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A Putative Microcin Amplifies Shiga Toxin 2a Production of Escherichia coli O157:H7.

Mosso HM, Xiaoli L, Banerjee K, Hoffmann M, Yao K, Dudley EG.

J Bacteriol. 2019 Dec 6;202(1). pii: e00353-19. doi: 10.1128/JB.00353-19. Print 2019 Dec 6.


Detection of CTX-M-1 extended-spectrum beta-lactamase among ceftiofur-resistant Salmonella enterica clinical isolates of poultry.

Denagamage TN, Wallner-Pendleton E, Jayarao BM, Xiaoli L, Dudley EG, Wolfgang D, Kariyawasam S.

J Vet Diagn Invest. 2019 Sep;31(5):681-687. doi: 10.1177/1040638719864384. Epub 2019 Jul 25.


Use of whole genome sequencing in surveillance for antimicrobial-resistant Shigella sonnei infections acquired from domestic and international sources.

Abelman RL, M'ikanatha NM, Figler HM, Dudley EG.

Microb Genom. 2019 May;5(5). doi: 10.1099/mgen.0.000270. Epub 2019 May 17.


Whole-Genome Sequences of Escherichia coli Isolates from Cocoa Beans Imported from Bolivia.

Nwanosike H, Chung T, Xiaoli L, Condello M, Dudley EG, Kovac J.

Microbiol Resour Announc. 2019 Jan 17;8(3). pii: e01516-18. doi: 10.1128/MRA.01516-18. eCollection 2019 Jan.


Retrospective whole-genome sequencing analysis distinguished PFGE and drug-resistance-matched retail meat and clinical Salmonella isolates.

Keefer AB, Xiaoli L, M'ikanatha NM, Yao K, Hoffmann M, Dudley EG.

Microbiology. 2019 Mar;165(3):270-286. doi: 10.1099/mic.0.000768. Epub 2019 Jan 23.


Non-pathogenic Escherichia coli Enhance Stx2a Production of E. coli O157:H7 Through Both bamA-Dependent and Independent Mechanisms.

Xiaoli L, Figler HM, Goswami Banerjee K, Hayes CS, Dudley EG.

Front Microbiol. 2018 Jun 15;9:1325. doi: 10.3389/fmicb.2018.01325. eCollection 2018.


Draft Genome Sequence of Brevibacillus laterosporus OSY-I1, a Strain That Produces Brevibacillin, Which Combats Drug-Resistant Gram-Positive Bacteria.

Yang X, Huang E, Yesil M, Xiaoli L, Dudley EG, Yousef AE.

Genome Announc. 2017 Oct 12;5(41). pii: e01093-17. doi: 10.1128/genomeA.01093-17.


Draft Genome Sequence of Bacillus velezensis GF610, a Producer of Potent Anti-Listeria Agents.

Gerst MM, Dudley EG, Xiaoli L, Yousef AE.

Genome Announc. 2017 Oct 12;5(41). pii: e01046-17. doi: 10.1128/genomeA.01046-17.


Identification of a mouse Lactobacillus johnsonii strain with deconjugase activity against the FXR antagonist T-β-MCA.

DiMarzio M, Rusconi B, Yennawar NH, Eppinger M, Patterson AD, Dudley EG.

PLoS One. 2017 Sep 14;12(9):e0183564. doi: 10.1371/journal.pone.0183564. eCollection 2017.


Critical Synergistic Concentration of Lecithin Phospholipids Improves the Antimicrobial Activity of Eugenol against Escherichia coli.

Zhang H, Dudley EG, Harte F.

Appl Environ Microbiol. 2017 Oct 17;83(21). pii: e01583-17. doi: 10.1128/AEM.01583-17. Print 2017 Nov 1.


Prevalence and Phylogenetic Characterization of Escherichia coli and Hygiene Indicator Bacteria Isolated from Leafy Green Produce, Beef, and Pork Obtained from Farmers' Markets in Pennsylvania.

Scheinberg JA, Dudley EG, Campbell J, Roberts B, DiMarzio M, DebRoy C, Cutter CN.

J Food Prot. 2017 Feb;80(2):237-244. doi: 10.4315/0362-028X.JFP-16-282.


Critical Concentration of Lecithin Enhances the Antimicrobial Activity of Eugenol against Escherichia coli.

Zhang H, Dudley EG, Davidson PM, Harte F.

Appl Environ Microbiol. 2017 Mar 31;83(8). pii: e03467-16. doi: 10.1128/AEM.03467-16. Print 2017 Apr 15.


