Representational difference analysis: Critical appraisal and method development for the identification of unique DNA sequences from prokaryotes

Natalie L. Allen, Charles W. Penn, Anthony C. Hilton*

*Corresponding author for this work

Research output: Contribution to journalArticle

Abstract

Representational difference analysis (RDA) has great potential for preferential amplification of unique but uncharacterised DNA sequences present in one source such as a whole genome, but absent from a related genome or other complex population of sequences. While a few examples of its successful exploitation have been published, the method has not been well dissected and robust, detailed published protocols are lacking. Here we examine the method in detail, suggest improvements and provide a protocol that has yielded key unique sequences from a pathogenic bacterial genome. © 2003 Elsevier Science B.V. All rights reserved.

Original languageEnglish
Pages (from-to)73-81
Number of pages9
JournalJournal of Microbiological Methods
Volume55
Issue number1
Early online date15 May 2003
DOIs
Publication statusPublished - Oct 2003

Keywords

  • driver
  • kinetic enrichment
  • RDA
  • representational difference analysis
  • subtractive hybridization
  • tester

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