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                    U.S. DEPARTMENT OF AGRICULTURE
 Meat Safety and Quality: Clay Center, NE
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ARS Home Plains Area Clay Center, Nebraska U.S. Meat Animal Research Center Meat Safety and Quality People & Locations







Dayna M Harhay
                        Meat Safety and Quality

                        




                        
                        Research Microbiologist
                        Phone: (402) 762-4343
                        
                        
                        Fax: (402) 762-4375(Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
                            ProjectsIdentification, Genomic Characterization, and Metabolic Modeling of Foodborne Pathogens in the Meat Production Continuum
                                                    In-House Appropriated
                                                                    (D)Accession Number: 435565Collective Dynamics of Environmental Multispecies Biofilms That Facilitate Sanitizer Tolerance and Dissemination of Foodborne Pathogens
                                                    Reimbursable Cooperative Agreement
                                                                    (R)Accession Number: 438724Developing a Quantitative Salmonella Baseline and Characterizing Salmonella Isolates from Ground Beef in the United States
                                                    Reimbursable Cooperative Agreement
                                                                    (R)Accession Number: 443935Understanding the Impact of the Farm and Lairage Environments on Salmonella Contamination in Market Hogs
                                                    Trust Fund Cooperative Agreement
                                                                    (T)Accession Number: 445120**Publications**
                                                (Clicking on the reprint icon
                                                    Reprint Icon
                                                    will take you to the publication reprint.)Identifying a list of Salmonella serotypes of concern to target for reducing risk of salmonellosis
                                                        

- (Peer Reviewed Journal)Katz, T.S., Harhay, D.M., Schmidt, J.W., Wheeler, T.L. 2024. Identifying a list of Salmonella serotypes of concern to target for reducing risk of salmonellosis. Frontiers in Microbiology. 15. Article 1307563. https://doi.org/10.3389/fmicb.2024.1307563.Growth assessment of Salmonella enterica multi-serovar populations in poultry rinsates with commonly used enrichment and plating media
                                                        

- (Peer Reviewed Journal)Gorski, L.A., Shariat, N., Richards, A.K., Siceloff, A.T., Aviles Noriega, A., Harhay, D.M. 2023. Growth assessment of Salmonella enterica multi-serovar populations in poultry rinsates with commonly used enrichment and plating media. Food Microbiology. 119. Article 104431. https://doi.org/10.1016/j.fm.2023.104431.Escherichia coli O157:H7 tir 255 T > A allele strains differ in chromosomal and plasmid composition
                                                        

- (Peer Reviewed Journal)Weinroth, M.D., Clawson, M.L., Harhay, G.P., Eppinger, M., Harhay, D.M., Smith, T.P.L., Bono, J.L. 2023. Escherichia coli O157:H7 tir 255 T > A allele strains differ in chromosomal and plasmid composition. Frontiers in Microbiology. 14:1303387. https://doi.org/10.3389/fmicb.2023.1303387.Identification of actionable sentinels for Salmonella contamination of beef lymph nodes and determining the impact of environmental contamination levels

- (Abstract Only)Schmidt, J.W., Fashenpour, E., Soler-Diaz, R., Harhay, D.M., Arthur, T.M., Bosilevac, J.M., Wheeler, T.L., Kang, Q., Gragg, S.E., Sanchez-Plata, M. 2023. Identification of actionable sentinels for Salmonella contamination of beef lymph nodes and determining the impact of environmental contamination levels. [Abstract]. American Meat Science Association Conference Reciprocal Proceedings. No. 117.The effects of the administration of a Saccharomyces cerevisiae direct-fed microbial on the prevalence of Salmonella in bovine mesenteric lymph nodes

- (Abstract Only)Habib, K., Schmidt, J.W., Nichols, C.A., Kang, Q., Bosilevac, J.M., Harhay, D.M., Gragg, S.E. 2022. The effects of the administration of a Saccharomyces cerevisiae direct-fed microbial on the prevalence of Salmonella in bovine mesenteric lymph nodes. [Abstract]. International Association for Food Protection Proceedings. P1-83.Incidence of multiserovar Salmonella populations in postharvest meat and poultry products

- (Abstract Only)Siceloff, A.T., Smith, R., Harhay, D.M., Shariat, N.W. 2023. Incidence of multiserovar Salmonella populations in postharvest meat and poultry products. [Abstract]. International Association for Food Protection Proceedings. T8-06.Identification of dominant factors contributing to persistence of third-generation cephalosporin-resistant Salmonella at a beef cattle feedyard

- (Abstract Only)Schmidt, J.W., Murray, S.A., Dickey, A.M., Wheeler, T.L., Harhay, D.M., Arthur, T.M. 2023. Identification of dominant factors contributing to persistence of third-generation cephalosporin-resistant Salmonella at a beef cattle feedyard. [Abstract]. International Association for Food Protection Proceedings. T4-10.Characterization and comparison of Salmonella spp. isolated from the mesenteric lymph nodes of cattle and the feedlot environment

- (Abstract Only)Rates of evolutionary change of resident Escherichia coli O157:H7 differ within the same ecological niche
                                                        

- (Peer Reviewed Journal)Weinroth, M.D., Clawson, M.L., Arthur, T.M., Wells, J., Harhay, D.M., Strachan, N., Bono, J.L. 2022. Rates of evolutionary change of resident Escherichia coli O157:H7 differ within the same ecological niche. BMC Genomics. 23. Article 275. https://doi.org/10.1186/s12864-022-08497-6.Discrete distributions of simple sequence repeat lengths in DNA template vary at individual loci in Mannheimia haemolytica isolates

- (Proceedings)Twenty-four-month longitudinal study suggests little to no horizontal gene transfer in situ between third-generation cephalosporin-resistant Salmonella and third-generation cephalosporin-resistant Escherichia coli
                                                        

- (Peer Reviewed Journal)Schmidt, J.W., Murray, S.A., Dickey, A.M., Wheeler, T.L., Harhay, D.M., Arthur, T.M. 2022. Twenty-four-month longitudinal study suggests little to no horizontal gene transfer in situ between third-generation cephalosporin-resistant Salmonella and third-generation cephalosporin-resistant Escherichia coli in a beef cattle feedyard. Journal of Food Protection. 85(2):323-335. https://doi.org/10.4315/JFP-21-371.A conserved Histophilus somni 23S intervening sequence yields functional, fragmented 23S rRNA
                                                        

- (Peer Reviewed Journal)Harhay, G.P., Harhay, D.M., Brader, K.D., Smith, T.P.L. 2021. A conserved Histophilus somni 23S intervening sequence yields functional, fragmented 23S rRNA. Microbiology Spectrum. 9(3). Article e0143121. https://doi.org/10.1128/Spectrum.01431-21.Locus of Heat Resistance (LHR) in meat-borne Escherichia coli: Screening and genetic characterization
                                                        

- (Peer Reviewed Journal)Guragain, M., Brichta-Harhay, D.M., Bono, J.L., Bosilevac, J.M. 2021. Locus of Heat Resistance (LHR) in meat-borne Escherichia coli: Screening and genetic characterization. Applied and Environmental Microbiology. 87:e02343-20. https://doi.org/10.1128/AEM.02343-20.Consecutive treatments with a multicomponent sanitizer inactivate biofilms formed by Escherichia coli O157:H7 and Salmonella enterica and remove biofilm matrix
                                                        

- (Peer Reviewed Journal)Wang, R., Zhou, Y., Kalchayanand, N., Harhay, D.M., Wheeler, T.L. 2021. Consecutive treatments with a multicomponent sanitizer inactivate biofilms formed by Escherichia coli O157:H7 and Salmonella enterica and remove biofilm matrix. Journal of Food Protection. 84(3):408-417. https://doi.org/10.4315/JFP-20-321.Rapid estimation of Salmonella enterica contamination level in ground beef – application of the time-to-positivity method using a combination of molecular detection and direct plating
                                                        

- (Peer Reviewed Journal)Harhay, D.M., Weinroth, M.D., Bono, J.L., Harhay, G.P., Bosilevac, J.M. 2021. Rapid estimation of Salmonella enterica contamination level in ground beef – application of the time-to-positivity method using a combination of molecular detection and direct plating. Food Microbiology. 93. Article 103615. https://doi.org/10.1016/j.fm.2020.103615.Differences between predicted outer membrane proteins of genotype 1 and 2 Mannheimia haemolytica
                                                        

- (Peer Reviewed Journal)Clawson, M.L., Schuller, G., Dickey, A.M., Bono, J.L., Murray, R.W., Sweeney, M.T., Apley, M.D., DeDonder, K.D., Capik, S.F., Larson, R.L., Lubbers, B.V., White, B.J., Blom, J., Chitko-McKown, C.G., Brichta-Harhay, D.M., Smith, T.P.L. 2020. Differences between predicted outer membrane proteins of genotype 1 and 2 Mannheimia haemolytica. BMC Microbiology. 20:250. https://doi.org/10.1186/s12866-020-01932-2.Classification of 16S rRNA reads is improved using a niche-specific database constructed by near-full length sequencing
                                                        

