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Mitochondrial Dna最新文献

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Genetic differences between Chabertia ovina and C. erschowi revealed by sequence analysis of four mitochondrial genes. 四种线粒体基因序列分析揭示了羊绒螯虾与中华绒螯虾的遗传差异。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-12-11 DOI: 10.3109/19401736.2013.843089
Lei Zhao, Guo-Hua Liu, Guang-Hui Zhao, Jin-Zhong Cai, Xing-Quan Zhu, Ai-Dong Qian
{"title":"Genetic differences between Chabertia ovina and C. erschowi revealed by sequence analysis of four mitochondrial genes.","authors":"Lei Zhao,&nbsp;Guo-Hua Liu,&nbsp;Guang-Hui Zhao,&nbsp;Jin-Zhong Cai,&nbsp;Xing-Quan Zhu,&nbsp;Ai-Dong Qian","doi":"10.3109/19401736.2013.843089","DOIUrl":"https://doi.org/10.3109/19401736.2013.843089","url":null,"abstract":"<p><p>This study examined sequence differences in mitochondrial cytochrome c oxidase subunit 1 (cox1), large subunit ribosomal RNA (rrnL) and NADH dehydrogenase subunits 1 and 4 (nad1 and nad4) between Chabertia ovina and C. erschowi from yaks in Qinghai and goats in Shaanxi provinces, China. A part of the cox1 (pcox1), rrnL (prrnL), nad1 and nad4 genes (pnad1 and pnad4) were amplified separately from individual nematodes by PCR and sequenced. The length of the sequences of pcox1, prrnL, pnad1 and pnad4 was 441 bp, 450 bp, 526 bp and 914 bp for C. ovina, and 441 bp, 451 bp, 517 bp and 810 bp for C. erschowi, respectively. The intra-specific sequence variations within C. ovina were 0.2-2.9% for pcox1, 0-0.9% for prrnL, 0.6-2.3% for pnad1, and 0.4-2.0% for pnad4, and were 0.5-1.6% for pcox1, 0-1.1% for prrnL, 0.2-1.7% for pnad1, and 0.4-1.1% for pnad4 within C. erschowi. Whereas, the inter-specific sequence differences between the two species were obviously higher, being 11.6-12.9% for pcox1, 9.8-11.1% for prrnL, 14.4-15.9% for pnad1, and 16.4-17.7% for pnad4. Phylogenetic analyses using Bayesian inference (BI), based on combined sequences of four genes, indicated that the C. ovina and C. erschowi represent distinct species. These results demonstrate that these mt gene sequences provide novel genetic markers for the identificaiton and differentiation C. ovina and C. erschowi, and have implications for studying the population genetics and molecular epidemiology of Chabertia spp.</p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"167-70"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.843089","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31946405","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
Primer effect in the detection of mtDNA heteroplasmy: insights from horse Cytochrome b gene. 引物效应在mtDNA异质性检测中的应用——来自马细胞色素b基因的启示。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2014-01-10 DOI: 10.3109/19401736.2013.855924
Qianjun Zhao, Ye Kang, Yabin Pu, Lili Niu, Weijun Guan, Xiaohong He, Hongping Zhang, Hyuntae Lim, Yuehui Ma, Tao Zhong
{"title":"Primer effect in the detection of mtDNA heteroplasmy: insights from horse Cytochrome b gene.","authors":"Qianjun Zhao,&nbsp;Ye Kang,&nbsp;Yabin Pu,&nbsp;Lili Niu,&nbsp;Weijun Guan,&nbsp;Xiaohong He,&nbsp;Hongping Zhang,&nbsp;Hyuntae Lim,&nbsp;Yuehui Ma,&nbsp;Tao Zhong","doi":"10.3109/19401736.2013.855924","DOIUrl":"https://doi.org/10.3109/19401736.2013.855924","url":null,"abstract":"<p><p>Heteroplasmy, the presence of bi-allelic mtDNA types within an individual, has been previously detected in the D-loop region and Cytochrome b gene (Cytb) of mitochondrial DNA using PCR-RFLP. However, heteroplasmy was absent in thousands of equine mtDNA sequences deposited in GenBank. To address whether heteroplasmy widely exists in mitochondria of Chinese indigenous horses, we generated the data set of the target sites in Cytb region with Sanger sequencing and PCR-RFLP method as well. In this study, 23 heteroplasmic individuals were detected in 430 Chinese local horses. Both site and length heteroplasmy were identified in horse Cytb, especially in Xinihe and Ujumqin breeds. Our data provide evidence that the forward and reverse primers seem to produce a similar approximation to the proportion of mutation base call. However, locations of primers affected the proper detection of mtDNA heteroplasmy. The data obtained in this study highlight the importance of the primers in the accurate detection of heteroplasmy. </p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"178-81"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.855924","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32018173","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
