PUBLICATIONS THE FOLLOWING LIST IS A SELECTION OF RECENT AND FORTHCOMING PUBLICATIONS BY IDReC SCIENTISTS:

2017

 

Benschop, J., Booker, C., Shadbolt, T., Weston, J. [2017] A Retrospective Cohort Study of an Outbreak of Cryptosporidiosis among Veterinary Students. Veterinary Sciences 4, no. 2:29. doi:10.3390/vetsci4020029

Bertels, F., Gallie, J., Rainey, P.B. [2017] Identification and Characterization of Domesticated Bacterial Transposases. bioRxiv (2017). 

Bloomfield, S.J., Benschop, J., Biggs, P.J., Marshall, J.C., Hayman, D.T.S, Carter, P. E., Midwinter, A.C., Mather, A. E., French, N.P. [2017]. Genomic Analysis of Salmonella enterica Serovar Typhimurium DT160 Associated with a 14-Year Outbreak, New Zealand, 1998-2012. Emerging Infectious Diseases, 23(6), 906-913. doi:10.3201/eid2306.161934

Brooks, C.R., van Dalen, C.J., Hermans, I.F., Gibson, P.G., Simpson, J.L., Douwes, J. [2017] Sputum Basophils Are Increased in Eosinophilic Asthma Compared with Non-Eosinophilic Asthma Phenotypes. Allergy (Apr 20 2017). doi:10.1111/all.13185 

Burgess, S.A., Flint, S.H., Lindsay, D, Cox, M.P., Biggs, P.J. [2017] Insights into the Geobacillus Stearothermophilus Species Based on Phylogenomic Principles. BMC Microbiol 17, no. 1 (Jun 26 2017): 140. doi:10.1186/s12866-017-1047-x 

Cogger, N., Sheard, H. [2017] Working farm dogs. In Livestock Production in New Zealand. Massey University Press, pp.280-297  

Colombi, E., Straub, C., Kunzel, S., Templeton, M.D., McCann, H.C., Rainey, P.B. [2017] Evolution of copper resistance in the kiwifruit pathogen Pseudomonas syringae pv. actinidiae through acquisition of integrative conjugative elements and plasmids. bioRxiv. 070391. doi:10.1101/070391

Compton, C.W.R., Heuer, C., Thomsen, P.T, Carpenter, T.E., Phyn, C.V.C., McDougall, S.[2017] A systematic literature review and meta-analysis of mortality and culling in dairy cattle. J. Dairy Sci. 100(1):1-16. doi:10.3168/jds.2016-11302

Cookson, A.L., Biggs, P.J., Marshall, J.C., Reynolds, A., Collis, R.M., French, N.P., Brightwell, G.[2017] Culture independent analysis using gnd as a target gene to assess Escherichia coli diversity and community structure. Sci Rep, 7(1): 814. doi: 10.1038/s41598-017-00890-6

Da Silva, A.G., Baines, S., Carter, G., Heffernan, H., French, N.P., Ren, U.,Stinear, T., Howden, B., Williamson, D. [2017] A phylogenomic framework for assessing the global emergence and evolution of clonal complex 398 methicillin-resistant Staphylococcus aureus. Microbial Genomics 3, no. 1.doi:10.1099/mgen.0.000105

Dixon, M, Flint, S, Palmer, J, Love, R, Biggs,P.J, Beuger, A. [2017] Analysis of Culturable and Non-Culturable Bacteria and Their Potential to Form Biofilms in a Primary Treated Dairy Wastewater System. Environ Technol (Jul 18 2017): 1-8. doi: 10.1080/09593330.2017.1352034

French, N.P. [2017] Impacts of non-native species on livestock. Impact of biological invasions on ecosystem services pp 139–154.

Gates, C., Cave, N., Luckman, C. [2017] Feline leukaemia virus in New Zealand. Vetscript, Volume 30(3):48-50.

Garcia, J.C., Hayman, D.T.S.[2017] Evolutionary Processes in Populations of Cryptosporidium Inferred from Gp60 Sequence Data. Parasitol Res . doi:10.1007/s00436-017-5459-1 

Gartrell, B., Agnew, D., Alley, M., Carpenter, T., Ha, H.J., Howe, L., Hunter, S., McInnes, K., Munday, R., Roe, W., Young, M. [2017] Investigation of a Mortality Cluster in Wild Adult Yellow-Eyed Penguins (Megadyptes Antipodes) at Otago Peninsula, New Zealand." Avian Pathol 46, no. 3: 278-88. doi:10.1080/03079457.2016.1264568 

Gerth, M.L., Liu, Y., Jiao, W., Zhang, X.X., Baker, E.N., Lott, J.S., Rainey, P.B., Johnston, J.M. [2017] Crystal Structure of a Bicupin Protein Hutd Involved in Histidine Utilization in Pseudomonas. Proteins 85, no. 8 (Aug 2017): 1580-88. doi: 10.1002/prot.25303 

Grange, Z.L., Biggs, P J., Rose, S.P., Gartrell, B.D., Nelson, N.J., French, N.P. [2017]  Genomic Epidemiology and Management of Salmonella in Island Ecosystems Used for Takahe Conservation. Microb Ecol (2017). doi:10.1007/s00248-017-0959-1

Hayman, D.T.S., Marshall, J.C, French, N.P., Carpenter, T.E., Roberts, M.G., Kiedrzynski, T.[2017] Global Importation and Population Risk Factors for Measles in New Zealand: A Case Study for Highly Immunized Populations. Epidemiol Infect 145, no. 9 (Jul 2017): 1875-85. doi:10.1017/S0950268817000723

Hazelton, M.L. (2017) Testing for changes in spatial relative risk. Statist. Med., doi:10.1002/sim.7306

Heuer, C., Yuplana, Y., Collins-Emerson, J., Benschop, J., Weston, J., Wilkinson, D., Vallee, E., Wilson, P. [2017] Leptospira shedding in dairy herds: New findings. VetScript 45-46.

Hidano, A., Sharma, B., Rinzin, K., Dahal, N., Dukpa, K., Stevenson, M.A., [2017] Revisiting an old disease? Risk factors for bovine enzootic haematuria in the Kingdom of Bhutan. Preventive Veterinary Medicine 140, 10–18.doi:10.1016/j.prevetmed.2017.02.011 

Irshad, H., Cookson, A.L., Prattley, D.J., Marshall, J., French, N.P. [2017] Epidemiology of Escherichia coli serogroups O26, O103, O111 and O145 in very young ('bobby') calves in the North Island, New Zealand.Epidemiol Infect. 2017 Mar 7:1-11. doi: 10.1017/S0950268817000401

Jay, S.M., Gander, P.H., Eng, A., Cheng, S., Douwes, J., Ellison-Loschmann, L,. McLean, D., Pearce, N., 'tMannetje, A. [2017] New Zealanders Working Non-Standard Hours Also Have Greater Exposure to Other Workplace Hazards. Chronobiology International 34, no. 4 (May 2017): 519-26. doi: 10.1080/07420528.2017.1307850 

Karkaba, A., Benschop, J., Hill, K. E., Grinberg, A. [2017]  Characterisation of methicillin-resistant Staphylococcus aureus clinical isolates from animals in New Zealand, 2012–2013, and subclinical colonisation in dogs and cats in Auckland. N Z Vet J 65, no.2:78-83 . doi: 10.1080/00480169.2016.1222919

Lind, P.A., Farr, A.D., Rainey, P.B. [2017] Evolutionary Convergence in Experimental Pseudomonas Populations. ISME J 11, no. 3 (Mar 2017): 589-600. doi:10.1038/ismej.2016.157 doi:10.1038/ismej.2016.157

McCann, H.C., Li, L., Liu, Y., Li, D., Pan, H., Zhong, C., Rikkerink, E.H.A., Templeton, M.D., Straub, C., Colombi, E., Rainey, P.B., Huang, H. [2017] Origin and Evolution of the Kiwifruit Canker Pandemic. Genome Biol Evol 2017; 9 (4): 932-944. doi:10.1093/gbe/evx055 

McMeekin, C. H., Hill, K. E., Gibson, I. R., Bridges, J. P., Benschop, J. [2017] Antimicrobial Resistance Patterns of Bacteria Isolated from Canine Urinary Samples Submitted to a New Zealand Veterinary Diagnostic Laboratory between 2005-2012. N Z Vet J 65, no. 2: 99-104. doi:10.1080/00480169.2016.1259594 

Miller, P., Marshall, J.C., French, N.P., Jewell, C. [2017] sourceR: Classification and Source Attribution of Infectious Agents among Heterogeneous Populations. arXiv preprint arXiv:1702.07422

Mohan, V, Stevenson, M.A., Marshall, J.C,  French, N.P [2017] 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. NZVJ  65(4)L:209-213. doi:10.1080/00480169.2017.1311810

Moloney, B.J., Heuer, C., Kirkland, P.D. [2017] Neospora caninum in beef herds in New South Wales, Australia. 2: analysis of risk factors. Aust Vet J, 95: 101-109. doi:10.1111/avj.12563 

Moloney, B.J., Kirkland, P.D., Heuer, C. [2017] Neospora caninum in beef herds in New South Wales, Australia. 1: seroprevalence study. Aust Vet J 95(3):72-79, 2017, doi:10.1111/avj.12561

Peel, A.J., Wood, J.L.N., Baker, K.S., Breed, A.C., Carvalho, A.D., Fernández-Loras, A., Gabrieli, H.S., Gembu, G.C., Kakengi, V.A., Kaliba, P.M., Kityo, R.M., Lembo, T., Mba, F.E., Ramos, D., Rodriguez-Prieto, I., Suu-Ire, R., Cunningham, A.A., Hayman, D.T.S. [2017] How Does Africa's Most Hunted Bat Vary across the Continent? Population Traits of the Straw-Coloured Fruit Bat (Eidolon Helvum) and Its Interactions with Humans. Acta Chiropterologica 19, no. 1:77-92. doi:10.3161/15081109acc2017.19.1.006 

Pichugin, Y., Pena, J., Rainey, P.B., Traulse, A. [2017] Fragmentation modes and the evolution of life cycles. bioRxiv [preprint] 

Pittavino, M., Dreyfus, A., Heuer, C., Benschop, J., Wilson, P.R., Collins-Emerson, J.M., Torgerson, P.R, Furrer. R. [2017] Comparison between Generalized Linear Modelling and Additive Bayesian Network; Identification of Factors Associated with the Incidence of Antibodies against Leptospira Interrogans sv Pomona in Meat Workers in New Zealand. Acta Trop . doi:10.1016/j.actatropica.2017.04.034 

Pittavino, M., Dreyfus, A., Heuer, C., Benschop, J., Wilson, P.R., Collins-Emerson, J.M., Torgerson, P.R., Furrer, R. [2017] Data on Leptospira Interrogans sv Pomona Infection in Meat Workers in New Zealand. Data in Brief . doi:10.1016/j.dib.2017.05.053

Pomeroy, L. W., Bansal, S., Tildesley, M., Moreno-Torres, K. I., Moritz, M., Xiao, N., Carpenter, T. E., Garabed, R. B. (2017) Data-Driven Models of Foot-and-Mouth Disease Dynamics: A Review. Transbound Emerg Dis 64, no. 3. doi: 10.1111/tbed.12437

Priest, P., Toombs-Ruane, L., Benschop, J., Burgess, S., French, N., Murdoch, D., [2017]. A One Health future to meet the AMR challenge? N Z Vet J 65, 60-61.doi:10.1080/00480169.2016.1270651

Purcell, R., Visnovska, M., Biggs, P.J, Schmeier, S., Frizelle, F. [2017] Consensus Molecular Classification of Colorectal Cancer and Association with the Colonic Microbiome. Diseases of the Colon & Rectum, v60-i60: e90-e91. 

Roberts, M.G. [2017] An Epidemic Model with Noisy Parameters. Math Biosci 287: 36-41. doi: 10.1016/j.mbs.2016.08.002 

Rulli, M.C., Santini, M., Hayman, D.T.S., D'Odorico, P. [2017] The Nexus between Forest Fragmentation in Africa and Ebola Virus Disease Outbreaks. Sci Rep 7:41613. doi:10.1038/srep41613 

Slow, S., Anderson, T., Miller, J., Singh, S., Murdoch, D., Biggs, P.J. [2017] Complete Genome Sequence of a Legionella Longbeachae Serogroup 1 Strain Isolated from a Patient with Legionnaires' Disease. Genome Announc 5, no. 24. doi: 10.1128/genomeA.00564-17 

Shewaramani, S., Finn, T.J., Leahy, S.C., Kassen, R., Rainey, P.B., Moon, C.D. [2017] Anaerobically Grown Escherichia coli Has an Enhanced Mutation Rate and Distinct Mutational Spectra. PLoS Genet 13(1): e1006570. doi:10.1371/journal.pgen.1006570

Toombs-Ruane, L.J., Benschop, J., Burgess, S., Priest, P., Murdoch, D.R., French, N.P., [2017]. Multidrug resistant Enterobacteriaceae in New Zealand: a current perspective. N Z Vet J 65, 62-70.doi:10.1080/00480169.2016.1269621

Vallee, E., Ridler, A.L., Heuer, C., Collins-Emerson, J.M., Benschop, J., Wilson, P.R. [2017] Effectiveness of a commercial leptospiral vaccine on urinary shedding in naturally exposed sheep in New Zealand. Vaccine 35, no. 9:1362-68. doi:10.1016/j.vaccine.2016.04.037

van Andel, M., Jewell, C., McKenzie, J., Hollings, T., Robinson, A., Burgman, M., Bingham, P., Carpenter, T. [2017] Predicting Farm-Level Animal Populations Using Environmental and Socioeconomic Variables. Preventive Veterinary Medicine 145 (2017): 121-32. doi:10.1016/j.prevetmed.2017.07.005

Vaughan, T.G., Welch, D., Drummond, A.J., Biggs, P.J., George, T., French, N.P., [2017]. Inferring Ancestral Recombination Graphs from Bacterial Genomic Data. Genetics 205, 857-870.