Whole-Genome Sequence of Escherichia coli Serotype O157:H7 Strain PA20.

Uhlich GA, Paoli GC, Zhang X, Dudley EG, Figler HM, Cottrell BJ, Andreozzi E.

Genome Announc. 2017 Jan 12;5(2). pii: e01460-16. doi: 10.1128/genomeA.01460-16.


Longitudinal Monitoring of Successive Commercial Layer Flocks for Salmonella enterica Serovar Enteritidis.

Denagamage TN, Patterson P, Wallner-Pendleton E, Trampel D, Shariat N, Dudley EG, Jayarao BM, Kariyawasam S.

Foodborne Pathog Dis. 2016 Nov;13(11):618-625. Epub 2016 Oct 28.


The interplay of Escherichia coli O157:H7 and commensal E. coli: the importance of strain-level identification.

Figler HM, Dudley EG.

Expert Rev Gastroenterol Hepatol. 2016;10(4):415-7. doi: 10.1586/17474124.2016.1155449. Epub 2016 Mar 7. Review. No abstract available.


CRISPR-Based Typing and Next-Generation Tracking Technologies.

Barrangou R, Dudley EG.

Annu Rev Food Sci Technol. 2016;7:395-411. doi: 10.1146/annurev-food-022814-015729. Epub 2016 Jan 11. Review.


A newly discovered Bordetella species carries a transcriptionally active CRISPR-Cas with a small Cas9 endonuclease.

Ivanov YV, Shariat N, Register KB, Linz B, Rivera I, Hu K, Dudley EG, Harvill ET.

BMC Genomics. 2015 Oct 26;16:863. doi: 10.1186/s12864-015-2028-9.


Diversity of secretion systems associated with virulence characteristics of the classical bordetellae.

Park J, Zhang Y, Chen C, Dudley EG, Harvill ET.

Microbiology. 2015 Dec;161(12):2328-40. doi: 10.1099/mic.0.000197. Epub 2015 Oct 9.


Escherichia coli O157:H7 strains harbor at least three distinct sequence types of Shiga toxin 2a-converting phages.

Yin S, Rusconi B, Sanjar F, Goswami K, Xiaoli L, Eppinger M, Dudley EG.

BMC Genomics. 2015 Sep 29;16:733. doi: 10.1186/s12864-015-1934-1.


Prevalence and Spatial Distribution of Salmonella Infections in the Pennsylvania Raccoon (Procyon lotor).

Very KJ, Kirchner MK, Shariat N, Cottrell W, Sandt CH, Dudley EG, Kariyawasam S, Jayarao BM.

Zoonoses Public Health. 2016 May;63(3):223-33. doi: 10.1111/zph.12222. Epub 2015 Aug 14.


Coculture of Escherichia coli O157:H7 with a Nonpathogenic E. coli Strain Increases Toxin Production and Virulence in a Germfree Mouse Model.

Goswami K, Chen C, Xiaoli L, Eaton KA, Dudley EG.

Infect Immun. 2015 Nov;83(11):4185-93. doi: 10.1128/IAI.00663-15. Epub 2015 Aug 10.


Diversity of CRISPR loci and virulence genes in pathogenic Escherichia coli isolates from various sources.

Jiang Y, Yin S, Dudley EG, Cutter CN.

Int J Food Microbiol. 2015 Jul 2;204:41-6. doi: 10.1016/j.ijfoodmicro.2015.03.025. Epub 2015 Mar 27.


Commercially Available Rapid Methods for Detection of Selected Food-borne Pathogens.

Valderrama WB, Dudley EG, Doores S, Cutter CN.

Crit Rev Food Sci Nutr. 2016 Jul 3;56(9):1519-31. doi: 10.1080/10408398.2013.775567. Review.


Characterization and evolution of Salmonella CRISPR-Cas systems.

Shariat N, Timme RE, Pettengill JB, Barrangou R, Dudley EG.

Microbiology. 2015 Feb;161(2):374-386. doi: 10.1099/mic.0.000005.


Characterization and evolution of Salmonella CRISPR-Cas systems.

Shariat N, Timme RE, Pettengill JB, Barrangou R, Dudley EG.

Microbiology. 2015 Feb;161(Pt 2):374-86. doi: 10.1099/mic.0.000005. Epub 2014 Dec 5.


Comparative analysis of subtyping methods against a whole-genome-sequencing standard for Salmonella enterica serotype Enteritidis.

Deng X, Shariat N, Driebe EM, Roe CC, Tolar B, Trees E, Keim P, Zhang W, Dudley EG, Fields PI, Engelthaler DM.

