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gndDb, a Database of Partial gnd Sequences To Assist with Analysis of Escherichia coli Communities Using High-Throughput Sequencing.

Cookson AL, Lacher DW, Scheutz F, Wilkinson DA, Biggs PJ, Marshall JC, Brightwell G.

Microbiol Resour Announc. 2019 Aug 15;8(33). pii: e00476-19. doi: 10.1128/MRA.00476-19.


Microbiota of the Hickey Run Tributary of the Anacostia River.

Cagle R, Ramachandran P, Reed E, Commichaux S, Mammel MK, Lacher DW, Miller D, Lindley S, Pop M, Bazaco MC, Wolpert B, Strain EA, Aker S, Feely J, Ottesen A.

Microbiol Resour Announc. 2019 Mar 21;8(12). pii: e00123-19. doi: 10.1128/MRA.00123-19.


Phenotypic and Genotypic Characterization of Escherichia coli and Salmonella enterica from Dairy Cattle Farms in the Wakiso District, Uganda: A Cross-Sectional Study.

Ball TA, Monte DF, Aidara-Kane A, Matheu-Alvarez J, Ru H, Thakur S, Horovitz J, Ejobi F, Lacher DW, Fedorka-Cray PJ.

Foodborne Pathog Dis. 2019 Jan;16(1):54-59. doi: 10.1089/fpd.2018.2528. Epub 2019 Jan 2.


Draft Genome Sequences of 72 Isolates from All Four Species of Shigella.

Gangiredla J, Mammel MK, Lacher DW, Tartera C, Jackson SA, Patel IR, Elkins CA, Mukherjee A.

Microbiol Resour Announc. 2018 Nov 29;7(21). pii: e01399-18. doi: 10.1128/MRA.01399-18. eCollection 2018 Nov.


Draft Genome Sequences of the Escherichia coli Reference (ECOR) Collection.

Patel IR, Gangiredla J, Mammel MK, Lampel KA, Elkins CA, Lacher DW.

Microbiol Resour Announc. 2018 Oct 11;7(14). pii: e01133-18. doi: 10.1128/MRA.01133-18. eCollection 2018 Oct.


Interlaboratory Evaluation of the U.S. Food and Drug Administration Escherichia coli Identification Microarray for Profiling Shiga Toxin-Producing Escherichia coli.

Patel IR, Gangiredla J, Lacher DW, Mammel MK, Bagi L, Baranzoni GM, Fratamico PM, Roberts EL, DebROY C, Lindsey RL, V Stoneburg D, Martin H, Smith P, Strockbine NA, Elkins CA, Scheutz F, Feng PCH.

J Food Prot. 2018 Aug;81(8):1275-1282. doi: 10.4315/0362-028X.JFP-18-052.


Fifty-Six Draft Genome Sequences of 10 Lactobacillus Species from 22 Commercial Dietary Supplements.

Gangiredla J, Barnaba TJ, Mammel MK, Lacher DW, Elkins CA, Lampel KA, Whitehouse CA, Tartera C.

Genome Announc. 2018 Jun 28;6(26). pii: e00621-18. doi: 10.1128/genomeA.00621-18.


Draft Genome Sequences of Bifidobacterium Strains Isolated from Dietary Supplements and Cultured Food Products.

Barnaba TJ, Gangiredla J, Mammel MK, Lacher DW, Elkins CA, Lampel KA, Whitehouse CA, Tartera C.

Genome Announc. 2018 Jun 28;6(26). pii: e00610-18. doi: 10.1128/genomeA.00610-18.


Draft Genome Sequences of Escherichia albertii, Escherichia fergusonii, and Strains Belonging to Six Cryptic Lineages of Escherichia spp.

Gangiredla J, Mammel MK, Barnaba TJ, Tartera C, Gebru ST, Patel IR, Leonard SR, Kotewicz ML, Lampel KA, Elkins CA, Lacher DW.

Genome Announc. 2018 May 3;6(18). pii: e00271-18. doi: 10.1128/genomeA.00271-18.


Species-Wide Collection of Escherichia coli Isolates for Examination of Genomic Diversity.

Gangiredla J, Mammel MK, Barnaba TJ, Tartera C, Gebru ST, Patel IR, Leonard SR, Kotewicz ML, Lampel KA, Elkins CA, Lacher DW.

Genome Announc. 2017 Dec 14;5(50). pii: e01321-17. doi: 10.1128/genomeA.01321-17.


Shiga Toxin-Producing Serogroup O91 Escherichia coli Strains Isolated from Food and Environmental Samples.

Feng PCH, Delannoy S, Lacher DW, Bosilevac JM, Fach P, Beutin L.

