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Clinically-Relevant Campylobacter jejuni Subtypes are Readily Found and Transmitted within the Cattle Production Continuum but Present a Limited Foodborne Risk.

Inglis GD, Gusse JF, House KE, Shelton TG, Taboada EN.

Appl Environ Microbiol. 2019 Dec 20. pii: AEM.02101-19. doi: 10.1128/AEM.02101-19. [Epub ahead of print]


Integrating Whole-Genome Sequencing Data Into Quantitative Risk Assessment of Foodborne Antimicrobial Resistance: A Review of Opportunities and Challenges.

Collineau L, Boerlin P, Carson CA, Chapman B, Fazil A, Hetman B, McEwen SA, Parmley EJ, Reid-Smith RJ, Taboada EN, Smith BA.

Front Microbiol. 2019 May 21;10:1107. doi: 10.3389/fmicb.2019.01107. eCollection 2019. Review.


Enhanced microbiological surveillance reveals that temporal case clusters contribute to the high rates of campylobacteriosis in a model agroecosystem.

Inglis GD, Boras VF, Webb AL, Suttorp VV, Hodgkinson P, Taboada EN.

Int J Med Microbiol. 2019 May - Jun;309(3-4):232-244. doi: 10.1016/j.ijmm.2019.04.003. Epub 2019 Apr 28.


A strain comparison of Campylobacter isolated from retail poultry and human clinical cases in Atlantic Canada.

Hodges LM, Carrillo CD, Upham JP, Borza A, Eisebraun M, Kenwell R, Mutschall SK, Haldane D, Schleihauf E, Taboada EN.

PLoS One. 2019 May 8;14(5):e0215928. doi: 10.1371/journal.pone.0215928. eCollection 2019.


Carriage of Campylobacter, Salmonella, and Antimicrobial-Resistant, Nonspecific Escherichia coli by Waterfowl Species Collected from Three Sources in Southern Ontario, Canada.

Vogt NA, Pearl DL, Taboada EN, Mutschall SK, Janecko N, Reid-Smith RJ, Jardine CM.

J Wildl Dis. 2019 Oct;55(4):917-922. Epub 2019 Apr 25.


Genome-wide identification of geographical segregated genetic markers in Salmonella enterica serovar Typhimurium variant 4,[5],12:i:.

Palma F, Manfreda G, Silva M, Parisi A, Barker DOR, Taboada EN, Pasquali F, Rossi M.

Sci Rep. 2018 Oct 15;8(1):15251. doi: 10.1038/s41598-018-33266-5.


A repeated cross-sectional study of the epidemiology of Campylobacter and antimicrobial resistant Enterobacteriaceae in free-living Canada geese in Guelph, Ontario, Canada.

Vogt NA, Pearl DL, Taboada EN, Reid-Smith RJ, Mulvey MR, Janecko N, Mutschall SK, Jardine CM.

Zoonoses Public Health. 2019 Feb;66(1):60-72. doi: 10.1111/zph.12529. Epub 2018 Oct 4.


Epidemiology of Campylobacter, Salmonella and antimicrobial resistant Escherichia coli in free-living Canada geese (Branta canadensis) from three sources in southern Ontario.

Vogt NA, Pearl DL, Taboada EN, Mutschall SK, Janecko N, Reid-Smith R, Bloomfield B, Jardine CM.

Zoonoses Public Health. 2018 Nov;65(7):873-886. doi: 10.1111/zph.12511. Epub 2018 Aug 5.


Frequent Implication of Multistress-Tolerant Campylobacter jejuni in Human Infections.

Oh E, Chui L, Bae J, Li V, Ma A, Mutschall SK, Taboada EN, McMullen LM, Jeon B.

Emerg Infect Dis. 2018 Jun;24(6):1037-1044. doi: 10.3201/eid2406.171587.


Therapeutic administration of enrofloxacin in mice does not select for fluoroquinolone resistance in Campylobacter jejuni.

Inglis GD, Zaytsoff SJM, Selinger LB, Taboada EN, Uwiera RRE.

Can J Microbiol. 2018 Oct;64(10):681-694. doi: 10.1139/cjm-2017-0741. Epub 2018 May 11.


Subtype-Specific Selection for Resistance to Fluoroquinolones but Not to Tetracyclines Is Evident in Campylobacter jejuni Isolates from Beef Cattle in Confined Feeding Operations in Southern Alberta, Canada.

Webb AL, Selinger LB, Taboada EN, Inglis GD.

Appl Environ Microbiol. 2018 Mar 19;84(7). pii: e02713-17. doi: 10.1128/AEM.02713-17. Print 2018 Apr 1.


Comprehensive assessment of the quality of Salmonella whole genome sequence data available in public sequence databases using the Salmonella in silico Typing Resource (SISTR).