- (Peer Reviewed Journal)Myer, P.R., McDaneld, T.G., Kuehn, L.A., Dedonder, K.D., Apley, M.D., Capik, S.F., Lubbers, B.V., Harhay, G.P., Harhay, D.M., Keele, J.W., Henniger, M.T., Clemmons, B.A., Smith, T.P.L. 2020. Classification of 16S rRNA reads is improved using a niche-specific database constructed by near-full length sequencing. PLoS One. 15(7):e0235498. https://doi.org/10.1371/journal.pone.0235498.Changes in a closed feedlot Escherchia coli O157:H7 population over 22 years

- (Abstract Only)Weinroth, M., Clawson, M., Arthur, T., Wells, J., Harhay, D., Bono, J. 2020. Changes in a closed feedlot Escherchia coli O157:H7 population over 22 years. [Abstract]. International Association for Food Protection Conference, Cleveland, Ohio, August 2-5 2020. Virtual. Journal of Food Protection. 83(Supplement A):P2-198.Persistence of third-generation cephalosporin-resistant Salmonella over two years at a beef cattle feedlot

- (Abstract Only)Effectiveness and functional mechanism of a multicomponent sanitizer against biofilms formed by Escherichia coli O157:H7 and five Salmonella serotypes prevalent in the meat industry
                                                        

- (Peer Reviewed Journal)Wang, R., Zhou, Y., Kalchayanand, N., Harhay, D.M., Wheeler, T.L. 2020. Effectiveness and functional mechanism of a multicomponent sanitizer against biofilms formed by Escherichia coli O157:H7 and five Salmonella serotypes prevalent in the meat industry. Journal of Food Protection. 83(4):568-575. https://doi.org/10.4315/0362-028X.JFP-19-393.Consecutive treatments with Sterilex eliminate biofilms by E. coli O157:H7 and Salmonella enterica

- (Abstract Only)Wang, R., Zhou, Y., Kalchayanand, N., Harhay, D.M., Wheeler, T.L. 2019. Consecutive treatments with Sterilex eliminate biofilms by E. coli O157:H7 and Salmonella enterica. [Abstract]. International Association for Food Protection Proceedings. Poster No. P2-120.A computational method to quantify the effects of slipped strand mispairing on bacterial tetranucleotide repeats
                                                        

- (Peer Reviewed Journal)Harhay, G.P., Harhay, D.M., Bono, J.L., Capik, S.F., DeDonder, K.D., Apley, M.D., Lubbers, B.V., White, B.J., Larson, R.L., Smith, T.P.L. 2019. A computational method to quantify the effects of slipped strand mispairing on bacterial tetranucleotide repeats. Nature Scientific Reports. 9:18087. https://doi.org/10.1038/s41598-019-53866-z.Complete genome sequence of a Salmonella enterica subsp. enterica serovar Fresno isolate recovered from beef cattle lymph nodes
                                                        

- (Peer Reviewed Journal)Haley, B.J., Smith, T.P., Harhay, G.P., Loneragan, G.H., Webb, H.E., Bugarel, M., Kim, S., Van Kessel, J.S., Harhay, D.M. 2019. Complete genome sequence of a Salmonella enterica subsp. enterica serovar Fresno isolate recovered from beef cattle lymph nodes. Microbiology Resource Announcements. 8(2):e01338-18. https://doi.org/10.1128/MRA.01338-18.Complete genome sequences of four Salmonella enterica strains (including those of serotypes Montevideo, Mbandaka, and Lubbock) isolated from peripheral lymph nodes of healthy cattle
                                                        

- (Peer Reviewed Journal)Bugarel, M., Cook, P.W., Den Bakker, H.C., Harhay, D.M., Nightingale, K.K., Loneragan, G.H. 2019. Complete genome sequences of four Salmonella enterica strains (including those of serotypes Montevideo, Mbandaka, and Lubbock) isolated from peripheral lymph nodes of healthy cattle. Microbiology Resource Announcements. 8(2):e01450-18. https://doi.org/10.1128/MRA.01450-18.Complete closed genome sequences of three Salmonella enterica subsp. enterica Serovar Dublin strains isolated from cattle at harvest
                                                        

- (Peer Reviewed Journal)Harhay, D.M., Smith, T.P.L., Harhay, G.P., Loneragan, G.H., Webb, H.E., Bugarel, M., Haley, B.J., Kim, S.W., Van Kessel, J.S. 2018. Complete closed genome sequences of three Salmonella enterica subsp. enterica Serovar Dublin strains isolated from cattle at harvest. Microbiology Resource Announcements. 7:e01334-18. https://doi.org/10.1128/MRA.01334-18.Closed genome sequences and antibiograms of 16 pasteurella multocida isolates from bovine respiratory disease complex cases and apparently healthy controls
                                                        

- (Peer Reviewed Journal)Harhay, G.P., Harhay, D.M., Bono, J.L., Smith, T.P.L., Capik, S.F., DeDonder, K.D., Apley, M.D., Lubbers, B.V., White, B.J., Larson, R.L. 2018. Closed genome sequences and antibiograms of 16 pasteurella multocida isolates from bovine respiratory disease complex cases and apparently healthy controls. Microbiology Resource Announcements. 7(11):e00976-18. https://doi.org/10.1128/MRA.00976-18.Whole genome sequencing and comparative genome analysis of human and bovine Salmonella Dublin isolates

- (Abstract Only)Kim, S., Harhay, D.M., Salaheen, S., Van Kessel, J.S., Haley, B.J. 2018. Whole genome sequencing and comparative genome analysis of human and bovine Salmonella Dublin isolates. American Society for Microbiology.Comparative genomics of Salmonella enterica serovar Montevideo reveals lineage-specific gene differences that may influence ecological niche association
                                                        

- (Peer Reviewed Journal)Nguyen, S.V., Harhay, D.M., Bono, J.L., Smith, T.P.L., Fields, P.I., Dinsmore, B.A., Santovina, M., Wang, R., Bosilevac, J.M., Harhay, G.P. 2018. Comparative genomics of Salmonella enterica serovar Montevideo reveals lineage-specific gene differences that may influence ecological niche association. Microbial Genomics. 4:1-17. https://doi.org/10.1099/mgen.0.000202.Whole-genome sequence analysis of CTX-M containing Escherichia coli isolates from retail meats and cattle in the United States
                                                        

- (Peer Reviewed Journal)Tadesse, D.A., Li, C., Mukherjee, S., Hsu, C., Bodeis Jones, S., Gaines, S.A., Kabera, C., Loneragan, G.H., Torrence, M., Harhay, D.M., McDermott, P.F., Zhao, S. 2018. Whole-genome sequence analysis of CTX-M containing Escherichia coli isolates from retail meats and cattle in the United States. Microbial Drug Resistance. 24(7):939-948. https://doi.org/10.1089/mdr.2018.0206.Effect of waste milk pasteurization on fecal shedding of Salmonella in preweaned calves
                                                        

- (Peer Reviewed Journal)Edrington, T.S., Garcia Buitrago, J.A., Hagevoort, G.R., Loneragan, G.H., Harhay, D.M., Callaway, T.R., Anderson, R.C., Nisbet, D.J. 2018. Effect of waste milk pasteurization on fecal shedding of Salmonella in preweaned calves. Journal of Dairy Science. 101(10):9266-9274. https://doi.org/10.3168/jds.2018-14668.Genomic signatures of a Mannheimia haemolytica lineage associated with bovine respiratory disease

- (Abstract Only)Clawson, M.L., Schuller, G., Dickey, A.M., Murray, R.W., Sweeney, M.T., Apley, M.D., DeDonder, K.D., Capik, S.F., Larson, R.L., Lubbers, B.V., White, B.J., Blom, J., Brichta-Harhay, D.M., Smith, T.P. 2018. Genomic signatures of a Mannheimia haemolytica lineage associated with bovine respiratory disease [abstract]. Society for Molecular Biology & Evolution General Meeting. Abstract POA-070:44. Available: http://evolgen.biol.se.tmu.ac.jp/SMBE2018/POA.pdfSalmonella in peripheral lymph nodes of healthy cattle at slaughter

- (Peer Reviewed Journal)Webb, H.E., Harhay, D.M., Brashers, M.M., Nightengale, K.K., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Schmidt, J.W., Wang, R., Granier, S.A., Brown, T.R., Edrington, T.S., Shackelford, S.D., Wheeler, T.L., Loneragan, G.H. 2017. Salmonella in peripheral lymph nodes of healthy cattle at slaughter. Frontiers in Microbiology. 8:2214. https://doi.org/10.3389/fmicb.2017.02214.Closed genome sequences of seven histophilus somni isolates from beef calves with bovine respiratory disease complex
                                                        

