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CVTree: a phylogenetic tree reconstruction tool based on whole genomes
Qi, J; Luo, H; Hao, BL; Qi, J , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.
2004
发表期刊NUCLEIC ACIDS RESEARCH
ISSN0305-1048
卷号32期号:0页码:W45-W47
摘要Composition Vector Tree (CVTree) implements a systematic method of inferring evolutionary relatedness of microbial organisms from the oligopeptide content of their complete proteomes (http://cvtree.cbi.pku.edu.cn). Since the first bacterial genomes were sequenced in 1995 there have been several attempts to infer prokaryote phylogeny from complete genomes. Most of them depend on sequence alignment directly or indirectly and, in some cases, need fine-tuning and adjustment. The composition vector method circumvents the ambiguity of choosing the genes for phylogenetic reconstruction and avoids the necessity of aligning sequences of essentially different length and gene content. This new method does not contain 'free' parameter and 'fine-tuning'. A bootstrap test for a phylogenetic tree of 139 organisms has shown the stability of the branchings, which support the small subunit ribosomal RNA (SSU rRNA) tree of life in its overall structure and in many details. It may provide a quick reference in prokaryote phylogenetics whenever the proteome of an organism is available, a situation that will become commonplace in the near future.
部门归属Acad Sinica, Inst Theoret Phys, Beijing 100080, Peoples R China; Peking Univ, Ctr Bioinformat, Beijing 100871, Peoples R China; Fudan Univ, T Life Res Ctr, Shanghai 200433, Peoples R China
关键词Information Origin Update
学科领域Physics
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收录类别SCI
WOS记录号WOS:000222273100009
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被引频次:82[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.itp.ac.cn/handle/311006/14052
专题理论物理所1978-2010年知识产出
通讯作者Qi, J , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.
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Qi, J,Luo, H,Hao, BL,et al. CVTree: a phylogenetic tree reconstruction tool based on whole genomes[J]. NUCLEIC ACIDS RESEARCH,2004,32(0):W45-W47.
APA Qi, J,Luo, H,Hao, BL,&Qi, J , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China..(2004).CVTree: a phylogenetic tree reconstruction tool based on whole genomes.NUCLEIC ACIDS RESEARCH,32(0),W45-W47.
MLA Qi, J,et al."CVTree: a phylogenetic tree reconstruction tool based on whole genomes".NUCLEIC ACIDS RESEARCH 32.0(2004):W45-W47.
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