The complete mitochondrial genome of Ircinia sp. (Dictyoceratida: Irciniidae). Ircinia sp. (dictyoceratia: ircinidae)线粒体全基因组。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-09-16 DOI: 10.3109/19401736.2013.825776
Junye Ma, Chunxiang Li, Yonghua Gai, Qun Yang
{"title":"The complete mitochondrial genome of Ircinia sp. (Dictyoceratida: Irciniidae).","authors":"Junye Ma,&nbsp;Chunxiang Li,&nbsp;Yonghua Gai,&nbsp;Qun Yang","doi":"10.3109/19401736.2013.825776","DOIUrl":"https://doi.org/10.3109/19401736.2013.825776","url":null,"abstract":"<p><p>The mitochondrial genome of Ircinia sp. (Dictyoceratida: Irciniidae) is a circular molecule of 16,037 bp in length, containing 14 protein-coding genes, 2 ribosomal RNA genes, 2 transfer RNA genes (trnW and trnM) and 13 non-coding segments. All genes are distributed in the same strand (H-strand). The overall base composition of the H-strand is as follows: T (37.84%), C (11.22%), A (24.81%), G (26.13%), with GC- and AT-skew of 0.399 and -0.208, respectively, reflecting unbalanced base composition between the two strands. The non-coding regions are 1190 bp in total length, with high AT content (76.31%). The current mitochondrial genome is identical to that of sibling species I. strobilina in gene order and contents, but differs from the latter in the presence of two kinds of repetitive sequences in the non-coding regions, of which one could form repetitive hairpin-forming elements.</p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"282-3"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.825776","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31738123","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Complete mitochondrial genome of the spotted scat Scatophagus argus (Teleostei, Scatophagidae). 斑点粪便Scatophagus argus (Teleostei, Scatophagidae)线粒体全基因组研究。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-09-09 DOI: 10.3109/19401736.2013.830295
Jianhua Chen, Yinglei Li, Maoxian He, Binlun Yan, Xueping Meng
{"title":"Complete mitochondrial genome of the spotted scat Scatophagus argus (Teleostei, Scatophagidae).","authors":"Jianhua Chen,&nbsp;Yinglei Li,&nbsp;Maoxian He,&nbsp;Binlun Yan,&nbsp;Xueping Meng","doi":"10.3109/19401736.2013.830295","DOIUrl":"https://doi.org/10.3109/19401736.2013.830295","url":null,"abstract":"<p><p>The complete mitochondrial sequence of the spotted scat Scatophagus argus has been determined using long amplification polymerase chain reaction (LA-PCR). The total length of sequence is 16,778 bp, and includes 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes and 1 control region. The base composition of H-strand is 27.23% (A), 27.54% (T), 16.22% (G) and 28.81% (C), with an AT content of 55.08%. The arrangement of genes in S. argus is identical to that of other fish species. All genes are encoded on the heavy strand with the exception of ND6 and eight tRNA genes. The mitochondrial genome of S. argus presented here will contribute to resolve phylogenetic relationships within the family Scatophagidae and the Perciformes. </p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"325-6"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.830295","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"33182983","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Complete mitochondrial genome of Hymeniacidon sinapium (Demospongiae, Halichondriidae). 芥子海绵藻的线粒体全基因组。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-08-20 DOI: 10.3109/19401736.2013.823189
Jumin Jun, Jeong-Nam Yu, Eun Hwa Choi
{"title":"Complete mitochondrial genome of Hymeniacidon sinapium (Demospongiae, Halichondriidae).","authors":"Jumin Jun,&nbsp;Jeong-Nam Yu,&nbsp;Eun Hwa Choi","doi":"10.3109/19401736.2013.823189","DOIUrl":"https://doi.org/10.3109/19401736.2013.823189","url":null,"abstract":"<p><p>The complete mitochondrial genome of Hymeniacidon sinapium (Demospongiae, Halichondriidae) is reported here for the first time. The H. sinapium mitogenome is 23,435 base pairs in total length and includes 14 protein-coding gene sequences, small and large rRNA sequences, and 25 tRNA sequences. All genes are encoded on the heavy strand without overlapping genes. </p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"261-2"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.823189","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31671208","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
