Cluster Analysis of Restriction Fragment Length Polymorphism Patterns of <I>Mycobacterium tuberculosis</I> Isolated in Chiba Prefecture

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  • 千葉県で分離された結核菌のRestriction Fragment Length Polymorphismパターンのクラスター分析
  • チバケン デ ブンリ サレタ ケッカクキン ノ Restriction Fragment Length Polymorphism パターン ノ クラスター ブンセキ
  • Cluster Analysis of Restriction Fragment Length Polymorphism Patterns of Mycobacterium tuberculosis Isolated in Chiba Prefecture

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Abstract

Methods for cluster analysis of IS 6110 based restriction fragment length polymorphism (RFLP) patterns of Mycobacterium tuberculosis isolates were studied for an epidemiological investigation in Chiba prefecture. To normalize patterns, external size markers were adopted instead of typical internal size markers used in the standard method. RFLP patterns were run on 1.4%agarose gels and external markers were applied to outside and middle lanes on each gel for precise comparison. The resulting RFLP patterns of 74 isolates were clustered by similarity. Similarity was calculated with the Dice coefficient using parameter settings at 0.8%tolerance and 0.5%optimization. Patterns of 19 isolates from 8 outbreaks showed high similarity within each outbreak. Cluster analysis, as described here, provides insights into epidemiological tracing of tuberculosis in Chiba prefecture.

Journal

  • Kansenshogaku Zasshi

    Kansenshogaku Zasshi 79 (9), 672-679, 2005

    The Japanese Association for Infectious Diseases

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