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Shifts in the molecular epidemiology of Campylobacter jejuni infections in a sentinel region of New Zealand, following the implementation of food safety interventions by the poultry industry.

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

Appl Environ Microbiol. 2019 Dec 20. pii: AEM.01753-19. doi: 10.1128/AEM.01753-19. [Epub ahead of print]


Laboratory Study on the Gastroenteritis Outbreak Caused by a Multidrug-Resistant Campylobacter coli in China.

Li Y, Gu Y, Lv J, Liang H, Zhang J, Zhang S, He M, Wang Y, Ma H, French N, Zhang J, Zhang M.

Foodborne Pathog Dis. 2019 Dec 12. doi: 10.1089/fpd.2019.2681. [Epub ahead of print]


Mapping Modeled Exposure of Wildland Fire Smoke for Human Health Studies in California.

Koman PD, Billmire M, Baker KR, de Majo R, Anderson FJ, Hoshiko S, Thelen BJ, French NHF.

Atmosphere (Basel). 2019 Jun;10(6). pii: 308. doi: 10.3390/atmos10060308. Epub 2019 Jun 4.


Determinants of high residual post-PCV13 pneumococcal vaccine-type carriage in Blantyre, Malawi: a modelling study.

Lourenço J, Obolski U, Swarthout TD, Gori A, Bar-Zeev N, Everett D, Kamng'ona AW, Mwalukomo TS, Mataya AA, Mwansambo C, Banda M, Gupta S, French N, Heyderman RS.

BMC Med. 2019 Dec 5;17(1):219. doi: 10.1186/s12916-019-1450-2.


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.


Pneumococcal pneumonia and carriage in Africa before and after introduction of pneumococcal conjugate vaccines, 2000-2019: protocol for systematic review.

Kalata NL, Nyazika TK, Swarthout TD, Everett D, French N, Heyderman RS, Gordon SB, Jambo KC.

BMJ Open. 2019 Nov 13;9(11):e030981. doi: 10.1136/bmjopen-2019-030981.


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. 2020 Feb 16;315:108382. doi: 10.1016/j.ijfoodmicro.2019.108382. Epub 2019 Oct 31. 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.


Evaluation of a Hospital Pharmacist Annual Competency Program.

French N, Giuliano C, Dehoorne-Smith M.

Hosp Pharm. 2019 Oct;54(5):300-308. doi: 10.1177/0018578718791516. Epub 2018 Aug 1.


Reduction in hospitalisations for acute gastroenteritis-associated childhood seizures since introduction of rotavirus vaccination: a time-series and change-point analysis of hospital admissions in England.

Hungerford DJ, French N, Iturriza-Gómara M, Read JM, Cunliffe NA, Vivancos R.

J Epidemiol Community Health. 2019 Nov;73(11):1020-1025. doi: 10.1136/jech-2019-213055. Epub 2019 Sep 11.


Vaccine Effectiveness against DS-1-Like Rotavirus Strains in Infants with Acute Gastroenteritis, Malawi, 2013-2015.

Jere KC, Bar-Zeev N, Chande A, Bennett A, Pollock L, Sanchez-Lopez PF, Nakagomi O, Tate JE, Parashar UD, Heyderman RS, French N, Iturriza-Gomara M, Cunliffe NA.

Emerg Infect Dis. 2019 Sep;25(9):1734-1737. doi: 10.3201/eid2509.190258.


Whole-Genome Sequencing of Salmonella Mississippi and Typhimurium Definitive Type 160, Australia and New Zealand.

Ford L, Ingle D, Glass K, Veitch M, Williamson DA, Harlock M, Gregory J, Stafford R, French N, Bloomfield S, Grange Z, Conway ML, Kirk MD.

Emerg Infect Dis. 2019 Sep;25(9):1690-1697. doi: 10.3201/eid2509.181811.


Upper Airway Pathology Contributes to Respiratory Symptoms in Children Born Very Preterm.

Simpson SJ, Champion Z, Hall GL, French N, Reynolds V.

J Pediatr. 2019 Oct;213:46-51. doi: 10.1016/j.jpeds.2019.06.048. Epub 2019 Aug 8.


Investigation of the validity of two Bayesian ancestral state reconstruction models for estimating Salmonella transmission during outbreaks.

Bloomfield S, Vaughan T, Benschop J, Marshall J, Hayman D, Biggs P, Carter P, French N.

PLoS One. 2019 Jul 22;14(7):e0214169. doi: 10.1371/journal.pone.0214169. eCollection 2019.