J Clin Microbiol. 2015 Jan;53(1):212-8. doi: 10.1128/JCM.02332-14. Epub 2014 Nov 5.


Complete nucleotide sequence of pRS218, a large virulence plasmid, that augments pathogenic potential of meningitis-associated Escherichia coli strain RS218.

Wijetunge DS, Karunathilake KH, Chaudhari A, Katani R, Dudley EG, Kapur V, DebRoy C, Kariyawasam S.

BMC Microbiol. 2014 Aug 28;14:203. doi: 10.1186/s12866-014-0203-9.


Genome Sequence of Escherichia coli O157:H7 Strain 2886-75, Associated with the First Reported Case of Human Infection in the United States.

Sanjar F, Hazen TH, Shah SM, Koenig SS, Agrawal S, Daugherty S, Sadzewicz L, Tallon LJ, Mammel MK, Feng P, Soderlund R, Tarr PI, Debroy C, Dudley EG, Cebula TA, Ravel J, Fraser CM, Rasko DA, Eppinger M.

Genome Announc. 2014 Jan 9;2(1). pii: e01120-13. doi: 10.1128/genomeA.01120-13.


CRISPR-MVLST subtyping of Salmonella enterica subsp. enterica serovars Typhimurium and Heidelberg and application in identifying outbreak isolates.

Shariat N, Sandt CH, DiMarzio MJ, Barrangou R, Dudley EG.

BMC Microbiol. 2013 Nov 12;13:254. doi: 10.1186/1471-2180-13-254.


CRISPRs: molecular signatures used for pathogen subtyping.

Shariat N, Dudley EG.

Appl Environ Microbiol. 2014 Jan;80(2):430-9. doi: 10.1128/AEM.02790-13. Epub 2013 Oct 25. Review.


Where are we heading with Salmonella molecular subtyping?

Shariat N, Dudley EG.

Future Microbiol. 2013 Oct;8(10):1231-3. doi: 10.2217/fmb.13.107. No abstract available.


Bifidobacterium animalis subsp. lactis ATCC 27673 is a genomically unique strain within its conserved subspecies.

Loquasto JR, Barrangou R, Dudley EG, Stahl B, Chen C, Roberts RF.

Appl Environ Microbiol. 2013 Nov;79(22):6903-10. doi: 10.1128/AEM.01777-13. Epub 2013 Aug 30.


The evolutionary divergence of Shiga toxin-producing Escherichia coli is reflected in clustered regularly interspaced short palindromic repeat (CRISPR) spacer composition.

Yin S, Jensen MA, Bai J, Debroy C, Barrangou R, Dudley EG.

Appl Environ Microbiol. 2013 Sep;79(18):5710-20. doi: 10.1128/AEM.00950-13. Epub 2013 Jul 12.


Antibiotic Resistance in Salmonella enterica Serovar Typhimurium Associates with CRISPR Sequence Type.

DiMarzio M, Shariat N, Kariyawasam S, Barrangou R, Dudley EG.

Antimicrob Agents Chemother. 2013 Sep;57(9):4282-4289. doi: 10.1128/AAC.00913-13. Epub 2013 Jun 24.


Restrictive Streptomycin Resistance Mutations Decrease the Formation of Attaching and Effacing Lesions in Escherichia coli O157:H7 Strains.

Chen C, Blumentritt CA, Curtis MM, Sperandio V, Torres AG, Dudley EG.

Antimicrob Agents Chemother. 2013 Sep;57(9):4260-4266. doi: 10.1128/AAC.00709-13. Epub 2013 Jun 24.


Phage insertion in mlrA and variations in rpoS limit curli expression and biofilm formation in Escherichia coli serotype O157: H7.

Uhlich GA, Chen CY, Cottrell BJ, Hofmann CS, Dudley EG, Strobaugh TP Jr, Nguyen LH.

Microbiology. 2013 Aug;159(Pt 8):1586-96. doi: 10.1099/mic.0.066118-0. Epub 2013 Jun 6.


Presence of Shiga toxin-producing Escherichia coli O-groups in small and very-small beef-processing plants and resulting ground beef detected by a multiplex polymerase chain reaction assay.

Svoboda AL, Dudley EG, Debroy C, Mills EW, Cutter CN.

Foodborne Pathog Dis. 2013 Sep;10(9):789-95. doi: 10.1089/fpd.2012.1445. Epub 2013 Jun 6.