Wada, M., Stevenson, M., Cogger, N., Carpenter, T. (2017) Evaluation of the control strategy for the 2010 foot-and-mouth disease outbreak in Japan using disease simulation, Transboundary and Emerging Diseases,64, no.3:978-89. doi:10.1111/tbed.12467

Webb, C.T., Ferrari, M., Lindstrom, T., Carpenter, T., Durr, S., Garner, G., Jewell, C., Stevenson, M., Ward, M.P., Werkman, M., Backer, J.,Tildesley, M. [2017] Ensemble Modelling and Structured Decision-Making to Support Emergency Disease Management. Prev Vet Med 138 (Mar 01 2017): 124-33. doi:10.1016/j.prevetmed.2017.01.003

White, J.D., Cave, N.J., Grinberg, A., Thomas, D.G., Heuer, C. [2017], Subclinical Bacteriuria in Older Cats and its Association with Survival. J Vet Intern Med, 30: 1824-1829. doi:10.1111/jvim.14598 

Wilkinson, D.A., Hayman, D.T.S. [2017] Bat and virus ecology in a dynamic world. Microbiology Australia v38(1):33-35.  

Williamson, D.A., Baines, S.L., Carter, G.,Gonçalves da Silva, A.,Ren, X., Sherwood, J., Dufour, M., Schultz, M.B., French, N.P.,Seemann, T., Stinear, Timothy P.,Howden, B.P.[2017] Genomic Insights into a Sustained National Outbreak of Yersinia pseudotuberculosis. Genome Biol Evol (2016) 8 (12): 3806-3814. doi:10.1093/gbe/evw285

 

2016

Azarpeykan, S., Dittmer, K.E., Gee, E.K., Marshall, J.C., Elder, P., Acke, E., Thompson, K.G. [2016] Circadian rhythm of calciotropic hormones, serum calcium, phosphorus and magnesium during the shortest and longest days of the year in horses in New Zealand. Journal of Animal Physiology and Animal Nutrition. doi:10.1111/jpn.12477

Azarpeykan, S., Dittmer, K.E., Gee, E.K., Marshall, J.C., Wallace, J., Elder, P., Acke, E., Thompson, K.G. [2016] Influence of blanketing and season on vitamin D and parathyroid hormone, calcium, phosphorus, and magnesium concentrations in horses in New Zealand. Domestic Animal Endocrinology 56:75–84. doi:10.1016/j.domaniend.2016.03.003

Barrett, L. A., Beausoleil, N. J., Benschop, J., Stafford, K. J. [2016] Pain-related behavior was not observed in dairy cattle in the days after liver biopsy, regardless of whether NSAIDs were administered.Research in Veterinary Science  104:195-199. doi:10.1016/j.rvsc.2015.12.020

Betz-Stablein, B., Hazelton, M. L., Morgan, W. H. [2016] Modelling retinal pulsatile blood flow from video data. Statistical Methods in Medical Research. doi:10.1177/0962280216665504

Bogers, S.H.,Rogers, C.W.,Bolwell, C.,Roe, W.,Gee, E.,McIlwraith, C.W.(2016) Quantitative comparison of bone mineral density characteristics of the distal epiphysis of third metacarpal bones from Thoroughbred racehorses with or without condylar fracture. American Journal of Veterinary Research  77(1):32-38. doi:10.2460/ajvr.77.1.32 

Bojanic, K., Midwinter, A. C., Marshall, J. C., Rogers, L. E., Biggs, P. J., Acke, E. [2016] Variation in the limit-of-detection of the ProSpecT Campylobacter microplate enzyme immunoassay in stools spiked with emerging Campylobacter species. Journal of Microbiological Methods. v127,p236-241. doi:10.1016/j.mimet.2016.06.016 

Bojanić, K., Midwinter, A. C., Marshall, J. C., Rogers, L. E., Biggs, P. J., Acke, E. [2016] Isolation of Campylobacter spp. from Client-Owned Dogs and Cats, and Retail Raw Meat Pet Food in the Manawatu, New Zealand. Zoonoses Public Health. doi:10.1111/zph.12323

Bolwell C.F., Rogers C.W., Gee E.K., Rosanowski S.M. (2016) Descriptive statistics and the pattern of horse racing in New Zealand. 1. Thoroughbred racing. Animal Production Science 56, 77–81. doi:10.1071/AN13442

Brooks, C., van Dalen, C., Zacharasiewicz, A., Simpson, J., Harper, J., Le Gros, G., Gibson, P., Pearce, N., Douwes, J. [2016]Absence of airway inflammation in a large proportion of adolescents with asthma. Respirology, 2016; 21(3): 460-466. doi:10.1111/resp.12701

Cottinet, D., Condamine, F., Bremond, N., Griffiths, A.D., Rainey, P.B., de Visser, J.A., Baudry, J., Bibette, J. [2016] Lineage Tracking for Probing Heritable Phenotypes at Single-Cell Resolution. PLoS One 11(4): e0152395. doi:10.1371/journal.pone.0152395 

Davies, T.M., Jones, K., Hazelton, M.L. [2016] Symmetric adaptive smoothing regimens for estimation of the spatial relative risk function. Computational Statistics & Data Analysis v101 p12-28. doi:10.1016/j.csda.2016.02.008 

Friedrich, A., Marshall, J.C., Biggs, P.J., Midwinter, A.C., French, N.P. [2016]. Seasonality of Campylobacter jejuni isolates associated with human campylobacteriosis in the Manawatu region, New Zealand. Epidemiology and Infection 144, 820-828.doi: 10.1017/S0950268815002009

Froud, K.J., Cogger, N., Beresford, R.M. [2016]. Kiwifruit bacterial canker in 'Hayward' kiwifruit: Design of a quantitative questionnaire for kiwifruit growers. New Zealand Plant Protection. 69, 30-38

Garcia, J., Hayman, D.[2016]. Origin of a major infectious disease in vertebrates: The timing of Cryptosporidium evolution and its hosts. Parisitology. doi:10.1017/S0031182016001323

Grange, Z.L., Gartrell, B.D., Biggs, P.J., Nelson, N.J., Anderson, M., French, N.P. [2016]. Microbial genomics of a host-associated commensal bacterium in fragmented populations of endangered takahe. Microbial Ecology 71, 1020-1029. doi: 10.1007/s00248-015-0721-5

Han, B.A., Schmidt, J.P., Alexander, L.W., Bowden, S.E., Hayman, D.T.S, Drake, J.M. [2016] Undiscovered Bat Hosts of Filoviruses. PLoS Negl Trop Dis 10(7): e0004815. doi:10.1371/journal.pntd.0004815 

Hayman, D.T.S. (2016) Conservation as vaccination: Integrated approaches to public health and environmental protection could prevent future disease outbreaks. EMBO reports(2016). doi:10.15252/embr.201541675

Hayman, D.T.S. (2016) Bats as Viral Reservoirs. Annual Review of Virology. Vol. 3. doi:10.1146/annurev-virology-110615-042203

Hayman, D.T.S. [2016] As the Bat Flies. Science 354, no. 6316:1099-100. doi:10.1126/science.aaj1818

Hayman, D.T.S, Fooks, A.R., Marston, D.A., Garcia, J.C. [2016] The Global Phylogeography of Lyssaviruses - Challenging the 'out of Africa' Hypothesis. PLoS Negl Trop Dis 10, no. 12:e0005266.doi:10.1371/journal.pntd.0005266

Hayman, D.T.S., Peel, A.J. (2016) Can survival analyses detect hunting pressure in a highly connected species? Lessons from straw-coloured fruit bats. Biological Conservation v200:131-139. doi:10.1016/j.biocon.2016.06.003

Hayman, D.T.S., Pulliam, J.R.C., Marshall, J.C., Cryan, P.M., Webb, C.T. (2016) Environment, host, and fungal traits predict continental-scale white-nose syndrome in bats. Science Advances v2-1. doi:10.1126/sciadv.1500831

Hazelton, M.L., Cox, M.P. [2016] Bandwidth selection for kernel log-density estimation. Computational Statistics & Data Analysis v103 p56-57. doi:10.1016/j.csda.2016.05.003

Hidano, A., Carpenter, T.E., Stevenson, M.A., Gates, M.C. [2016] Evaluating the efficacy of regionalisation in limiting high-risk livestock trade movements. Preventive Veterinary Medicine 133(1):31–41 doi:10.1016/j.prevetmed.2016.09.015

Hidano, A., Dukpa, K., Rinzin, K., Sharma, B., Dahal, N., Stevenson, M.A. [2016] A cross-sectional survey of population demographics, the prevalence of major disease conditions and reason-specific proportional mortality of domestic cattle in the Kingdom of Bhutan. Preventive Veterinary Medicine 130(1):1-9 doi:10.1016/j.prevetmed.2016.05.012 

Hill, A.E., Gardner, I.A., Carpenter, T.E., Lee, C.M., Hitchens, P.L. and Stover, S.M. (2016) Prevalence, location and symmetry of noncatastrophic ligamentous suspensory apparatus lesions in California Thoroughbred racehorses, and association of these lesions with catastrophic injuries. Equine Veterinary Journal, 48: 27–32. doi:10.1111/evj.12367

Hurley, M.J., Riggs, C.M., Cogger, N., Rosanowski, S.M. [2016] The incidence and risk factors for shipping fever in horses transported by air to Hong Kong: Results from a 2-year prospective study. The Veterinary Journal 214:34–39. doi:10.1016/j.tvjl.2016.01.006

Irshad, H., Cookson, A.L., Ross, C.M., Jaros, P., Prattley, D.J., Donnison, A., Mc, B.G., Marshall, J., French, N.P. [2016] Diversity and relatedness of Shiga toxin-producing Escherichia coli and Campylobacter jejuni between farms in a dairy catchment. Epidemiology and Infection 144, 1406-1417. doi: 10.1017/S0950268815002782

Jaros, P., Cookson, A.L., Reynolds, A., Prattley, D.J., Campbell, D.M., Hathaway, S., French, N.P. (2016) 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. Epidemiology and Infection 144, 1736-1747. doi:10.1017/S0950268815003209

Karkaba, A., Benschop, J., Hill, K. E., Grinberg, A. [2016]  Characterisation of methicillin-resistant Staphylococcus aureus clinical isolates from animals in New Zealand, 2012–2013, and subclinical colonisation in dogs and cats in Auckland. New Zealand Veterinary Journal 1-6 10 Aug 2016. doi: 10.1080/00480169.2016.1222919

Karkaba, A., Grinberg, A., Benschop, J., Pleydell, E. (2016). Characterisation of extended spectrum β-lactamase and AmpC β-lactamase-producing Enterobacteriaceae isolated from companion animals in New Zealand. New Zealand Veterinary Journal 65:2, 105-112, doi:10.1080/00480169.2016.1271730

Keer, S., Glass, B., Prezant, B., McLean, D., Pearce, N., Harding, E., Echeverria, D., McGlothlin, J., Babbage, D.R., Douwes, J. [2016] Solvent Neurotoxicity in Vehicle Collision Repair Workers in New Zealand. Neurotoxicology 57 (Dec 2016): 223-29. doi:10.1016/j.neuro.2016.10.005 

Lal, A., Dobbins, T., Bagheri, N., Baker, M.G., French, N.P., Hales, S., 2016. Cryptosporidiosis Risk in New Zealand Children Under 5 Years Old is Greatest in Areas with High Dairy Cattle Densities. EcoHealth.

