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Attribution of Listeria monocytogenes human infections to food and animal sources in Northern Italy.

Filipello V, Mughini-Gras L, Gallina S, Vitale N, Mannelli A, Pontello M, Decastelli L, Allard MW, Brown EW, Lomonaco S.

Food Microbiol. 2020 Aug;89:103433. doi: 10.1016/ Epub 2020 Jan 20.


Atypical Salmonella enterica Serovars in Murine and Human Macrophage Infection Models.

Hurley D, Hoffmann M, Muruvanda T, Allard MW, Brown EW, Martins M, Fanning S.

Infect Immun. 2020 Mar 23;88(4). pii: e00353-19. doi: 10.1128/IAI.00353-19. Print 2020 Mar 23.


Characterization of Salmonella enterica Isolates from Selected U.S. Swine Feed Mills by Whole-Genome Sequencing.

Trinetta V, Magossi G, Allard MW, Tallent SM, Brown EW, Lomonaco S.

Foodborne Pathog Dis. 2020 Feb;17(2):126-136. doi: 10.1089/fpd.2019.2701. Epub 2019 Nov 8.


Evaluation of a Bead-Based Salmonella Molecular Serotyping Method for Salmonella Isolated from Food and Environmental Samples.

Moore MM, Nucci MJ, Madson SM, Wagley GS, Keys CE, Brown EW, McQUISTON JR, Fields PI.

J Food Prot. 2019 Nov;82(11):1973-1987. doi: 10.4315/0362-028X.JFP-18-600.


Nanopore sequencing for fast determination of plasmids, phages, virulence markers, and antimicrobial resistance genes in Shiga toxin-producing Escherichia coli.

González-Escalona N, Allard MA, Brown EW, Sharma S, Hoffmann M.

PLoS One. 2019 Jul 30;14(7):e0220494. doi: 10.1371/journal.pone.0220494. eCollection 2019.


All for one and one for all: the true potential of whole-genome sequencing.

Allard MW, Stevens EL, Brown EW.

Lancet Infect Dis. 2019 Jul;19(7):683-684. doi: 10.1016/S1473-3099(19)30172-0. Epub 2019 May 24. No abstract available.


Whole genome sequencing uses for foodborne contamination and compliance: Discovery of an emerging contamination event in an ice cream facility using whole genome sequencing.

Allard MW, Strain E, Rand H, Melka D, Correll WA, Hintz L, Stevens E, Timme R, Lomonaco S, Chen Y, Musser SM, Brown EW.

Infect Genet Evol. 2019 Sep;73:214-220. doi: 10.1016/j.meegid.2019.04.026. Epub 2019 Apr 27. Review.


Phylogenomic Pipeline Validation for Foodborne Pathogen Disease Surveillance.

Timme RE, Strain E, Baugher JD, Davis S, Gonzalez-Escalona N, Sanchez Leon M, Allard MW, Brown EW, Tallent S, Rand H.

J Clin Microbiol. 2019 Apr 26;57(5). pii: e01816-18. doi: 10.1128/JCM.01816-18. Print 2019 May. Review.


Avoiding Patient Harm With Parenteral Nutrition During Electrolyte Shortages.

Brown EW, McClellan NH, Minard G, Maish GO 3rd, Dickerson RN.

Hosp Pharm. 2018 Dec;53(6):403-407. doi: 10.1177/0018578718769571. Epub 2018 Apr 13.


Draft Genome Sequences of 57 Salmonella enterica Strains from Selected U.S. Swine Feed Mills.

Lomonaco S, Magossi G, Sanchez Leon M, Miller D, Kastanis GJ, Tallent SM, Allard MW, Brown EW, Trinetta V.

Microbiol Resour Announc. 2018 Nov 1;7(17). pii: e01191-18. doi: 10.1128/MRA.01191-18. eCollection 2018 Nov.


In-depth comparative analysis of Illumina® MiSeq run metrics: Development of a wet-lab quality assessment tool.

Kastanis GJ, Santana-Quintero LV, Sanchez-Leon M, Lomonaco S, Brown EW, Allard MW.

Mol Ecol Resour. 2019 Mar;19(2):377-387. doi: 10.1111/1755-0998.12973. Epub 2019 Jan 17.