- (Peer Reviewed Journal)Harhay, G.P., Harhay, D.M., Bono, J.L., Smith, T.P.L., Capik, S.F., DeDonder, K.D., Apley, M.D., Lubbers, B.V., White, B.J., Larson, R.L. 2017. Closed genome sequences of seven histophilus somni isolates from beef calves with bovine respiratory disease complex. Genome Announcements. 5(40):e01099-17. https://doi.org/10.1128/genomeA.01099-17.Biofilm formation, antimicrobial resistance, and sanitizer tolerance of Salmonella enterica strains isolated from beef trim
                                                        

- (Peer Reviewed Journal)Wang, R., Schmidt, J.W., Harhay, D.M., Bosilevac, J.M., King, D.A., Arthur, T.M. 2017. Biofilm formation, antimicrobial resistance, and sanitizer tolerance of Salmonella enterica strains isolated from beef trim. Foodborne Pathogens and Disease. 14(12):687-695. https://doi.org/10.1089/fpd.2017.2319.Transferability of antimicrobial resistance from multidrug-resistant Escherichia coli isolated from cattle in the USA to E. coli and Salmonella Newport recipients
                                                        

- (Peer Reviewed Journal)Poole, T.L., Callaway, T.R., Norman, K.N., Scott, M.H., Loneragan, G.H., Ison, S.A., Beier, R.C., Harhay, D.M., Norby, B., Nisbet, D.J. 2017. Transferability of antimicrobial resistance from multidrug-resistant Escherichia coli isolated from cattle in the USA to E. coli and Salmonella Newport recipients. Journal of Global Antimicrobial Resistance. 11:123-132. https://doi.org/10.1016/j.jgar.2017.08.001.Rapid detection and classification of Salmonella enterica shedding in feedlot cattle utilizing Roka Bioscience Atlas Salmonella detection assay for the analysis of rectoanal mucosal swabs
                                                        

- (Peer Reviewed Journal)Chaney, W.E, Agga, G.E., Nguyen, S.V., Arthur, T.M., Bosilevac, J.M., Dreyling, E., Rishi, A., Brichta-Harhay, D. 2017. Rapid detection and classification of Salmonella enterica shedding in feedlot cattle utilizing Roka Bioscience Atlas Salmonella detection assay for the analysis of rectoanal mucosal swabs. Journal of Food Protection. 80(10):1760-1767. https://doi.org/10.4315/0362-028X.JFP-17-124.Effectiveness of Sanitizer D7(TM) against Escherichia coli O157:H7 and Salmonella biofilms

- (Abstract Only)Wang, R., Kalchayanand, N., Brichta-Harhay, D.M., Zhou, Y. 2017. Effectiveness of Sanitizer D7(TM) against Escherichia coli O157:H7 and Salmonella biofilms. [Abstract]. International Association for Food Protection Proceedings. P2-46. Available at: https://iafp.confex.com/iafp/2017/webprogram/authork.html.Complete genome sequence of the thermotolerant foodborne pathogen Salmonella enterica serovar Senftenberg ATCC 43845 and phylogenetic analysis of loci encoding thermotolerance

- (Abstract Only)Nguyen, S.V., Bono, J.L., Smith, T.P., Harhay, G.P., Harhay, D.M. 2017. Complete genome sequence of the thermotolerant foodborne pathogen Salmonella enterica Serovar Senftenberg ATCC 43845 and phylogenetic analysis of Loci encoding thermotolerance . [Abstract] International Association for Food Protection Proceedings. Session T2-09. Available at: https://iafp.confex.com/iafp/2017/webprogram/authork.html.Closed genomes and phenotypes of seven Histophilus somni isolates from beef calves with bovine respiratory disease complex

- (Abstract Only)Harhay, G.P., Harhay, D.M., Bono, J.L., Smith, T.P., Heaton, M.P., Clawson, M.L., Chitko-McKown, C.G., Capik, S.F., DeDonder, K.D., Apley, M.D., Lubbers, B.V., White, B.J., Larson, R.L. 2017. Closed genomes and phenotypes of seven Histophilus somni isolates from beef calves with bovine respiratory disease complex [Abstract]. American Society for Microbiology Microbe Meeting, June 1-5, 2017, New Orleans, LA. Poster #Sunday-869.Genome sequence of the thermotolerant foodborne pathogen Salmonella enterica serovar Senftenberg ATCC 43845 and phylogenetic analysis of Loci encoding increased protein quality control mechanisms
                                                        

- (Peer Reviewed Journal)Nguyen, S.V., Harhay, G.P., Bono, J.L., Smith, T.P., Harhay, D.M. 2017. Genome sequence of the thermotolerant foodborne pathogen Salmonella enterica serovar Senftenberg ATCC 43845 and phylogenetic analysis of Loci encoding increased protein quality control mechanisms. mSystems.  2:e00190-16. https://doi.org/10.1128/mSystems.00190-16.Genomic signatures of Mannheimia haemolytica that associate with the lungs of cattle with respiratory disease, an integrative conjugative element, and antibiotic resistance genes

- (Peer Reviewed Journal)Clawson, M.L., Murray, R.W., Sweeney, M.T., Apley, M.D., DeDonder, K.D., Capik, S.F., Larson, R.L., Lubbers, B.V., White, B.J., Kalbfleisch, T.S., Schuller, G., Dickey, A.M., Harhay, G.P., Heaton, M.P., Chitko-McKown, C.G., Brichta-Harhay, D.M., Bono, J.L., Smith, T.P.L. 2016. Genomic signatures of Mannheimia haemolytica that associate with the lungs of cattle with respiratory disease, an integrative conjugative element, and antibiotic resistance genes. BMC Genomics. 17:982. doi: 10.1186/s12864-016-3316-8.Haptoglobin concentrations in cattle either mass-medicated with gamithromycin or sham-treated - from shipping through sickness and recovery

- (Abstract Only)Chitko-McKown, C.G., Workman, A.M., DeDonder, K.D., Bennett, G.L., Apley, M.E., Harhay, G.P., Harhay, D.M., Kuehn, L.A., White, B.J., Larson, R.L., Capik, S.F., Lubbers, B.V., Clawson, M.L. 2016. Haptoglobin concentrations in cattle either mass-medicated with gamithromycin or sham-treated - from shipping through sickness and recovery [Abstract].  Conference of Research Workers in Animal Diseases, December 4-6, 2016, Chicago, IL. Abstract #135.Complete, closed genome sequences of 10 Salmonella enterica subsp.
enterica serovar Typhimurium strains isolated from human and
bovine sources
                                                        

- (Peer Reviewed Journal)Nguyen, S.V., Harhay, D.M., Bono, J.L., Smith, T.P.L., Fields, P.I., Dinsmore, B.A., Santovenia, M., Kelley, C.M., Wang, R., Bosilevac, J.M., Harhay, G.P. 2016. Complete, closed genome sequences of 10 Salmonella enterica subsp. enterica serovar Typhimurium strains isolated from human and bovine sources. Genome Announcements. 4(6):e01212-16. doi:10.1128/genomeA.01212-16.Observations on macrolide resistance and susceptibility testing performance in field isolates collected from clinical bovine respiratory disease cases

- (Peer Reviewed Journal)DeDonder, K.D., Harhay, D.M., Apley, M.D., Lubbers, B.V., Clawson, M.L., Schuller, G., Harhay, G.P., White, B.J., Larson, R.L., Capik, S.F., Riviere, J.E., Kalbfleisch, T., Tessman, R.K. 2016. Observations on macrolide resistance and susceptibility testing performance in field isolates collected from clinical bovine respiratory disease cases. Veterinary Microbiology. 192:186-193.Comparison of the diagnostic performance of bacterial culture of nasopharyngeal swab and bronchoalveolar lavage fluid samples obtained from calves with bovine respiratory disease

- (Peer Reviewed Journal)Capik, S.F., White, B.J., Lubbers, B.V., Apley, M.D., DeDonder, K.D., Larson, R.L., Harhay, G.P., Chitko-McKown, C.G., Harhay, D.M., Kalbfleisch, T.S., Schuller, G., Clawson, M.L. 2017. Comparison of the diagnostic performance of bacterial culture of nasopharyngeal swab and bronchoalveolar lavage fluid samples obtained from calves with bovine respiratory disease. American Journal of Veterinary Research. 78(3):350-358.Haptoglobin concentrations from shipping through sickness and recovery in cattle either mass-medicated with gamithromycin or sham-treated

