Distilling artificial recombinants from large sets of complete mtDNA genomes
文献类型：期刊论文
| 作者 | Kong QP1,2; Salas A3; Sun C1; Fuku N4; Tanaka M4; Zhong L2; Wang CY1; Yao YG1,5; Bandelt HJ[*]6 |
| 刊名 | PLOS ONE
 |
| 出版日期 | 2008 |
| 卷号 | 3期号:8页码:e3016 |
| 通讯作者 | bandelt@math.uni-hamburg.de |
| 合作状况 | 其它 |
| 英文摘要 | BACKGROUND: Large-scale genome sequencing poses enormous problems to the logistics of laboratory work and data handling. When numerous fragments of different genomes are PCR amplified and sequenced in a laboratory, there is a high imminent risk of sample confusion. For genetic markers, such as mitochondrial DNA (mtDNA), which are free of natural recombination, single instances of sample mix-up involving different branches of the mtDNA phylogeny would give rise to reticulate patterns and should therefore be detectable. METHODOLOGY/PRINCIPAL FINDINGS: We have developed a strategy for comparing new complete mtDNA genomes, one by one, to a current skeleton of the worldwide mtDNA phylogeny. The mutations distinguishing the reference sequence from a putative recombinant sequence can then be allocated to two or more different branches of this phylogenetic skeleton. Thus, one would search for two (or three) near-matches in the total mtDNA database that together best explain the variation seen in the recombinants. The evolutionary pathway from the mtDNA tree connecting this pair together with the recombinant then generate a grid-like median network, from which one can read off the exchanged segments. CONCLUSIONS: We have applied this procedure to a large collection of complete human mtDNA sequences, where several recombinants could be distilled by our method. All these recombinant sequences were subsequently corrected by de novo experiments--fully concordant with the predictions from our data-analytical approach. |
| 收录类别 | SCI |
| 资助信息 | The work was supported by grants from National Basic Research Program of China (No. 2007CB507405) and ‘‘Light in Western China’’ of the Chinese Academy of Sciences (to Q-PK). Y-GY was supported by the Chinese Academy of Sciences. |
| 语种 | 英语 |
| 公开日期 | 2010-10-28 |
| 源URL | [http://159.226.149.42:8088/handle/152453/6338]  |
| 专题 | 昆明动物研究所_分子人类学 昆明动物研究所_动物模型与人类重大疾病机理重点实验室 昆明动物研究所_遗传资源与进化国家重点实验室 昆明动物研究所_重大疾病机理的遗传学 |
| 作者单位 | 1.Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China 2.Yunnan Univ, Laboratory for Conservat & Utilizat Bio Resource, Kunming, Peoples R China 3.Univ Santiago Compostela, Fac Med, Inst Med Legal, Unidade Xenet, Galicia, Spain 4.Tokyo Metropolitan Inst Gerontol, Dept Genom Longevity & Hlth, Tokyo, Japan 5.Chinese Acad Sci, Kunming Inst Zool, Key Lab Anim Models & Human Dis Mechanisms, Beijing 100864, Peoples R China 6.Univ Hamburg, Dept Math, Hamburg, Germany |
| 推荐引用方式 GB/T 7714 | Kong QP,Salas A,Sun C,et al. Distilling artificial recombinants from large sets of complete mtDNA genomes[J]. PLOS ONE,2008,3(8):e3016. |
| APA | Kong QP.,Salas A.,Sun C.,Fuku N.,Tanaka M.,...&Bandelt HJ[*].(2008).Distilling artificial recombinants from large sets of complete mtDNA genomes.PLOS ONE,3(8),e3016. |
| MLA | Kong QP,et al."Distilling artificial recombinants from large sets of complete mtDNA genomes".PLOS ONE 3.8(2008):e3016. |
入库方式： OAI收割
来源：昆明动物研究所
浏览0
下载0
收藏0
其他版本
除非特别说明，本系统中所有内容都受版权保护，并保留所有权利。