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Journal Articles

Chase, J. A., E. R. Atwill, M. L. Partyka, R. F. Bond, and D. Oryang. 2017. Inactivation of E. coli O157:H7 in a fecal slurry matrix when inoculated onto romaine lettuce grown in the Salinas Valley, CA. J Food Prot, in press.

Partyka, M. L., R. F. Bond, J. A. Chase, and E. R. Atwill. 2017. Monitoring bacterial indicators of water quality in a tidally influenced delta: A Sisyphean pursuit. Science of The Total Environment 578:346-356.

Angelos, J., A. Arens, H. Johnson, J. Cadriel, and B. Osburn. 2016. One Health in food safety and security education: A curricular framework. Comparative Immunology, Microbiology and Infectious Diseases 44:29-33.

Antaki, E. M., G. Vellidis, C. Harris, P. Aminabadi, K. Levy, and M. T. Jay-Russell. 2016. Low concentration of Salmonella enterica and generic Escherichia coli in farm ponds and irrigation distribution systems used for mixed produce production in Southern Georgia. Foodborne Pathog Dis 13:551-558.

Harris, L. J., V. Lieberman, R. P. Mashiana, E.R. Atwill, M. Yang, J. C. Chandler, B. Bisha, and T. Jones. 2016. Prevalence and amounts of salmonella found on raw California inshell pistachios. J Food Prot 79:1304-1315.

Partyka, M. L., R. F. Bond, J. A. Chase, L. Kiger, and E. R. Atwill. 2016. Multistate evaluation of microbial water and sediment quality from agricultural recovery basins. Journal of Environmental Quality 45:p. 657-665.

Penny, C., B. Grothendick, L. Zhang, C. M. Borror, D. Barbano, A. J. Cornelius, B. J. Gilpin, C. K. Fagerquist, W. J. Zaragoza, M. T. Jay-Russell, A. J. Lastovica, C. Ragimbeau, H.-M. Cauchie, and T. R. Sandrin. 2016. A designed experiments approach to optimizing MALDI-TOF MS spectrum processing parameters enhances detection of antibiotic resistance in campylobacter jejuni. Frontiers in Microbiology 7. 818.

Atwill, E. R., J. A. Chase, D. Oryang, R. F. Bond, S. T. Koike, M. D. Cahn, M. Anderson, A. Mokhtari, and S. Dennis. 2015. Transfer of Escherichia coli O157:H7 from simulated wildlife scat onto romaine lettuce during foliar irrigation. J Food Prot 78:240-247.

Beisner, B. A., A. Heagerty, S. K. Seil, K. N. Balasubramaniam, E. R. Atwill, B. K. Gupta, P. C. Tyagi, N. P. S. Chauhan, B. S. Bonal, P. R. Sinha, and B. McCowan. 2015. Human-wildlife conflict: proximate predictors of aggression between humans and Rhesus macaques in India. American Journal of Physical Anthropology 156:286-294.

Benjamin, L. A., M. T. Jay-Russell, E. R. Atwill, M. B. Cooley, D. Carychao, R. E. Larsen, and R. E. Mandrell. 2015. Risk factors for Escherichia coli O157 on beef cattle ranches located near a major produce production region. Epidemiology and Infection 143:81-93.

Karp, D. S., P. Baur, E. R. Atwill, K. De Master, S. Gennet, A. Iles, J. L. Nelson, A. R. Sciligo, and C. Kremen. 2015. The Unintended Ecological and Social Impacts of Food Safety Regulations in California’s Central Coast Region. BioScience 65:1173-1183.

Karp, D. S., S. Gennet, C. Kilonzo, M. L. Partyka, N. Chaumont, E. R. Atwill, and C. Kremen. 2015. Comanaging fresh produce for nature conservation and food safety. Proceedings of the National Academy of Sciences 112:11126-11131.

Li, B., S. A. Jackson, J. Gangiredla, W. Wang, H. Liu, B. D. Tall, J. J.-G. Beaubrun, M. Jay-Russell, G. Vellidis, and C. A. Elkins. 2015. Genomic evidence reveals numerous Salmonella enterica serovar newport reintroduction events in Suwannee watershed irrigation ponds. Appl Environ Microbiol 81:8243-8253.

Li, X., E. R. Atwill, E. Antaki, O. Applegate, B. Bergamaschi, R. F. Bond, J. A. Chase, K. M. Ransom, W. Samuels, N. Watanabe, and T. Harter. 2015. Fecal indicator and pathogenic bacteria and their antibiotic resistance in alluvial groundwater of an irrigated agricultural region with dairies. Journal of Environmental Quality.

Li, X., M. d. G. C. Pereira, R. Larsen, C. Xiao, R. Phillips, K. Striby, B. McCowan, and E. R. Atwill. 2015. Cryptosporidium rubeyi n. sp. (Apicomplexa: Cryptosporidiidae) in multiple Spermophilus ground squirrel species. International Journal for Parasitology: Parasites and Wildlife 4:343-350.