- (Abstract Only)Chitko-McKown, C.G., Workman, A.M., DeDonder, K.D., Bennett, G.L., Apley, M.D., Harhay, G.P., Harhay, D.M., Kuehn, L.A., White, B.J., Larson, R.L., Capik, S.F., Lubbers, B.V., Clawson, M.L. 2016. Haptoglobin concentrations from shipping through sickness and recovery in cattle either mass-medicated with gamithromycin or sham-treated. International Veterinary Immunology Symposium, August 16-19, 2016, Broadbeach, Australia. Abstract #107.Complete and closed genome sequences of 10 Salmonella enterica subsp. enterica serovar Anatum isolated from human and bovine sources
                                                        

- (Peer Reviewed Journal)Nguyen, S.V., Harhay, D.M., Bono, J.L., Smith, T.P.L., Fields, P.I., Dinsmore, B.A., Santovenia, M., Kelley, C.M., Wang, R., Bosilevac, J.M., Harhay, G.P. 2016. Complete and closed genome sequences of 10 Salmonella enterica subsp. enterica serovar Anatum isolated from human and bovine sources. Genome Announcements. Vol. 4(3): e00447-16. doi: 10.1128/genomeA.00447-16.Evaluation of Salmonella biofilm cell transfer from contact surfaces to beef products

- (Abstract Only)Wang, R., King, D.A., Harhay, D.M., Arthur, T.M. 2016. Evaluation of Salmonella biofilm cell transfer from contact surfaces to beef products. [Abstract] International Association for Food Protection. Supp. A(79):102. P1-64.Identification of the pan and core genomes for Mannheimia haemolytica genotypes 1 and 2

- (Abstract Only)Clawson, M.L., Schuller, G., Dickey, A.M., Bono, J.L., Murray, R.W., Sweeney, M.T., Apley, M.D., DeDonder, K.D., Capik, S.F., Larson, R.L., Lubbers, B.V., White, B.J., Harhay, G.P., Heaton, M.P., Chitko-McKown, C.G., Harhay, D.M., Smith, T.P. 2016. Identification of the pan and core genomes for Mannheimia haemolytica genotypes 1 and 2. American Society for Microbiology 2016 Meeting, July 16-20, 2016, Boston, MA. Poster No. Friday-060.Genome sequencing, metabolic and antibiotic resistance phenotyping of diverse nasopharyngeal bacteria isolated from cattle in an epidemiological study of bovine respiratory disease

- (Abstract Only)Harhay, G.P., Harhay, D.M., Bono, J.L., Smith, T.P., Heaton, M.P., Clawson, M.L., Chitko-McKown, C.G., Capik, S.F., DeDonder, K.D., Apley, M.D., Lubbers, B.V., White, B.J., Larson, R.L. 2016. Genome sequencing, metabolic and antibiotic resistance phenotyping of diverse nasopharyngeal bacteria isolated from cattle in an epidemiological study of bovine respiratory disease [abstract]. American Society for Microbiology 2016 Meeting, July 16-20, 2016, Boston, MA. Poster No. Friday-057.Mobilome differences between Salmonella enterica serovars Anatum and Typhimurium isolated from cattle and humans and potential impact on virulence

- (Abstract Only)Nguyen, S.V., Bono, J.L., Smith, T.P.L., Kelley, C.M., Wang, R., Harhay, G.P., Harhay, D.M. 2016. Mobilome differences between Salmonella enterica serovars Anatum and Typhimurium isolated from cattle and humans and potential impact on virulence. [Abstract] In proceedings: 60th Wind River Conference on Procaryotic Biology, 2016 June 1-5. Estes Park, Colorado. p. 67.Diagnostic accuracy of rectoanal mucosal swab of feedlot cattle for detection and enumeration of Salmonella enterica
                                                        

- (Peer Reviewed Journal)Agga, G.E., Arthur, T.M., Schmidt, J.W., Wang, R., Harhay, D.M. 2016. Diagnostic accuracy of rectoanal mucosal swab of feedlot cattle for detection and enumeration of Salmonella enterica. Journal of Food Protection. 79(4):531-537. doi:10.4315/0362-028X.JFP-15-409.Effect of direct-fed microbial dosage on the fecal concentrations of enterohemorrhagic Escherichia coli in feedlot cattle
                                                        

- (Peer Reviewed Journal)Luedtke, B.E., Bosilevac, J.M., Harhay, D.M., Arthur, T.M. 2016. Effect of direct-fed microbial dosage on the fecal concentrations of enterohemorrhagic Escherichia coli in feedlot cattle. Foodborne Pathogens and Disease. 13(4):190-195. doi:10.1089/fpd.2015.2063Complete closed genome sequences of Salmonella enterica subsp. enterica serotypes Anatum, Montevideo, Typhimurium and Newport, isolated from beef, cattle, and humans
                                                        

- (Peer Reviewed Journal)Harhay, D.M., Bono, J.L., Smith, T.P., Fields, P.I., Dinsmore, B.A., Santovenia, M., Kelley, C.M., Wang, R., Harhay, G.P. 2016. Complete closed genome sequences of Salmonella enterica subsp. enterica serotypes Anatum, Montevideo, Typhimurium and Newport, isolated from beef, cattle, and humans. Genome Announcements. 4(1):e01683-15. doi:10.1128/genomeA.01683-15.Comparison of serum PTX3 from shipping through sickness and recovery in cattle

- (Abstract Only)Chitko-McKown, C.G., Workman, A.M., DeDonder, K.D., Bennett, G.L., Apley, M.D., Harhay, G.P., Harhay, D.M., Kuehn, L.A., White, B.J., Larson, R.L., Capik, S.F., Lubbers, B.V., Clawson, M.L. 2015. Comparison of serum PTX3 from shipping through sickness and recovery in cattle [Abstract]. Conference of Research Workers in Animal Diseases, December 6-8, 2015, Chicago, IL. Abstract #070P.Pharmacokinetics and pharmacodynamics of gamithromycin in pulmonary epithelial lining fluid in naturally occurring bovine respiratory disease in multisource commingled feedlot cattle
                                                        

- (Peer Reviewed Journal)Dedonder, K.D, Apley, M.D., Li, M., Gehring, R., Harhay, D.M., Lubbers, B.V., White, B.J., Capik, S.F., Kukanich, B., Riviere, J.E., Tessman, R.K. 2015. Pharmacokinetics and pharmacodynamics of gamithromycin in pulmonary epithelial lining fluid in naturally occurring bovine respiratory disease in multisource commingled feedlot cattle. Journal of Veterinary Pharmacology and Therapeutics. doi:10.1111/jvp.12267.Antimicrobial-resistant bacterial populations and antimicrobial resistance genes obtained from environments impacted by livestock and municipal waste
                                                        

- (Peer Reviewed Journal)Agga, G.E., Arthur, T.M., Durso, L.M., Harhay, D.M., Schmidt, J.W. 2015. Antimicrobial-resistant bacterial populations and antimicrobial resistance genes obtained from environments impacted by livestock and municipal waste. PLoS One. 10(7).WGS accurately predicts antimicrobial resistance in Escherichia coli
                                                        

- (Peer Reviewed Journal)Tyson, G.H., McDermott, P., Li, C., Chen, Y., Tadesse, D.A., Mukherjee, S., Bodeis-Jones, S., Kabera, C., Gaines, S.A., Loneragan, G.H., Edrington, T.S., Torrence, M., Harhay, D.M., Zhao, S. 2015. WGS accurately predicts antimicrobial resistance in Escherichia coli. Journal of Antimicrobial Chemotherapy. July 2015:1-7.Comparative analysis of twenty-four complete aenome aequences of Salmonella enterica Serotypes Anatum, Montevideo, Typhimurium and Newport isolated from ground beef or asymptomatic cattle on farm or at harvest

- (Abstract Only)Harhay, D.M., Bono, J.L., Smith, T.P., Kalbfleisch, T., Kelley, C., Wang, R., Harhay, G.P. 2015. Comparative analysis of twenty-four complete aenome aequences of Salmonella enterica Serotypes Anatum, Montevideo, Typhimurium and Newport isolated from ground beef or asymptomatic cattle on farm or at harvest [abstract]. American Society for Microbiology 115th General Meeting. Poster No. 397, Session 029.Identification of a mannheimia haemolytica genetic subtype that causes bovine respiratory disease

- (Abstract Only)Clawson, M.L., Murray, R.W., Sweeney, M.T., Apley, M.D., DeDonder, K.D., Capik, S., Larson, R., Lubbers, B.V., Kalbfleisch, T.S., Schuller, G., Harhay, G.P., Heaton, M.P., Chitko-McKown, C.G., Workman, A.M., Harhay, D.M., Bono, J.L., Smith, T.P.L. [abstract]. 2015. Identification of a mannheimia haemolytica genetic subtype that causes bovine respiratory disease. American Society for Microbiology 2015, 115th General Meeting, May 30-June 2, 2015, New Orleans, LA. Poster #1410.Two draft genome sequences of a new serovar of Salmonella enterica, serovar Lubbock
                                                        

