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学科主题基础医学
Wavelet to predict bacterial ori and ter: a tendency towards a physical balance
Song, JZ; Ware, A; Liu, SL
刊名BMC GENOMICS
2003-05-05
4期:1
收录类别SCI
文章类型Article
WOS标题词Science & Technology
类目[WOS]Biotechnology & Applied Microbiology ; Genetics & Heredity
研究领域[WOS]Biotechnology & Applied Microbiology ; Genetics & Heredity
关键词[WOS]ASYMMETRIC SUBSTITUTION PATTERNS ; ESCHERICHIA-COLI CHROMOSOME ; COMPLETE GENOME SEQUENCE ; LONG-RANGE CORRELATIONS ; DNA-SEQUENCES ; SALMONELLA-TYPHI ; TERMINUS REGION ; REPLICATION ; ORIGINS ; STRANDS
英文摘要

Background: Chromosomal DNA replication in bacteria starts at the origin (ori) and the two replicores propagate in opposite directions up to the terminus (ter) region. We hypothesize that the two replicores need to reach ter at the same time to maintain a physical balance; DNA insertion would disrupt such a balance, requiring chromosomal rearrangements to restore the balance. To test this hypothesis, we needed to demonstrate that ori and ter are in a physical balance in bacterial chromosomes. Using wavelet analysis, we documented GC skew, AT skew, purine excess and keto excess on the published bacterial genomic sequences to locate the turning (minimum and maximum) points on the curves. Previously, the minimum point had been supposed to correlate with ori and the maximum to correlate with ter.

Results: We observed a strong tendency of the bacterial chromosomes towards a physical balance, with the minima and maxima corresponding to the known or putative ori and ter and being about half chromosome separated in most of the bacteria studied. A nonparametric method based on wavelet transformation was employed to perform significance tests for the predicted loci.

Conclusions: The wavelet approach can reliably predict the ori and ter regions and the bacterial chromosomes have a strong tendency towards a physical balance between ori and ter.

语种英语
WOS记录号WOS:000183250000001
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被引频次:28[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
版本出版稿
条目标识符http://ir.bjmu.edu.cn/handle/400002259/58923
专题北京大学基础医学院_病原生物学系
作者单位1.Univ Calgary, Dept Microbiol & Infect Dis, Calgary, AB, Canada
2.Univ Calgary, Dept Math & Stat, Calgary, AB T2N 1N4, Canada
3.Peking Univ, Sch Basic Med Sci, Dept Microbiol, Beijing 100871, Peoples R China
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GB/T 7714
Song, JZ,Ware, A,Liu, SL. Wavelet to predict bacterial ori and ter: a tendency towards a physical balance[J]. BMC GENOMICS,2003,4(1).
APA Song, JZ,Ware, A,&Liu, SL.(2003).Wavelet to predict bacterial ori and ter: a tendency towards a physical balance.BMC GENOMICS,4(1).
MLA Song, JZ,et al."Wavelet to predict bacterial ori and ter: a tendency towards a physical balance".BMC GENOMICS 4.1(2003).
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