Salmonella enterica Phylogeny Based on Whole-Genome Sequencing Reveals Two New Clades and Novel Patterns of Horizontally Acquired Genetic Elements.

Worley J, Meng J, Allard MW, Brown EW, Timme RE.

mBio. 2018 Nov 27;9(6). pii: e02303-18. doi: 10.1128/mBio.02303-18.


How Cognitive Machines Can Augment Medical Imaging.

Miller DD, Brown EW.

AJR Am J Roentgenol. 2019 Jan;212(1):9-14. doi: 10.2214/AJR.18.19914. Epub 2018 Nov 13.


Agricultural Practices Influence Salmonella Contamination and Survival in Pre-harvest Tomato Production.

Gu G, Strawn LK, Oryang DO, Zheng J, Reed EA, Ottesen AR, Bell RL, Chen Y, Duret S, Ingram DT, Reiter MS, Pfuntner R, Brown EW, Rideout SL.

Front Microbiol. 2018 Oct 16;9:2451. doi: 10.3389/fmicb.2018.02451. eCollection 2018.


Insect exclusion limits variation in bacterial microbiomes of tomato flowers and fruit.

Allard SM, Ottesen AR, Brown EW, Micallef SA.

J Appl Microbiol. 2018 Aug 26. doi: 10.1111/jam.14087. [Epub ahead of print]


Closed Genome Sequence of Clostridium botulinum Strain CFSAN064329 (62A).

Wentz TG, Yao K, Schill KM, Reddy NR, Skinner GE, Morrissey TR, Wang Y, Muruvanda T, Manickam G, Pillai CA, Thirunavukkarasu N, Hoffmann M, Hammack TS, Brown EW, Allard MW, Sharma SK.

Genome Announc. 2018 Jun 28;6(26). pii: e00528-18. doi: 10.1128/genomeA.00528-18.


Plant-Microbe and Abiotic Factors Influencing Salmonella Survival and Growth on Alfalfa Sprouts and Swiss Chard Microgreens.

Reed E, Ferreira CM, Bell R, Brown EW, Zheng J.

Appl Environ Microbiol. 2018 Apr 16;84(9). pii: e02814-17. doi: 10.1128/AEM.02814-17. Print 2018 May 1.


Survey of Foodborne Pathogens, Aerobic Plate Counts, Total Coliform Counts, and Escherichia coli Counts in Leafy Greens, Sprouts, and Melons Marketed in the United States.

Zhang G, Chen Y, Hu L, Melka D, Wang H, Laasri A, Brown EW, Strain E, Allard M, Bunning VK, Parish M, Musser SM, Hammack TS.

J Food Prot. 2018 Mar;81(3):400-411. doi: 10.4315/0362-028X.JFP-17-253.


Distribution of Legionella and bacterial community composition among regionally diverse US cooling towers.

Llewellyn AC, Lucas CE, Roberts SE, Brown EW, Nayak BS, Raphael BH, Winchell JM.

PLoS One. 2017 Dec 20;12(12):e0189937. doi: 10.1371/journal.pone.0189937. eCollection 2017.


Closed Genome Sequence of Chryseobacterium piperi Strain CTMT/ATCC BAA-1782, a Gram-Negative Bacterium with Clostridial Neurotoxin-Like Coding Sequences.

Wentz TG, Muruvanda T, Lomonaco S, Thirunavukkarasu N, Hoffmann M, Allard MW, Hodge DR, Pillai SP, Hammack TS, Brown EW, Sharma SK.

Genome Announc. 2017 Nov 30;5(48). pii: e01296-17. doi: 10.1128/genomeA.01296-17.


Genomics of foodborne pathogens for microbial food safety.

Allard MW, Bell R, Ferreira CM, Gonzalez-Escalona N, Hoffmann M, Muruvanda T, Ottesen A, Ramachandran P, Reed E, Sharma S, Stevens E, Timme R, Zheng J, Brown EW.

Curr Opin Biotechnol. 2018 Feb;49:224-229. doi: 10.1016/j.copbio.2017.11.002. Epub 2017 Nov 21. Review.


Artificial Intelligence in Medical Practice: The Question to the Answer?

Miller DD, Brown EW.

