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The complete mitochondrial genome sequence from the longicorn beetle Obrium sp. (Coleoptera: Cerambycidae) 天牛甲虫(鞘翅目:天牛科)线粒体全基因组序列
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1122766
Nan Song, Hao Zhang, Xinming Yin, Aili Lin, Qing Zhai
Abstract The complete mitochondrial genome (mitogenome) of Obrium sp. was sequenced, which was the first representation from the longicorn beetle genus Obrium. The whole mitogenome is a typical circular DNA molecule of 15 680 bp, and has similar gene content and gene order to previously reported beetle species. In the sampled subfamilies of Cerambycidae, both Lamiinae and Cerambycinae were recovered with high supports in phylogenetic analysis. And the newly sequenced Obrium sp. was the sister group to Massicus raddei in Lamiinae.
摘要对天牛甲虫属的首个线粒体全基因组(mitogenome)进行了测序。整个有丝分裂基因组是一个典型的15 680 bp的环状DNA分子,其基因含量和基因顺序与以往报道的甲虫种类相似。在采集到的天牛科亚科中,均恢复到Lamiinae和Cerambycinae,系统发育分析支持度较高。新测序的Obrium sp.是Lamiinae中masicus raddei的姊妹类群。
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引用次数: 7
Determining geographical variations in Ascaris suum isolated from different regions in northwest China through sequences of three mitochondrial genes 利用3个线粒体基因序列测定西北不同地区猪蛔虫的地理变异
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1129404
Yong Zou, Fei Wu, Ya-Xu Guo, Hui-Bao Wang, Yan-Qin Fang, Ming Kang, Q. Lin
Abstract 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, 0–2.1% for pcox1, and 0–3.1% for pnad4. Phylogenetic analysis combined with three sequences of mtDNA fragments showed that all A. suum samples were monophyletic groups, but samples from the same geographical origin did not always cluster together. The results suggested that the three mtDNA fragments could not be used as molecular markers to identify the A. suum isolates from four regions, and have important implications for studying molecular epidemiology and population genetics of A. suum.
摘要研究了中国西北4个地区的猪蛔虫线粒体DNA (mtDNA) 3个区域,即NADH脱氢酶亚基1 (pnad1)、细胞色素c氧化酶亚基1 (pcox1)和NADH脱氢酶亚基4 (pnad4)部分序列的多样性。PCR扩增得到pnad1、pcox1和pnad4基因长度分别为419 bp、711 bp和723 bp。pnad1、pcox1和pnad4的种内序列变异分别为0-2.9%、0-2.1%和0-3.1%。结合3个mtDNA片段序列的系统发育分析表明,所有标本均为单系类群,但来自同一地理来源的标本并不总是聚集在一起。结果表明,这3个mtDNA片段不能作为分子标记来鉴别4个地区的猪猪分离株,对研究猪猪的分子流行病学和群体遗传学具有重要意义。
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引用次数: 3
The first taxonomic revaluation of the Iranian water frogs of the genus Pelophylax (Anura: Ranidae) using sequences of the mitochondrial genome 利用线粒体基因组序列对伊朗水蛙属(无尾目:蛙科)进行首次分类重估
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1127362
A. Pesarakloo, E. Rastegar-pouyani, N. Rastegar-Pouyani, H. Kami, M. Najibzadeh, A. Khosravani, H. Oraie
Abstract 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. A data set with a final sequence length of 616 nucleotides was generated for Cyt b from 70 individuals of Pelophylax in which there are 422 invariable sites, 174 variable sites of which 123 were parsimony informative. In total, 43 haplotypes were found (Hd: 0.9752). The result demonstrated that, two major clades with strong support can be identified within the Iranian water frogs. One of these clades that include north western and southwestern populations forms a monophyletic group along with P. bedriagae samples from Turkey. The second clade consists of water frog populations of north and northeastern parts of Iran which in turn is subdivided into two subclades. Inclusion of water frog samples from adjacent areas showed that the second clade of our study is, most likely, a distinct taxonomic entity at species rank with its two subclades indicating two diagnosable subspecies for the clade. In conclusion, we suggest that two distinct species, P. bedriagae and Pelophylax sp., with its two subspecies, should be identified as water frogs of Iran. In Addition, another traditionally reported water frog of Iran, P.ridibundus, most likely should be excluded from the Iranian water frog’s checklist.
