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Draft Whole-Genome Sequences of Campylobacter Strains Isolated from Brushtail Possums in New Zealand.

Wilkinson DA, Rogers LE, Fayaz A, Akhter RN, Biggs PJ, French NP, Midwinter AC.

Microbiol Resour Announc. 2019 Nov 21;8(47). pii: e01276-19. doi: 10.1128/MRA.01276-19.


Genomic Analysis of Fluoroquinolone- and Tetracycline-Resistant Campylobacter jejuni Sequence Type 6964 in Humans and Poultry, New Zealand, 2014-2016.

French NP, Zhang J, Carter GP, Midwinter AC, Biggs PJ, Dyet K, Gilpin BJ, Ingle DJ, Mulqueen K, Rogers LE, Wilkinson DA, Greening SS, Muellner P, Fayaz A, Williamson DA.

Emerg Infect Dis. 2019 Dec;25(12):2226-2234. doi: 10.3201/eid2512.190267.


Reply to Baba and Kanamori.

Franz E, Rotariu O, Lopes BS, Bono JL, Laing C, Gannon V, van Hoek AHAM, Friesema I, French NP, George T, Biggs PJ, Jaros P, Rivas M, Chinen I, Campos J, Mellor GE, Chandry PS, Perez-Reche F, Forbes KJ, Strachan NJC.

Clin Infect Dis. 2019 Nov 11. pii: ciz1102. doi: 10.1093/cid/ciz1102. [Epub ahead of print] No abstract available.


Prevalence of Campylobacter and Salmonella in African food animals and meat: A systematic review and meta-analysis.

Thomas KM, de Glanville WA, Barker GC, Benschop J, Buza JJ, Cleaveland S, Davis MA, French NP, Mmbaga BT, Prinsen G, Swai ES, Zadoks RN, Crump JA.

Int J Food Microbiol. 2019 Oct 31;315:108382. doi: 10.1016/j.ijfoodmicro.2019.108382. [Epub ahead of print] Review.


Campylobacter jejuni Strains Associated with Wild Birds and Those Causing Human Disease in Six High-Use Recreational Waterways in New Zealand.

Shrestha RD, Midwinter AC, Marshall JC, Collins-Emerson JM, Pleydell EJ, French NP.

Appl Environ Microbiol. 2019 Nov 27;85(24). pii: e01228-19. doi: 10.1128/AEM.01228-19. Print 2019 Dec 15.


Docosahexaenoic acid supplementation of preterm infants and parent-reported symptoms of allergic disease at 7 years corrected age: follow-up of a randomized controlled trial.

Gunaratne AW, Makrides M, Collins CT, Gibson RA, McPhee AJ, Sullivan TR, Gould JF, Green TJ, Doyle LW, Davis PG, French NP, Colditz PB, Simmer K, Morris SA, Best KP.

Am J Clin Nutr. 2019 Jun 1;109(6):1600-1610. doi: 10.1093/ajcn/nqz010.


Draft Whole-Genome Sequences of Three Isolates of a Novel Strain of a Campylobacter sp. Isolated from New Zealand Birds and Water.

Wilkinson DA, Midwinter AC, Kwan E, Bloomfield SJ, French NP, Biggs PJ.

Microbiol Resour Announc. 2019 May 2;8(18). pii: e00258-19. doi: 10.1128/MRA.00258-19.


Extending statistical models for source attribution of zoonotic diseases: a study of campylobacteriosis.

Liao SJ, Marshall J, Hazelton ML, French NP.

J R Soc Interface. 2019 Jan 31;16(150):20180534. doi: 10.1098/rsif.2018.0534.


Use of Genomics to Investigate Historical Importation of Shiga Toxin-Producing Escherichia coli Serogroup O26 and Nontoxigenic Variants into New Zealand.

Browne AS, Biggs PJ, Wilkinson DA, Cookson AL, Midwinter AC, Bloomfield SJ, Hranac CR, Rogers LE, Marshall JC, Benschop J, Withers H, Hathaway S, George T, Jaros P, Irshad H, Fong Y, Dufour M, Karki N, Winkleman T, French NP.