Lam, J., Chan, G., Morgan, W.H., Hazelton, M.L., Betz-Stablein, B., Cringle, S. J., Yu, D. Y. [2016] Structural characteristics of the optic nerve head influencing human retinal venous pulsations. Experimental Eye Research v145 p341–346. doi:10.1016/j.exer.2016.02.003

Marquetoux, N., Heuer, C., Wilson, P., Ridler, A., Stevenson, M. [2016] Merging DNA typing and network analysis to assess the transmission of paratuberculosis between farms.Preventive Veterinary Medicine. 134:113-221. doi:10.1016/j.prevetmed.2016.09.014

Marshall, J.C., Soboleva, T.K., Jamieson, P., French, N.P. [2016] Estimating Bacterial Pathogen Levels in New Zealand Bulk Tank Milk. Journal of Food Protection 79, 771-780. doi:10.4315/0362-028X.JFP-15-230

McCulloch, K., Roberts, M.G., Laing, C.R., [2016] Exact analytical expressions for the final epidemic size of an SIR model on small networks. ANZIAM Journal 57, 429-444, doi:10.1017/S1446181116000043

McKee, C.D., Hayman, D.T.S., Kosoy, M.Y., Webb, C.T. [2016] Phylogenetic and geographic patterns of bartonella host shifts among bat species. Infection, Genetics and Evolution 44:382–394. doi:10.1016/j.meegid.2016.07.033

Morgan-Richards, M., Hills, S.F.K, Biggs, P.J., Trewick, S.A. [2016] Sticky Genomes: Using NGS Evidence to Test Hybrid Speciation Hypotheses. PLoS ONE 11(5): e0154911. doi:10.1371/journal.pone.0154911

Morgan, W.H., Hazelton, M.L., Yu, D.Y. [2016] Retinal venous pulsation: Expanding our understanding and use of this enigmatic phenomenon. Progress in Retinal and Eye Research (July). doi:10.1016/j.preteyeres.2016.06.003

Morgan, W.H., House, P.H., Hazelton, M.L., Betz-Stablein, B.D., Chauhan, B.C., Viswanathan, A., Yu, D.Y. [2016] Intraocular Pressure Reduction Is Associated with Reduced Venous Pulsation Pressure. PLoS One. 2016 Jan 29;11(1). doi: 10.1371/journal.pone.0147915

Muellner, P., Muellner, U., Gates, M.C., Pearce, T., Ahlstrom, C., O’Neill, D., Brodbelt, D. and Cave, N.J., [2016] Evidence in Practice–A Pilot study leveraging companion animal and equine health Data from Primary care Veterinary clinics in new Zealand. Front Vet Sci, 3. doi:10.3389/fvets.2016.00116

Nohra, A., Grinberg, A., Midwinter, A. C., Marshall, J. C., Collins-Emerson, J. M., French, N. P. [2016] Molecular Epidemiology of Campylobacter coli Strains Isolated from Different Sources in New Zealand between 2005 and 2014. Applied and Environmental Microbiology 82(14):4363-4370 01  doi:10.1128/AEM.00934-16

O'Shea, T.J., Cryan, P.M., Hayman, D.T.S., Plowright, R.K., Streicker, D.G. (2016) Multiple mortality events in bats: a global review. Mammal Review. doi:10.1111/mam.12064

Parry, K., Watling, D.P., Hazelton, M.L. [2016] A new class of doubly stochastic day-to-day dynamic traffic assignment models. EURO Journal on Transportation and Logistics  v5:p5-23. doi:10.1007/s13676-013-0037-x

Peel, A. J., Baker, K. S., Hayman, D. T. S., Suu-Ire, R., Breed, A. C., Gembu, G., Lembo, T., Fernández-Loras, A., Sargan, D. R.,Fooks, A. R., Cunningham, A.A., Wood, J. L. N. (2016). Bat trait, genetic and pathogen data from large-scale investigations of African fruit bats, Eidolon helvum. Scientific Data. doi:10.17863/CAM.325

Peel, A. J., Field, H. E., Reid, P. A., Plowright, R. K., Broder, C. C., Skerratt, L. F., Hayman, D. T. S., Restif, O., Taylor, M., Martin, G., Crameri, G., Smith, I., Baker, M., Marsh, G. A., Barr, J., Breed, A. C., Wood, J. L., Dhand, N., Toribio, J. A., Cunningham, A. A., Fulton, I., Bryden, W. L., Secombe, C., Wang, L. F.(2016) The equine Hendra virus vaccine remains a highly effective preventative measure against infection in horses and humans: 'The imperative to develop a human vaccine for the Hendra virus in Australia'. Infection Ecology and Epidemiology 2016, 6: 31658 - doi:10.3402/iee.v6.31658

Pirikahu, S., Jones, G., Hazelton, M.L., and Heuer, C. (2016) Bayesian methods of confidence interval construction for the population attributable risk from cross-sectional studies. Statist. Med., doi:10.1002/sim.6870

Probert, W.J., Shea, K., Fonnesbeck, C.J., Runge, M.C., Carpenter, T.E., Durr, S., Garner, M.G., Harvey, N., Stevenson, M.A., Webb, C.T., Werkman, M., Tildesley, M.J., Ferrari, M.J. [2016] Decision-making for foot-and-mouth disease control: Objectives matter. Epidemics 15:10–19. doi:10.1016/j.epidem.2015.11.002

Ritchie, S.R., Isdale, E., Priest, P., Rainey, P.B., Thomas, M.G. (2016) The turnover of strains in intermittent and persistent nasal carriers of Staphylococcus aureus. Journal of Infection 72(3) : 295-301 doi:10.1016/j.jinf.2015.12.010 

Roberts, M.G. [2016] An epidemic model with noisy parameters. Mathematical Biosciences, published online, doi:10.1016/j.mbs.2016.08.002

Rouco, C., Richardson, K.S., Buddle, B.M., French, N.P., Tompkins, D.M. [2016] Sex difference in the survival rate of wild brushtail possums (Trichosurus vulpecula) experimentally challenged with bovine tuberculosis. Research in Veterinary Science v107:p102-105. doi:10.1016/j.rvsc.2016.05.008

Sanhueza, J.M., Heuer, C., Wilson, P. R., Benschop, J., Collins-Emerson, J.M. [2016] Seroprevalence and Risk Factors for Leptospira Seropositivity in Beef Cattle, Sheep and Deer Farmers in New Zealand. Zoonoses Public Health . doi:10.1111/zph.12317

Tanner, J., Rogers, C., Bolwell, C., Cogger, N., Gee, E., McLlwraith, W. [2016] Analysis of Failure to Finish a Race in a Cohort of Thoroughbred Racehorses in New Zealand. Animals (Basel) 6(6). doi:10.3390/ani6060036

Van Andel, M., McInnes, K., Tana, T. & French, N.P. (2016) Network analysis of wildlife translocations in New Zealand, New Zealand Veterinary Journal 64, 169-173, doi:10.1080/00480169.2015.1110065  

VanWormer, E., Carpenter, T.E., Singh, P., Shapiro, K., Wallender, W.W., Conrad, P.A., Largier, J.L., Maneta, M.P., Mazet, J.A. [2016] Coastal development and precipitation drive pathogen flow from land to sea: evidence from a Toxoplasma gondii and felid host system. Scientific Reports 6:29252 doi:10.1038/srep29252

Vaughan, T.G.,Welch, D.,Drummond, A.J.,Biggs, P.J.,George, T., French, N.P. [2016] Bayesian inference of ancestral recombination graphs for bacterial populations. bioRxiv, 059105. doi:10.1101/059105(submitted) 

Widder, S., Allen, R.J., Pfeiffer, T.,Curtis, T.P., Wiuf, C., Sloan, W.T., Cordero, O.X., Brown, S.P., Momeni, B., Shou, W., Kettle, H., Flint, H.J., Haas, A.F., Laroche, B., Kreft, J.U., Rainey, P.B., Freilich, S., Schuster, S., Milferstedt, K., van der Meer, J.R., Groszkopf, T., Huisman, J., Free, A., Picioreanu, C., Quince, C., Klapper, I., Labarthe, S., Smets, B.F., Wang, H., Isaac Newton Institute, Fellows, Soyer, O.S. [2016] Challenges in microbial ecology: building predictive understanding of community function and dynamics. ISME Journal . doi:10.1038/ismej.2016.45

Williamson, D.A., Baines, S.L., Carter, G.P., da Silva, A.G., Ren, X., Sherwood, J., Dufour, M., Schultz, M.B., French, N.P., Seemann, T., Stinear, T.P., Howden, B.P., 2016. Genomic Insights into a Sustained National Outbreak of Yersinia pseudotuberculosis. Genome Biol. Evol. 8, 3806-3814.

Williamson, D., Baker, M., French, N.P., Thomas, M. [2016] Missing in action: an antimicrobial resistance strategy for New Zealand. New Zealand Medical Journal 128(128):65-67.  

 

2015

Acke, E.,Midwinter, A.C., Lawrence, K., Gordon, S.J.G., Moore, S., Rasiah, I., Steward, K., French, N., & Waller, A. (2015) Prevalence of Streptococcus dysgalactiae subsp. equisimilis and S. equi subsp. zooepidemicus in a sample of healthy dogs, cats and horses., New Zealand Veterinary Journal, doi: 10.1080/00480169.2015.1016133

Al Mawly, J., Grinberg, A., Prattley, D., Moffat, J., Marshall, J., & French, N. (2015) Risk factors for neonatal calf diarrhoea and enteropathogen shedding in New Zealand dairy farms. The Veterinary Journal. doi: 10.1016/j.tvjl.2015.01.010

Al Mawly, J., Grinberg, A., Prattley, D., Moffat, J., and French, N. (2015) Prevalence of endemic enteropathogens of calves in New Zealand dairy farms. New Zealand Veterinary Journal, 1-18. doi: 10.1080/00480169.2014.966168 

Al Mawly, J., Grinberg, A., Velathanthiri, N., & French, N. (2015). Cross sectional study of prevalence, genetic diversity and zoonotic potential of Cryptosporidium parvum cycling in New Zealand dairy farms. Parasites & Vectors, 8, 240. doi:10.1186/s13071-015-0855-9

Bai, Y., Hayman, D. T., McKee, C. D., Kosoy, M. Y., & Walker, D. H. (2015) Classification of Bartonella Strains Associated with Straw-Colored Fruit Bats (Eidolon helvum) across Africa Using a Multi-locus Sequence Typing Platform. PLOS Neglected Tropical Diseases, 9(1). 

Bolwell C. F.,  Gilpin B. J.,  Campbell D.,  French, N. P. (2015) Evaluation of the representativeness of a sentinel surveillance site for campylobacteriosis. Epidemiology and Infection / Volume 143 / Issue 09. doi: 10.1017/S0950268814003173  

Bolwell C. F., Rogers C. W., Gee E. K., Rosanowski S. M. (2015) Descriptive statistics and the pattern of horse racing in New Zealand. 2. Harness racing. Animal Production Science 56, 82–86.doi:10.1071/AN13443

Bolwell, C. F.,Rogers, C. W.,Rosanowski, S. M., Weston, J. F., Gee, E. K., Gordon, S. J. G. (2015) Cross-sectional survey of the management and training practices of endurance horses in New Zealand: a pilot study. Journal of Equine Veterinary Science. doi: 10.1016/j.jevs.2015.07.019

Bolwell, C. F., Rosanowski, S. M., Scott, I., Sells, P. D., Rogers, C. W. (2015) Questionnaire study on parasite control practices on Thoroughbred and Standardbred breeding farms in New Zealand.Veterinary parasitology. doi : 10.1016/j.vetpar.2015.02.011

Brownlie T.S,, Morton J.M,, Heuer C,, McDougall S. (2015) A  randomised controlled study to assess the effects of an extension programme on the 6 week in-calf rate of seasonal calving, pasture-based dairy herds in New Zealand. The Veterinary Journal 203(2):169-176 doi: 10.1016/j.tvjl.2014.11.014

Brownlie T,S,, Morton J.M., Heuer C,, McDougall S. (2015) Effects of a group-based reproductive management extension programme on key management outcomes affecting reproductive performance. The Veterinary Journal 203(2):177-186 doi:10.1016/j.tvjl.2014.11.016 

Burgess, S.A., Cox, M.P., Flint, S.H., Lindsay, D., Biggs, P.J. [2015] Draft genome sequences of three strains of Geobacillus stearothermophilus isolated from a milk powder manufacturing plant. Genome Announc 3(5):e00939-15. doi:10.1128/genomeA.00939-15

Buhnerkempe, M., Roberts, M.G., Dobson, A.P., Heesterbeek, J.A.P., Hudson, P., Lloyd-Smith, J., (2015)  Eight challenges in modelling disease ecology in multi-host, multi-agent systems. Epidemics 10, 26-30. . doi: 10.1016/j.epidem.2014.10.001  

Dreyfus, A, Wilson, P, Collins-Emerson, J, Benschop, J, Moore, S, & Heuer, C. (2015)  Risk factors for new infection with Leptospira in meat workers in New Zealand. Occupational and Environmental Medicine. doi: 10.1136/oemed-2014-102457

Fang, F., Collins-Emerson, J.M., Cullum, A., Heuer, C., Wilson, P.R., & Benschop. J. (2015)  Shedding and seroprevalence of pathogenic Leptospira spp. in sheep and cattle at a New Zealand abattoir. Zoonoses and Public Health. doi: 10.1111/zph.12146

Fearnhead, P., Yu, S., Biggs, P., Holland, B., & French, N. (2015) Estimating the relative rate of recombination to mutation in bacteria from single-locus variants using composite likelihood methods. Annals of Applied Statistics arXiv preprint arXiv:1411.1200.