在过去的40年里,欧亚大陆的水蛙种类及其地理分布范围发生了相当大的变化,但伊朗的种群在很大程度上仍然未知。伊朗所有的水蛙种群,尽管分布范围很广,但都属于一个物种:Rana ridibunda。为了了解伊朗水蛙的系统发育关系和分类地位,我们收集了伊朗许多种群的样本,并利用线粒体DNA序列变异进行了研究。从70个Pelophylax个体中获得了Cyt b的最终序列长度为616个核苷酸的数据集,其中有422个不变位点,174个可变位点,其中123个是简约信息。共检测到43个单倍型(Hd: 0.9752)。结果表明,在伊朗水蛙中可以识别出两个具有强支撑力的主要分支。其中一个分支包括西北和西南种群,与来自土耳其的P. bedriagae样本形成了一个单系群。第二个分支由伊朗北部和东北部的水蛙种群组成,而后者又被细分为两个分支。邻近地区的水蛙样本表明,我们研究的第二支系很可能是一个独特的物种分类实体,其两个亚支系表明该支系有两个可诊断的亚种。综上所述,我们认为伊朗的水蛙有两个不同的种,即P. bedriagae和Pelophylax sp.及其两个亚种。此外,另一种传统报道的伊朗水蛙p.r idbundus很可能应该从伊朗水蛙的清单中排除。
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引用次数: 16
The complete mitochondrial genome of Paracheirodon innesi 中华副剑齿虎线粒体全基因组
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1126830
Ai-fen Yan, Fang Liu, Hong Jiang, Cuilan Feng, Dong-sheng Tang
Abstract 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.
摘要采用新一代测序技术(NGS)测定了innesi副acheirodon线粒体全基因组。线粒体基因组长16 962 bp,由13个蛋白质编码基因、2个rRNA基因、22个tRNA基因和1个控制区组成。该物种线粒体基因组的基因排列和组成与大多数其他脊椎动物相似。基于该物种完整的有丝分裂基因组和近缘的13种硬骨鱼物种构建系统发育树,评估它们的系统发育关系和进化。
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引用次数: 3
The complete chloroplast genome of Tibetan hulless barley 西藏无壳大麦叶绿体全基因组
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1122765
Quan Zeng, J. H. Yuan, L. Wang, Jun Qi Xu, T. Nyima
Abstract We report complete chloroplast genome of the Tibetan hulless barely using IIlumina Hiseq 2000 sequencing technology (IIlumina Inc., San Diego, CA). The chloroplast genome size is 136 462 bp in length that includes two inverted repeats (IRs) of 10 528 bp, which are separated by the large single copy (LSC 101 375 bp) and small single copy (SSC 14 030 bp). Hulless barely chloroplast genome encodes 76 protein-coding genes, four rRNA genes, and 29 tRNA genes. The maximum-likelihood (ML) phylogenetic tree of the nine complete chloroplast genomes was selected from Poaceae family using Oryza sativa japonica as the out-group, supporting that hulless barely is closely related to the Hordeum vulgare subsp. vulgare.
摘要利用IIlumina Hiseq 2000测序技术(IIlumina Inc., San Diego, CA)报道了西藏裸鱼叶绿体全基因组。叶绿体基因组全长136 462 bp,包含两个10 528 bp的反向重复序列(IRs),由大单拷贝(LSC 101 375 bp)和小单拷贝(SSC 14 030 bp)分开。无壳裸叶绿体基因组编码76个蛋白质编码基因、4个rRNA基因和29个tRNA基因。以水稻(Oryza sativa japonica)为外类群,选择了禾科9个完整叶绿体基因组的最大似然(ML)系统发育树,支持了无壳小麦与普通小麦(Hordeum vulgare)亚种的亲缘关系。vulgare。
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引用次数: 7
Complete mitochondrial genome of Hepialus xiaojinensis (Lepidoptera: Hepialidae) 小金河鼠线粒体全基因组(鳞翅目:河鼠科)
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1118089
Shijiang Chen, Ping Shi, De-li Zhang, Zeng-hui Lu, L. Li
Abstract 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. The base composition of the genome was A (41.44%), T (39.68%), C (11.52%), and G (7.36%), with an AT content of 81.13%. Moreover, we have performed phylogenetic analysis of H. xiaojinensis and other 11 Lepidoptera species.
摘要小金Hepialus xiaojinensis作为冬虫夏草(Ophiocordyceps sinensis)的重要宿主,但对其遗传结构和系统发育状况的研究尚不清楚。为了更好地了解它,我们首次对小金人线粒体全基因组序列进行了测序。该基因组大小为15 397 bp,包含13个蛋白质编码基因、2个rRNA基因、22个tRNA基因和1个at富集区,基因组成和排列与其他Hepialidae昆虫一致。基因组碱基组成为A(41.44%)、T(39.68%)、C(11.52%)和G(7.36%),其中AT含量为81.13%。此外,我们还对小金夜蛾和其他11种鳞翅目进行了系统发育分析。
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引用次数: 7
The phylogenetic placement of Odontobutis obscura base on complete mitochondrial DNA sequence 基于全线粒体DNA序列的黑齿蟾系统发育定位
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1127363
Yandong Niu, Xiquan Li, Canming Zhang, Ying Wei
Abstract 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. The nucleotide skewness for the coding strands of O. obscura (GC-skew = −0.26) is biased toward G and the negative GC-skew ranges from −0.51(ND2) to −0.24(CO1). The phylogenetic analysis showed that the Gobiiformes could be divided into three groups, Eleotridae, Odontobutidae and Rhyacichthyidae. The O. Obscura and O. Potamophila are sister species and clustered together.
