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United States Department of Agriculture

Agricultural Research Service

Research Project: Genomic and Proteomic Analysis of Foodborne Pathogens

Location: Molecular Characterization of Foodborne Pathogens

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Survival of Campylobacter species after cryogenic freezing in ground turkey patties treated with polyphosphates - (Peer Reviewed Journal)
(08-Sep-14)
Molecular characterization of shiga toxin-producing E. coli (STEC) from finishing swine in a longitudinal study - (Peer Reviewed Journal)
Tseng, M., Fratamico, P.M., Bagi, L.K., Delannoy, S., Fach, P., Manning, S., Funk, J. 2014. Molecular characterization of shiga toxin-producing E. coli (STEC) from finishing swine in a longitudinal study. Applied and Environmental Microbiology. DOI: 10.1128/AEM.01761-14.
Light scattering sensor for direct identification of colonies of Escherichia coli serogroups O26, O45, O103, O111, O121, O145 and O157 - (Peer Reviewed Journal)
Tang, Y., Kim, H., Singh, A., Aroonnal, A., Rajwa, B., Bae, E., Fratamico, P.M., Bhunia, A. 2014. Light scattering sensor for direct identification of colonies of Escherichia coli serogroups O26, O45, O103, O111, O121, O145 and O157. PLoS One. DOI:10.1371/journal.pone.0105272.
Impact of sod on the expression of stress-related genes in Listeria monocytogenes 4b G with/without paraquat treatment - (Peer Reviewed Journal)
(19-Jun-14)
Detection of Shiga toxin-producing Escherichia coli (STEC) O157:H7, O26, O45, O103, O111, O121, and O145, and Salmonella in retail raw ground beef using the DuPont BAX system - (Peer Reviewed Journal)
Wasilenko, J.L., Fratamico, P.M., Sommers, C.H., Demarco, D., Varkey, S., Rhoden, K., Tice, G. 2014. Detection of Shiga toxin-producing Escherichia coli (STEC) O157:H7, STEC Serogroups O26, O45, O103, O111, O121, and O145, and Salmonella in Naturally-Contaminated Ground Beef Using the BAX System-Based PCR kits. Frontiers in Cellular and Infection Microbiology. DOI: 10.3389/fcimb.2014.00081.
Shiga toxin-producing E. coli (STEC) in swine: prevalence over the finishing period and characterization of the STEC isolates - (Peer Reviewed Journal)
Tseng, M., Fratamico, P.M., Bagi, L.K., Manzinger, D., Funk, J. 2014. Shiga toxin-producing E. coli (STEC) in swine: prevalence over the finishing period and characterization of the STEC isolates. Epidemiology and Infection. DOI:10.1017/S0950268814001095.
Detection and isolation of Shiga toxin-producing Escherichia coli (STEC) O104 and other STEC serogroups of public health concern - (Abstract Only)
(25-Mar-14)
Molecular serotyping of Escherichia coli: A verification and reclassification - (Abstract Only)
Yan, X., Fratamico, P.M., Tebbs, R., O'Connell, C., Baranzoni, G., Allred, A., Swimley, M., Debroy, C. 2014. Molecular serotyping of Escherichia coli: A verification and reclassification. Meeting Abstract. MA.
Non-O157 Shiga toxin-producing Escherichia coli - (Book / Chapter)
(24-Feb-14)
Complete genome sequence and comparison of two Shiga toxin-producing Escherichia coli O104 isolates - (Abstract Only)
Yan, X., Fratamico, P.M., Bono, J.L., Baranzoni, G., Tebbs, R., O'Connell, C. 2014. Complete genome sequence and comparison of two Shiga toxin-producing Escherichia coli O104 isolates. Meeting Abstract. MA.
DNA sequence and analysis of the O-antigen gene clusters of Escherichia coli serogroups O62, O68, O131, O140, O142, and O163 and serogroup-specific PCR assays - (Abstract Only)
Liu, Y., Fratamico, P.M., Debroy, C., Yan, X., Needleman, D.S., Li, R.W., Wang, W., Losada, L., Brinkac, L., Rodune, D., Toro, M., Meng, J. 2014. DNA sequence and analysis of the O-antigen gene clusters of Escherichia coli serogroups O62, O68, O131, O140, O142, and O163 and serogroup-specific PCR assays. Meeting Abstract. March 22-25, 2014.