- (Peer Reviewed Journal)Bugarel, M., Den Bakker, H.C., Nightingale, K.K., Brichta-Harhay, D.M., Edrington, T.S., Loneragan, G.H. 2015. Two draft genome sequences of a new serovar of Salmonella enterica, serovar Lubbock. Genome Announcements. 3(2):1-2. doi: 10.1128/genomeA.00215-15.Genomic comparison of Salmonella enterica serotypes commonly associated with cattle and beef – Analysis of variation in virulence potential

- (Abstract Only)Harhay, D.M., Bono, J.L., Wang, R., Smith, T.P., Harhay, G.P., Kalbfleisch, T., Wheeler, T.L. 2015. Genomic comparison of Salmonella enterica serotypes commonly associated with cattle and beef – Analysis of variation in virulence potential. [Abstract]. Beef Industry Safety Summit.  http://www.bifsco.org/2015researchsessionabstracts.aspx.Effectiveness of an Increased Dose of Bovamine Compared to a Lower Dose to Reduce Salmonella in Fed Cattle

- (Abstract Only)Arthur, T.M., Agga, G.E., Harhay, D.M. 2015. Effectiveness of an increased dose of Bovamine compared to a lower dose to reduce Salmonella in fed cattle. [Abstract]. Beef Industry Safety Summit. http://www.bifsco.org/2015researchsessionabstracts.aspx.Occurrence of antimicrobial-resistant Escherichia coli and Salmonella enterica in the beef cattle production and processing continuum
                                                        

- (Peer Reviewed Journal)Schmidt, J.W., Agga, G.E., Bosilevac, J.M., Harhay, D.M., Shackelford, S.D., Wang, R., Wheeler, T.L., Arthur, T.M. 2015. Occurrence of antimicrobial-resistant Escherichia coli and Salmonella enterica in the beef cattle production and processing continuum. Applied and Environmental Microbiology. 81(2):713-725.Examination of the relationship between Salmonella contamination in pre-harvest environments and contamination of bovine peripheral lymph nodes

- (Abstract Only)Harhay, D.M. 2014. Examination of the relationship between Salmonella contamination in pre-harvest environments and contamination of bovine peripheral lymph nodes [abstract]. Recent Advances in Microbial Control (RAMC) 2014. p. 21.Salmonella spp. in lymph nodes of fed and cull cattle: Relative assessment of risk to ground beef
                                                        

- (Peer Reviewed Journal)Li, M., Malladi, S., Hurd, S., Goldsmith, T.J., Harhay, D.M., Loneragan, G. 2015. Salmonella spp. in lymph nodes of fed and cull cattle: Relative assessment of risk to ground beef. Food Control. 50:423-434.Effect of direct-fed microbial supplementation on the presence of Salmonella enterica in bovine peripheral lymph nodes

- (Abstract Only)Harhay, D.M., Loneragan, G.H., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Schmidt, J.W., Wang, R., Wheeler, T.L., Kolath, B., Theunick, D., Riemann, M., Schaefer, D., Brown, T. 2014. Effect of direct-fed microbial supplementation on the presence of Salmonella enterica in bovine peripheral lymph nodes. [Abstract]. International Association for Food Protection. Supp. A(77):211-212. P3-65.Antibiotic resistant Escherichia coli and Salmonella enterica in the beef production and processing chain

- (Abstract Only)Schmidt, J.W., Harhay, D.M., Shackelford, S.D., Wheeler, T.L., Arthur, T.M. 2014. Antibiotic resistant Escherichia coli and Salmonella enterica in the beef production and processing chain. [abstract] American Society for Microbiology 114th General Meeting.  No. 1033.Effect of residual sanitizers on Salmonella enterica biofilm formation

- (Abstract Only)Wang, R., Harhay, D.M. 2014. Effect of residual sanitizers on Salmonella enterica biofilm formation. [Abstract] International Association for Food Protection. Supp. A(77):185. P2-163.Examination of predictors of Salmonella enterica contamination in cattle feedlot environments

- (Abstract Only)Harhay, D.M., Arthur, T.M., Schmidt, J.W., Wang, R., Kalchayanand, N., Bosilevac, J.M., Edrington, T.S., Loneragan, G., Wheeler, T.L. 2014. Examination of predictors of Salmonella enterica contamination in cattle feedlot environments. [Abstract] Beef Industray Safety Summit. Available:  www.bifsco.org/attendees.aspx.Complete closed genome sequences of four Mannheimia varigena isolates from cattle with shipping fever

- (Peer Reviewed Journal)Harhay, G.P., Murray, R.W., Lubbers, B., Griffin, D., Koren, S., Phillippy, A.M., Harhay, D.M., Bono, J.L., Clawson, M.L., Heaton, M.P., Chitko-McKown, C.G., Smith, T.P. 2014. Complete closed genome sequences of four Mannheimia varigena isolates from cattle with shipping fever. Genome Announcements. 2(1):e00088-14.Complete closed genome sequences of three Bibersteinia trehalosi nasopharyngeal isolates from cattle with shipping fever

- (Peer Reviewed Journal)Harhay, G.P., McVey, D.S., Koren, S., Phillippy, A.M., Bono, J.L., Harhay, D.M., Clawson, M.L., Heaton, M.P., Chitko-McKown, C.G., Korlach, J., Smith, T.P. 2014. Complete closed genome sequences of three Bibersteinia trehalosi nasopharyngeal isolates from cattle with shipping fever. Genome Announcements. 2(1):e00084-14.Microbiome characterization using SMRT sequencing on 16S rRNA genes across a range of amplicon sizes and variable region content

- (Abstract Only)Characterization of microbiomes related to respiratory disease in cattle

- (Abstract Only)Smith, T.P., Kim, M.S., Myer, P.R., McDaneld, T.G., Kuehn, L.A., Clawson, M.L., Harhay, D.M., Harhay, G.P. 2014. Characterization of microbiomes related to respiratory disease in cattle [Abstract]. Proceedings of the Plant and Animal Genome XXII Conference, January 11-15, 2014, San Diego, CA. Poster W759.Reducing assembly complexity of microbial genomes with single-molecule sequencing

- (Peer Reviewed Journal)Koren, S., Harhay, G.P., Smith, T.P.L., Bono, J.L., Harhay, D.M., McVey, D.S., Radune, D., Bergman, N.H., Phillippy, A.M. 2013. Reducing assembly complexity of microbial genomes with single-molecule sequencing. Genome Biology. 14:R101. DOI: 10.1186/GB-2013-14-9-R101.Substantial within-Animal Diversity of Salmonella Isolates from
Lymph Nodes, Feces, and Hides of Cattle at Slaughter
                                                        

- (Peer Reviewed Journal)Gragg, S.E., Loneragan, G.H., Nightingale, K.K., Harhay, D.M., Ruiz, H., Elder, J.R., Garcia, L.G., Miller, M.F., Echeverry, A., Porras, R., Brashears, M. 2013. Substantial within-Animal Diversity of Salmonella Isolates from Lymph Nodes, Feces, and Hides of Cattle at Slaughter. Applied and Environmental Microbiology. 79(15):4744-4750.Mixed biofilm formation by Shiga toxin-producing Escherichia coli and Salmonella enterica serovar typhimurium enhanced bacterial resistance to sanitization due to extracellular polymeric substances
                                                        

- (Peer Reviewed Journal)Wang, R., Kalchayanand, N., Schmidt, J.W., Harhay, D.M. 2013. Mixed biofilm formation by Shiga toxin-producing Escherichia coli and Salmonella enterica serovar typhimurium enhanced bacterial resistance to sanitization due to extracellular polymeric substances. Journal of Food Protection. 76(9):1513-1522.Complete closed genome sequences of Mannheimia haemolytica serotypes A1 and A6 isolated from cattle

- (Peer Reviewed Journal)Harhay, G.P., Koren, S., Phillippy, A.M., McVey, D.S., Kuszak, J., Clawson, M.L., Harhay, D.M., Heaton, M.P., Chitko-McKown, C.G., Smith, T.P.L. 2013. Complete closed genome sequences of Mannheimia haemolytica serotypes A1 and A6 isolated from cattle. Genome Announcements. 1(3):e00188-13. DOI: 10.1128/GENOMEA.00188-13.Development of a transdermal Salmonella challenge model in calves