Am J Med. 2018 Feb;131(2):129-133. doi: 10.1016/j.amjmed.2017.10.035. Epub 2017 Nov 7. Review.


Prevalence of Salmonella in 11 Spices Offered for Sale from Retail Establishments and in Imported Shipments Offered for Entry to the United States.

Zhang G, Hu L, Pouillot R, Tatavarthy A, Doren JMV, Kleinmeier D, Ziobro GC, Melka D, Wang H, Brown EW, Strain E, Bunning VK, Musser SM, Hammack TS.

J Food Prot. 2017 Oct 4:1791-1805. doi: 10.4315/0362-028X.JFP-17-072. [Epub ahead of print]


Comparative Sequence Analysis of Multidrug-Resistant IncA/C Plasmids from Salmonella enterica.

Hoffmann M, Pettengill JB, Gonzalez-Escalona N, Miller J, Ayers SL, Zhao S, Allard MW, McDermott PF, Brown EW, Monday SR.

Front Microbiol. 2017 Aug 7;8:1459. doi: 10.3389/fmicb.2017.01459. eCollection 2017.


Complete Genome Sequences of Two Salmonella enterica subsp. enterica Serovar Enteritidis Strains Isolated from Egg Products in the United States.

Hu L, Zhang G, Allard MW, Yao K, Stones R, Hoffmann M, Brown EW.

Genome Announc. 2017 Jun 29;5(26). pii: e00614-17. doi: 10.1128/genomeA.00614-17.


Whole genome sequencing analyses of Listeria monocytogenes that persisted in a milkshake machine for a year and caused illnesses in Washington State.

Li Z, Pérez-Osorio A, Wang Y, Eckmann K, Glover WA, Allard MW, Brown EW, Chen Y.

BMC Microbiol. 2017 Jun 15;17(1):134. doi: 10.1186/s12866-017-1043-1.


Whole Genome and Core Genome Multilocus Sequence Typing and Single Nucleotide Polymorphism Analyses of Listeria monocytogenes Isolates Associated with an Outbreak Linked to Cheese, United States, 2013.

Chen Y, Luo Y, Carleton H, Timme R, Melka D, Muruvanda T, Wang C, Kastanis G, Katz LS, Turner L, Fritzinger A, Moore T, Stones R, Blankenship J, Salter M, Parish M, Hammack TS, Evans PS, Tarr CL, Allard MW, Strain EA, Brown EW.

Appl Environ Microbiol. 2017 Jul 17;83(15). pii: e00633-17. doi: 10.1128/AEM.00633-17. Print 2017 Aug 1.


The Public Health Impact of a Publically Available, Environmental Database of Microbial Genomes.

Stevens EL, Timme R, Brown EW, Allard MW, Strain E, Bunning K, Musser S.

Front Microbiol. 2017 May 9;8:808. doi: 10.3389/fmicb.2017.00808. eCollection 2017. No abstract available.


Whole-Genome Comparative Analysis of Salmonella enterica Serovar Newport Strains Reveals Lineage-Specific Divergence.

Zheng J, Luo Y, Reed E, Bell R, Brown EW, Hoffmann M.

Genome Biol Evol. 2017 Apr 1;9(4):1047-1050. doi: 10.1093/gbe/evx065.


Genome Sequences of Four Nonhuman/Nonclinical Salmonella enterica Serovar Kentucky ST198 Isolates Recovered between 1972 and 1973.

Kim SW, Haley BJ, Roberson D, Allard M, Hammack TS, Brown EW, Van Kessel JA.

Genome Announc. 2017 Mar 16;5(11). pii: e01699-16. doi: 10.1128/genomeA.01699-16.


Prevalence and Level of Listeria monocytogenes in Ice Cream Linked to a Listeriosis Outbreak in the United States.

Chen YI, Burall LS, Macarisin D, Pouillot R, Strain E, DE Jesus AJ, Laasri A, Wang H, Ali L, Tatavarthy A, Zhang G, Hu L, Day J, Kang J, Sahu S, Srinivasan D, Klontz K, Parish M, Evans PS, Brown EW, Hammack TS, Zink DL, Datta AR.

J Food Prot. 2016 Nov;79(11):1828-1832. doi: 10.4315/0362-028X.JFP-16-208.