Subtyping of Salmonella enterica serovar Newport outbreak isolates by CRISPR-MVLST and determination of the relationship between CRISPR-MVLST and PFGE results.

Shariat N, Kirchner MK, Sandt CH, Trees E, Barrangou R, Dudley EG.

J Clin Microbiol. 2013 Jul;51(7):2328-36. doi: 10.1128/JCM.00608-13. Epub 2013 May 15.


Whole-Genome Draft Sequences of 26 Enterohemorrhagic Escherichia coli O157:H7 Strains.

Eppinger M, Daugherty S, Agrawal S, Galens K, Sengamalay N, Sadzewicz L, Tallon L, Cebula TA, Mammel MK, Feng P, Soderlund R, Tarr PI, Debroy C, Dudley EG, Fraser CM, Ravel J.

Genome Announc. 2013 Feb 28;1(2):e0013412. doi: 10.1128/genomeA.00134-12.


The combination of CRISPR-MVLST and PFGE provides increased discriminatory power for differentiating human clinical isolates of Salmonella enterica subsp. enterica serovar Enteritidis.

Shariat N, DiMarzio MJ, Yin S, Dettinger L, Sandt CH, Lute JR, Barrangou R, Dudley EG.

Food Microbiol. 2013 May;34(1):164-73. doi: 10.1016/ Epub 2012 Dec 20.


Identification and characterization of spontaneous deletions within the Sp11-Sp12 prophage region of Escherichia coli O157:H7 Sakai.

Chen C, Lewis CR, Goswami K, Roberts EL, DebRoy C, Dudley EG.

Appl Environ Microbiol. 2013 Mar;79(6):1934-41. doi: 10.1128/AEM.03682-12. Epub 2013 Jan 11.


A Type VI secretion system encoding locus is required for Bordetella bronchiseptica immunomodulation and persistence in vivo.

Weyrich LS, Rolin OY, Muse SJ, Park J, Spidale N, Kennett MJ, Hester SE, Chen C, Dudley EG, Harvill ET.

PLoS One. 2012;7(10):e45892. doi: 10.1371/journal.pone.0045892. Epub 2012 Oct 12.


A combined multi-virulence-locus sequence typing and Staphylococcal Cassette Chromosome mec typing scheme possesses enhanced discriminatory power for genotyping MRSA.

Verghese B, Schwalm ND 3rd, Dudley EG, Knabel SJ.

Infect Genet Evol. 2012 Dec;12(8):1816-21. doi: 10.1016/j.meegid.2012.07.026. Epub 2012 Aug 26. Erratum in: Infect Genet Evol. 2013 Jun;16:449.


Technical note: development of a quantitative PCR method for monitoring strain dynamics during yogurt manufacture.

Miller DM, Dudley EG, Roberts RF.

J Dairy Sci. 2012 Sep;95(9):4868-4872. doi: 10.3168/jds.2012-5445.


Transcriptomic response of Listeria monocytogenes during the transition to the long-term-survival phase.

Wen J, Deng X, Li Z, Dudley EG, Anantheswaran RC, Knabel SJ, Zhang W.

Appl Environ Microbiol. 2011 Sep;77(17):5966-72. doi: 10.1128/AEM.00596-11. Epub 2011 Jul 15.


Subtyping Salmonella enterica serovar enteritidis isolates from different sources by using sequence typing based on virulence genes and clustered regularly interspaced short palindromic repeats (CRISPRs).

Liu F, Kariyawasam S, Jayarao BM, Barrangou R, Gerner-Smidt P, Ribot EM, Knabel SJ, Dudley EG.

Appl Environ Microbiol. 2011 Jul;77(13):4520-6. doi: 10.1128/AEM.00468-11. Epub 2011 May 13.


Escherichia coli O157:H7 of genotype lineage-specific polymorphism assay 211111 and clade 8 are common clinical isolates within Pennsylvania.

Hartzell A, Chen C, Lewis C, Liu K, Reynolds S, Dudley EG.

Foodborne Pathog Dis. 2011 Jul;8(7):763-8. doi: 10.1089/fpd.2010.0762. Epub 2011 Mar 27.


Novel virulence gene and clustered regularly interspaced short palindromic repeat (CRISPR) multilocus sequence typing scheme for subtyping of the major serovars of Salmonella enterica subsp. enterica.

Liu F, Barrangou R, Gerner-Smidt P, Ribot EM, Knabel SJ, Dudley EG.

Appl Environ Microbiol. 2011 Mar;77(6):1946-56. doi: 10.1128/AEM.02625-10. Epub 2011 Jan 28.

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