Appl Environ Microbiol. 2017 Aug 31;83(18). pii: e01231-17. doi: 10.1128/AEM.01231-17. Print 2017 Sep 15.


Comparison of immunomagnetic separation beads for detection of six non-O157 Shiga toxin-producing Escherichia coli serogroups in different matrices.

Kraft AL, Lacher DW, Shelver WL, Sherwood JS, Bergholz TM.

Lett Appl Microbiol. 2017 Sep;65(3):213-219. doi: 10.1111/lam.12771. Epub 2017 Jul 25.


Use of the Escherichia coli Identification Microarray for Characterizing the Health Risks of Shiga Toxin-Producing Escherichia coli Isolated from Foods.

Lacher DW, Gangiredla J, Patel I, Elkins CA, Feng PC.

J Food Prot. 2016 Oct;79(10):1656-1662. doi: 10.4315/0362-028X.JFP-16-176.


Characterization and Virulence Potential of Serogroup O113 Shiga Toxin-Producing Escherichia coli Strains Isolated from Beef and Cattle in the United States.

Feng P, Delannoy S, Lacher DW, Bosilevac JM, Fach P.

J Food Prot. 2017 Mar;80(3):383-391. doi: 10.4315/0362-028X.JFP-16-325.


Strain-Level Discrimination of Shiga Toxin-Producing Escherichia coli in Spinach Using Metagenomic Sequencing.

Leonard SR, Mammel MK, Lacher DW, Elkins CA.

PLoS One. 2016 Dec 8;11(12):e0167870. doi: 10.1371/journal.pone.0167870. eCollection 2016.


Updates on feline aelurostrongylosis and research priorities for the next decade.

Elsheikha HM, Schnyder M, Traversa D, Di Cesare A, Wright I, Lacher DW.

Parasit Vectors. 2016 Jul 7;9(1):389. doi: 10.1186/s13071-016-1671-6. Review.


Investigating the Relatedness of Enteroinvasive Escherichia coli to Other E. coli and Shigella Isolates by Using Comparative Genomics.

Hazen TH, Leonard SR, Lampel KA, Lacher DW, Maurelli AT, Rasko DA.

Infect Immun. 2016 Jul 21;84(8):2362-2371. doi: 10.1128/IAI.00350-16. Print 2016 Aug.


Hybrid Shiga Toxin-Producing and Enterotoxigenic Escherichia sp. Cryptic Lineage 1 Strain 7v Harbors a Hybrid Plasmid.

Leonard SR, Mammel MK, Rasko DA, Lacher DW.

Appl Environ Microbiol. 2016 Jun 30;82(14):4309-4319. doi: 10.1128/AEM.01129-16. Print 2016 Jul 15.


FDA Escherichia coli Identification (FDA-ECID) Microarray: a Pangenome Molecular Toolbox for Serotyping, Virulence Profiling, Molecular Epidemiology, and Phylogeny.

Patel IR, Gangiredla J, Lacher DW, Mammel MK, Jackson SA, Lampel KA, Elkins CA.

Appl Environ Microbiol. 2016 May 16;82(11):3384-3394. doi: 10.1128/AEM.04077-15. Print 2016 Jun 1.


Stx-Producing Shigella Species From Patients in Haiti: An Emerging Pathogen With the Potential for Global Spread.

Gray MD, Leonard SR, Lacher DW, Lampel KA, Alam MT, Morris JG Jr, Ali A, LaBreck PT, Maurelli AT.

Open Forum Infect Dis. 2015 Sep 19;2(4):ofv134. doi: 10.1093/ofid/ofv134. eCollection 2015 Dec.


Application of metagenomic sequencing to food safety: detection of Shiga Toxin-producing Escherichia coli on fresh bagged spinach.

Leonard SR, Mammel MK, Lacher DW, Elkins CA.

Appl Environ Microbiol. 2015 Dec;81(23):8183-91. doi: 10.1128/AEM.02601-15. Epub 2015 Sep 18.


Acquisition of the lac operon by Salmonella enterica.

Leonard SR, Lacher DW, Lampel KA.

BMC Microbiol. 2015 Aug 25;15:173. doi: 10.1186/s12866-015-0511-8.


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.


Prevalence of Shiga toxin-producing Shigella species isolated from French travellers returning from the Caribbean: an emerging pathogen with international implications.

Gray MD, Lacher DW, Leonard SR, Abbott J, Zhao S, Lampel KA, Prothery E, Gouali M, Weill FX, Maurelli AT.

Clin Microbiol Infect. 2015 Aug;21(8):765.e9-765.e14. doi: 10.1016/j.cmi.2015.05.006. Epub 2015 May 14.


Characterization of enteropathogenic and Shiga toxin-producing Escherichia coli in cattle and deer in a shared agroecosystem.