Detection and isolation of shiga toxin-producing Escherichia coli (STEC) O104 from sprouts     Reprint Icon - (Peer Reviewed Journal)
Baranzoni, G., Fratamico, P.M., Rubio, F., Glaze, G., Bagi, L.K., Albonetti, S. 2013. Detection and isolation of shiga toxin-producing Escherichia coli (STEC) O104 from sprouts. International Journal of Food Microbiology. 173:99-104.
Hafnia, the genus - (Book / Chapter)
Smith, J.L. 2014. Hafnia, the genus. In: Batt, C.A., Tortorello, M.L.(Eds.), Encyclopedia of Food Microbiology. Vol 2. Elsevier Ltd, Academic Press, p. 117-120.
Food safety concerns in the U.S. and research on Shiga Toxin-producing E. coli - (Proceedings)
Fratamico, P.M., Baranzoni, G. 2013. Food safety concerns in the U.S. and research on Shiga Toxin-producing E. coli. UJNR Food & Agricultural Panel Proceedings. P.
Shiga toxin-producing Escherichia coli in swine: the public health perspective - (Review Article)
Tseng, M., Fratamico, P.M., Manning, S., Funk, J.A. 2014. Shiga toxin-producing Escherichia coli in swine: the public health perspective. Animal Health Research Reviews. Cambridge University Press 2014. DOI:10.1017/S14662523130000170.
Evaluation of a multiplex real-time PCR method for detecting Shiga toxin-producing Escherichia coli in beef and comparison to the FSIS microbiology laboratory guidebook method     Reprint Icon - (Peer Reviewed Journal)
Fratamico, P.M., Wasilenko, J.L., Garman, B., Demarco, D., Varkey, S., Jensen, M., Rhoden, K., Tice, G. 2013. Evaluation of a multiplex real-time PCR method for detecting Shiga toxin-producing Escherichia coli in beef and comparison to the FSIS microbiology laboratory guidebook method. Journal of Food Protection. 77:180-188.
Vtec in the Usa - (Abstract Only)
Fratamico, P.M. 2013. VTEC in the USA. Meeting Abstract. MA.
Escherichia coli and other Enterobacteriaceae: Food poisoning and health effects - (Book / Chapter)
(02-Sep-13)
Non-labeled quantitative proteomic comparison identifies differences in acid resistance between Escherichia coli O157:H7 curli production variants     Reprint Icon - (Peer Reviewed Journal)
Gunther, N.W., Liu, Y., Nunez, A., Paul, M., Uhlich, G.A. 2014. Non-labeled quantitative proteomic comparison identifies differences in acid resistance between Escherichia coli O157:H7 curli production variants. Foodborne Pathogens and Disease. 11:30-37.
Shiga toxin-producing Escherichia coli - (Book / Chapter)
Smith, J.L., Fratamico, P.M., Gunther, N.W. 2014. Shiga toxin-producing Escherichia coli. Advances in Applied Microbiology. 86:145-197.
Construction of Listeria monocytogenes mutants with in-frame Deletions in the phosphotransferase transport system (PTS) and analysis of their growth under stress conditions - (Abstract Only)
Liu, Y. 2013. Construction of Listeria monocytogenes mutants with in-frame Deletions in the phosphotransferase transport system (PTS) and analysis of their growth under stress conditions. Meeting Abstract. pp.6-7.
Construction of Listeria monocytogenes mutants with in-frame deletions in the Phosphotransferase Transport System (PTS) and analysis of their growth under stress conditions     Reprint Icon - (Peer Reviewed Journal)
Liu, Y., Ceruso, M., Jiang, Y., Datta, A.R., Carter, L., Strain, E., Pepe, T., Anastasi, A., Fratamico, P.M. 2013. Construction of Listeria monocytogenes mutants with in-frame deletions in the Phosphotransferase Transport System (PTS) and analysis of their growth under stress conditions. Journal of Food Science. 78:1392-1398.