- (Peer Reviewed Journal)Edrington, T.S., Loneragan, G.H., Hill, J.E., Genovese, K.J., He, L.H., Callaway, T.R., Anderson, R.C., Brichta-Harhay, D.M., Nisbet, D.J. 2013. Development of a transdermal Salmonella challenge model in calves. Journal of Food Protection. 76:1255-1258.Development of challenge models to evaluate the efficacy of a vaccine to reduce carriage of Salmonella in peripheral lymph nodes of cattle

- (Peer Reviewed Journal)Edrington, T.S., Loneragan, G.H., Hill, J.E., Genovese, K.J., Brichta-Harhay, D.M., Farrow, R.L., Krueger, N.A., Callaway, T.R., Anderson, R.C., Nisbet, D.J. 2013. Development of challenge models to evaluate the efficacy of a vaccine to reduce carriage of Salmonella in peripheral lymph nodes of cattle. Journal of Food Protection. 76:1259-1263.Cross-sectional study examining Salmonella enterica carriage in subiliac lymph nodes of cull and feedlot cattle at harvest

- (Peer Reviewed Journal)Gragg, S.E., Loneragan, G.H., Brashears, M.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Wang, R., Schmidt, J.W., Brooks, J.C., Shackelford, S.D., Wheeler, T.L., Brown, T.R., Edrington, T.S., Brichta-Harhay, D.M. 2013. Cross-sectional study examining Salmonella enterica carriage in subiliac lymph nodes of cull and feedlot cattle at harvest. Foodborne Pathogens and Disease. 10:368-374.Salmonella virulence, genomics and interactions with the immune system

- (Proceedings)Harhay, D.M., Smith, T.P., Harhay, G.P., Bono, J.L., Bosilevac, J.M. 2013. Salmonella virulence, genomics and interactions with the immune system. Meeting Abstract. The Beef Industry Safety Summit, March 13-15, 2013, Dallas Texas, FLASHDRIVE.Salmonella in lymph nodes of cull and fed cattle at harvest

- (Abstract Only)Webb, H.E., Harhay, D.M., Gragg, S.E., Brashears, M.M., Nightingale, K.K., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Schmidt, J.W., Wang, R., Lonergan, G.H. 2013. Salmonella in lymph nodes of cull and fed cattle at harvest. IN:  Proceedings of The Beef Industry Summit 2013, March 13-15, 2013, Dallas Texas, 2013 FLASHDRIVE.Influence of therapeutic ceftiofur treatments of feedlot cattle on fecal and hide prevalences of commensal Escherichia coli resistant to expanded-spectrum cephalosporins, and molecular characterization of resistant isolates
                                                        

- (Peer Reviewed Journal)Schmidt, J.W., Griffin, D., Kuehn, L.A., Harhay, D.M. 2013. Influence of therapeutic ceftiofur treatments of feedlot cattle on fecal and hide prevalences of commensal Escherichia coli resistant to expanded-spectrum cephalosporins, and molecular characterization of resistant isolates. Applied and Environmental Microbiology. 79(7):2273-2283.Application of SMRT genome sequencing to reveal the methylomes of bacteria associated with respiratory disease outbreaks in beef cattle

- (Abstract Only)Harhay, G.P., McVey, D.S., Korlach, J., Roberts, R., Chitko-McKown, C.G., Clawson, M.L., Heaton, M.P., Harhay, D.M., Smith, T.P.L., Anton, B.P. 2013. Application of SMRT genome sequencing to reveal the methylomes of bacteria associated with respiratory disease outbreaks in beef cattle [Abstract]. Advances in Genome Biology and Technology Conference, February 20-23, 2013, Marco Island, FL. Page 99.Cross-sectional study examining Salmonella enterica carriage in subiliac lymph nodes of cull and feedlot cattle at harvest

- (Peer Reviewed Journal)Gragg, S.E., Loneragan, G.H., Brashears, M.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Wang, R., Schmidt, J.W., Brooks, J., Shackelford, S.D., Wheeler, T.L., Brown, T.R., Edrington, T.S., Harhay, D.M. 2013. Cross-sectional study examining Salmonella enterica carriage in subiliac lymph nodes of cull and feedlot cattle at harvest. Foodborne Pathogens and Disease. 10(4):368-374.Isolation and characterization of Clostridium difficile associated with beef cattle and commercially produced ground beef

- (Peer Reviewed Journal)Kalchayanand, N., Arthur, T.M., Bosilevac, J.M., Harhay, D.M., Shackelford, S.D., Wells, J., Wheeler, T.L., Koohmaraie, M. 2013. Isolation and characterization of Clostridium difficile associated with beef cattle and commercially produced ground beef. Journal of Food Protection. 76(2):256-264.Disinfectant and antibiotic susceptibility profiles of Escherichia coli O157:H7 strains from cattle carcasses, feces, and hides and ground beef from the United States

- (Peer Reviewed Journal)Beier, R.C., Poole, T.L., Brichta-Harhay, D.M., Anderson, R.C., Bischoff, K.M., Hernandez, C.A., Bono, J.L., Arthur, T.M., Nagaraja, T.G., Crippen, T.L., Sheffield, C.L., Nisbet, D.J. 2013. Disinfectant and antibiotic susceptibility profiles of Escherichia coli O157:H7 strains from cattle carcasses, feces, and hides and ground beef from the United States. Journal of Food Protection. 76:6-17.Biofilm formation by Shiga toxin–producing Escherichia coli O157:H7 and non-O157 strains and their tolerance to sanitizers commonly used in the food processing environment

- (Peer Reviewed Journal)Wang, R., Bono, J.L., Kalchayanand, N., Shackelford, S.D., Harhay, D.M. 2012. Biofilm formation by Shiga toxin–producing Escherichia coli O157:H7 and non-O157 strains and their tolerance to sanitizers commonly used in the food processing environment. Journal of Food Protection. 75(8):1418-1428.Prevalence of lactose fermenting coliforms resistant to third generation cephalosporins in cattle feedlot throughout a production cycle and molecular characterization of resistant isolates

- (Abstract Only)Schmidt, J.W., Kuehn, L.A., Griffin, D., Harhay, D.M. 2012. Prevalence of lactose fermenting coliforms resistant to third generation cephalosporins in cattle feedlot throughout a production cycle and molecular characterization of resistant isolates [abstract]. International Association for Food Protection. p. 148-149. Abstract No. P2-95.Biofilm formation by foodborne pathogens and their resistance to sanitization

- (Abstract Only)Wang, R., Bono, J.L., Kalchayanand, N., Shackelford, S.D., Harhay, D.M. 2012. Biofilm formation by foodborne pathogens and their resistance to sanitization. [Abstract]. Americian Society for Microbiology, 112th General Meeting. Poster No 2154, session 170.Prevalence, enumeration, serotypes, and antimicrobial resistance phenotypes of Salmonella enterica isolates from carcasses at two large United States pork processing plants

- (Peer Reviewed Journal)Schmidt, J.W., Harhay, D.M., Kalchayanand, N., Bosilevac, J.M., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2012. Prevalence, enumeration, serotypes, and antimicrobial resistance phenotypes of Salmonella enterica isolates from carcasses at two large United States pork processing plants. Applied and Environmental Microbiology. 78(8):2716-2726.Microbiological analysis of bovine lymph nodes for the detection of Salmonella enterica

- (Peer Reviewed Journal)Harhay, D.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Schmidt, J.W., Wang, R., Shackelford, S.D., Loneragan, G.H., Wheeler, T.L. 2012. Microbiological analysis of bovine lymph nodes for the detection of Salmonella enterica. Journal of Food Protection. 75(5):854-858.Application of combined SMRT and long-read pyrosequencing to produce reference genome sequences of bacteria associated with respiratory disease outbreaks in beef cattle

- (Abstract Only)Harhay, G.P., Mcvey, D.S., Kitzmiller, A., Clamp, M., Osborne, B., Dwan, C., Zhang, J., Sisneros, N., Wang, S., Peluso, P., Bono, J.L., Chitko Mckown, C.G., Clawson, M.L., Heaton, M.P., Harhay, D.M., Smith, T.P.L. [abstract]. 2012. Application of combined SMRT and long-read pyrosequencing to produce reference genome sequences of bacteria associated with respiratory disease outbreaks in beef cattle. Advances in Genome Biology and Technology, February 15-18, 2012, Marco Island, Florida. Poster No. 129.Piloting the future: Results from a pilot study for changes in the animal sampling program for the national antibiotic resistance monitoring system (NARMS)

- (Abstract Only)Torrence, M.E., Singer, R., Loneragan, G., Scott, M., Hofacre, C., Berghaus, R., Harhay, D.M., Edrington, T.S., Byrd Ii, J.A., Van Kessel, J.S. 2011. Piloting the future: Results from a pilot study for changes in the animal sampling program for the national antibiotic resistance monitoring system (NARMS). Meeting Abstract.Salmonella in lymph nodes of cattle presented for harvest

