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United States Department of Agriculture

Agricultural Research Service

Research Project: IDENTIFICATION AND CHARACTERIZATION OF GENES AFFECTING COOL AND COLD WATER AQUACULTURE PRODUCTION

Location: Cool and Cold Water Aquaculture Research

Title: Amplified Intergenic Locus Polymorphism As a Basis for Bacterial Typing of Listeria Ssp. and Escherichia Coli

Authors
item Somer, Lilach - THE TECHNION INST, ISREAL
item Danin-Poleg, Yael - THE TECHNION INST, ISREAL
item Diamant, Eran - THE TECHNION INST, ISREAL
item Palti, Yniv
item Kashi, Yecheskel - THE TECHNION INST, ISREAL

Submitted to: Applied and Environmental Microbiology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: June 1, 2005
Publication Date: June 1, 2005
Citation: Somer, L., Danin-Poleg, Y., Diamant, E., Palti, Y., Kashi, Y. 2005. Amplified intergenic locus polymorphism as a basis for bacterial typing of listeria ssp. and escherichia coli. Applied and Environmental Microbiology. 71(6):3144-3152.

Interpretive Summary: DNA-based methods are increasingly important for bacterial typing. The high number of polymorphic sites present among closely related bacterial genomes is the basis for the method described in this paper. The method identifies multilocus genomic polymorphisms in intergenic regions termed AILP (amplified intergenic locus polymorphism). This AILP polymorphism can be explored further to enable devolvement of diagnostic tools for rapid identification of pathogenic strains in clinical samples as well as food for humans and in animal feed. This model for rapid identification of pathogenic strains can be adapted for early detection of bacterial pathogens of fish and live-stock once the genome of such pathogens is sequenced.

Technical Abstract: DNA-based methods are increasingly important for bacterial typing. The high number of polymorphic sites present among closely related bacterial genomes is the basis for the presented method. The method identifies multilocus genomic polymorphisms in intergenic regions termed AILP (amplified intergenic locus polymorphism). For each locus, a pair of unique PCR primers was designed to amplify an intergenic sequence from one open reading frame (ORF) to the adjacent ORF. Presence, absence, and size variation of the amplification products were identified and used as genetic markers for rapidly differentiating among strains. Polymorphism was evaluated using 18 AILP sites among 28 strains of Listeria monocytogenes and 6 strains of Listeria spp. And 30 AILP markers among 27 strains of Escherichia coli. Up to four alleles per locus were identified among Listeria strains, and up to six were identified among E. coli strains. In both species, more than half of the AILP sites revealed intraspecies polymorphism. The AILP data were applied to phylogenetic analysis among Listeria and E. coli strains. A clear distinction between L. monocytogenes and Listeria spp. was demonstrated. In addition, the method separated L. monocytogenes into the three known lineages and discriminated the most common virulent serotypic group, 4b. In E. coli, AILP analysis separated the known groups as well as the virulent O157:H7 isolates. These findings for both Listeria and E. coli are in agreement with other Phylogenetic studies using molecular markers. The AILP method was found to be rapid, simple, reproducible, and a low-cost method for initial bacterial typing that could serve as a basis for epidemiological investigation.

Last Modified: 4/19/2014
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