Firestone R., Cheng S., Pearce N., Douwes J., Merletti F., Pizzi C., Pivetta E., Rusconi F., Richiardi L. (2015) Internet-Based Birth-Cohort Studies: Is This the Future for Epidemiology? JMIR Res Protoc 2015;4(2):e71 doi: 10.2196/resprot.3873 

Froud, K.J., Everett, K.R., Tyson, J.L., Beresford, R.M., Cogger, N. [2015]. Review of the risk factors associated with kiwifruit bacterial canker caused by Pseudomonas syringae pv. Actinidiae. New Zealand Plant Protection. 68, 313-327

Gallie, J. ,Libby, E., Bertels, F., Remigi, P., Jendresen, C.B., Ferguson, G. C., Desprat, N., Buffing, M. F., Sauer, U., Beaumont, H. J. E., Martinussen, J., Kilstrup, M., Rainey, P.B.  (2015)  Bistability in a Metabolic Network Underpins the De Novo Evolution of Colony Switching in Pseudomonas fluorescens. PLoS Biol 13(3): e1002109. doi: 10.1371/journal.pbio.1002109 

Gates, M. C., Holmstrom, L. K., Biggers, K. E., & Beckham, T. R. (2015) Integrating novel data streams to support biosurveillance in commercial livestock production systems in developed countries: challenges and opportunities. Frontiers in Public Health, 3, 74. doi: 10.3389/fpubh.2015.00074

Gordon S. J. G., Bolwell C., Rogers C., Musuka G., Kelly P.,  Labuschagne K.,Guthrie A. J.,Denison E., Mellor P. S.,Hamblin C. (2015) The occurrence of Culicoides species, the vectors of arboviruses, at selected trap sites in Zimbabwe. Onderstepoort J Vet Res; Vol 82, No 1. doi: 10.4102/ojvr.v82i1.900 

Grange, Z., Gartrell, B. D., Biggs, P. J.,Nelson, N. J., Marshall,  J. C.Howe, L., Balm, M. G., French, N. P. (2015) Using a common commensal bacterium in endangered Takahe as a model to explore pathogen dynamics in isolated wildlife populations. Conserv Biol. doi : 10.1111/cobi.12521

Gregory S. J.,  Anderson C. W. N., Camps-Arbestain M., Biggs P. J., Ganley A. R. D., O'Sullivan J. M., McManus M. T. (2015) Biochar in Co-Contaminated Soil Manipulates Arsenic Solubility and Microbiological Community Structure, and Promotes Organochlorine Degradation. PLoS ONE 10(4): e0125393. doi: 10.1371/journal.pone.0125393 

Guillot E. G., Hazelton M. L., Karafet T. M., Lansing  J. S., Sudoyo  H., Cox M. P. (2015) Relaxed Observance of Traditional Marriage Rules Allows Social Connectivity without Loss of Genetic Diversity. Mol Biol Evol-32:9 2254-62 doi: 10.1093/molbev/msv102

Hayman D. T. S. (2015) Biannual birth pulses allow filoviruses to persist in bat populations. Proc. R. Soc. B 282: 20142591. doi: 10.1098/rspb.2014.2591

Hazelton M. L. (2015) Network Tomography for Integer-Valued Traffic. arXiv:1501.02514 Ann. Appl. Stat. 9 (2015), no. 1, 474--506. doi:10.1214/15-AOAS805.

Hazelton M. L., Parry  K. (2015) Statistical methods for comparison of day-to-day traffic models, Transportation Research Part B: Methodological, ISSN 0191-2615, doi: 10.1016/j.trb.2015.08.005

Heesterbeek, J.A.P., Anderson, R.M., Andreasen, V., Bansal, S., de Angelis, D., Dye, C., Eames, K.T.D., Edmunds, J., Frost, S.D.W., Funk, S., Hollingsworth, T.D., House, T., Isham, V.S., Klepac, P., Lessler, J., Lloyd-Smith, J.O., Metcalf, C.J.E., Mollison, D., Pellis, L., Pulliam, J.R.C., Roberts, M.G., Viboud, C., Isaac Newton Institute IDD Collaboration (2015) Modelling infectious disease dynamics in the complex landscape of global health. Science 347 (6227), aaa4339 [DOI:10.1126/science.aaa4339], aaa4339. 

Heesterbeek, J.A.P., Roberts, M.G. (2015) How mathematical epidemiology became a field of biology: a commentary on Anderson and May (1981) 'The population dynamics of microparasites and their invertebrate hosts'. Philosophical Transactions of the Royal Society of London B 370, 20140307.  doi: 10.1098/rstb.2014.0307

Heuer, C., Yupiana, Y., Wilson, P., Benschop, J., Collins-Emerson, J., Vallée, E., Weston, J. (2015) Are vaccinated dairy cows shedding leptospires? VetScript XXXVIII 7-34.

Hill, K. E., Chambers, J. P., Jones, B. R., Bolwell, C. F., Aberdein, D,. Mills, P. C. (2015) Regional variations in percutaneous absorption of methimazole: an in vitro study on cat skin. doi: 10.1111/jvp.12220 

Hill, K. E., Chambers, J. P., Jones, B. R., Bolwell, C. F., Aberdein, D,. Mills, P. C. (2015) Trans-pinnal movement of methimazole: an in vitro study showing that methimazole can cross from the inner to outer pinna of cats. Journal of feline medicine and surgery. doi: 10.1177/1098612X14567548 

Hill, K. E., Mills, P. C, Jones, B. R, Bolwell, C. F., Aberdein, D. Chambers, J. P. (2015) Percutaneous absorption of methimazole: an in vitro study of the absorption pharmacokinetics for two different vehicles. Journal of veterinary pharmacology and therapeutics. doi: 10.1111/jvp.12213 

Howe L. D., Ellison-Loschmann L., Pearce N., Douwes J., Jeffreys M., Firestone R. (2015) Ethnic differences in risk factors for obesity in New Zealand infants. Journal of Epidemiology and Community Health. doi: 10.1136/jech-2014-204464 

Jaros, P. Dufour, M. Gilpin, B. Freeman, M. M. Ribot, E. M. (2015) PFGE for Shiga toxin-producing Escherichia coli O157:H7 (STEC O157) and non-O157 STEC. Pulse Field Gel Electrophoresis: Methods and Protocols, Methods in Molecular Biology, vol. 1301, doi:10.1007/978-1-4939-2599-5_15. 

Lal, A, Lill, A, Mcintyre, M, Baker, M, Hales, S, and French, N. (2015) Environmental change and enteric zoonoses in New Zealand: A systematic review of the evidence. Australian and New Zealand Journal of Public Health. .doi:  10.1111/1753-6405.12274

Lal, A., Hales, S., Kirk, M., Baker, M. G. and French, N. P. (2015) Spatial and temporal variation in the association between temperature and salmonellosis in NZ. Australian and New Zealand Journal of Public Health. doi: 10.1111/1753-6405.12413

Lind P. A., Farr A. D., Rainey P. B. (2015) Experimental evolution reveals hidden diversity in evolutionary pathways. eLife 4, e07074. doi: 10.7554/eLife.07074 

Liu, Y., Rainey, P. B. and Zhang, X.-X. (2015) Molecular mechanisms of xylose utilization by Pseudomonas fluorescens: overlapping genetic responses to xylose, xylulose, ribose and mannitol. Molecular Microbiology. doi: 10.1111/mmi.13142

Lubaba, C. H., Hidano, A., Welburn, S. C., Revie, C. W., Eisler, M. C. (2015) Movement Behaviour of Traditionally Managed Cattle in the Eastern Province of Zambia Captured Using Two-Dimensional Motion Sensors  PLoS One 10(9): e0138125 doi: 10.1371/journal.pone.0138125

Lucas-Roxburgh, R., Benschop, J., Dunowska, M., Perrott, M. (2015) Prevalence of Human Papilloma Viruses in the mouths of New Zealand women. Accepted New Zealand Medical Journal

Luis, A. D., O'Shea, T. J., Hayman, D. T. S., Wood, J. L. N., Cunningham, A. A., Gilbert, A. T., Mills, J. N., Webb, C. T. (2015),  Network analysis of host-virus communities in bats and rodents reveals determinants of cross-species transmission. Ecology Letters. doi: 10.1111/ele.12491

Mardones, F.O., Valdes-Donoso, P., Pérez, A.M., and Carpenter, T.E. (2015) Lecciones aprendidas a través de la epidemiología veterinaria: El virus ISA, siete años después, Salmon Expert, April 2015, pp. 48-52.

Mather, A. E., Vaughan, T. G., French, N. P. [2015] Molecular Approaches to Understanding Transmission and Source Attribution in Nontyphoidal Salmonella and Their Application in Africa. Clin Infect Dis.(2015)61(suppl 4): S259-S265. doi:10.1093/cid/civ727

Morgan W. H., Abdul-Rahman A., Yu D., Hazelton M. L., Betz-Stablein B., Lind C. R. P. (2015) Objective Detection of Retinal Vessel Pulsation. PLoS ONE 10(2): e0116475. doi:10.1371/journal.pone.0116475 

Pearce N, Blair A, Vineis P, Ahrens W, Andersen A, Anto JM, Armstrong BK, Baccarelli AA, Beland FA, Berrington A, Bertazzi PA, Birnbaum LS, Brownson RC, Bucher JR, Cantor KP, Cardis E, Cherrie JW, Christiani DC, Cocco P, Coggon D, Comba P, Demers PA, Dement JM, Douwes J, Eisen EA, Engel LS, Fenske RA, Fleming LE, Fletcher T, Fontham E, Forastiere F, Frentzel-Beyme R, Fritschi L, Gerin M, Goldberg M, Grandjean P, Grimsrud TK, Gustavsson P, Haines A, Hartge P, Hansen J, Hauptmann M, Heederik D, Hemminki K, Hemon D, Hertz-Picciotto I, Hoppin JA, Huff J, Jarvholm B, Kang D, Karagas MR, Kjaerheim K, Kjuus H, Kogevinas M, Kriebel D, Kristensen P, Kromhout H, Laden F, Lebailly P, LeMasters G, Lubin JH, Lynch CF, Lynge E, ‘t Mannetje A, McMichael AJ, McLaughlin JR, Marrett L, Martuzzi M, Merchant JA, Merler E, Merletti F, Miller A, Mirer FE, Monson R, Nordby KC, Olshan AF, Parent ME, Perera FP, Perry MJ, Pesatori AC, Pirastu R, Porta M, Pukkala E, Rice C, Richardson DB, Ritter L, Ritz B, Ronckers CM, Rushton L, Rusiecki JA, Rusyn I, Samet JM, Sandler DP, de Sanjose S, Schernhammer E, Seniori Costantini A, Seixas N, Shy C, Siemiatycki J, Silverman DT, Simonato L, Smith AH, Smith MT, Spinelli JJ, Spitz MR, Stallones L, Stayner LT, Steenland K, Stenzel M, Stewart BW, Stewart PA, Symanski E, Terracini B, Tolbert PE, Vainio H, Vena J, Vermeulen R, Victora CG, Ward EM, Weinberg CR, Weisenburger D, Wesseling C, Weiderpass E, Zahm SH. (2015) IARC Monographs: 40 years of evaluating carcinogenic hazards to humans. Environ Health Perspect 123:507-514; doi: 10.1289/ehp.1409149 

Pepin K.M., Leach C. B., Marques-ToledoC., LaassK. H., Paixao K. S., LuisA. D., Hayman D. T. S., Johnson N. G., Buhnerkempe M. G., Carver S., Grear D. A., Tsao K., Eiras A. E. and Webb C. T. (2015) Utility of mosquito surveillance data for spatial prioritization of vector control against dengue viruses in three Brazilian cities. Pepin et al. Parasites & Vectors (2015) 8:98 doi: 10.1186/s13071-015-0659-y

Pichugin, Y., Gokhale, C. S., Garcia, J., Traulsen, A. , Rainey, P. B. [2015] Modes of migration and multilevel selection in evolutionary multiplayer games. J Theor Biol v387, p144-153 . doi:10.1016/j.jtbi.2015.09.027 

Rainey, P. B. (2015) Precarious development: The uncertain social life of cellular slime molds. PNAS 2015 112 (9), 2639-2640. doi:10.1073/pnas.1500708112

Ridler, A. L. Vallee, E. Corner, R. A. Kenyon, P. R. Heuer, C. (2015) Factors associated with fetal losses in ewe lambs on a New Zealand sheep farm. doi: 10.1080/00480169.2015.1037813 