Singh P, Sha Q, Lacher DW, Del Valle J, Mosci RE, Moore JA, Scribner KT, Manning SD.

Front Cell Infect Microbiol. 2015 Apr 1;5:29. doi: 10.3389/fcimb.2015.00029. eCollection 2015.


Draft Genome Sequences of the Enteroinvasive Escherichia coli Strains M4163 and 4608-58.

Leonard SR, Lacher DW, Lampel KA.

Genome Announc. 2015 Feb 5;3(1). pii: e01395-14. doi: 10.1128/genomeA.01395-14.


Recent advances in the epidemiology, clinical and diagnostic features, and control of canine cardio-pulmonary angiostrongylosis.

Elsheikha HM, Holmes SA, Wright I, Morgan ER, Lacher DW.

Vet Res. 2014 Sep 27;45:92. doi: 10.1186/s13567-014-0092-9. Review.


Pilus distribution among lineages of group b streptococcus: an evolutionary and clinical perspective.

Springman AC, Lacher DW, Waymire EA, Wengert SL, Singh P, Zadoks RN, Davies HD, Manning SD.

BMC Microbiol. 2014 Jun 19;14:159. doi: 10.1186/1471-2180-14-159.


Genetic diversity and virulence potential of shiga toxin-producing Escherichia coli O113:H21 strains isolated from clinical, environmental, and food sources.

Feng PC, Delannoy S, Lacher DW, Dos Santos LF, Beutin L, Fach P, Rivas M, Hartland EL, Paton AW, Guth BE.

Appl Environ Microbiol. 2014 Aug;80(15):4757-63. doi: 10.1128/AEM.01182-14. Epub 2014 May 23.


Novel microarray design for molecular serotyping of shiga toxin- producing Escherichia coli strains isolated from fresh produce.

Lacher DW, Gangiredla J, Jackson SA, Elkins CA, Feng PC.

Appl Environ Microbiol. 2014 Aug;80(15):4677-4682.


Draft Genome Sequence of the Multidrug-Resistant Escherichia coli Strain LR09, Isolated from a Wastewater Treatment Plant.

Leonard SR, Lacher DW, Elkins CA, Jung CM.

Genome Announc. 2014 Apr 3;2(2). pii: e00272-14. doi: 10.1128/genomeA.00272-14.


Development of a tiered multilocus sequence typing scheme for members of the Lactobacillus acidophilus complex.

Ramachandran P, Lacher DW, Pfeiler EA, Elkins CA.

Appl Environ Microbiol. 2013 Dec;79(23):7220-8. doi: 10.1128/AEM.02257-13. Epub 2013 Sep 13.


Genomic paradigms for food-borne enteric pathogen analysis at the USFDA: case studies highlighting method utility, integration and resolution.

Elkins CA, Kotewicz ML, Jackson SA, Lacher DW, Abu-Ali GS, Patel IR.

Food Addit Contam Part A Chem Anal Control Expo Risk Assess. 2013;30(8):1422-36. doi: 10.1080/19440049.2012.743192. Epub 2012 Dec 3.


Clonal relations of atypical enteropathogenic Escherichia coli O157:H16 strains isolated from various sources from several countries.

Feng PC, Keys C, Lacher DW, Beutin L, Bentancor A, Heuvelink A, Afset JE, Rumi V, Monday S.

FEMS Microbiol Lett. 2012 Dec;337(2):126-31. doi: 10.1111/1574-6968.12017. Epub 2012 Oct 19.


Genetic diversity of locus of enterocyte effacement genes of enteropathogenic Escherichia coli isolated from Peruvian children.

Contreras CA, Ochoa TJ, Ruiz J, Lacher DW, Durand D, DebRoy C, Lanata CF, Cleary TG.

J Med Microbiol. 2012 Aug;61(Pt 8):1114-20. doi: 10.1099/jmm.0.045443-0. Epub 2012 Apr 5.


Rapid genomic-scale analysis of Escherichia coli O104:H4 by using high-resolution alternative methods to next-generation sequencing.

Jackson SA, Kotewicz ML, Patel IR, Lacher DW, Gangiredla J, Elkins CA.

Appl Environ Microbiol. 2012 Mar;78(5):1601-5. doi: 10.1128/AEM.07464-11. Epub 2011 Dec 30.


Shiga toxin 2 overexpression in Escherichia coli O157:H7 strains associated with severe human disease.

Neupane M, Abu-Ali GS, Mitra A, Lacher DW, Manning SD, Riordan JT.

Microb Pathog. 2011 Dec;51(6):466-70. doi: 10.1016/j.micpath.2011.07.009. Epub 2011 Aug 16.