- (Abstract Only)Gragg, S.E., Loneragan, G.H., Brashears, M.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Wang, R., Schmidt, J.W., Brooks, J.C., Shackelford, S.D., Wheeler, T.L., Brown, T.R., Brichta-Harhay, D.M. 2011. Salmonella in lymph nodes of cattle presented for harvest [abstract]. Proceeding of the 2011 Conference of Research Workers in Animal Diseases, December 4-6, 2011, Chicago, Illinois.  p. 149.Salmonella in lymph nodes of cattle presented for harvest

- (Abstract Only)Gragg, S.E., Loneragan, G.H., Brichta-Harhay, D.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Wang, R., Schmidt, J.W., Brooks, J.C., Shackelford, S.D., Wheeler, T.L., Brown, T.R., Brashears, M.M. 2011. Salmonella in lymph nodes of cattle presented for harvest [abstract]. International Association for Food Protection.  p. 19.  Abstract No. P1-62.Gene expression response of multidrug resistant Salmonella enterica serovar Newport to simulated multiple hurdle beef carcass processing interventions

- (Abstract Only)Harhay, D.M., Smith, T.P., Harhay, G.P. 2011. Gene expression response of multidrug resistant Salmonella enterica serovar Newport to simulated multiple hurdle beef carcass processing interventions. In:  Proceedings of the American Society for Microbiology.  111th General Meeting of the American Society for Microbiology, May 21-24, 2011, New Orleans, Louisiana.  2011 CDROM.  Meeting Abstract K-2692.Towards an understanding of how Salmonella potentially evades beef carcass processing interventions

- (Abstract Only)Brichta-Harhay, D.M., Gragg, S.E., Smith, T.P.L., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Schmidt, J.W., Wang, R., Shackelford, S.D., Wheeler, T.L., Brashears, M.M., Brooks, J.C., Brown, T.R., Harhay, G.P., Loneragan, G.H. 2011. Towards an understanding of how Salmonella potentially evades beef carcass processing interventions [abstract]. 2011 Beef Industry Safety Summit. Abstract No. 2.Biosurveillance at the United States Meat Animal Research Center

- (Abstract Only)Harhay, G.P., Harhay, D.M., Chitko Mckown, C.G., Smith, T.P. 2011. Biosurveillance at the United States Meat Animal Research Center [abstract]. Global Biosurveillance:  Enabling Science and Technology 2nd Biothreat Nonproliferation Conference. Abstract No. 12.Diversity of multidrug-resistant Salmonella enterica strains associated with cattle at harvest in the United States

- (Peer Reviewed Journal)Harhay, D.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2011. Diversity of multidrug-resistant Salmonella enterica strains associated with cattle at harvest in the United States. Applied and Environmental Microbiology. 77(5):1783-1796.Persistence of resistance plasmids carried by beta-hemolytic E. coli when maintained in a continous-flow fermentation system without antimicrobial selection pressure

- (Peer Reviewed Journal)Poole, T.L., Harhay, D.M., Callaway, T.R., Beier, R.C., Bischoff, K.M., Loneragon, G.H., Anderson, R.C., Nisbet, D.J. 2011. Persistence of resistance plasmids carried by beta-hemolytic E. coli when maintained in a continous-flow fermentation system without antimicrobial selection pressure. Foodborne Pathogens and Disease. 8:535-540.Molecular analysis of plasmid encoded multi-drug resistance (MDR) in Salmonella enterica animal isolates by PFGE, replicon typing, and DNA microarray screening followed by high-throughput DNA sequencing

- (Abstract Only)Lindsey, R.L., Frye, J.G., Bono, J.L., Smith, T.P., Harhay, D.M., Cray, P.J., Meinersmann, R.J. 2010. Molecular analysis of plasmid encoded multi-drug resistance (MDR) in Salmonella enterica animal isolates by PFGE, replicon typing, and DNA microarray screening followed by high-throughput DNA sequencing. American Society for Microbiology. June 8-11, 2010. Toronto, Canada. B16. p41-42.Animal-to-Animal Variation in Fecal Microbial Diversity among Beef Cattle

- (Peer Reviewed Journal)Durso, L.M., Harhay, G.P., Smith, T.P.L., Bono, J.L., Desantis, T.Z., Harhay, D.M., Andersen, G.L., Keen, J.E., Laegreid, W.W., Clawson, M.L. 2010. Animal-to-Animal Variation in Fecal Microbial Diversity among Beef Cattle. Applied and Environmental Microbiology. 76(14):4858-4862.Diversity of Multi-drug Resistant Salmonella enterica Associated with Cull Cattle at Harvest in the United States

- (Abstract Only)Harhay, D.M., Poole, T.L., Durso, L.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2010. Diversity of Multi-drug Resistant Salmonella enterica Associated with Cull Cattle at Harvest in the United States [abstract]. American Society for Microbiology. p. 25, Presentation No. S4:1 and p. 111, Poster No. B176.Super Shedding of Escherichia coli O157:H7 by Cattle and the Impact on Beef Carcass Contamination

- (Proceedings)Arthur, T.M., Harhay, D.M., Bosilevac, J.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2010. Super Shedding of Escherichia coli O157:H7 by Cattle and the Impact on Beef Carcass Contamination. Meat Science. 86:32-37. Special Issue: 56th International Congress of Meat Science and Technology (56th ICoMST) August 15-20, 2010, Jeju, Korea. (Proceedings) Available: http://dx.doi.org/10.1016/j.meatsci.2010.04.019Longitudinal Study of Escherichia coli O157:H7 in a Beef Cattle Feedlot and Role of High-Level Shedders in Hide Contamination

- (Peer Reviewed Journal)Arthur, T.M., Keen, J.E., Bosilevac, J.M., Brichta-Harhay, D.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Nou, X., Koohmaraie, M. 2009. Longitudinal Study of Escherichia coli O157:H7 in a Beef Cattle Feedlot and Role of High-Level Shedders in Hide Contamination. Applied and Environmental Microbiology. 75(20):6515-6523.Conjugative transferability of the A/C plasmids from Salmonella enterica isolates that possess or lack blaCMY in the A/C plasmid backbone

- (Peer Reviewed Journal)Poole, T.L., Edrington, T.S., Harhay, D.M., Carattoli, A., Ramlachan, N., Anderson, R.C., Nisbet, D.J. 2009. Conjugative transferability of the A/C plasmids from Salmonella enterica isolates that possess or lack blaCMY in the A/C plasmid backbone. Foodborne Pathogens and Disease. 6:1185-1194.Longitudinal Study of Escherichia coli O157:H7 in a Beef Cattle Feedlot and the Role of High Shedders in Hide Contamination

- (Abstract Only)Arthur, T.M., Keen, J.E., Bosilevac, J.M., Brichta-Harhay, D.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Nou, X., Koohmaraie, M. 2009. Longitudinal Study of Escherichia coli O157:H7 in a Beef Cattle Feedlot and the Role of High Shedders in Hide Contamination [abstract]. 7th International Symposium on Shiga Toxin (Verocytotoxin)-Producing Escherichia coli Infections (VTEC2009) Paper No. 195.Prevalence of Clostridium difficile from Commercial Beef Processing Plants in the United States

- (Abstract Only)Kalchayanand, N., Arthur, T.M., Bosilevac, J.M., Harhay, D.M., Shackelford, S.D., Wells, J., Wheeler, T.L., Koohmaraie, M. 2009. Prevalence of Clostridium difficile from Commercial Beef Processing Plants in the United States [abstract]. Institute of Food Technologists (IFT), Division Food Microbiology, Session 026-15, p. 82.Prevalence Rates of Escherichia coli O157:H7 and Salmonella at Different Sampling Sites on Cattle Hides at a Feedlot and Processing Plant

- (Peer Reviewed Journal)Kalchayanand, N., Brichta-Harhay, D.M., Arthur, T.M., Bosilevac, J.M., Guerini, M.N., Wheeler, T.L., Shackelford, S.D., Koohmaraie, M. 2009. Prevalence Rates of Escherichia coli O157:H7 and Salmonella at Different Sampling Sites on Cattle Hides at a Feedlot and Processing Plant. Journal of Food Protection. 72(6):1267-1271.Characterization of Multidrug-resistant Salmonella Isolated from Cull and Fed Cattle at Slaughter in the United States

- (Abstract Only)Harhay, D.M., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2009. Characterization of Multidrug-resistant Salmonella Isolated from Cull and Fed Cattle at Slaughter in the United States [abstract]. NCBA Beef Industry Safety Summit, San Diego, CA, March 4-6, 2009.Escherichia coli O157:H7 and Salmonella in Small Processing Plants and the Effect of Feeding Wet Distillers Grains with Solubles on E. coli O157:H7