Roberts, M., Andreasen, V., Lloyd, A., & Pellis, L. (2015) Nine challenges for deterministic epidemic models. Epidemics. doi: 10.1016/j.epidem.2014.09.006

Rosanowski, S.M.,Rogers, C.W.,Bolwell, C.F., Cogger, N. [2015] The movement pattern of horses around race meetings in New Zealand. Animal Production Science 55(8) 1075-1080 doi:10.1071/AN13345

Rosanowski, S.M., Scott, I., Sells, P.D., Rogers, C.W. and Bolwell, C.F. (2015), Cross-sectional survey of parasite control practices on Thoroughbred and Standardbred training yards in New Zealand. Equine Veterinary Journal. doi: 10.1111/evj.12558   doi:10.1111/evj.12558

Sanhueza J.M., Heuer C., Wilson P.R., Benschop J., Collins-Emerson J.M. (2015)  Prevalence and risk factors for Leptospira exposure in New Zealand veterinarians.. Epidemiology and infection doi: 10.1017/S0950268815000515

Shao, H.,Lam, W.H.K., Sumalee, A. and Hazelton, M.L. [2015] Estimation of mean and covariance of stochastic multi-class OD demands from classified traffic counts. Transportation Research Part C: Emerging Technologies 59:92-110 doi:10.1016/j.trc.2015.05.017

Spencer, S. E., Besser, T. E., Cobbold, R. N., French, N. P. (2015) 'Super' or just 'above average'? Supershedders and the transmission of Escherichia coli O157:H7 among feedlot cattle.J R Soc Interfac: 12-110. doi:10.1098/rsif.2015.0446

Strachan, N. J., Rotariu, O., Lopes, B., MacRae, M., Fairley, S., Laing, C., Gannon, V., Allison, L. J., Hanson, M. F., Dallman, T., Ashton, P., Franz, E., van Hoek, A. H., French, N. P., George, T., Biggs, P. J., Forbes, K. J. (2015) Whole Genome Sequencing demonstrates that Geographic Variation of Escherichia coli  O157 Genotypes Dominates Host Association. Sci Rep. 2015 Oct 7;5:14145. doi: 10.1038/srep14145

Toombs-Ruane, L.J., Riley, C.B., Kendall, A.T., Bolwell, C.F., Benschop, J. and Rosanowski, S.M. (2015), Antimicrobial Susceptibilities of Aerobic Isolates from Respiratory Samples of Young New Zealand Horses. Journal of Veterinary Internal Medicine. doi: 10.1111/jvim.13600 

Toombs-Ruane, L. J., Riley, C. B., Kendall, A. T., Hill, K. E., Benschop, J., Rosanowski, S. M. (2015) Antimicrobial susceptibility of bacteria isolated from neonatal foal samples submitted to a New Zealand veterinary pathology laboratory (2004 to 2013). N Z Vet J. 2015 Nov 23:1-5. doi:10.1080/00480169.2015.1109006

Toombs-Ruane, L.J., Riley, C.B., Rosanowski, S.M., Kendall, A.T. , Benschop, J. (2015), Antimicrobial Resistance of Aerobic Respiratory Isolates From Young New Zealand Horses. Equine Veterinary Journal, 47: 20. doi: 10.1111/evj.12486_45 

Toombs-Ruane, L., Rosanowski, S., Riley, C., Kendall, A., Bolwell, C., Benschop, J. (2015) Antimicrobial sensitivities of aerobic isolates from respiratory samples of young New Zealand horses submitted to a commercial laboratory. Accepted Journal of Veterinary Internal Medicine

Theoret, C. L., Bolwell, C. F., Riley, C. B. (2015) A cross-sectional survey on wounds in horses in New Zealand. N Z Vet J 1-16 doi: 10.1080/00480169.2015.1091396

Vallée E., Heuer C., Collins-Emerson J.M., Benschop J., Wilson P.R. (2015) Serological patterns, antibody half-life and shedding in urine of Leptospira spp. in naturally exposed sheep. New Zealand Veterinary Journal: 1-32. doi: 10.1080/00480169.2015.1049668

Vallée, E., Ridler, A. L., Heuer, C., Collins-Emerson, J. M., Benschop, J., Wilson, P. R. [2015] Vaccine. doi:10.1016/j.vaccine.2016.04.037

Van Andel, M., Jackson, B., Midwinter, A., Alley, M., Ewen, J., McInnes, K., Jakob Hoff, R., Reynolds, A., and French, N. (2015) Investigation of mortalities associated with Salmonella spp. infection in wildlife on Tiritiri Matangi Island in the Hauraki Gulf of New Zealand. New Zealand Veterinary Journal, 1-12. doi: 10.1080/00480169.2014.990065

Zhang, X. X., Gauntlett, J. C., Oldenburg, D. G., Cook, G. M., Rainey, P. B. (2015) Role of the Transporter-Like Sensor Kinase CbrA in Histidine Uptake and Signal Transduction. J Bacteriol 197-17 2867-78. doi: 10.1128/JB.00361-15

 

2014 

Abdul-Rahman, A., Morgan, W., Hazelton, M., Betz-Stablein, B., Yu, D. Y., Chan, G., & Lam, J. 2014. A novel method of non-invasive retinal vascular pulse waveform assessment using fourier analysis. Clinical and experimental ophthalmology Vol. 42, pp. 99-99

Alsohim, A.S., Taylor, T.B., Barrett, G.A., Gallie, J., Zhang, X.X., AltamiranoÂ?]Junqueira, A.E., Johnson, L.J., Rainey, P. B., & Jackson, R.W. 2014. The biosurfactant viscosin produced by Pseudomonas fluorescens SBW25 aids spreading motility and plant growth promotion. Environmental microbiology. 16(7), 2267-2281. doi: 10.1111/1462-2920.12469

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Carpenter, T.E., Coggins, V.L., McCarthy, C., O'Brien, C.S., O'Brien, J.M., & Schommer, T.J. 2014. A spatial risk assessment of bighorn sheep extirpation by grazing domestic sheep on public lands. Preventive Veterinary Medicine. 114(1), 3-10 DOI: 10.1016/j.prevetmed.2014.01.008

De Monte, S., & Rainey, P.B. 2014. Nascent multicellular life and the emergence of individuality. Journal of Biosciences. 39(2), 237-48. doi: 10.1007/s12038-014-9420-5

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Grove-White, D.H., Leatherbarrow, A.J., Cripps, P.J., & French, N.P. 2014. Temporal and farm-management-associated variation in faecal pat prevalence of Arcobacter spp. in ruminants. Epidemiology and Infection. 142(4), 861-870. http://journals.cambridge.org/action/displayAbstract?fromPage=online&aid=8951596&fulltextType=RA&fileId=S095026881300160X

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Mardones F.O., Martínez-López B., Valdés-Donoso P., Carpenter T.E., & Perez A.M., 2014. The role of fish movements in the spread of infectious salmon anemia in Chile, 2007-2009, Preventive Veterinary Medicine. 114(7), 37-46. http://dx.doi.org/10.1016/j.prevetmed.2014.01.012

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Preziuso, S., Pinho, M.D., Attili, A.R., Melo-Cristino, J., Acke, E., Midwinter, A.C., Cuteri, V., Ramirez, M. 2014. PCR based differentiation between Streptococcus dysgalactiae subsp. equisimilis strains isolated from humans and horses. Comparative Immunology, Microbiology and Infectious Diseases. doi: http://dx.doi.org/10.1016/j.cimid.2014.04.001 

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Ritchie, S.R., Thomas, M.G., & Rainey, P.B. 2014. The Genetic Structure of Staphylococcus aureus Populations from the Southwest Pacific. PLoS ONE, 9(7), e100300 

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Ahmed, I., Matthews, P.J., Biggs, P.J., Naeem, M., McLenachan, P.A., & Lockhart, P.J. 2013. Identification of chloroplast genome loci suitable for high-resolution phylogeographic studies of Colocasia esculenta (L.) Schott (Araceae) and closely related taxa. Molecular Ecology Resources. 13(5), 929-937. doi: 10.1111/1755-0998.12128

Akhtar, S., & Carpenter, T.E. 2013. Stochastic modelling of intra-household transmission of hepatitis C virus: Evidence for substantial non-sexual infection. Journal of Infection. 66(2), 179-183 http://www.sciencedirect.com/science/article/pii/S0163445312003064

Almawly, J., Prattley, D., French, N.P., Lopez-Villalobos, N., Hedgespeth, B., & Grinberg, A. 2013. Utility of halofuginone lactate for the prevention of natural cryptosporidiosis of calves, in the presence of co-infection with rotavirus and Salmonella Typhimurium. Veterinary Parasitology  197(1-2), 59-67. http://www.sciencedirect.com/science/article/pii/S0304401713002410

Bailey, S., Dettman, J. R., Rainey, P. B., & Kassen, R.  2013.  Competition both drives and impedes diversification in a model adaptive radiation. Proceedings of the Royal Society (London) B.  280. doi: 10.1098/rspb.2013.1253 

Baker, K.S., Marsh G.A., Todd S., Crameri G., Barr .J, Kamins A.O., Peel A.C., Yu M, Hayman D.T.S., Nagjm B., Mtove G., Amos B., Reyburn H., Nyarko E.O., Suu-Ire R., Murcia P.R., Cunningham A.A., Wood J.L.N., Wang L.F. 2013. Novel potentially-zoonotic paramyxoviruses from the African straw-coloured fruit bat, Eidolon helvum. Journal of Virology, 87:1348-1358. doi: 10.1128/JVI.01202-12.

Banda, M.E., Howe, L.J., & French, N. 2013. A cluster of avian malaria cases in a kiwi management program. New Zealand Veterinary Journal 61(3), 121-126. doi/abs/10.1080/00480169.2012.736130

Betz-Stablein, B.D., Morgan, W.H., House, P.H., &  Hazelton, M.L. 2013. Spatial Modeling of Visual Field Data for Assessing Glaucoma Progression. Investigative Ophthalmology & Visual Science 54(2), 1544-1553.

Brooks, C., Pearce, N., & Douwes, J. 2013. The hygiene hypothesis in allergy and asthma: An update. Current Opinion in Allergy and Clinical Immunology. 13(1), 70-77. doi 10.1097/ACI.0b013e32835ad0d2  

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Carpenter T, Kim, H., Yoon, H., Moon, O-K., Han, J-H., Lee, K., Jeong, W., Choi, J., Cho, Y-M., Kang, Y-M., Ahn, H-Y., Kim, D-S. [2013] Direct costs of five foot-and-mouth disease epidemics in the Republic of Korea, from 2000 to 2011. Journal of Preventive Veterinary Medicine. 37. 163-168. doi: 10.13041/jpvm.2013.37.4.163 

Coakley, J.D., Harrad, J., Goosey, E., Ali, N., Dirtu, A., Van den Eede, N., Covaci, A., Douwes, J., & Mannetje, A. 2013. Concentrations of polybrominated diphenyl ethers in matched samples of indoor dust and breast milk in New Zealand. Environment International, 59, 255-61 10.1016/j.envint.2013.06.020   

Conrad, D., Haynes, M., Salamon, P., Rainey, P.B., Youle, M., & Rohwer, F. 2013. Cystic fibrosis therapy: a community ecology perspective. American Journal of Respiratory and Critical Care Medicine 48(2), 150-156. doi: 10.1165/rcmb.2012-0059PS

Davies, T.M., & Hazelton, M.L. 2013. Assessing minimum contrast parameter estimation for spatial and spatiotemporal log-Gaussian Cox processes. Statistica Neerlandica, 67(4), 355-389. doi: 10.1111/stan.12011 

Davis, M.A., Moore, D.l., Baker,K.N.K., French,N.P., Patnode.M., Hensley,J., MacDonald,K., & Besser, T.E. 2013. Risk factors for campylobacteriosis in two Washington State counties with high numbers of dairy farms. Journal of Clinical Microbiology. 51(2): 3921 doi: 10.1128/JCM.01433-13   

Durr, S., zu Dohna, H., Di Labio, E., Carpenter, T.E., & Doherr, M.G. 2013. Evaluation of control and surveillance strategies for classical swine fever using a simulation model. Preventive Veterinary Medicine. 108(1), 73-84 http://www.sciencedirect.com/science/article/pii/S0167587712002310  

Frean, M. Rainey, P. B. & Traulsen, A. 2013. The effect of population structure on the rate of evolution.  Proceedings of the Royal Society (London) B. 280. doi: 10.1098/rspb.2013.0211 

Ferguson, G.C., Bertels, F., & Rainey, P.B. 2013.  Adaptive divergence in experimental populations of Pseudomonas fluorescens. V. Genetic and phenotypic bases of Fuzzy Spreader fitness and revision of niche specialisation during the Pseudomonas radiation.  Genetics, 195(4): 1319-35. doi: 10.1534/genetics.113.154948

Gartrell, B., French, N., Howe, L.J., Nelson, N., Houston, M., Burrows, L., Russel, J., Anderson, S.H. 2013. First detection of Chlamydia psittaci from a wild native passerine bird in New Zealand. New Zealand Veterinary Journal 61(3), 174-176. doi/0.1080/00480169.2012.740656

Gilbert A., Fooks A.R., Hayman D.T.S., Horton D.L., Müller T., Plowright R.K., Peel A., Bowen R., Wood J.L.N., Mills J.N., Cunningham A.A., & Rupprecht C.E. 2013. The utility and limitations of serologic testing: implications for the study of wildlife diseases. EcoHealth.