Emerg Infect Dis. 2019 Mar;25(3):489-500. doi: 10.3201/eid2503.180899.


Genomic correlates of extraintestinal infection are linked with changes in cell morphology in Campylobacter jejuni.

Wheeler NE, Blackmore T, Reynolds AD, Midwinter AC, Marshall J, French NP, Savoian MS, Gardner PP, Biggs PJ.

Microb Genom. 2019 Feb;5(2). doi: 10.1099/mgen.0.000251. Epub 2019 Feb 19.


Combining MALDI-TOF and genomics in the study of methicillin resistant and multidrug resistant Staphylococcus pseudintermedius in New Zealand.

Nisa S, Bercker C, Midwinter AC, Bruce I, Graham CF, Venter P, Bell A, French NP, Benschop J, Bailey KM, Wilkinson DA.

Sci Rep. 2019 Feb 4;9(1):1271. doi: 10.1038/s41598-018-37503-9.


Investigating locally relevant risk factors for Campylobacter infection in Australia: protocol for a case-control study and genomic analysis.

Varrone L, Stafford RJ, Lilly K, Selvey L, Glass K, Ford L, Bulach D, Kirk MD; CampySource Project Team.

BMJ Open. 2018 Dec 22;8(12):e026630. doi: 10.1136/bmjopen-2018-026630.


Habitat fragmentation, biodiversity loss and the risk of novel infectious disease emergence.

Wilkinson DA, Marshall JC, French NP, Hayman DTS.

J R Soc Interface. 2018 Dec 5;15(149). pii: 20180403. doi: 10.1098/rsif.2018.0403.


Extended-Spectrum Beta-Lactamase-Producing Enterobacteriaceae in Dairy Farm Environments: A New Zealand Perspective.

Collis RM, Burgess SA, Biggs PJ, Midwinter AC, French NP, Toombs-Ruane L, Cookson AL.

Foodborne Pathog Dis. 2019 Jan;16(1):5-22. doi: 10.1089/fpd.2018.2524. Epub 2018 Nov 10.


Phylogeographic analysis reveals multiple international transmission events have driven the global emergence of Escherichia coli O157:H7.

Franz E, Rotariu O, Lopes BS, MacRae M, Bono JL, Laing C, Gannon V, Söderlund R, van Hoek AHAM, Friesema I, French NP, George T, Biggs PJ, Jaros P, Rivas M, Chinen I, Campos J, Jernberg C, Gobius K, Mellor GE, Chandry PS, Perez-Reche F, Forbes KJ, Strachan NJC.

Clin Infect Dis. 2018 Oct 29. doi: 10.1093/cid/ciy919. [Epub ahead of print]


Exposure to whole chicken carcasses may present a greater risk of campylobacteriosis compared to exposure to chicken drumsticks.

Nohra A, Grinberg A, Midwinter AC, Marshall JC, Collins-Emerson JM, French NP.

Zoonoses Public Health. 2018 Nov;65(7):822-830. doi: 10.1111/zph.12505. Epub 2018 Jul 11.


The effect of transportation and lairage on faecal shedding and carcass contamination with Escherichia coli O157 and O26 in very young calves in New Zealand.

Jaros P, Cookson AL, Reynolds A, Withers H, Clemens R, Brightwell G, Mills J, Marshall J, Prattley DJ, Campbell DM, Hathaway S, French NP.

Epidemiol Infect. 2018 Jul;146(9):1089-1100. doi: 10.1017/S0950268818000973. Epub 2018 May 23.


Molecular Epidemiology of Shiga Toxin-Producing Escherichia coli (STEC) on New Zealand Dairy Farms: Application of a Culture-Independent Assay and Whole-Genome Sequencing.

Browne AS, Midwinter AC, Withers H, Cookson AL, Biggs PJ, Marshall JC, Benschop J, Hathaway S, Haack NA, Akhter RN, French NP.