Robertson J, Yoshida C, Kruczkiewicz P, Nadon C, Nichani A, Taboada EN, Nash JHE.

Microb Genom. 2018 Feb;4(2). doi: 10.1099/mgen.0.000151. Epub 2018 Jan 17.


Source attribution of human campylobacteriosis at the point of exposure by combining comparative exposure assessment and subtype comparison based on comparative genomic fingerprinting.

Ravel A, Hurst M, Petrica N, David J, Mutschall SK, Pintar K, Taboada EN, Pollari F.

PLoS One. 2017 Aug 24;12(8):e0183790. doi: 10.1371/journal.pone.0183790. eCollection 2017.


A Genome-Wide Association Study to Identify Diagnostic Markers for Human Pathogenic Campylobacter jejuni Strains.

Buchanan CJ, Webb AL, Mutschall SK, Kruczkiewicz P, Barker DOR, Hetman BM, Gannon VPJ, Abbott DW, Thomas JE, Inglis GD, Taboada EN.

Front Microbiol. 2017 Jun 30;8:1224. doi: 10.3389/fmicb.2017.01224. eCollection 2017.


The Validation and Implications of Using Whole Genome Sequencing as a Replacement for Traditional Serotyping for a National Salmonella Reference Laboratory.

Yachison CA, Yoshida C, Robertson J, Nash JHE, Kruczkiewicz P, Taboada EN, Walker M, Reimer A, Christianson S, Nichani A; PulseNet Canada Steering Committee, Nadon C.

Front Microbiol. 2017 Jun 9;8:1044. doi: 10.3389/fmicb.2017.01044. eCollection 2017.


Food Safety in the Age of Next Generation Sequencing, Bioinformatics, and Open Data Access.

Taboada EN, Graham MR, Carriço JA, Van Domselaar G.

Front Microbiol. 2017 May 23;8:909. doi: 10.3389/fmicb.2017.00909. eCollection 2017. Review.


Local genes for local bacteria: Evidence of allopatry in the genomes of transatlantic Campylobacter populations.

Pascoe B, Méric G, Yahara K, Wimalarathna H, Murray S, Hitchings MD, Sproston EL, Carrillo CD, Taboada EN, Cooper KK, Huynh S, Cody AJ, Jolley KA, Maiden MCJ, McCarthy ND, Didelot X, Parker CT, Sheppard SK.

Mol Ecol. 2017 Sep;26(17):4497-4508. doi: 10.1111/mec.14176. Epub 2017 Jun 19.


Epidemiology of antimicrobial resistant Campylobacter spp. isolated from retail meats in Canada.

Narvaez-Bravo C, Taboada EN, Mutschall SK, Aslam M.

Int J Food Microbiol. 2017 Jul 17;253:43-47. doi: 10.1016/j.ijfoodmicro.2017.04.019. Epub 2017 Apr 29.


The EpiQuant Framework for Computing Epidemiological Concordance of Microbial Subtyping Data.

Hetman BM, Mutschall SK, Thomas JE, Gannon VPJ, Clark CG, Pollari F, Taboada EN.

J Clin Microbiol. 2017 May;55(5):1334-1349. doi: 10.1128/JCM.01945-16. Epub 2017 Feb 15.


Prevalence and diversity of waterborne Arcobacter butzleri in southwestern Alberta, Canada.

Webb AL, Taboada EN, Selinger LB, Boras VF, Inglis GD.

Can J Microbiol. 2017 Apr;63(4):330-340. doi: 10.1139/cjm-2016-0745. Epub 2017 Jan 18.


Genomic insights from whole genome sequencing of four clonal outbreak Campylobacter jejuni assessed within the global C. jejuni population.

Clark CG, Berry C, Walker M, Petkau A, Barker DO, Guan C, Reimer A, Taboada EN.

BMC Genomics. 2016 Dec 3;17(1):990.


Comparative genomic fingerprinting of Campylobacter: application in routine public health surveillance and epidemiological investigations.

Schleihauf E, Mutschall S, Billard B, Taboada EN, Haldane D.

Epidemiol Infect. 2017 Jan;145(2):299-309. Epub 2016 Oct 21.


Efficacy of wastewater treatment on Arcobacter butzleri density and strain diversity.

Webb AL, Taboada EN, Selinger LB, Boras VF, Inglis GD.

Water Res. 2016 Nov 15;105:291-296. doi: 10.1016/j.watres.2016.09.003. Epub 2016 Sep 4.


Cluster Analysis of Campylobacter jejuni Genotypes Isolated from Small and Medium-Sized Mammalian Wildlife and Bovine Livestock from Ontario Farms.