A simulated metagenomic approach for bacterial serotyping using shotgun genome sequences coupled with O-Antigen gene cluster analysis - (Abstract Only)
Yan, X., Chen, C., Hu, J., Fratamico, P.M. 2013. A simulated metagenomic approach for bacterial serotyping using shotgun genome sequences coupled with O-Antigen gene cluster analysis. Meeting Abstract. MA.
Assessment of enhanced surveillance for non-O157 STEC in beef in the USA - (Popular Publication)
Fratamico, P.M. 2013. Assessment of enhanced surveillance for non-O157 STEC in beef in the USA. Safefood VTEC Knowledge Network E-Newsletter. safefood nig.com.
Detection of Shiga toxin-producing Escherichia coli (STEC) O157:H7, STEC serogroups O26, O45, O103, O111, O121, and O145, and Salmonella in naturally-contaminated ground beef using the BAX system-based PCR kits - (Abstract Only)
Wasilenko, J.L., Fratamico, P.M., Sommers, C.H., Demarco, D.R., Varkey, S., Rhoden, K., Tice, G. 2013. Detection of Shiga toxin-producing Escherichia coli (STEC) O157:H7, STEC serogroups O26, O45, O103, O111, O121, and O145, and Salmonella in naturally-contaminated ground beef using the BAX system-based PCR kits. Meeting Abstract. MA.
Gene expression profiling of a nisin-sensitive Listeria monocytogenes Scott A CtsR deletion mutant - (Peer Reviewed Journal)
Liu, Y., Morgan, S.L., Ream, A.R., Huang, L. 2012. Gene expression profiling of a nisin-sensitive Listeria monocytogenes Scott A CtsR deletion mutant. Journal of Industrial Microbiology and Biotechnology. 40(5):495-505.
How does Listeria monocytogenes combat acid conditions? - (Review Article)
Smith, J.L., Liu, Y., Paoli, G. 2012. How does Listeria monocytogenes combat acid conditions?. Canadian Journal of Microbiology. 59:141-152.
Construction of Listeria monocytogenes mutants with in-frame deletions in putative ATP-binding cassette (ABC) transporters and analysis of their growth under stress conditions - (Peer Reviewed Journal)
Liu, Y., Ceruso, M., Pepe, T., Cortesi, M., Gunther, N.W., Fratamico, P.M. 2012. Construction of Listeria monocytogenes mutants with in-frame deletions in putative ATP-binding cassette (ABC) transporters and analysis of their growth under stress conditions. Journal of Microbial and Biochemical Technology. 4(7):141-146.
Cronobacter (Enterobacter) sakazakii - (Book / Chapter)
Yan, X., Gurtler, J. 2014. Cronobacter (Enterobacter) sakazakii. Encyclopedia of Food Microbiology. vol 1. In: Batt, C.A., Tortorello, M.L. (Eds.), Elsevier Ltd, Academic Press. pp. 528-532.
Detection of non-O157 STEC in ground beef using the GeneDisc real-time PCR system - (Peer Reviewed Journal)
Fratamico, P.M., Bagi, L.K. 2012. Detection of non-O157 STEC in ground beef using the GeneDisc real-time PCR system. Frontiers in Cellular and Infection Microbiology. DOI: 10.3389/fcimb.2012.00152.
Fermentation optimization and antioxidant activities of mycelial polysaccharides from Morchella esculenta using soybean residues     Reprint Icon - (Peer Reviewed Journal)
Gang, J., Fang, Y., Wang, Z., Liu, Y. 2013. Fermentation optimization and antioxidant activities of mycelial polysaccharides from Morchella esculenta using soybean residues. African Journal of Biotechnology. 12(11):1239-1249.
The expression of superoxide dismutase (SOD) and a putative ABC transporter permease is inversely correlated during biofilm formation in Listeria monocytogenes 4b G - (Peer Reviewed Journal)
Suo, Y., Huang, Y., Liu, Y., Shi, C., Shi, X. 2012. The expression of superoxide dismutase (SOD) and a putative ABC transporter permease is inversely correlated during biofilm formation in Listeria monocytogenes 4b G. PLoS One. 7:e48467.