Appl Environ Microbiol. 2018 Jul 2;84(14). pii: e00481-18. doi: 10.1128/AEM.00481-18. Print 2018 Jul 15.


A Bayesian spatio-temporal framework to identify outbreaks and examine environmental and social risk factors for infectious diseases monitored by routine surveillance.

Lal A, Marshall J, Benschop J, Brock A, Hales S, Baker MG, French NP.

Spat Spatiotemporal Epidemiol. 2018 Jun;25:39-48. doi: 10.1016/j.sste.2017.10.004. Epub 2017 Nov 2.


Draft Whole-Genome Sequences of Three Diarrheagenic Escherichia coli Strains Isolated from Farmed Deer in New Zealand.

Browne AS, Biggs PJ, Elliott A, Jaros P, French NP, Midwinter AC.

Genome Announc. 2018 Apr 19;6(16). pii: e00300-18. doi: 10.1128/genomeA.00300-18.


Identification and characterization of two novel superantigens among Staphylococcus aureus complex.

Zhang DF, Yang XY, Zhang J, Qin X, Huang X, Cui Y, Zhou M, Shi C, French NP, Shi X.

Int J Med Microbiol. 2018 Jun;308(4):438-446. doi: 10.1016/j.ijmm.2018.03.002. Epub 2018 Mar 6.


Updating the genomic taxonomy and epidemiology of Campylobacter hyointestinalis.

Wilkinson DA, O'Donnell AJ, Akhter RN, Fayaz A, Mack HJ, Rogers LE, Biggs PJ, French NP, Midwinter AC.

Sci Rep. 2018 Feb 5;8(1):2393. doi: 10.1038/s41598-018-20889-x.


Long-term Colonization by Campylobacter jejuni Within a Human Host: Evolution, Antimicrobial Resistance, and Adaptation.

Bloomfield SJ, Midwinter AC, Biggs PJ, French NP, Marshall JC, Hayman DTS, Carter PE, Thornley C, Yap R, Benschop J.

J Infect Dis. 2017 Dec 27;217(1):103-111. doi: 10.1093/infdis/jix561.


Cost-benefit analyses of supplementary measles immunisation in the highly immunized population of New Zealand.

Hayman DTS, Marshall JC, French NP, Carpenter TE, Roberts MG, Kiedrzynski T.

Vaccine. 2017 Sep 5;35(37):4913-4922. doi: 10.1016/j.vaccine.2017.07.077. Epub 2017 Aug 10.


Complete Genome Sequence of Campylobacter concisus ATCC 33237T and Draft Genome Sequences for an Additional Eight Well-Characterized C. concisus Strains.

Cornelius AJ, Miller WG, Lastovica AJ, On SLW, French NP, Vandenberg O, Biggs PJ.

Genome Announc. 2017 Jul 20;5(29). pii: e00711-17. doi: 10.1128/genomeA.00711-17.


Genomic Analysis of Salmonella enterica Serovar Typhimurium DT160 Associated with a 14-Year Outbreak, New Zealand, 1998-2012.

Bloomfield SJ, Benschop J, Biggs PJ, Marshall JC, Hayman DTS, Carter PE, Midwinter AC, Mather AE, French NP.

Emerg Infect Dis. 2017 Jun;23(6):906-913. doi: 10.3201/eid2306.161934.


Global importation and population risk factors for measles in New Zealand: a case study for highly immunized populations.

Hayman DTS, Marshall JC, French NP, Carpenter TE, Roberts MG, Kiedrzynski T.

Epidemiol Infect. 2017 Jul;145(9):1875-1885. doi: 10.1017/S0950268817000723. Epub 2017 Apr 17.


Culture independent analysis using gnd as a target gene to assess Escherichia coli diversity and community structure.

Cookson AL, Biggs PJ, Marshall JC, Reynolds A, Collis RM, French NP, Brightwell G.

