Whole Genome Analysis Using Microarrays

  • S. J. WaddellEmail author
  • J. Hinds
  • P.D. Butcher
Part of the Methods in Molecular Biology book series (MIMB, volume 465)


The development of microarray technology has allowed the genomes of mycobacteria to be directly compared to identify DNA regions that differ between strains due to deletion, insertion, or sequence divergence. The use of microarrays in comparative genomics has proved to be a valuable tool for comparing both mycobacterial species and strains. We describe here the methodology for comparing two mycobacterial DNA samples by microarray hybridization, from labeling and slide preparation, to DNA microarray analysis options. Further developments in microarray design and methodology promise to ensure that microarrays remain an important resource for comparative genomic studies in the future.


comparative genomics deletion analysis hybridization microarray Mycobacterium 



S.J.W. was funded by an EU STREP Sixth Framework Programme Priority (LHP-CT-2004-012187). S.J.W., J.H., and P.D.B. would like to thank Kate Gould for her critical reading of the manuscript and acknowledge the Wellcome Trust and its Functional Genomics Resources Initiative for funding the multicollaborative microbial pathogen microarray facility at St. George’s (BμG@S).


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Copyright information

© Humana Press, a part of Springer Science+Business Media, LLC 2009

Authors and Affiliations

  1. 1.Medical Microbiology, Division of Cellular & Molecular MedicineSt. George’s University of LondonLondonUK
  2. 2.Division of Cellular and Molecular MedicineSt. George’s University of LondonLondonUK

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