Single nucleotide polymorphism (SNP)-based differentiation of Shigella isolates by pyrosequencing.

Hayford AE, Mammel MK, Lacher DW, Brown EW.

Infect Genet Evol. 2011 Oct;11(7):1761-8. doi: 10.1016/j.meegid.2011.07.015. Epub 2011 Aug 4.


Phylogenetic relationships of Shiga toxin-producing Escherichia coli isolated from Peruvian children.

Contreras CA, Ochoa TJ, Ruiz J, Lacher DW, Rivera FP, Saenz Y, Chea-Woo E, Zavaleta N, Gil AI, Lanata CF, Huicho L, Maves RC, Torres C, Debroy C, Cleary TG.

J Med Microbiol. 2011 May;60(Pt 5):639-46. doi: 10.1099/jmm.0.026666-0. Epub 2011 Feb 3.


Ancestral lineages of human enterotoxigenic Escherichia coli.

Steinsland H, Lacher DW, Sommerfelt H, Whittam TS.

J Clin Microbiol. 2010 Aug;48(8):2916-24. doi: 10.1128/JCM.02432-09. Epub 2010 Jun 9.


Increased adherence and expression of virulence genes in a lineage of Escherichia coli O157:H7 commonly associated with human infections.

Abu-Ali GS, Ouellette LM, Henderson ST, Lacher DW, Riordan JT, Whittam TS, Manning SD.

PLoS One. 2010 Apr 21;5(4):e10167. doi: 10.1371/journal.pone.0010167.


HeLa-cell adherence patterns and actin aggregation of enteropathogenic Escherichia coli (EPEC) and Shiga-toxin-producing E. coli (STEC) strains carrying different eae and tir alleles.

Mora A, Blanco M, Yamamoto D, Dahbi G, Blanco JE, López C, Alonso MP, Vieira MA, Hernandes RT, Abe CM, Piazza RM, Lacher DW, Elias WP, Gomes TA, Blanco J.

Int Microbiol. 2009 Dec;12(4):243-51.


Allelic variability of critical virulence genes (eae, bfpA and perA) in typical and atypical enteropathogenic Escherichia coli in Peruvian children.

Contreras CA, Ochoa TJ, Lacher DW, DebRoy C, Navarro A, Talledo M, Donnenberg MS, Ecker L, Gil AI, Lanata CF, Cleary TG.

J Med Microbiol. 2010 Jan;59(Pt 1):25-31. doi: 10.1099/jmm.0.013706-0.


Selection, recombination, and virulence gene diversity among group B streptococcal genotypes.

Springman AC, Lacher DW, Wu G, Milton N, Whittam TS, Davies HD, Manning SD.

J Bacteriol. 2009 Sep;191(17):5419-27. doi: 10.1128/JB.00369-09. Epub 2009 Jul 6.


Genomic diversity of pathogenic Escherichia coli of the EHEC 2 clonal complex.

Abu-Ali GS, Lacher DW, Wick LM, Qi W, Whittam TS.

BMC Genomics. 2009 Jul 3;10:296. doi: 10.1186/1471-2164-10-296.


Variation in virulence among clades of Escherichia coli O157:H7 associated with disease outbreaks.

Manning SD, Motiwala AS, Springman AC, Qi W, Lacher DW, Ouellette LM, Mladonicky JM, Somsel P, Rudrik JT, Dietrich SE, Zhang W, Swaminathan B, Alland D, Whittam TS.

Proc Natl Acad Sci U S A. 2008 Mar 25;105(12):4868-73. doi: 10.1073/pnas.0710834105. Epub 2008 Mar 10.


Genetic diversity among clonal lineages within Escherichia coli O157:H7 stepwise evolutionary model.

Feng PC, Monday SR, Lacher DW, Allison L, Siitonen A, Keys C, Eklund M, Nagano H, Karch H, Keen J, Whittam TS.

Emerg Infect Dis. 2007 Nov;13(11):1701-6. doi: 10.3201/eid1311.070381.


Molecular evolution of typical enteropathogenic Escherichia coli: clonal analysis by multilocus sequence typing and virulence gene allelic profiling.

Lacher DW, Steinsland H, Blank TE, Donnenberg MS, Whittam TS.

J Bacteriol. 2007 Jan;189(2):342-50. Epub 2006 Nov 10.


Role of large sequence polymorphisms (LSPs) in generating genomic diversity among clinical isolates of Mycobacterium tuberculosis and the utility of LSPs in phylogenetic analysis.

Alland D, Lacher DW, Hazbón MH, Motiwala AS, Qi W, Fleischmann RD, Whittam TS.

J Clin Microbiol. 2007 Jan;45(1):39-46. Epub 2006 Nov 1.

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