Viswanathan M, Pearl DL, Taboada EN, Parmley EJ, Mutschall SK, Jardine CM.

Zoonoses Public Health. 2017 May;64(3):185-193. doi: 10.1111/zph.12294. Epub 2016 Aug 5.


Molecular and Statistical Analysis of Campylobacter spp. and Antimicrobial-Resistant Campylobacter Carriage in Wildlife and Livestock from Ontario Farms.

Viswanathan M, Pearl DL, Taboada EN, Parmley EJ, Mutschall S, Jardine CM.

Zoonoses Public Health. 2017 May;64(3):194-203. doi: 10.1111/zph.12295. Epub 2016 Jul 27.


SuperPhy: predictive genomics for the bacterial pathogen Escherichia coli.

Whiteside MD, Laing CR, Manji A, Kruczkiewicz P, Taboada EN, Gannon VP.

BMC Microbiol. 2016 Apr 12;16:65. doi: 10.1186/s12866-016-0680-0.


Comparative Detection and Quantification of Arcobacter butzleri in Stools from Diarrheic and Nondiarrheic People in Southwestern Alberta, Canada.

Webb AL, Boras VF, Kruczkiewicz P, Selinger LB, Taboada EN, Inglis GD.

J Clin Microbiol. 2016 Apr;54(4):1082-8. doi: 10.1128/JCM.03202-15. Epub 2016 Feb 10.


The Salmonella In Silico Typing Resource (SISTR): An Open Web-Accessible Tool for Rapidly Typing and Subtyping Draft Salmonella Genome Assemblies.

Yoshida CE, Kruczkiewicz P, Laing CR, Lingohr EJ, Gannon VP, Nash JH, Taboada EN.

PLoS One. 2016 Jan 22;11(1):e0147101. doi: 10.1371/journal.pone.0147101. eCollection 2016.


Extensive characterization of Campylobacter jejuni chicken isolates to uncover genes involved in the ability to compete for gut colonization.

Thibodeau A, Fravalo P, Taboada EN, Laurent-Lewandowski S, Guévremont E, Quessy S, Letellier A.

BMC Microbiol. 2015 May 10;15:97. doi: 10.1186/s12866-015-0433-5.


Development of a comparative genomic fingerprinting assay for rapid and high resolution genotyping of Arcobacter butzleri.

Webb AL, Kruczkiewicz P, Selinger LB, Inglis GD, Taboada EN.

BMC Microbiol. 2015 May 7;15:94. doi: 10.1186/s12866-015-0426-4.


Comparative variation within the genome of Campylobacter jejuni NCTC 11168 in human and murine hosts.

Thomas DK, Lone AG, Selinger LB, Taboada EN, Uwiera RR, Abbott DW, Inglis GD.

PLoS One. 2014 Feb 7;9(2):e88229. doi: 10.1371/journal.pone.0088229. eCollection 2014.


Current methods for molecular typing of Campylobacter species.

Taboada EN, Clark CG, Sproston EL, Carrillo CD.

J Microbiol Methods. 2013 Oct;95(1):24-31. doi: 10.1016/j.mimet.2013.07.007. Epub 2013 Jul 17. Review.


Evaluation of MALDI-TOF mass spectroscopy methods for determination of Escherichia coli pathotypes.

Clark CG, Kruczkiewicz P, Guan C, McCorrister SJ, Chong P, Wylie J, van Caeseele P, Tabor HA, Snarr P, Gilmour MW, Taboada EN, Westmacott GR.

J Microbiol Methods. 2013 Sep;94(3):180-91. doi: 10.1016/j.mimet.2013.06.020. Epub 2013 Jun 28.


Detection of genetic diversity in Campylobacter jejuni isolated from a commercial turkey flock using flaA typing, MLST analysis and microarray assay.

El-Adawy H, Hotzel H, Tomaso H, Neubauer H, Taboada EN, Ehricht R, Hafez HM.

PLoS One. 2013;8(2):e51582. doi: 10.1371/journal.pone.0051582. Epub 2013 Feb 20.


An enhanced technique combining pre-enrichment and passive filtration increases the isolation efficiency of Campylobacter jejuni and Campylobacter coli from water and animal fecal samples.

Jokinen CC, Koot JM, Carrillo CD, Gannon VP, Jardine CM, Mutschall SK, Topp E, Taboada EN.

J Microbiol Methods. 2012 Dec;91(3):506-13. doi: 10.1016/j.mimet.2012.09.005. Epub 2012 Sep 14.


A framework for assessing the concordance of molecular typing methods and the true strain phylogeny of Campylobacter jejuni and C. coli using draft genome sequence data.

Carrillo CD, Kruczkiewicz P, Mutschall S, Tudor A, Clark C, Taboada EN.