Methods for detection, isolation, and identification of Non-O157 shiga toxin-producing Escherichia coli - (Proceedings)
Fratamico, P.M., Wasilenko, J.L., Medina, M.B., Sommers, C.H. 2012. Methods for detection, isolation, and identification of Non-O157 shiga toxin-producing Escherichia coli. United States Japan Natural Resources Protein Panel. MA.
Phylogenetic identification of bacterial MazF toxin protein motifs among probiotic strains and foodborne pathogens and potential implications of engineered probiotic intervention in food     Reprint Icon - (Peer Reviewed Journal)
Yan, X., Gurtler, J., Fratamico, P.M., Hu, J., Juneja, V.K. 2012. Phylogenetic identification of bacterial MazF toxin protein motifs among probiotic strains and foodborne pathogens and potential implications of engineered probiotic intervention in food. BioMed Central(BMC) Cell & Bioscience. 2:39.
Characterization and comparative analysis of a second thermonuclease in Staphylococcus aureus     Reprint Icon - (Peer Reviewed Journal)
Hu, Y., Meng, J., Shi, C., Hervin, K., Fratamico, P.M., Shi, X. 2013. Characterization and comparative analysis of a second thermonuclease in Staphylococcus aureus. Microbiological Research. 168(3):174-182.
Effect of stress on non-O157 Shiga toxin-producing Escherichia coli - (Review Article)
Smith, J.L., Fratamico, P.M. 2012. Effect of stress on non-O157 Shiga toxin-producing Escherichia coli. Journal of Food Protection. 75(12):2241-2250.
Epidemiology of Shiga toxin-producing Escherichia coli (STEC) in finishing swine - (Abstract Only)
(12-Aug-12)
Influence of primer sequences and DNA extraction method on detection of non-O157 Shiga toxin-producing Escherichia coli in ground beef by real-time PCR targeting the eae, stx, and serogroup-specific genes     Reprint Icon - (Peer Reviewed Journal)
Wasilenko, J.L., Fratamico, P.M., Narang, N., Tillman, G.E., Ladely, S.R., Cray Jr, W.C. 2012. Influence of primer sequences and DNA extraction method on detection of non-O157 Shiga toxin-producing Escherichia coli in ground beef by real-time PCR targeting the eae, stx, and serogroup-specific genes. Journal of Food Protection. 75(11):1939-50.
Detection of foodborne pathogens using microarray technology - (Abstract Only)
(11-Jun-12)
Escherichia coli O157 and other Shiga toxin producting E. coli: detection by immunomagnetic particle-based assays - (Book / Chapter)
Fratamico, P.M., Gehring, A.G. 2014. Escherichia coli O157 and other Shiga toxin producting E. coli: detection by immunomagnetic particle-based assays. In: Batt, C.A., Tortorello, M.L. (Eds.), Encyclopedia of Food Microbiology. Vol.1. Elsevier Ltd., Academic Press.
Isolation of Shiga toxin-producing Escherichia coli serogroups O26, O45, O103, O111, O121 and O145 from ground beef using modified rainbow agar and post-immunomagnetic separation acid treatment     Reprint Icon - (Peer Reviewed Journal)
Tillman, G., Wasilenko, J.L., Simmons, M., Lauze, T., Miniocozzi, J., Oakley, B., Narang, N., Fratamico, P.M., Cray, W. 2012. Isolation of Shiga toxin-producing Escherichia coli serogroups O26, O45, O103, O111, O121 and O145 from ground beef using modified rainbow agar and post-immunomagnetic separation acid treatment. Journal of Food Protection. 75:1548-1554.
Prevention, control, and treatment: food, animal, and human - (Abstract Only)
(07-May-12)
Purification, characterization and decolorization of bilirubin oxidase from Myrothecium verrucaria 3.2190     Reprint Icon - (Peer Reviewed Journal)
Han, X., Zhao, M., Lu, L., Liu, Y. 2012. Purification, characterization and decolorization of bilirubin oxidase from Myrothecium verrucaria 3.2190. Fungal Biology. 116(8):863-871.