Do hospital pressures change following rotavirus vaccine introduction? A retrospective database analysis in a large paediatric hospital in the UK.

Heinsbroek E, Hungerford D, Cooke RPD, Chowdhury M, Cargill JS, Bar-Zeev N, French N, Theodorou E, Standaert B, Cunliffe NA.

BMJ Open. 2019 May 15;9(5):e027739. doi: 10.1136/bmjopen-2018-027739.


Early signals of vaccine driven perturbation seen in pneumococcal carriage population genomic data.

Chaguza C, Heinsbroek E, Gladstone RA, Tafatatha T, Alaerts M, Peno C, Cornick JE, Musicha P, Bar-Zeev N, Kamng'ona A, Kadioglu A, McGee L, Hanage WP, Breiman RF, Heyderman RS, French N, Everett DB, Bentley SD.

Clin Infect Dis. 2019 May 16. pii: ciz404. doi: 10.1093/cid/ciz404. [Epub ahead of print]


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.


Identifying genes associated with invasive disease in S. pneumoniae by applying a machine learning approach to whole genome sequence typing data.

Obolski U, Gori A, Lourenço J, Thompson C, Thompson R, French N, Heyderman RS, Gupta S.

Sci Rep. 2019 Mar 11;9(1):4049. doi: 10.1038/s41598-019-40346-7.


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.


Two Randomized Trials of the Effect of Live Attenuated Influenza Vaccine on Pneumococcal Colonization.

Rylance J, de Steenhuijsen Piters WAA, Mina MJ, Bogaert D, French N, Ferreira DM; EHPC-LAIV Study Group.

Am J Respir Crit Care Med. 2019 May 1;199(9):1160-1163. doi: 10.1164/rccm.201811-2081LE. No abstract available.


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.


Effect of the duration of antimicrobial exposure on the development of antimicrobial resistance (AMR) for macrolide antibiotics: protocol for a systematic review with a network meta-analysis.

Divala TH, Corbett EL, Stagg HR, Nliwasa M, Sloan DJ, French N, Fielding KL.

Syst Rev. 2018 Dec 23;7(1):246. doi: 10.1186/s13643-018-0917-0.


Influenza-associated hospitalisation, vaccine uptake and socioeconomic deprivation in an English city region: an ecological study.

Hungerford D, Ibarz-Pavon A, Cleary P, French N.

BMJ Open. 2018 Dec 19;8(12):e023275. doi: 10.1136/bmjopen-2018-023275.


Histological chorioamnionitis and developmental outcomes in very preterm infants.

Strunk T, Campbell C, Burgner D, Charles A, French N, Sharp M, Simmer K, Nathan E, Doherty D.

J Perinatol. 2019 Feb;39(2):321-330. doi: 10.1038/s41372-018-0288-3. Epub 2018 Dec 5.


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. Review.


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. 2019 Jul 18;69(3):428-437. doi: 10.1093/cid/ciy919.


Pneumococcal carriage in households in Karonga District, Malawi, before and after introduction of 13-valent pneumococcal conjugate vaccination.

Heinsbroek E, Tafatatha T, Phiri A, Swarthout TD, Alaerts M, Crampin AC, Chisambo C, Mwiba O, Read JM, French N.

Vaccine. 2018 Nov 19;36(48):7369-7376. doi: 10.1016/j.vaccine.2018.10.021. Epub 2018 Oct 21.


Hands are vehicles for transmission of Streptococcus pneumoniae in novel controlled human infection study.

Connor V, German E, Pojar S, Mitsi E, Hales C, Nikolaou E, Hyder-Wright A, Adler H, Zaidi S, Hill H, Jochems SP, Burhan H, French N, Tobery T, Rylance J, Ferreira DM.

Eur Respir J. 2018 Oct 10;52(4). pii: 1800599. doi: 10.1183/13993003.00599-2018. Print 2018 Oct. No abstract available.


Mitigating bias in observational vaccine effectiveness studies using simulated comparator populations: Application to rotavirus vaccination in the UK.

Hungerford D, Vivancos R, Read JM, Bonnett LJ, Bar-Zeev N, Iturriza-Gómara M, Cunliffe NA, French N.

Vaccine. 2018 Oct 29;36(45):6674-6682. doi: 10.1016/j.vaccine.2018.09.051. Epub 2018 Oct 4.


Emerging Resistance to Empiric Antimicrobial Regimens for Pediatric Bloodstream Infections in Malawi (1998-2017).

