detected, including 73 protein-coding genes, eight ribosomal RNA genes, and 37 transfer RNA genes...
December 29, 2015: Mitochondrial DNA
Qiang Li, Ya Liu, Yeyu Chen, Yu Xiao, Jun Du
Claea dabryi is a small bottom-dwelling fish that is endemic to the upper stream of the Yangtze River. In this study, we successfully sequenced the first mitochondrial genome of C. dabryi. The mitogenome is 16 569 bp in length, containing 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes, and a control region (D-loop). Most of the genes are encoded on the heavy strand, except for eight tRNAs (tRNA(Gln), tRNA(Ala), tRNA(Asn), tRNA(Cys,) tRNA(Tyr,) tRNA(Ser), tRNA(Glu), and tRNA(Pro)) and ND6 gene. In this paper, we utilized 12 protein-coding genes of C...
December 29, 2015: Mitochondrial DNA
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