Advances in genomic- and proteomic-based methods to study food-borne pathogens - (Book / Chapter)
(25-Apr-12)
Genes that are involved in high hydrostatic pressure treatments in a Listeria monocytogenes Scott A ctsR deletion mutant     Reprint Icon - (Peer Reviewed Journal)
Liu, Y., Huang, L., Joerger, R.D., Gunther, N.W. 2012. Genes that are involved in high hydrostatic pressure treatments in a Listeria monocytogenes Scott A ctsR deletion mutant. Journal of Microbial and Biochemical Technology. 4:050-056.
pH fractionation and identification of proteins: comparing column isoelectric focusing vs liquid based focusing techniques - (Peer Reviewed Journal)
Gunther, N.W., Paul, M., Nunez, A., Liu, Y. 2012. pH fractionation and identification of proteins: comparing column isoelectric focusing vs liquid based focusing techniques. Journal of Separation Science. 35(12):1399-1406.
DNA sequence and analysis of a 90.1 kb virulence plasmid in shiga toxin-producing Escherichia coli (STEC) O145:NM 83-75 - (Peer Reviewed Journal)
Yan, X., Fratamico, P.M., Needleman, D.S., Bayles, D.O. 2012. DNA sequence and analysis of a 90.1 kb virulence plasmid in shiga toxin-producing Escherichia coli (STEC) O145:NM 83-75. Plasmid Journal. 68:25-32.
Methods of detection and characterization of pathogenic Escherichia coli - (Book / Chapter)
Feng, P., Strockbine, N., Fratamico, P.M. 2012. Methods of detection and characterization of pathogenic Escherichia coli. In: Eds.UNESCO-EOLSS Joint Committee. Encyclopedia of Life Support Systems. Oxford,UK: Eolss Publishers. Available: http://www.eolss.net.
Application of ozonated dry ice (AligalTM Blue Ice) for packaging and transport in the food industry - (Peer Reviewed Journal)
Fratamico, P.M., Juneja, V.K., Annous, B.A., Rasanayagam, V., Sundar, M., Braithwaite, D., Fisher, S. 2012. Application of ozonated dry ice (AligalTM Blue Ice) for packaging and transport in the food industry. Journal of Food Science. 77(5):M285-M291.
Bs-Knn: An Effective Algorithm for Predicting Protein Subchloroplast Localization - (Peer Reviewed Journal)
Hu, J., Yan, X. 2012. BS-KNN: an effective algorithm for predicting protein subchloroplast localization. Evolutionary Bioinformatics. 8:79-87.
Detection of O antigens in Escherichia coli - (Review Article)
Debroy, C., Roberts, E., Fratamico, P.M. 2012. Detection of O antigens in Escherichia coli. Animal Health Research Reviews. Cambridge University Press. England. 12(2):169-185.
Prevalence, distribution, and molecular characterization of Salmonella recovered from swine finishing herds and a slaughter facility in Santa Catarina, Brazil     Reprint Icon - (Peer Reviewed Journal)
Kich, J.D., Coldebella, A., Mores, N., Nogueira, M.G., Cardoso, M., Fratamico, P.M., Call, J.E., Cray, P.J., Luchansky, J.B. 2011. Prevalence, distribution, and molecular characterization of Salmonella recovered from swine finishing herds and a slaughter facility in Santa Catarina, Brazil. International Journal of Food Microbiology. 151(3):307-313.
Pathogenic Escherichia coli - (Book / Chapter)
(30-May-11)
Detection of Escherichia coli O157:H7 in food using real-time multiplex PCR assays targeting the stx1, stx2, wzyo157, and the fliCh7 or eae genes - (Peer Reviewed Journal)
Fratamico, P.M., Debroy, C. 2010. Detection of Escherichia coli O157H7 in food using real-time multiplex PCR assays targeting the stx1, stx2, wzyo157, and the fliCh7 or eae genes. Food Analytical Methods. 3:330-337.
Last Modified: 9/20/2014
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