摘要本研究利用16组引物扩增了暗齿齿蟾(Odontobutis obscura)线粒体完整DNA (mtDNA)的连续重叠片段。本研究旨在为这些珍贵鱼类的保护实践提供重要的遗传背景信息。线粒体基因组总长度为16 864 bp,储存于GenBank,登录号为KT438552。基因排列和转录方向与其他硬骨鱼相似,共包含37个基因(13个蛋白质编码基因、2个核糖体RNA和22个转移RNA)和一个主要的非编码控制区。暗室O. obscura编码链的核苷酸偏度(GC-skew = - 0.26)偏向于G,负GC-skew范围为- 0.51(ND2) ~ - 0.24(CO1)。系统发育分析表明,gobiiformae可分为Eleotridae、Odontobutidae和Rhyacichthyidae三个类群。O. Obscura和O. Potamophila是姐妹物种,聚集在一起。
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引用次数: 2
Sequencing and characterization of the Megachile sculpturalis (Hymenoptera: Megachilidae) mitochondrial genome 巨型蜂线粒体基因组的测序和鉴定(膜翅目:巨型蜂科
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1122774
Yan Zhang, Tianjuan Su, Bo He, P. Gu, Dunyuan Huang, Chaodong Zhu
Abstract 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. Bayesian method supported the monophyly of both Apidae and Colletidae. And Megachilidae was inferred as the sister group of Apidae.
本文报道了膜翅目:巨型蜂科(Megachile sculpturalis)的线粒体基因组(mitogenome)。这是第一个来自巨蝇科的有丝分裂基因组测序。测定该线粒体基因组的测序区长度为16 581 bp,包括13个蛋白质编码基因、2个核糖体rna、22个转移rna和AT-rich区域的部分序列,AT-rich区域包含多个特征重复序列。此外,我们使用Genbank中提供的Apoidea的所有线粒体基因组进行了系统发育分析。贝叶斯方法支持蚁科和蚁科的单一性。Megachilidae被推断为Apidae的姊妹类群。
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引用次数: 8
The complete mitochondrial genome sequence of Buteo hemilasius (Falconiformes: Accipitridae) 半爪蟾线粒体全基因组序列(隼形目:棘足蟾科)
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1122764
Guolei Sun, Xiufeng Yang, Yongqiang Lu, Xiaodong Gao, Chao-Yi Zhao, H. Dou, Honghai Zhang
Abstract 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. hemilasius is close to B. buteo.
摘要本研究首次利用高原秃鹰(Buteo hemilasius)的肌肉组织对其线粒体全基因组进行了测序和报道。线粒体基因组是一个长18079 bp的环状分子,由13个蛋白质编码基因、22个转移RNA基因、2个核糖体RNA基因、1个控制区和1个额外的伪控制区组成。利用最大似然(ML)和贝叶斯推理(BI)对14个隼形目物种线粒体基因组的12个蛋白编码基因(ND6基因除外)进行系统发育分析,结果表明,所有物种均聚为两个支系,其中,半鱼与buteo鱼较为接近。
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引用次数: 0
Complete mitochondrial genome of Blue-and-yellow Macaw (Ara ararauna): the species morphologically similar to Blue-throated Macaw (Ara glaucogularis) 蓝黄金刚鹦鹉(Ara ararauna)的线粒体全基因组:形态与蓝喉金刚鹦鹉(Ara glaucogularis)相似的物种
4区 生物学 Q3 Biochemistry, Genetics and Molecular Biology Pub Date : 2017-05-01 DOI: 10.3109/19401736.2015.1118090
A. Urantówka, P. Mackiewicz, T. Strzała
Abstract 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. So far, representative mitochondrial genomes were sequenced only for Ara glaucogularis (blue and yellow coloration), Ara macao (predominantly red/scarlet) and Ara militaris (predominantly green) species. Ara ararauna is the second of two Ara species with predominant blue and yellow plumage. Hitherto, close phylogenetic relation of these two species was shown using only ND2 genes or incomplete combined COI/Cytb/ND2 sequences. Therefore, Ara ararauna mitogenome, which was sequenced in this study, will be indispensable to refine the phylogenetic relationships within Macaws group.
摘要金刚鹦鹉族的6个属组成了形态多样的金刚鹦鹉群。裸露的面部区域将他们与部落的其他成员区分开来。金刚鹦鹉群的属和种在这种裸露皮肤的模式以及体型上都有所不同。Ara属包含八个现存的种类。其中2种被归类为中型金刚鹦鹉,另外6种被归类为大型金刚鹦鹉。基于形态上的异同,大型金刚鹦鹉可以根据羽毛的颜色分为三对。到目前为止,代表性的线粒体基因组测序仅为Ara glaucogularis(蓝色和黄色),Ara macao(以红色/猩红为主)和Ara militaris(以绿色为主)物种。Ara ararauna是两种Ara中的第二种,主要是蓝色和黄色的羽毛。迄今为止,只有ND2基因或不完整的COI/Cytb/ND2组合序列显示了这两个物种的密切系统发育关系。因此,本研究对金刚鹦鹉有丝分裂基因组的测序,对于完善金刚鹦鹉群体内的系统发育关系具有重要意义。
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引用次数: 1
期刊
Mitochondrial Dna Part a
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