Gilpin, B., Walsh, G., On, S.L., Smith, D., Marshall, J., French, N.P. 2013. Application of molecular epidemiology to understanding campylobacteriosis in the Canterbury region of New Zealand. Epidemiology and Infection 141(6), 1253-1266.  doi:10.1017/S0950268812001719

Grinberg, A., Biggs, P.J., Dukkipati, V.S.R., & George, T.T. 2013. Extensive intra-host genetic diversity uncovered in Cryptosporidium parvum using Next Generation Sequencing. Infection, Genetics and Evolution. 15, 18-24. http://www.sciencedirect.com/science/article/pii/S1567134812002869

Harland, A.L., Cave, N.J., Jones,  B.R., Benschop, J., Donald, J.J., Midwinter, A.C., Squires, R.A. & Collins-Emerson, J.M. 2013. A serological survey of leptospiral antibodies in dogs in New Zealand. New Zealand Veterinary Journal 61(2), 98-106 doi:10.1080/00480169.2012.719212  

Hayman, D.T.S., Bowen, R.A., Cryan, P.M., McCracken, G.F., O’Shea, T.J., Peel, A.J., Gilbert, A., Webb, C.T. & Wood, J.L.N. 2013. Ecology of Zoonotic Infectious Diseases in Bats: Current Knowledge and Future Directions. Zoonoses and Public Health. 60, 2–21. doi: 10.1111/zph.12000

Hayman, D.T.S., McDonald, K.D., & Kosoy, K.Y. 2013. Evolutionary history of rat-borne Bartonella: the importance of commensal rats in the dissemination of bacterial infections globally, Ecology and Evolution. 3(10), 3195–3203. doi: 10.1002/ece3.702 

Hall R. J., Leblanc-Maridor, M., Wang, J., Ren, X., Moore, N.E., Brooks, C.R., Peacey, M., Douwes, J., & McLean, D.J. 2013. Metagenomic Detection of Viruses in Aerosol Samples from Workers in Animal Slaughterhouses  PLOS ONE 8(8), e72226. doi:10.1371/journal.pone.0072226

Han, J., Collins, L.J., Biggs, P.J., White, W.T. & Penny, D. 2013. Are Signature Proteins the Key to Evaluating Eukaryotic Phylogeny? Rev Bioinform Biometr 2(2), 37-44.

Hennebelle, J., Sykes, J.E., Carpenter, T.E., & Foley, J. 2013. Spatial and temporal patterns of Leptospira infection in dogs from northern California: 67 cases (2001-2010). Journal of the American Veterinary Medical Association. 242(7), 941-947 http://avmajournals.avma.org/doi/abs/10.2460/javma.242.7.941

Jaros, P., Cookson, A., Campbell, D., Besser,T., Shiringi, S., Mackereth, G. F., Lim.E., Lopez.L., Dufour,M., Marshall, J.,Baker,M., Hathaway,S.,  French, N.P. 2013. A prospective case-control and molecular epidemiological study of human cases of Shiga toxin-producing Escherichia coli in New Zealand. BMC Infectious Diseases 13, 450. doi:10.1186/1471-2334-13-450 

Lal, A., Baker, M.G., Hales, S., French, N.P. 2013. Potential effects of global environmental changes on cryptosporidiosis and giardiasis transmission. Trends in Parasitology 29, 83-90. doi/10.1016/j.pt.2012.10.005

Lal, A, Ikeda, T, French, N, Baker, MG, & Hales, S. 2013. Climate Variability, Weather and Enteric Disease Incidence in New Zealand: Time Series Analysis. PlosOne, 8(12):e83484. doi: 10.1371/journal.pone.0083484

Lashley, V. D., Roe, W. D., Kenyon, P. R., & Thompson, K. G. 2013. Perinatal lamb mortality: an assessment of gross, histological and immunohistochemical changes in the central nervous system. New Zealand Veterinary Journal, 62(3), 160-166. doi: 10.1080/00480169.2013.875980

Libby, E., Rainey, P.B. 2013. A conceptual framework for the evolutionary origins of multicellularity. Physical Biology 10(3) 035001 

Luis A.D., Hayman D.T.S., O’Shea T.J., Cryan P.M., Gilbert A.T., Pulliam J.R.C., Mills J.N., Willis C.K.R., Timonin M.E., Cunningham A.A., Fooks A.R., Rupprecht C.E., Wood J.L.N., & Webb C.T. 2013. A comparison of bats and rodents as reservoirs of zoonotic viruses: Are bats special? Proceedings of the Royal Society B: Biological Sciences, 280(1756): doi: 10.1098/rspb.2012.2753 

Mannetje, A., Coakley, J., Bridgen, P., Brooks, C., Harrad, S., Smith, A.H., Pearce, N., & Douwes, J. 2013 Current concentrations, temporal trends and determinants of persistent organic pollutants in breast milk of New Zealand women. The Science of the Total Environment.  458-460, 399-407. doi: 10.1016/j.scitotenv.2013.04.055    

Mardones, F.O., Jansen, P.A., Valdes-Donoso, P., Jarpa, M., Lyngstad, T.M., Jimenez, D., Carpenter, T.E., & Perez, A.M. 2013. Within-farm spread of infectious salmon anemia virus (ISAV) in Atlantic salmon Salmo salar farms in Chile. Disease of Aquatic Organisims. 106(1), 7-16. doi:10.3354/dao02639

Mardones, F.O., zu Donha, H., Thunes, C., Velez, V., & Carpenter, T.E. 2013. The value of animal movement tracing: A case study simulating the spread and control of foot-and-mouth disease in California. Preventive Veterinary Medicine. 110(2), 133-138 http://www.sciencedirect.com/science/article/pii/S0167587712004011

McCann, H., Rikkerink, E.H., Bertels, F., Fiers, M., Lu, A., Rees-George, J., Andersen, M.T., Gleave, A.P., Haubold, B., Wohlers, Guttman, D. S., Wang, P., Vanneste, J., Rainey, P.B., & Templeton, M.D.  2013. Genomic analysis of the kiwifruit pathogen Pseudomonas syringae pv. actinidiae provides insights into the origins of an emergent plant disease.  PLoS Pathogens 9(7), e1003503. doi:10.1371/journal.ppat.100350 

Mohan, V., Stevenson, M., Marshall, J., Fearnhead, P., Holland, B., Hotter, G., & French, N.P. 2013. Campylobacter jejuni colonisation and population structure in urban populations of ducks and starlings in New Zealand. MicrobiologyOpen 2(4) 659-673. doi: 10.1002/mbo3.102

Muellner, P., Pleydell, E., Pirie, R., Baker, M., Campbell, D., Carter, P., French, N., 2013. Molecular-based surveillance of campylobacteriosis in New Zealand - from source attribution to genomic epidemiology. Eurosurveillance 18(3), pii=20365 http://www.eurosurveillance.org/images/dynamic/EE/V18N03/art20365.pdf

Mughini-Gras, L., Smid, J., Wagenaar, J., de Boer, A., Havelaar, A., Friesema, I., French, N., Graziani, C., Busani, L., van Pelt, W. 2013. Increased risk for Campylobacter jejuni and C. coli infection of pet origin in dog owners and evidence for genetic association between strains causing infection in humans and their pets. Epidemiology and Infection, 141 (12), 2526-2535. doi:10.1017/S0950268813000356

On, S.L.W., Brandt, S.M., Cornelius, A.J., Fusco, V., Quero, G.M., Maćkiw, E., Houf, K., Bilbao, A., Díaz, A.I., Benejat, L., Megraud, F., Collins-Emerson, J., French, N.P., Gotcheva, V., Angelov, A., Alakomi, H.L., Saarela, M., & Paulin, S.M. 2013. PCR revisited: a case for revalidation of PCR assays for microorganisms using identification of Campylobacter species as an exemplar. Quality Assurance and Safety of Crops & Foods 5, 49-62. 

Parry, K., & Hazelton, M.L. 2013. Bayesian inference for day-to-day dynamic traffic models. Transportation Research Part B-methodological, 104-115. http://www.sciencedirect.com/science/article/pii/S0191261513000143 

Pearce, N., Douwes, J. 2013. Research at the interface between human and veterinary health. Preventive Veterinary Medicine.111(3-4), 187-193. http://www.sciencedirect.com/science/article/pii/S0167587713001736

Pearce, N., & Douwes, J. 2013 Lifestyle changes and childhood asthma. Indian journal of pediatrics  80(1),   S95-9. doi: 10.1007/s12098-012-0764-2 

Peel, A.J., McKinley, T.J., Baker, K.S., Barr, J.A., Crameri, G., Hayman, D.T.S., Feng, Y-R., Broder, C.C., Wang, L-F., Cunningham, A.A., & Wood, J.L.N. 2013. Use of cross-reactive serological assays for detecting novel pathogens in wildlife: Assessing an appropriate cutoff for henipavirus assays in African bats. Journal of Virological Methods. 193, 295-303. http://dx.doi.org/10.1016/j.jviromet.2013.06.030

Peel, A.J., Sargan, D.R., Baker, K.S., Hayman, D.T.S., Barr, J.A., Crameri, G., Suu-Ire, R., Broder, C.C., Wang, L.F., Fooks, A.R., Rossiter, S.J., Wood, J.L.N., & Cunningham, A.A. 2013. Continent-wide panmixia of an African fruit bat facilitates transmission of potentially-zoonotic viruses. Nature Communications. 4(2770). doi:10.1038/ncomms3770

Roberts, M.G. 2013. Epidemic models with uncertainty in the reproduction number. Journal of Mathematical Biology 66, 1463-1474. doi/10.1007%2Fs00285-012-0540-y

Roberts, M.G. Heesterbeek, J.A.P., 2013, Characterizing the next-generation matrix and basic reproduction number in ecological epidemiology. Journal of Mathematical Biology 66(4-5), 1045-1064. doi/10.1007%2Fs00285-012-0602-1

Roberts, M.G. 2013. A two-strain epidemic model with uncertainty in the interaction. ANZIAM Journal 54(1-2), 108-115. http://dx.doi.org/10.1017/S1446181112000326

Roe, W.D., Howe, L., Baker, E.J., Burrows, L., & Hunter, S.A. 2013. An atypical genotype of Toxoplasma gondii as a cause of mortality in Hector's dolphins (Cephalorhynchus hectori). Veterinary Parasitology. 192(1-3), 67-74. doi:10.1016/j.vetpar.2012.11.00

Sheppard, S.K., Didelot, X., Jolley, K.A., Darling, A.E., Pascoe, B., Meric, G., Kelly, D.J., Cody, A., Colles, F.M., Strachan, N.J., Ogden, I.D., Forbes, K., French, N.P., Carter, P., Miller, W.G., McCarthy, N.D., Owen, R., Litrup, E., Egholm, M., Affourtit, J.P., Bentley, S.D., Parkhill, J., Maiden, M.C., Falush, D., 2013. Progressive genome-wide introgression in agricultural Campylobacter coli. Molecular Ecology 22, 1051-1064. doi/10.1111/mec.12162

Simpson, J.L., Roberts, M.G. 2013. Modelling the effect of vaccination on the Meningococcal B epidemic in New Zealand. ANZIAM Journal 54(1-2), 74-88 http://journals.cambridge.org/action/displayAbstract?fromPage=online&aid=8912415

Smid, J.H., Mughini Gras, L., de Boer, A.G., French, N.P., Havelaar, A.H., Wagenaar, J.A., van Pelt, W., 2013. Practicalities of using non-local or non-recent multilocus sequence typing data for source attribution in space and time of human campylobacteriosis. PLoS One 8(2), e55029. doi: 10.1371/journal.pone.0055029

Thornley, C.N., Hewitt, J., Perumal, L., Van Gessel, S.M., Wong, J., David, S.A., Rapana, J.P., Li, S., Marshall, J.C., & Greening, GE. 2013. Multiple outbreaks of a novel norovirus GII.4 linked to an infected post-symptomatic food handler. Epimiology and Infection. 141(8), 1585-1597 doi: http://dx.doi.org/10.1017/S0950268813000095

Valdes-Donoso, P., Mardones, F.O., Jarpa, M., Ulloa, M., Carpenter, T.E., & Perez, A.M. 2013. Co-infection patterns of infectious salmon anaemia and sea lice in farmed Atlantic salmon, Salmo salar L., in southern Chile (2007-2009). Journal of Fish Diseases. 36(3), 353-360. doi: 10.1111/jfd.12070 

VanWormer, E., Conrad, P.A., Miller, M.A., Melli, A.C., Carpenter, T.E., & Mazet, J.A.K. 2013. Toxoplasma gondii, Source to Sea: Higher Contribution of Domestic Felids to Terrestrial Parasite Loading Despite Lower Infection Prevalence. EcoHealth. , 1-13. http://link.springer.com/article/10.1007%2Fs10393-013-0859-x#

Vaughan, T.G., & Alexei J.D. 2013. A Stochastic Simulator of Birth-death Master Equations with Application to Phylodynamics. Molecular Biology and Evolution 30 (6) (June): 1480–1493. doi:10.1093/molbev/mst057

Wagenaar, J., French, N.P., & Havelaar, A.H. 2013. Preventing Campylobacter at the source - why is it so difficult? Clinical Infectious Diseases, 57(11), 1600-1606. doi: 10.1093/cid/cit555

Wang, J., McLenachan, P.A., Biggs, P.J., Winder, L.H., Schoenfeld, B.I., Narayan, V.V., Phiri, B.J., & Lockhart, P.J. 2013. Environmental bio-monitoring with high-throughput sequencing.. Brief Bioinform. 14(5), 575-588. doi:10.1093/bib/bbt032

Zhang, X-X., Rainey, P.B. 2013. Exploring the social biology of pyoverdin producing Pseudomonas. Evolution, 67(11): 3161-3174. DOI: 10.1111/evo.12183

2012

Choi, Y-K, Johnson W.O., Jones, G., Perez, A. and Thurmond, M.C. 2012. Modeling and predicting temporal frequency of foot-and-mouth disease (FMD) cases in countries with endemic FMD. Journal of the Royal Statistical Society: Series A (Statistics in Society) 175(2):619-636.

