PCR-based subtractive hybridization and differences in gene content among strains of Helicobacter pylori.

Journal Article (Journal Article)

Genes that are characteristic of only certain strains of a bacterial species can be of great biologic interest. Here we describe a PCR-based subtractive hybridization method for efficiently detecting such DNAs and apply it to the gastric pathogen Helicobacter pylori. Eighteen DNAs specific to a monkey-colonizing strain (J166) were obtained by subtractive hybridization against an unrelated strain whose genome has been fully sequenced (26695). Seven J166-specific clones had no DNA sequence match to the 26695 genome, and 11 other clones were mixed, with adjacent patches that did and did not match any sequences in 26695. At the protein level, seven clones had homology to putative DNA restriction-modification enzymes, and two had homology to putative metabolic enzymes. Nine others had no database match with proteins of assigned function. PCR tests of 13 unrelated H. pylori strains by using primers specific for 12 subtracted clones and complementary Southern blot hybridizations indicated that these DNAs are highly polymorphic in the H. pylori population, with each strain yielding a different pattern of gene-specific PCR amplification. The search for polymorphic DNAs, as described here, should help identify previously unknown virulence genes in pathogens and provide new insights into microbial genetic diversity and evolution.

Full Text

Duke Authors

Cited Authors

  • Akopyants, NS; Fradkov, A; Diatchenko, L; Hill, JE; Siebert, PD; Lukyanov, SA; Sverdlov, ED; Berg, DE

Published Date

  • October 27, 1998

Published In

Volume / Issue

  • 95 / 22

Start / End Page

  • 13108 - 13113

PubMed ID

  • 9789049

Pubmed Central ID

  • PMC23726

International Standard Serial Number (ISSN)

  • 0027-8424

Digital Object Identifier (DOI)

  • 10.1073/pnas.95.22.13108


  • eng

Conference Location

  • United States