Prevalence of Salmonella in Cashews, Hazelnuts, Macadamia Nuts, Pecans, Pine Nuts, and Walnuts in the United States.

Zhang G, Hu L, Melka D, Wang H, Laasri A, Brown EW, Strain E, Allard M, Bunning VK, Musser SM, Johnson R, Santillana Farakos S, Scott VN, Pouillot R, Doren JM, Hammack TS.

J Food Prot. 2017 Mar;80(3):459-466. doi: 10.4315/0362-028X.JFP-16-396.


Development and Validation of a Cultural Method for the Detection and Isolation of Salmonella in Cloves.

Zhang G, Ali L, Gill V, Tatavarthy A, Deng X, Hu L, Brown EW, Hammack TS.

J Food Prot. 2017 Mar;80(3):376-382. doi: 10.4315/0362-028X.JFP-16-376.


Assessing the genome level diversity of Listeria monocytogenes from contaminated ice cream and environmental samples linked to a listeriosis outbreak in the United States.

Chen Y, Luo Y, Curry P, Timme R, Melka D, Doyle M, Parish M, Hammack TS, Allard MW, Brown EW, Strain EA.

PLoS One. 2017 Feb 6;12(2):e0171389. doi: 10.1371/journal.pone.0171389. eCollection 2017.


Singleton Sequence Type 382, an Emerging Clonal Group of Listeria monocytogenes Associated with Three Multistate Outbreaks Linked to Contaminated Stone Fruit, Caramel Apples, and Leafy Green Salad.

Chen Y, Luo Y, Pettengill J, Timme R, Melka D, Doyle M, Jackson A, Parish M, Hammack TS, Allard MW, Brown EW, Strain EA.

J Clin Microbiol. 2017 Mar;55(3):931-941. doi: 10.1128/JCM.02140-16. Epub 2017 Jan 4.


Genome Sequences of Multidrug-Resistant, Colistin-Susceptible and -Resistant Klebsiella pneumoniae Clinical Isolates from Pakistan.

Crawford MA, Timme R, Lomonaco S, Lascols C, Fisher DJ, Sharma SK, Strain E, Allard MW, Brown EW, McFarland MA, Croley T, Hammack TS, Weigel LM, Anderson K, Hodge DR, Pillai SP, Morse SA, Khan E, Hughes MA.

Genome Announc. 2016 Dec 15;4(6). pii: e01419-16. doi: 10.1128/genomeA.01419-16.


Evaluation of 3M Molecular Detection System and ANSR Pathogen Detection System for rapid detection of Salmonella from egg products.

Hu L, Ma LM, Zheng S, He X, Wang H, Brown EW, Hammack TS, Zhang G.

Poult Sci. 2017 May 1;96(5):1410-1418. doi: 10.3382/ps/pew399.


Comparative evaluation of direct plating and most probable number for enumeration of low levels of Listeria monocytogenes in naturally contaminated ice cream products.

Chen Y, Pouillot R, S Burall L, Strain EA, Van Doren JM, De Jesus AJ, Laasri A, Wang H, Ali L, Tatavarthy A, Zhang G, Hu L, Day J, Sheth I, Kang J, Sahu S, Srinivasan D, Brown EW, Parish M, Zink DL, Datta AR, Hammack TS, Macarisin D.

Int J Food Microbiol. 2017 Jan 16;241:15-22. doi: 10.1016/j.ijfoodmicro.2016.09.021. Epub 2016 Sep 26.


Listeria monocytogenes in Stone Fruits Linked to a Multistate Outbreak: Enumeration of Cells and Whole-Genome Sequencing.

Chen Y, Burall LS, Luo Y, Timme R, Melka D, Muruvanda T, Payne J, Wang C, Kastanis G, Maounounen-Laasri A, De Jesus AJ, Curry PE, Stones R, K'Aluoch O, Liu E, Salter M, Hammack TS, Evans PS, Parish M, Allard MW, Datta A, Strain EA, Brown EW.

Appl Environ Microbiol. 2016 Nov 21;82(24):7030-7040. Print 2016 Dec 15.


Accurate Exchange-Correlation Energies for the Warm Dense Electron Gas.

Malone FD, Blunt NS, Brown EW, Lee DK, Spencer JS, Foulkes WM, Shepherd JJ.