Sci Rep. 2017 Apr 12;7(1):841. doi: 10.1038/s41598-017-00890-6.


Characterisation by multilocus sequence and porA and flaA typing of Campylobacter jejuni isolated from samples of dog faeces collected in one city in New Zealand.

Mohan V, Stevenson MA, Marshall JC, French NP.

N Z Vet J. 2017 Jul;65(4):209-213. doi: 10.1080/00480169.2017.1311810. Epub 2017 Apr 26.


Genomic Epidemiology and Management of Salmonella in Island Ecosystems Used for Takahe Conservation.

Grange ZL, Biggs PJ, Rose SP, Gartrell BD, Nelson NJ, French NP.

Microb Ecol. 2017 Oct;74(3):735-744. doi: 10.1007/s00248-017-0959-1. Epub 2017 Mar 30.


A phylogenomic framework for assessing the global emergence and evolution of clonal complex 398 methicillin-resistant Staphylococcus aureus.

Gonçalves da Silva A, Baines SL, Carter GP, Heffernan H, French NP, Ren X, Seemann T, Bulach D, Kwong J, Stinear TP, Howden BP, Williamson DA.

Microb Genom. 2017 Jan 31;3(1):e000105. doi: 10.1099/mgen.0.000105. eCollection 2017 Jan.


Epidemiology of Escherichia coli serogroups O26, O103, O111 and O145 in very young ('bobby') calves in the North Island, New Zealand.

Irshad H, Cookson AL, Prattley DJ, Marshall J, French NP.

Epidemiol Infect. 2017 Jun;145(8):1606-1616. doi: 10.1017/S0950268817000401. Epub 2017 Mar 7.


Genomic Insights into a Sustained National Outbreak of Yersinia pseudotuberculosis.

Williamson DA, Baines SL, Carter GP, da Silva AG, Ren X, Sherwood J, Dufour M, Schultz MB, French NP, Seemann T, Stinear TP, Howden BP.

Genome Biol Evol. 2016 Dec 1;8(12):3806-3814. doi: 10.1093/gbe/evw285.


Inferring Ancestral Recombination Graphs from Bacterial Genomic Data.

Vaughan TG, Welch D, Drummond AJ, Biggs PJ, George T, French NP.

Genetics. 2017 Feb;205(2):857-870. doi: 10.1534/genetics.116.193425. Epub 2016 Dec 22.


Multidrug resistant Enterobacteriaceae in New Zealand: a current perspective.

Toombs-Ruane LJ, Benschop J, Burgess S, Priest P, Murdoch DR, French NP.

N Z Vet J. 2017 Mar;65(2):62-70. doi: 10.1080/00480169.2016.1269621. Review.


Cryptosporidiosis Risk in New Zealand Children Under 5 Years Old is Greatest in Areas with High Dairy Cattle Densities.

Lal A, Dobbins T, Bagheri N, Baker MG, French NP, Hales S.

Ecohealth. 2016 Dec;13(4):652-660. Epub 2016 Oct 20.


Sex difference in the survival rate of wild brushtail possums (Trichosurus vulpecula) experimentally challenged with bovine tuberculosis.

Rouco C, Richardson KS, Buddle BM, French NP, Tompkins DM.

Res Vet Sci. 2016 Aug;107:102-105. doi: 10.1016/j.rvsc.2016.05.008. Epub 2016 May 25.


Estimating Bacterial Pathogen Levels in New Zealand Bulk Tank Milk.

Marshall JC, Soboleva TK, Jamieson P, French NP.

J Food Prot. 2016 May;79(5):771-80. doi: 10.4315/0362-028X.JFP-15-230.


Molecular Epidemiology of Campylobacter coli Strains Isolated from Different Sources in New Zealand between 2005 and 2014.

Nohra A, Grinberg A, Midwinter AC, Marshall JC, Collins-Emerson JM, French NP.

Appl Environ Microbiol. 2016 Jun 30;82(14):4363-4370. doi: 10.1128/AEM.00934-16. Print 2016 Jul 15.