Complete mitochondrial genome of the grass moth Glyphodes quadrimaculalis (Lepidoptera: Crambidae). 鳞翅目:草蛾科草蛾线粒体全基因组的研究。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-09-11 DOI: 10.3109/19401736.2013.823183
Jeong Sun Park, Min Jee Kim, Seung-Joon Ahn, Iksoo Kim
{"title":"Complete mitochondrial genome of the grass moth Glyphodes quadrimaculalis (Lepidoptera: Crambidae).","authors":"Jeong Sun Park,&nbsp;Min Jee Kim,&nbsp;Seung-Joon Ahn,&nbsp;Iksoo Kim","doi":"10.3109/19401736.2013.823183","DOIUrl":"https://doi.org/10.3109/19401736.2013.823183","url":null,"abstract":"<p><p>Glyphodes quadrimaculalis (Lepidoptera: Crambidae) feed on a root tuber of Cynanchum wilfordii (Asclepiadaceae), which is one of the most famous traditional medicines in Korea. The genus Glyphodes includes ∼ 130 species distributed worldwide, so the complete mitochondrial genome (mitogenome) would be helpful for bio-identification, biogeographic studies and multigene-based phylogeny. The 15,255 bp long G. quadrimaculalis genome comprises 37 typical genes and 1 large non-coding region, with the typical arrangement found in Lepidoptera. Of the 13 protein coding genes (PCGs), 12 begin with typical start codons found in insect mitochondrial PCGs, but the COI gene starts with atypical CGA. One of the noteworthy features of the genome includes the presence of a 51-bp long non-coding space sequence located between tRNA(Gln) and ND2 that reveals high-sequence homology (71.4%) to the neighboring ND2 gene, indicating the origin of the region by partial duplication of the ND2 gene.</p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"247-9"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.823183","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31720048","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 16
Single nucleotide polymorphisms in the D-loop region of mitochondrial DNA is associated with renal cell carcinoma outcome. 线粒体DNA d环区域的单核苷酸多态性与肾细胞癌的预后有关。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-09-11 DOI: 10.3109/19401736.2013.825772
Yaling Bai, Zhanjun Guo, Jinsheng Xu, Shufeng Liu, Junxia Zhang, Liwen Cui, Huiran Zhang, Shenglei Zhang
{"title":"Single nucleotide polymorphisms in the D-loop region of mitochondrial DNA is associated with renal cell carcinoma outcome.","authors":"Yaling Bai,&nbsp;Zhanjun Guo,&nbsp;Jinsheng Xu,&nbsp;Shufeng Liu,&nbsp;Junxia Zhang,&nbsp;Liwen Cui,&nbsp;Huiran Zhang,&nbsp;Shenglei Zhang","doi":"10.3109/19401736.2013.825772","DOIUrl":"https://doi.org/10.3109/19401736.2013.825772","url":null,"abstract":"<p><p>Accumulation of single nucleotide polymorphisms (SNPs) in the displacement loop (D-loop) of mitochondrial DNA (mtDNA) has been described in various types of cancers and might be associated with cancer risk and disease outcome. We identified 14 SNPs with a frequency higher than 5% and 5 SNPs associated with the risk of renal cell carcinoma (RCC) in a case-control study previously. In the present study, we assessed the relationship of these SNPs and the outcome of RCC patients, a SNP of 262C/T was identified by the log-rank test for statistically significant prediction of RCC survival. In an overall multivariate analysis, allele 262 was identified as an independent predictor of RCC outcome. The length of survival of patients with 262T was significantly shorter than that of patients with allele 262C (relative risk, 2.136, 95%CI, 1.863-2.449; p = 0.000). The analysis of genetic polymorphisms in the mitochondrial D-loop can help identify patients subgroup at high risk of a poor disease outcome.</p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"224-6"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.825772","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31720053","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 12