- (Abstract Only)Bosilevac, J.M., Wells, J., Arthur, T.M., Kalchayanand, N., Shackelford, S.D., Berry, E.D., Bono, J.L., Harhay, D.M., Wheeler, T.L., Koohmaraie, M. 2009. Escherichia coli O157:H7 and Salmonella in Small Processing Plants and the Effect of Feeding Wet Distillers Grains with Solubles on E. coli O157:H7 [abstract]. NCBA Beef Industry Safety Summit, San Diego, CA, March 4-6, 2009.Prevalence and Enumeration of Escherichia coli O157:H7 and Salmonella in U.S. Abattoirs That Process Fewer Than 1,000 Head of Cattle Per Day

- (Peer Reviewed Journal)Bosilevac, J.M., Arthur, T.M., Bono, J.L., Brichta-Harhay, D.M., Kalchayanand, N., King, D.A., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2009. Prevalence and Enumeration of Escherichia coli O157:H7 and Salmonella in U.S. Abattoirs That Process Fewer Than 1,000 Head of Cattle Per Day. Journal of Food Protection. 72(6):1272-1278.Effectiveness of 1,3-Dibromo-5,5 dimethylhydantoin on reduction of Escherichia coli O157:H7- and Salmonella-inoculated fresh meat

- (Peer Reviewed Journal)Kalchayanand, N., Arthur, T.M., Bosilevac, J.M., Brichta-Harhay, D.M., Guerini, M.N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2009. Effectiveness of 1,3-Dibromo-5,5 dimethylhydantoin on reduction of Escherichia coli O157:H7- and Salmonella-inoculated fresh meat. Journal of Food Protection 72(1):151-156.Salmonella and E. coli O157:H7 contamination on hides and carcasses of cull cattle presented for slaughter in the U.S.: an evaluation of prevalence and bacterial loads by immunomagnetic separation and direct plating methods

- (Peer Reviewed Journal)Harhay, D.M., Guerini, M.N., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. Salmonella and Escherichia coli O157:H7 contamination on hides and carcasses of cull cattle presented for slaughter in the United States: an evaluation of prevalence and bacterial loads by immunomagnetic separation and direct plating methods. 2008. Applied and Environmental Microbiology 74(20):6289-6297.Comparison of effects of antimicrobial interventions on multidrug-resistant Salmonella, susceptible Salmonella, and Escherichia coli O157:H7

- (Peer Reviewed Journal)Arthur, T.M., Kalchayanand, N., Bosilevac, J.M., Harhay, D.M., Shackelford, S.D., Bono, J.L., Wheeler, T.L., Koohmaraie, M. 2008. Comparison of effects of antimicrobial interventions on multidrug-resistant Salmonella, susceptible Salmonella, and Escherichia coli O157:H7. Journal of Food Protection 71(11):2177-2181.Source tracking of Escherichia coli O157:H7 and Salmonella contamination in the lairage environment at commercial U.S. beef processing plants and identification of an effective intervention

- (Peer Reviewed Journal)Arthur, T.M., Bosilevac, J.M., Harhay, D.M., Kalchayanand, N., King, D.A., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2008. Source tracking of Escherichia coli O157:H7 and Salmonella contamination in the lairage environment at commercial U.S. beef processing plants and identification of an effective intervention. Journal of Food Protection. 71(9):1752-1760.Prevalence and Characterization of Salmonella in Bovine Lymph Nodes Potentially Destined for Use in Ground Beef

- (Peer Reviewed Journal)Arthur, T.M., Harhay, D.M., Bosilevac, J.M., Guerini, M.N., Kalchayanand, N., Wells, J., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2008. Prevalence and characterization of Salmonella in bovine lymph nodes potentially destined for use in ground beef. Journal of Food Protection 71(8):1685-1688.Evaluation of various antimicrobial interventions for the reduction of Escherichia coli O157:H7 on bovine heads during processing

- (Peer Reviewed Journal)Kalchayanand, N., Arthur, T.M., Bosilevac, J.M., Brichta-Harhay, D.M., Guerini, M.N., Wheeler, T.L., Koohmaraie, M. 2008. Evaluation of various antimicrobial interventions for the reduction of Escherichia coli O157:H7 on bovine heads during processing. Journal of Food Protection 71(3):621-624.Enumeration of Salmonella from Poultry Carcass Rinses via Direct Plating Methods

- (Peer Reviewed Journal)Harhay, D.M., Arthur, T.M., Koohmaraie, M. 2008.  Enumeration of Salmonella from poultry carcass rinses via direct plating methods. Letters in Applied Microbiology 46(2):186-191.Listeria prevalence and L. monocytogenes serovar diversity at cull cow/bull processing plants in the United States

- (Peer Reviewed Journal)Guerini, M.N., Harhay, D.M., Shackelford, S.D., Arthur, T.M., Bosilevac, J.M., Kalchayanand, N., Wheeler, T.L., Koohmaraie, M. 2007. Listeria prevalence and Listeria monocytogenes serovar diversity at cull cow and bull processing plants in the United States. Journal of Food Protection. 70(11):2578-2582.Microbiological characterization of lamb carcasses at commercial processing plants in the United States

- (Peer Reviewed Journal)Kalchayanand, N., Arthur, T.M., Bosilevac, J.M., Harhay, D.M., Guerini, M.N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2007. Microbiological characterization of lamb carcasses at commercial processing plants in the United States. Journal of Food Protection 70(8):1811-1819.Enumeration of Salmonella and Escherichia coli O157:H7 in Ground Beef, Cattle Carcass, Hide and Fecal Samples Using Direct Plating Methods

- (Peer Reviewed Journal)Harhay, D.M., Arthur, T.M., Bosilevac, J.M., Guerini, M.N., Kalchayanand, N., Koohmaraie, M. 2007. Enumeration of Salmonella and Escherichia coli O157:H7 in ground beef, cattle carcass, hide and faecal samples using direct plating methods. Journal of Applied Microbiology 103(5):1657-1668.Effects of a Minimal Hide Wash Cabinet on the Levels and Prevalence of Escherichia coli O157:H7 and Salmonella on the Hides of Beef Cattle at Slaughter

- (Peer Reviewed Journal)Arthur, T.M., Bosilevac, J.M., Brichta-Harhay, D.M., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2007. Effects of a Minimal Hide Wash Cabinet on the Levels and Prevalence of Escherichia coli O157:H7 and Salmonella on the Hides of Beef Cattle at Slaughter. Journal of Food Protection 70:1076-1079.Transportation and lairage environment effects on prevalence, numbers, and diversity of Escherichia coli O157:H7 on hides and carcasses of beef cattle at processing

- (Peer Reviewed Journal)Arthur, T.M., Bosilevac, J.M., Harhay, D.M., Guerini, M.N., Kalchayanand, N., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2007. Transportation and lairage environment effects on prevalence, numbers, and diversity of Escherichia coli O157:H7 on hides and carcasses of beef cattle at processing. Journal of Food Protection 70(2):280-286.MICROBIOLOGICAL CHARACTERIZATION OF IMPORTED AND DOMESTIC BONELESS BEEF TRIM USED FOR GROUND BEEF

- (Peer Reviewed Journal)Bosilevac, J.M., Guerini, M.N., Harhay, D.M., Arthur, T.M., Koohmaraie, M. 2007. Microbiological characterization of imported and domestic boneless beef trim used for ground beef. Journal of Food Protection 70(2):440-449.IMPROVEMENT OF IMMUNOMAGNETIC SEPARATION FOR ESCHERICHIA COLI O157:H7 DETECTION BY THE PICKPEN MAGNETIC PARTICLE SEPARATION DEVICE

- (Peer Reviewed Journal)Nou, X., Arthur, T.M., Bosilevac, J.M., Harhay, D.M., Guerini, M.N., Kalchayanand, N., Koohmaraie, M. 2006. Improvement of immunomagnetic separation for Escherichia coli O157:H7 detection by the pickpen magnetic particle separation device. Journal of Food Protection 69:2870-2874.EFFICACY OF OZONATED AND ELECTROLYZED OXIDATIVE WATERS TO DECONTAMINATE HIDES OF CATTLE BEFORE SLAUGHTER

- (Peer Reviewed Journal)Bosilevac, J.M., Shackelford, S.D., Brichta, D.M., Koohmaraie, M. 2005. Efficacy of ozonated and electrolyzed oxidative waters to decontaminate hides of cattle before slaughter. Journal of Food Protection. 68:1393-1398.
                    ARS News Articles
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                                                Scientists Scrutinize Role of "Supershedder" Cattle in E. coli O157:H7 Contaminationitem
                                                Food Safety Study of Beef "Trim" Leads to Ongoing Research Collaboration


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