Nationwide prevalence and risk factors for faecal carriage of Escherichia coli O157 and O26 in very young calves and adult cattle at slaughter in New Zealand.

Jaros P, Cookson AL, Reynolds A, Prattley DJ, Campbell DM, Hathaway S, French NP.

Epidemiol Infect. 2016 Jun;144(8):1736-47. doi: 10.1017/S0950268815003209. Epub 2016 Jan 6.


Microbial Genomics of a Host-Associated Commensal Bacterium in Fragmented Populations of Endangered Takahe.

Grange ZL, Gartrell BD, Biggs PJ, Nelson NJ, Anderson M, French NP.

Microb Ecol. 2016 May;71(4):1020-9. doi: 10.1007/s00248-015-0721-5. Epub 2015 Dec 26.


Diversity and relatedness of Shiga toxin-producing Escherichia coli and Campylobacter jejuni between farms in a dairy catchment.

Irshad H, Cookson AL, Ross CM, Jaros P, Prattley DJ, Donnison A, McBRIDE G, Marshall J, French NP.

Epidemiol Infect. 2016 May;144(7):1406-17. doi: 10.1017/S0950268815002782. Epub 2015 Nov 23.


Haemophilus influenzae: a potent perinatal pathogen disproportionately isolated from Indigenous women and their neonates.

Porter M, Charles AK, Nathan EA, French NP, Dickinson JE, Darragh H, Keil AD.

Aust N Z J Obstet Gynaecol. 2016 Feb;56(1):75-81. doi: 10.1111/ajo.12413. Epub 2015 Oct 27.


Network analysis of wildlife translocations in New Zealand.

Van Andel M, McInnes K, Tana T, French NP.

N Z Vet J. 2016 May;64(3):169-73. doi: 10.1080/00480169.2015.1110065. Epub 2015 Nov 18.


Molecular Approaches to Understanding Transmission and Source Attribution in Nontyphoidal Salmonella and Their Application in Africa.

Mather AE, Vaughan TG, French NP.

Clin Infect Dis. 2015 Nov 1;61 Suppl 4:S259-65. doi: 10.1093/cid/civ727. Review.


Whole Genome Sequencing demonstrates that Geographic Variation of Escherichia coli O157 Genotypes Dominates Host Association.

Strachan NJ, Rotariu O, Lopes B, MacRae M, Fairley S, Laing C, Gannon V, Allison LJ, Hanson MF, Dallman T, Ashton P, Franz E, van Hoek AH, French NP, George T, Biggs PJ, Forbes KJ.

Sci Rep. 2015 Oct 7;5:14145. doi: 10.1038/srep14145.


Seasonality of Campylobacter jejuni isolates associated with human campylobacteriosis in the Manawatu region, New Zealand.

Friedrich A, Marshall JC, Biggs PJ, Midwinter AC, French NP.

Epidemiol Infect. 2016 Mar;144(4):820-8. doi: 10.1017/S0950268815002009. Epub 2015 Sep 7.


'Super' or just 'above average'? Supershedders and the transmission of Escherichia coli O157:H7 among feedlot cattle.

Spencer SE, Besser TE, Cobbold RN, French NP.

J R Soc Interface. 2015 Sep 6;12(110):0446. doi: 10.1098/rsif.2015.0446.


Spatial and temporal variation in the association between temperature and salmonellosis in NZ.

Lal A, Hales S, Kirk M, Baker MG, French NP.

Aust N Z J Public Health. 2016 Apr;40(2):165-9. doi: 10.1111/1753-6405.12413. Epub 2015 Aug 10.


Using a common commensal bacterium in endangered Takahe as a model to explore pathogen dynamics in isolated wildlife populations.

Grange ZL, Gartrell BD, Biggs PJ, Nelson NJ, Marshall JC, Howe L, Balm MG, French NP.

Conserv Biol. 2015 Oct;29(5):1327-36. doi: 10.1111/cobi.12521. Epub 2015 May 11.


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