The complete mitochondrial genome of a flea, Jellisonia amadoi (Siphonaptera: Ceratophyllidae). 一只跳蚤的完整线粒体基因组。毛蚤翅目:毛蚤科。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-09-19 DOI: 10.3109/19401736.2013.825779
Stephen L Cameron
{"title":"The complete mitochondrial genome of a flea, Jellisonia amadoi (Siphonaptera: Ceratophyllidae).","authors":"Stephen L Cameron","doi":"10.3109/19401736.2013.825779","DOIUrl":"https://doi.org/10.3109/19401736.2013.825779","url":null,"abstract":"<p><p>The complete mitogenome sequence of the flea, Jellisonia amadoi (Siphonaptera: Ceratophyllidae), was sequenced. The 17,031 bp long genome has the standard metazoan complement of 37 genes, in the insect ancestral genome arrangement. The very large (2338 bp) A + T rich region is marked by two macro-repeats and multiple microsatellite and homopolymer regions. The protein-coding, rRNA and tRNA genes are all highly similar to homologues in related insect orders - similar length, few indels and high proportion of invariant sites. Sequencing of a flea mitogenome provides data for one of the last three insect orders from which data were lacking and provides further proof that parasitic life histories alone do not cause aberrant mitogenomes.</p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"289-90"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.825779","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31742209","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 8
The complete mitochondrial genome of Neopanorpa pulchra (Mecoptera: Panorpidae). 普尔氏新翅目:全景翅科线粒体全基因组。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2013-09-19 DOI: 10.3109/19401736.2013.825787
Qian Li, Shu-jun Wei, Min Shi, Xue-Xin Chen
{"title":"The complete mitochondrial genome of Neopanorpa pulchra (Mecoptera: Panorpidae).","authors":"Qian Li,&nbsp;Shu-jun Wei,&nbsp;Min Shi,&nbsp;Xue-Xin Chen","doi":"10.3109/19401736.2013.825787","DOIUrl":"https://doi.org/10.3109/19401736.2013.825787","url":null,"abstract":"<p><p>We describe the complete mitochondrial genome sequence of Neopanorpa pulchra (Mecoptera: Panorpidae). The sequence has a length of 16,314 bp (GenBank accession number JX569848) and the A + T content is as high as 77.46%. The genome contains 13 protein-coding genes, 22 transfer RNA genes, 2 ribosomal RNA genes and an A + T-rich region. The gene arrangement is conserved. All protein-coding genes start with ATN start codon. Seven protein-coding genes use TAA as stop codon while others use incomplete stop codons \"T\" or \"TA\". The A + T-region is located between rrnS and trnI with a length of 1531 bp.</p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"305-6"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.825787","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31742508","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
Complete mitochondrial genome of Germain's Peacock-Pheasant Polyplectron germaini (Aves, Galliformes, Phasianidae). 日耳曼孔雀雉(雉科，雉形目，雉科)的线粒体全基因组。
Mitochondrial Dna Pub Date : 2015-04-01 Epub Date: 2014-01-27 DOI: 10.3109/19401736.2013.830292
Destiny Omeire, Shaunte Abdin, Daniel M Brooks, Hector C Miranda
{"title":"Complete mitochondrial genome of Germain's Peacock-Pheasant Polyplectron germaini (Aves, Galliformes, Phasianidae).","authors":"Destiny Omeire,&nbsp;Shaunte Abdin,&nbsp;Daniel M Brooks,&nbsp;Hector C Miranda","doi":"10.3109/19401736.2013.830292","DOIUrl":"https://doi.org/10.3109/19401736.2013.830292","url":null,"abstract":"<p><p>The Germain's Peacock-Pheasant Polyplectron germaini (Aves, Galliformes, Phasianidae) is classified as Near Threatened on the IUCN Red List. The complete mitochondrial genome of P. germaini is 16,699 bp, consisting of 13 protein-coding genes, 2 rRNA, 22 tRNA genes and 1 control region. All of the 13 protein-coding genes have ATG as start codon. Eight of the 13 protein-coding genes have TAA as stop codon.</p>","PeriodicalId":49805,"journal":{"name":"Mitochondrial Dna","volume":"26 2","pages":"319-20"},"PeriodicalIF":0.0,"publicationDate":"2015-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.3109/19401736.2013.830292","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32058532","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
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