Front Cell Infect Microbiol. 2012 May 1;2:57. doi: 10.3389/fcimb.2012.00057. eCollection 2012.


Spatial and temporal drivers of zoonotic pathogen contamination of an agricultural watershed.

Jokinen CC, Edge TA, Koning W, Laing CR, Lapen DR, Miller J, Mutschall S, Scott A, Taboada EN, Thomas JE, Topp E, Wilkes G, Gannon VP.

J Environ Qual. 2012 Jan-Feb;41(1):242-52. doi: 10.2134/jeq2011.0203.


Development and validation of a comparative genomic fingerprinting method for high-resolution genotyping of Campylobacter jejuni.

Taboada EN, Ross SL, Mutschall SK, Mackinnon JM, Roberts MJ, Buchanan CJ, Kruczkiewicz P, Jokinen CC, Thomas JE, Nash JH, Gannon VP, Marshall B, Pollari F, Clark CG.

J Clin Microbiol. 2012 Mar;50(3):788-97. doi: 10.1128/JCM.00669-11. Epub 2011 Dec 14.


Identification of Salmonella enterica species- and subgroup-specific genomic regions using Panseq 2.0.

Laing C, Villegas A, Taboada EN, Kropinski A, Thomas JE, Gannon VP.

Infect Genet Evol. 2011 Dec;11(8):2151-61. doi: 10.1016/j.meegid.2011.09.021. Epub 2011 Oct 1.


Pan-genome sequence analysis using Panseq: an online tool for the rapid analysis of core and accessory genomic regions.

Laing C, Buchanan C, Taboada EN, Zhang Y, Kropinski A, Villegas A, Thomas JE, Gannon VP.

BMC Bioinformatics. 2010 Sep 15;11:461. doi: 10.1186/1471-2105-11-461.


In silico genomic analyses reveal three distinct lineages of Escherichia coli O157:H7, one of which is associated with hyper-virulence.

Laing CR, Buchanan C, Taboada EN, Zhang Y, Karmali MA, Thomas JE, Gannon VP.

BMC Genomics. 2009 Jun 29;10:287. doi: 10.1186/1471-2164-10-287.


Genomics-based molecular epidemiology of Campylobacter jejuni isolates from feedlot cattle and from people in Alberta, Canada.

Hannon SJ, Taboada EN, Russell ML, Allan B, Waldner C, Wilson HL, Potter A, Babiuk L, Townsend HG.

J Clin Microbiol. 2009 Feb;47(2):410-20. doi: 10.1128/JCM.01432-08. Epub 2008 Nov 26.


Rapid determination of Escherichia coli O157:H7 lineage types and molecular subtypes by using comparative genomic fingerprinting.

Laing C, Pegg C, Yawney D, Ziebell K, Steele M, Johnson R, Thomas JE, Taboada EN, Zhang Y, Gannon VP.

Appl Environ Microbiol. 2008 Nov;74(21):6606-15. doi: 10.1128/AEM.00985-08. Epub 2008 Sep 12.


Comparative genomic assessment of Multi-Locus Sequence Typing: rapid accumulation of genomic heterogeneity among clonal isolates of Campylobacter jejuni.

Taboada EN, Mackinnon JM, Luebbert CC, Gannon VP, Nash JH, Rahn K.

BMC Evol Biol. 2008 Aug 8;8:229. doi: 10.1186/1471-2148-8-229.


Genotypic characterization and prevalence of virulence factors among Canadian Escherichia coli O157:H7 strains.

Ziebell K, Steele M, Zhang Y, Benson A, Taboada EN, Laing C, McEwen S, Ciebin B, Johnson R, Gannon V.

Appl Environ Microbiol. 2008 Jul;74(14):4314-23. doi: 10.1128/AEM.02821-07. Epub 2008 May 16.


Studying bacterial genome dynamics using microarray-based comparative genomic hybridization.

Taboada EN, Luebbert CC, Nash JH.

Methods Mol Biol. 2007;396:223-53.


Epidemiology, relative invasive ability, molecular characterization, and competitive performance of Campylobacter jejuni strains in the chicken gut.

Pope C, Wilson J, Taboada EN, Mackinnon J, Felipe Alves CA, Nash JH, Rahn K, Tannock GW.

Appl Environ Microbiol. 2007 Dec;73(24):7959-66. Epub 2007 Oct 5.


Methodologies towards the development of an oligonucleotide microarray for determination of Salmonella serotypes.

Yoshida C, Franklin K, Konczy P, McQuiston JR, Fields PI, Nash JH, Taboada EN, Rahn K.

J Microbiol Methods. 2007 Aug;70(2):261-71. Epub 2007 Jun 7.


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