Collins-Emerson, J. and Abdul-Careem, M.F. 2012. Chapter 4. Microbiology. Section 4.8. "Molecular microbiology as a diagnostic tool." pp290-305. In "The Veterinary Laboratory and Field Manual." 2nd Edition.Editors: S.C. Cork and R.W. Halliwell. Nottingham University Press, 2012. ISBN 978-1-908062-09-3

Fernando, W.T.P.S, Ganesalingam, S. and Hazelton, M.L. 2012. A comparison of estimators of the geographical relative risk function. Journal of Statistical Computation and Simulation, online 14 Dec 2012. doi/abs/10.1080/00949655.2012.748055

Gerth, M.L., Ferla, M.P., Rainey, P.B. 2012. The origin and ecological significance of multiple branches for histidine utilisation in Pseudomonas aeruginosa PAO1. Environmental Microbiology. 14(8), 1929-1940  doi/10.1111/j.1462-2920.2011.02691 

Irshad, H., Cookson, A., Hotter, G., Besser, T., On, S. and French, N. Epidemiology of Shiga toxin producing Escherichia coli O157 in very young calves in the North Island of New Zealand. New Zealand Veterinary Journal 60, 21-26. doi: 10.1080/00480169.2011.627063

Jones, G., Johnson, W. O., Vink, W. D. and French, N. 2012. A Framework for the Joint Modeling of Longitudinal Diagnostic Outcome Data and Latent Infection Status: Application to Investigating the Temporal Relationship between Infection and Disease. Biometrics 68, 371-379. doi: 10.1111/j.1541-0420.2011.01687

Kidd, T.J., Ritchie, S.R., Ramsay, K.A., Grimwood, K., Bell, S.C., Rainey, P.B. 2012. Pseudomonas aeruginosa exhibits frequent recombination, but only a limited association between genotype and ecological setting. PLoS One, 7(9): e44199.

Lal, A., Baker, M.G., French, N., Dufour, M., Hales, S. 2012. The Epidemiology of Human Salmonellosis in New Zealand, 1997-2008. Epidemiology and Infection 140(9):1685-94. doi/10.1017/S0950268811002470

Lal, A., Hales, S., French, N. and Baker, M. 2012. Seasonality in Human Enteric Diseases: A Systematic Review. PLoS ONE 7(4): e31883. doi:10.1371/journal.pone.0031883

Lee, K., French, N. P., Jones, G., Hara-Kudo, Y., Iyoda, S., Kobayashi, H., Sugita-Konishi, Y., Tsubone, H. and Kumagai, S. 2012. Variation in stress-resistance patterns among stx genotypes and genetic lineages in Shiga toxin-producing Escherichia coli O157. Applied and Environmental Microbiology 78(9), 3361-8. doi: 10.1128/​AEM.06646-11

Mughini Gras, L., Smid, J.H., Wagenaar, J.A., de Boer, A.G., Havelaar, A.H., Friesema, I.H.M., French, N.P., Busani, L., van Pelt, W., 2012. Risk Factors for Campylobacteriosis of Chicken, Ruminant, and Environmental Origin: A Combined Case-Control and Source Attribution Analysis. PLoS One7(8), e42599

Phiri, B. J., Benschop, J., Stevenson, M., Swai, E. S., Karimuribo, E. D. and French, N. P. 2012. Spatiosurvival analysis of mortality on smallholder dairy farms in Tanga and Iringa regions of Tanzania. Tropical Animal Health Production 44(4), 827-834.

Pleydell, E.J., Souphavanh, K., Hill, K.E., French, N.P., Prattley, D. 2012. Descriptive epidemiological study of the use of antimicrobial drugs by companion animal veterinarians in New Zealand. New Zealand Veterinary Journal 60(2), 115-122. eprint/3RNVw8H2Br4w7v3KhDmN/full

Rapp, D., Ross, C.M., Pleydell, E.J., Muirhead, R.W. 2012. Differences in the fecal concentrations and genetic diversities of Campylobacter jejuni populations among individual cows in two dairy herds. Applied and Environmental Microbiology 78, 7564-71. doi: 10.1128/​AEM.01783-12

Redondo-Niece, M., Barret, M., Morrisey, J., Germaine, K., Martinez-Garner, F., Brahman, E., Navazo, A., Sanchez-Contraries, M., Moynihan, J. A., Giddens, S. R., Coppoolse, E. R., Muriel, C., Stiekema, W. J., Rainey, P.B., Dowling, D., O'Hare, F., Martin, M., Rival, R. 2012. Genome sequence of the biocontrol strain Pseudomonas fluorescens F113. Journal of Bacteriology. 194(5), 1273-1274. doi: 10.1128/ JB.06601-11 

Rodgers, J.D., Lawes, J.R., Vidal, A.B., Ellis-Iversen, J., Ridley, A., Pleydell, E., Powell, L.F., Toszeghy, M., Stapleton, K. and Clifton-Hadley, F.A. 2012. Characteristics and comparative performance of direct culture, direct PCR and enumeration methods for detection and quantification of Campylobacter spp. in broiler caeca. 2012. Veterinary Microbiology 159(3-4):390-6. doi: 10.1016/j.vetmic.2012.04.011

Simpson, J.L., Roberts, M.G. 2012. Modelling heterogeneous host immune response in a multi-strain system. Journal of Theoretical Biology 304, 60-65. http://dx.doi.org/10.1016/j.jtbi.2012.03.006

Souther, S., Tingley, M. W., Popescu, V. D., Hayman, D. T. S., Ryan, M. E., Graves, T. A., Hartl, B., & Terrell, K. 2014. Biotic impacts of energy development from shale: research priorities and knowledge gaps. Frontiers in Ecology and the Environment, 12(6), 330-338. doi: 10.1890/130324

Spencer, S., Marshall, J., Pirie, R., Campbell, D., Baker, M.G., French, N. 2012. The spatial and temporal determinants of campylobacteriosis notifications in New Zealand, 2001-2007. Epidemiology and Infection 140(9), 1663-1677 http://dx.doi.org/10.1017/S0950268811002159

Subharat, S., Wilson, P. R., Heuer, C., & Collins-Emerson, J. M. 2012. Growth response and shedding of Leptospira spp. in urine following vaccination for leptospirosis in young farmed deer. New Zealand Veterinary Journal, 60(1), 14-20. doi:10.1080/00480169.2011.624985 

Subharat, S., Wilson, P.R., Heuer, C. & Collins-Emerson, J.M. 2012. Longitudinal serological survey and herd-level risk factors for Leptospira spp. serovars Hardjo-bovis and Pomona on deer farms with sheep and/or beef cattle. New Zealand Veterinary Journal 60(4), 215-22 http://dx.doi.org/10.1080/00480169.2012.663323 

Willner, D., Haynes, M. R., Furlan, M., Hanson, N., Kirby, B., Lim, Y.W., Rainey, P.B., Schmieder, R., Yule, M., Conrad, D., Rohwer, F. 2012. Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung. American Journal of Respiratory Cell and Molecular Biology. 46(2), 127-131. doi:10.1165/2011-0253OC 

Yu, S., Fearnhead, P., Holland, B., Biggs, P., Maiden, M. and French, N. 2012. Estimating the relative roles of recombination and point mutation to the generation of single locus variants in Campylobacter jejuni and Campylobacter coli. Journal of Molecular Evolution 74(5-6), 273-280. doi/10.1007%2Fs00239-012-9505-4

Zhang, X-X., Chang, H., Tran, S.L., Gauntlett, J.C., Cook, G.M., Rainey, P.B. 2012. Variation in transporter genes explains polymorphism of histidine and urocanate utilisation in natural populations of Pseudomonas. Environmental Microbiology 14(8):1941-5. doi/10.1111/j.1462-2920.2011.02692 

2011

Bertels, F., Rainey, P.B., 2011. Within-genome evolution of REPINs: a new family of miniature mobile DNA in bacteria. PLoS Genet 7, e1002132.

Best, N., Fraser, J.D., Rainey, P.B., Roberts, S.A., Thomas, M.G., Ritchie, S.R., 2011. Nasal carriage of Staphylococcus aureus in healthy Aucklanders. N Z Med J 124, 31-39.

Biggs, P., Fearnhead, P., Hotter, G.S., Mohan, V., Collins-Emerson, J., Kwan, E., Besser, T., Cookson, A., Carter, P., French, N., 2011. Whole-genome comparison of two Campylobacter jejuni isolates of the same sequence type reveals multiple loci of different ancestral lineage. PLoS One.

Carpenter, T.E., O'Brien, J.M., Hagerman, A.D., McCarl, B.A., 2011. Epidemic and economic impacts of delayed detection of foot-and-mouth disease: a case study of a simulated outbreak in California. J Vet Diagn Invest 23, 26-33.

Davies, T.M., Hazelton, M.L. and Marshall, J.C., 2011. sparr: Analyzing spatial relative risk using fixed and adaptive kernel density estimation in R. Journal of Statistical Software, 39, 1-14.

Douwes, J., Brooks, C., Pearce, N., 2011. Asthma nervosa: old concept, new insight. Eur Respir 37:986-990

Douwes, J., Brooks, C., van Dalen, C., Pearce, N., 2011. Importance of allergy in asthma: an epidemiologic perspective. Curr Allergy Asthma Rep 11, 434-444.

Ekong, P.S., Ducheyne, E., Carpenter, T.E., Owolodun, O.A., Oladokun, A.T., Lombin, L.H., Berkvens, D., 2011. Spatio-temporal epidemiology of highly pathogenic avian influenza (H5N1) outbreaks in Nigeria, 2006-2008. Prev Vet Med.

Eng, A., 't Mannetje, A., Pearce, N., Douwes, J., 2011. Work-related Stress and Asthma: Results from a Workforce Survey in New Zealand. J Asthma 48:783-9. 

Grove-White, D.H., Leatherbarrow, A.J., Cripps, P.J., Diggle, P.J., French, N.P., 2011. Molecular epidemiology and genetic diversity of Campylobacter jejuni in ruminants. Epidemiol Infect, 1-11.

Hepworth, P.J., Ashelford, K.E., Hinds, J., Gould, K.A., Witney, A.A., Williams, N.J., Leatherbarrow, H., French, N.P., Birtles, R.J., Mendonca, C., Dorrell, N., Wren, B.W., Wigley, P., Hall, N., Winstanley, C., 2011. Genomic variations define divergence of water/wildlife-associated Campylobacter jejuni niche specialists from common clonal complexes. Environ Microbiol 13, 1549-1560.

James, A., Brown, R., Basse, B., Bourdot, G., Lamoureaux, S., Roberts, M.G., and Saville, D.J., 2011. Application of a spatial meta-population model with stochastic parameters to the management of the invasive grass Nassella trichotoma in North Canterbury, New Zealand. Ecological Modelling 222, 1030-1037.

Jimenez, D.F., Perez, A.M., Carpenter, T.E., Martinez, A., 2011. Factors associated with infection by Campylobacter fetus in beef herds in the Province of Buenos Aires, Argentina. Prev Vet Med 101, 157-162.