Phys Rev Lett. 2016 Sep 9;117(11):115701. doi: 10.1103/PhysRevLett.117.115701. Epub 2016 Sep 7.


Solanum lycopersicum (tomato) hosts robust phyllosphere and rhizosphere bacterial communities when grown in soil amended with various organic and synthetic fertilizers.

Allard SM, Walsh CS, Wallis AE, Ottesen AR, Brown EW, Micallef SA.

Sci Total Environ. 2016 Dec 15;573:555-563. doi: 10.1016/j.scitotenv.2016.08.157. Epub 2016 Aug 28.


Core Genome Multilocus Sequence Typing for Identification of Globally Distributed Clonal Groups and Differentiation of Outbreak Strains of Listeria monocytogenes.

Chen Y, Gonzalez-Escalona N, Hammack TS, Allard MW, Strain EA, Brown EW.

Appl Environ Microbiol. 2016 Sep 30;82(20):6258-6272. Print 2016 Oct 15.


Whole-Genome Sequencing Analysis of Salmonella enterica Serovar Enteritidis Isolates in Chile Provides Insights into Possible Transmission between Gulls, Poultry, and Humans.

Toro M, Retamal P, Ayers S, Barreto M, Allard M, Brown EW, Gonzalez-Escalona N.

Appl Environ Microbiol. 2016 Sep 30;82(20):6223-6232. Print 2016 Oct 15.


Internalization of Listeria monocytogenes in Whole Avocado.

Chen Y, Evans P, Hammack TS, Brown EW, Macarisin D.

J Food Prot. 2016 Aug;79(8):1440-5. doi: 10.4315/0362-028X.JFP-16-075. Erratum in: J Food Prot. 2016 Sep;79(9):1466.


Draft Genome Sequences of Salmonella enterica subsp. enterica Serovars Typhimurium and Nottingham Isolated from Food Products.

Wang H, Zheng J, Ayers S, Melka DC, Curry PE, Payne JS, Laasri A, Wang C, Hammack TS, Brown EW.

Genome Announc. 2016 Jul 21;4(4). pii: e00699-16. doi: 10.1128/genomeA.00699-16.


Simultaneous detection of Legionella species and L. anisa, L. bozemanii, L. longbeachae and L. micdadei using conserved primers and multiple probes in a multiplex real-time PCR assay.

Cross KE, Mercante JW, Benitez AJ, Brown EW, Diaz MH, Winchell JM.

Diagn Microbiol Infect Dis. 2016 Jul;85(3):295-301. doi: 10.1016/j.diagmicrobio.2016.03.022. Epub 2016 Apr 2.


Recent and emerging innovations in Salmonella detection: a food and environmental perspective.

Bell RL, Jarvis KG, Ottesen AR, McFarland MA, Brown EW.

Microb Biotechnol. 2016 May;9(3):279-92. doi: 10.1111/1751-7915.12359. Epub 2016 Apr 4. Review.


Practical Value of Food Pathogen Traceability through Building a Whole-Genome Sequencing Network and Database.

Allard MW, Strain E, Melka D, Bunning K, Musser SM, Brown EW, Timme R.

J Clin Microbiol. 2016 Aug;54(8):1975-83. doi: 10.1128/JCM.00081-16. Epub 2016 Mar 23. Review.


Genetic and resistance phenotypic subtyping of Salmonella Saintpaul isolates from various food sources and humans: Phylogenetic concordance in combinatory analyses.

Hayford AE, Brown EW, Zhao S, Mammel MK, Gangiredla J, Abbott JW, Friedman SL, Ayers SL, Lewis JL, Lacher DW, McDermott P, Elkins CA.

Infect Genet Evol. 2015 Dec;36:92-107. doi: 10.1016/j.meegid.2015.08.022. Epub 2015 Aug 20.


Simultaneous Presence of Insertion Sequence Excision Enhancer and Insertion Sequence IS629 Correlates with Increased Diversity and Virulence in Shiga Toxin-Producing Escherichia coli.

Toro M, Rump LV, Cao G, Meng J, Brown EW, Gonzalez-Escalona N.

J Clin Microbiol. 2015 Nov;53(11):3466-73. doi: 10.1128/JCM.01349-15. Epub 2015 Aug 19.

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