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Applied and Environmental Microbiology, September 2005, p. 4979-4985, Vol. 71, No. 9
0099-2240/05/$08.00+0     doi:10.1128/AEM.71.9.4979-4985.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.

Identification of Novel Salmonella enterica Serovar Typhimurium DT104-Specific Prophage and Nonprophage Chromosomal Sequences among Serovar Typhimurium Isolates by Genomic Subtractive Hybridization

Armand P. H. M. Hermans,1,2* Tjakko Abee,2 Marcel H. Zwietering,2 and Henk J. M. Aarts1

RIKILT Institute of Food Safety, 6700 AE Wageningen,1 Laboratory of Food Microbiology, Agrotechnology and Food Sciences Group, Wageningen University, 6700 EV Wageningen, The Netherlands2

Received 20 August 2004/ Accepted 23 March 2005

Genomic subtractive hybridization was performed between Salmonella enterica serovar Typhimurium LT2 and DT104 to search for novel Salmonella serovar Typhimurium DT104-specific sequences. The subtraction resulted mainly in the isolation of DNA fragments with sequence similarity to phages. Two fragments identified were associated with possible virulence factors. One fragment was identical to irsA of Salmonella serovar Typhimurium ATCC 14028, which is suggested to be involved in macrophage survival. The other fragment was homologous to HldD, an Escherichia coli O157:H7 lipopolysaccharide assembly-related protein. Five selected DNA fragments—irsA, the HldD homologue, and three fragments with sequence similarity to prophages—were tested for their presence in 17 Salmonella serovar Typhimurium DT104 isolates and 27 non-DT104 isolates by PCR. All five selected DNA fragments were Salmonella serovar Typhimurium DT104 specific among the serovar Typhimurium isolates tested. These DNA fragments can be useful for better detection and typing of Salmonella serovar Typhimurium DT104.

* Corresponding author. Mailing address: RIKILT Institute of Food Safety, P.O. Box 230, 6700 AE Wageningen, The Netherlands. Phone: (31) 317-475556. Fax: (31) 317-477717. E-mail: armand.hermans{at}wur.nl.

Applied and Environmental Microbiology, September 2005, p. 4979-4985, Vol. 71, No. 9
0099-2240/05/$08.00+0     doi:10.1128/AEM.71.9.4979-4985.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.



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