Jones, G., Johnson, W.O., Vink, W.D., French, N.P., 2011. A framework for the joint modeling of longitudinal diagnostic outcome data and latent infection status: application to investigating the temporal relationship between infection and disease. Biometrics.

Kidd, T.J., Grimwood, K., Ramsay, K.A., Rainey, P.B., Bell, S.C., 2011. Comparison of three molecular techniques for typing Pseudomonas aeruginosa isolates in sputum samples from patients with cystic fibrosis. J Clin Microbiol 49, 263-268.

Lee, K., French, N.P., Hara-Kudo, Y., Iyoda, S., Kobayashi, H., Sugita-Konishi, Y., Tsubone, H., Kumagai, S., 2011. Multivariate analyses revealed distinctive features differentiating human and cattle isolates of Shiga toxin-producing Escherichia coli O157 in Japan. J Clin Microbiol 49, 1495-1500.

Leon, M.E., Beane Freeman, L.E., Douwes, J., Hoppin, J.A., Kromhout, H., Lebailly, P., Nordby, K.C., Schenker, M., Schuz, J., Waring, S.C., Alavanja, M.C., Annesi-Maesano, I., Baldi, I., Dalvie, M.A., Ferro, G., Fervers, B., Langseth, H., London, L., Lynch, C.F., McLaughlin, J., Merchant, J.A., Pahwa, P., Sigsgaard, T., Stayner, L., Wesseling, C., Yoo, K.Y., Zahm, S.H., Straif, K., Blair, A., 2011. AGRICOH: a consortium of agricultural cohorts. Int J Environ Res Public Health 8, 1341-1357.

Li, J., Zu Dohna, H., Cardona, C.J., Miller, J., Carpenter, T.E., 2011. Emergence and genetic variation of neuraminidase stalk deletions in avian influenza viruses. PLoS One 6, e14722.

Libby, E., Rainey, P.B., 2011. Exclusion rules, bottlenecks and the evolution of stochastic phenotype switching. Proc Biol Sci 278, 3574-3583.

Mann, J., Roberts, M., 2011. Modelling the epidemiology of hepatitis B in New Zealand. J Theor Biol 269, 266-272.

't Mannetje, A., Eng, A., Douwes, J., Ellison-Loschmann, L., McLean, D., Pearce, N., 2011. Determinants of nonresponse in an occupational exposure and health survey in New Zealand. The Australian & New Zealand Journal of Public Health 35:256-63. 

Mardones, F.O., Perez, A.M., Valdes-Donoso, P., Carpenter, T.E., 2011. Farm-level reproduction number during an epidemic of infectious salmon anemia virus in southern Chile in 2007-2009. Prev Vet Med 102, 175-184.

McDonald, M.J., Cooper, T.F., Beaumont, H.J., Rainey, P.B., 2011. The distribution of fitness effects of new beneficial mutations in Pseudomonas fluorescens. Biol Lett 7, 98-100.

Mendell, M.J., Mirer, A.G., Cheung, K., Tong, M., Douwes, J., 2011. Respiratory and allergic health effects of dampness, mold, and dampness-related agents: a review of the epidemiologic evidence. Environ Health Perspect 119, 748-756.

Minh, P., Stevenson, M., Jewell, C., French, N., Schauer, B., 2011. Spatio-temporal analyses of highly pathogenic avian influenza H5N1 outbreaks in the Mekong River Delta, Vietnam, 2009. Spatial and Spatio-temporal Epidemiology  2, 49-57.

Muellner, P., Marshall, J., Spencer, S., Noble, A.D., Shadbolt, T., Collins-Emerson, J., Midwinter, A.C., Carter, P., Pirie, R., Wilson, D.J., Campbell, D., Stevenson, M.A., French, N., 2011a. Utilising a combination of molecular and spatial tools to assess the effect of a public health intervention. Preventive Veterinary Medicine.

Muellner, P., Zadoks, R., Perez, A., Spencer, S., Schukken, Y., French, N., 2011b. The integration of molecular tools into veterinary and spatial epidemiology.   . Spatial and Spatio-temporal Epidemiology.

Rainey, P.B., Beaumont, H.J., Ferguson, G.C., Gallie, J., Kost, C., Libby, E., Zhang, X.X., 2011. The evolutionary emergence of stochastic phenotype switching in bacteria. Microb Cell Fact 10 Suppl 1, S14.

Ritchie, S.R., Fraser, J.D., Libby, E., Morris, A.J., Rainey, P.B., Thomas, M.G., 2011. Demographic variation in community-based MRSA skin and soft tissue infection in Auckland, New Zealand. N Z Med J 124, 21-30.

Roberts, M.G., Nishiura, H., 2011. Early estimation of the reproduction number in the presence of imported cases: pandemic influenza H1N1-2009 in New Zealand. PLoS One 6, e17835.

Sanson, R.L., Harvey, N., Garner, M.G., Stevenson, M.A., Davies, T.M., Hazelton, M.L., O'Connor, J., Dube, C., Forde-Folle, K.N., Owen, K., 2011. Foot and mouth disease model verification and 'relative validation' through a formal model comparison. Rev Sci Tech 30, 527-540.

Sears, A., Baker, M.G., Wilson, N., Marshall, J., Muellner, P., Campbell, D.M., Lake, R.J., French, N.P., 2011. Marked campylobacteriosis decline after interventions aimed at poultry, new zealand. Emerg Infect Dis 17, 1007-1015.

Spencer, S., Marshall, J., Pirie, R., Campbell, D., French, N., 2011. The detection of spatially localised outbreaks in campylobacteriosis notification data. Spatial and Spatio-temporal Epidemiology.

Williams, N.J., Sherlock, C., Jones, T.R., Clough, H.E., Telfer, S.E., Begon, M., French, N., Hart, C.A., Bennett, M., 2011. The prevalence of antimicrobial-resistant Escherichia coli in sympatric wild rodents varies by season and host. J Appl Microbiol.

Willner, D., Haynes, M.R., Furlan, M., Hanson, N., Kirby, B., Lim, Y.W., Rainey, P.B., Schmieder, R., Youle, M., Conrad, D., Rohwer, F., 2011a. Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung. Am J Respir Cell Mol Biol.

Willner, D., Haynes, M.R., Furlan, M., Schmieder, R., Lim, Y.W., Rainey, P.B., Rohwer, F., Conrad, D., 2011b. Spatial distribution of microbial communities in the cystic fibrosis lung. ISME J.

Yee, K.S., Novick, C.A., Halvorson, D.A., Dao, N., Carpenter, T.E., Cardona, C.J., 2011. Prevalence of low pathogenicity avian influenza virus during 2005 in two U.S. live bird market systems. Avian Dis 55, 236-242.

2010

Benschop, J., Spencer, S., Alban, L., Stevenson, M., French, N., 2010. Bayesian zero-inflated predictive modelling of herd-level Salmonella prevalence for risk-based surveillance. Zoonoses Public Health 57 Suppl 1, 60-70.

Brooks, C.R., Weinkove, R., Hermans, I.F., van Dalen, C.J., Douwes, J., 2010. Invariant natural killer T cells and asthma: immunologic reality or methodologic artifact? J Allergy Clin Immunol 126, 882-885.

Davies, T.M., Hazelton, M.L., 2010. Adaptive kernel estimation of spatial relative risk. Stat Med 29, 2423-2437.

Diekmann, O., Heesterbeek, J.A., Roberts, M.G., 2010. The construction of next-generation matrices for compartmental epidemic models. J R Soc Interface 7, 873-885.

Douwes, J., Brooks, C., Pearce, N., 2010. Stress and asthma: Hippocrates revisited. J Epidemiol Community Health 64, 561-562.

Elvin, A.J., Laing, C.R., McLachlan, R.I., and Roberts, M.G., 2010. Exploiting the Hamiltonian structure of a neural field model. Physica D 239, 537-546

Eng, A., A, T.M., Cheng, S., Douwes, J., Ellison-Loschmann, L., McLean, D., Gander, P., Laird, I., Legg, S., Pearce, N., 2010a. The New Zealand workforce survey I: self-reported occupational exposures. Ann Occup Hyg 54, 144-153.

Eng, A., A, T.M., Douwes, J., Cheng, S., McLean, D., Ellison-Loschmann, L., Pearce, N., 2010b. The New Zealand workforce survey II: occupational risk factors for asthma. Ann Occup Hyg 54, 154-164.

Fryer, H.R., Frater, J., Duda, A., Roberts, M.G., Phillips, R.E., McLean, A.R., 2010. Modelling the evolution and spread of HIV immune escape mutants. PLoS Pathog 6, e1001196.

Grove-White, D.H., Leatherbarrow, A.J., Cripps, P.J., Diggle, P.J., French, N.P., 2010. Temporal and farm-management-associated variation in the faecal-pat prevalence of Campylobacter jejuni in ruminants. Epidemiol Infect 138, 549-558.

Hotter, G.S., Li, I.H., French, N.P., 2010. Binary genomotyping using lipooligosaccharide biosynthesis genes distinguishes between Campylobacter jejuni isolates within poultry-associated multilocus sequence types. Epidemiol Infect 138, 992-1003.

John, K., Fitzpatrick, J., French, N., Kazwala, R., Kambarage, D., Mfinanga, G.S., MacMillan, A., Cleaveland, S., 2010. Quantifying risk factors for human brucellosis in rural northern Tanzania. PLoS One 5, e9968.

Li, J., zu Dohna, H., Miller, J., Cardona, C.J., Carpenter, T.E., 2010. Identifying errors in avian influenza virus gene sequences and implications for data usage of public databases. Genomics 95, 29-36.

Lockhart, C.Y., Stevenson, M.A., Rawdon, T.G., Gerber, N., French, N.P., 2010. Patterns of contact within the New Zealand poultry industry. Prev Vet Med 95, 258-266.

Mullner, P., Collins-Emerson, J.M., Midwinter, A.C., Carter, P., Spencer, S.E., van der Logt, P., Hathaway, S., French, N.P., 2010a. Molecular epidemiology of Campylobacter jejuni in a geographically isolated country with a uniquely structured poultry industry. Appl Environ Microbiol 76, 2145-2154.

Mullner, P., Shadbolt, T., Collins-Emerson, J.M., Midwinter, A.C., Spencer, S.E., Marshall, J., Carter, P.E., Campbell, D.M., Wilson, D.J., Hathaway, S., Pirie, R., French, N.P., 2010b. Molecular and spatial epidemiology of human campylobacteriosis: source association and genotype-related risk factors. Epidemiol Infect 138, 1372-1383.

Nishiura, H., Roberts, M.G., 2010. Estimation of the reproduction number for 2009 pandemic influenza A(H1N1) in the presence of imported cases. Euro Surveill 15.

Phiri, B.J., Benschop, J., French, N.P., 2010. Systematic review of causes and factors associated with morbidity and mortality on smallholder dairy farms in eastern and southern Africa. Prev Vet Med 94, 1-8.

Pineda-Krch, M., O'Brien, J.M., Thunes, C., Carpenter, T.E., 2010. Potential impact of introduction of foot-and-mouth disease from wild pigs into commercial livestock premises in California. Am J Vet Res 71, 82-88.

Pleydell, E., Rogers, L., Kwan, E., French, N., 2010a. Evidence for the clustering of antibacterial resistance phenotypes of enterococci within integrated poultry companies. Microb Ecol 59, 678-688.

Pleydell, E.J., Rogers, L., Kwan, E., French, N.P., 2010b. Low levels of antibacterial drug resistance expressed by Gram-negative bacteria isolated from poultry carcasses in New Zealand. N Z Vet J 58, 229-236.

Rainey, P.B., Kerr, B., 2010. Cheats as first propagules: a new hypothesis for the evolution of individuality during the transition from single cells to multicellularity. Bioessays 32, 872-880.

Refardt, D., Rainey, P.B., 2010. Tuning a genetic switch: experimental evolution and natural variation of prophage induction. Evolution 64, 1086-1097.

Teh, K.H., Flint, S., French, N., 2010. Biofilm formation by Campylobacter jejuni in controlled mixed-microbial populations. Int J Food Microbiol 143, 118-124.

Whitworth, J., Zhang, Y., Bono, J., Pleydell, E., French, N., Besser, T., 2010. Diverse genetic markers concordantly identify bovine origin Escherichia coli O157 genotypes underrepresented in human disease. Appl Environ Microbiol 76, 361-365.

Yoon, H., Moon, O.K., Her, M., Carpenter, T.E., Kim, Y.J., Jung, S., Lee, S.J., 2010. Impact of bovine brucellosis eradication programs in the Republic of Korea. Prev Vet Med 95, 288-291.

Zhang, X.X., Liu, Y.H., Rainey, P.B., 2010. CbrAB-dependent regulation of pcnB, a poly(A) polymerase gene involved in polyadenylation of RNA in Pseudomonas fluorescens. Environ Microbiol 12, 1674-1683.

Zhang, X.X., Rainey, P.B., 2010. Bet hedging in the underworld. Genome Biol 11, 137.