Iroh Tam PY, Musicha P, Kawaza K, Cornick J, Denis B, Freyne B, Everett D, Dube Q, French N, Feasey N, Heyderman R.

Clin Infect Dis. 2019 Jun 18;69(1):61-68. doi: 10.1093/cid/ciy834.


Erratum for Cornick et al., "Epidemiological and Molecular Characterization of an Invasive Group A Streptococcus emm32.2 Outbreak".

Cornick JE, Kiran AM, Vivancos R, Van Aartsen J, Clarke J, Bevan E, Alsahag M, Alaearts M, Bricio Moreno L, Jenkinson HF, Nobbs AH, Anson J, Kadioglu A, French N, Everett DB.

J Clin Microbiol. 2018 Aug 27;56(9). pii: e01001-18. doi: 10.1128/JCM.01001-18. Print 2018 Sep. No abstract available.


Impact of monovalent rotavirus vaccine on diarrhoea-associated post-neonatal infant mortality in rural communities in Malawi: a population-based birth cohort study.

Bar-Zeev N, King C, Phiri T, Beard J, Mvula H, Crampin AC, Heinsbroek E, Lewycka S, Tate JE, Parashar UD, Costello A, Mwansambo C, Heyderman RS, French N, Cunliffe NA; VacSurv Consortium.

Lancet Glob Health. 2018 Sep;6(9):e1036-e1044. doi: 10.1016/S2214-109X(18)30314-0. Erratum in: Lancet Glob Health. 2018 Dec;6(12):e1286.


Advancing quality in sepsis management: a large-scale programme for improving sepsis recognition and management in the North West region of England.

Nsutebu EF, Ibarz-Pavón AB, Kanwar E, Prospero N, French N, McGrath C.

Postgrad Med J. 2018 Aug;94(1114):463-468. doi: 10.1136/postgradmedj-2018-135833. Epub 2018 Aug 7.


Epidemiology of Severe Acute Respiratory Illness and Risk Factors for Influenza Infection and Clinical Severity among Adults in Malawi, 2011-2013.

Ho A, Mallewa J, Peterson I, SanJoaquin M, Garg S, Bar-Zeev N, Menyere M, Alaerts M, Mapurisa G, Chilombe M, Nyirenda M, Lalloo DG, Rothe C, Widdowson MA, McMorrow M, French N, Everett D, Heyderman RS.

Am J Trop Med Hyg. 2018 Sep;99(3):772-779. doi: 10.4269/ajtmh.17-0905. Epub 2018 Jul 19.


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 San Diego 2007 wildfires and Medi-Cal emergency department presentations, inpatient hospitalizations, and outpatient visits: An observational study of smoke exposure periods and a bidirectional case-crossover analysis.

Hutchinson JA, Vargo J, Milet M, French NHF, Billmire M, Johnson J, Hoshiko S.

PLoS Med. 2018 Jul 10;15(7):e1002601. doi: 10.1371/journal.pmed.1002601. eCollection 2018 Jul.


A Review of Methods for Assessing the Environmental Health Impacts of an Agricultural System.

Grout L, Hales S, French N, Baker MG.

Int J Environ Res Public Health. 2018 Jun 23;15(7). pii: E1315. doi: 10.3390/ijerph15071315. Review.


Direct and possible indirect effects of vaccination on rotavirus hospitalisations among children in Malawi four years after programmatic introduction.

Bennett A, Pollock L, Jere KC, Pitzer VE, Parashar U, Tate JE, Heyderman RS, Mwansambo C, French N, Nakagomi O, Iturriza-Gomara M, Everett D, Cunliffe NA, Bar-Zeev N; VacSurv Consortium.

Vaccine. 2018 Nov 12;36(47):7142-7148. doi: 10.1016/j.vaccine.2018.04.030. Epub 2018 Jun 7.


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.


No changes on viral load and CD4+ T-cell counts following immunization with 7-valent pneumococcal conjugate vaccine among HIV-infected adults in Malawi.

Ibarz-Pavon AB, French N.

Vaccine. 2018 May 3;36(19):2504-2506. doi: 10.1016/j.vaccine.2018.04.009. Epub 2018 Apr 7.


Genome-by-genome approach for fast bacterial genealogical relationship evaluation.

Zhang J, Xiong Y, Rogers L, Carter GP, French N.

Bioinformatics. 2018 Sep 1;34(17):3025-3027. doi: 10.1093/bioinformatics/bty195.


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