Pan, F., X. Li, J. Carabez, G. Ragosta, K. L. Fernandez, E. Wang, A. Thiptara, E. Antaki, and E. R. Atwill. 2015. Cross-sectional survey of indicator and pathogenic bacteria on vegetables sold from Asian vendors at farmers’ markets in Northern California. J Food Prot 78:602-608.

Chen, C.-P., H. Fushing, E. R. Atwill, and P. Koehl. 2014. biDCG: a new method for discovering global features of DNA microarray data via an Iterative re-clustering procedure. PloS one 9:e102445.

Harter, T., N. Watanabe, X. Li, E. R. Atwill, and W. Samuels. 2014. Microbial groundwater sampling protocol for fecal-rich environments. Ground Water 52:126-136.

Jay-Russell, M. T., J. E. Madigan, Y. Bengson, S. Madigan, A. F. Hake, J. E. Foley, and B. A. Byrne. 2014. Salmonella Oranienburg isolated from horses, wild turkeys and an edible home garden fertilized with raw horse manure. Zoonoses Public health 61:64-71.

Jensen, H. H., S. Pouliot, T. Wang, and M. T. Jay-Russell. 2014. Development of a cost-effectiveness analysis of Leafy Green Marketing Agreement irrigation water provisions. J Food Prot 77:1038-1042.

Li, B., G. Vellidis, H. Liu, M. Jay-Russell, S. Zhao, Z. Hu, A. Wright, and C. A. Elkins. 2014. Diversity and antimicrobial resistance of Salmonella enterica isolated from surface water in Southeastern U.S. Appl Environ Microbiol.

Li, X., N. Watanabe, C. Xiao, T. Harter, B. McCowan, Y. Liu, and E. R. Atwill. 2014. Antibiotic-resistant E. coli in surface water and groundwater in dairy operations in Northern California. Environmental Monitoring and Assessment 186:1253-1260.

Partyka, M. L., R. F. Bond, J. Farrar, A. Falco, B. Cassens, A. Cruse, and E. R. Atwill. 2014. Quantifying the sensitivity of scent detection dogs to identify fecal contamination on raw produce. J Food Prot 77:6-14.

VanderWaal, K. L., E. R. Atwill, L. A. Isbell, and B. McCowan. 2014. Quantifying microbe transmission networks for wild and domestic ungulates in Kenya. Biological Conservation 169:136-146.

2013

Benjamin, L., E. R. Atwill, M. Jay-Russell, M. Cooley, D. Carychao, L. Gorski, and R. E. Mandrell. 2013. Occurrence of generic Escherichia coli, E. coli O157 and Salmonella spp. in water and sediment from leafy green produce farms and streams on the Central California Coast. Int J Food Microbiol 165:65-76.

Blessington, T., C. G. Theofel, and L. J. Harris. 2013. A dry-inoculation method for nut kernels. Food Microbiol 33:292-297.

Cooley, M. B., M. Jay-Russell, E. R. Atwill, D. Carychao, K. Nguyen, B. Quinones, R. Patel, S. Walker, M. Swimley, E. Pierre-Jerome, A. G. Gordus, and R. E. Mandrell. 2013. Development of a robust method for isolation of shiga toxin-positive Escherichia coli (stec) from fecal, plant, soil and water samples from a leafy greens production region in California. PloS one 8:e65716.

Gorski, L., M. T. Jay-Russell, A. S. Liang, S. Walker, Y. Bengson, J. Govoni, and R. E. Mandrell. 2013. Diversity of Pulsed-Field Gel Electrophoresis Pulsotypes, Serovars, and antibiotic resistance among Salmonella isolates from wild amphibians and reptiles in the California Central Coast. Foodborne Pathog Dis 10:540-548.

Harris, L. J., E. D. Berry, T. Blessington, M. Erickson, M. Jay-Russell, X. Jiang, K. Killinger, F. C. Michel, P. Millner, K. Schneider, M. Sharma, T. V. Suslow, L. Wang, and R. W. Worobo. 2013. A Framework for developing research protocols for evaluation of microbial hazards and controls during production that pertain to the application of untreated soil amendments of animal origin on land used to grow produce that may be consumed raw. J Food Prot 76:1062-1084.

Hoar, B., E. R. Atwill, L. Carlton, J. L. Celis, J. Carabez, and T. Nguyen. 2013. Buffers between grazing sheep and leafy crops augment food safety. California Agriculture 67:104-109.

Jay-Russell, M. T. 2013. What is the risk from wild animals in food-borne pathogen contamination of plants? CAB Reviews 8:1-16.

Jay-Russell, M. T., R. E. Mandrell, J. Yuan, A. Bates, R. Manalac, J. Mohle-Boetani, A. Kimura, J. Lidgard, and W. G. Miller. 2013. using major outer membrane protein typing as an epidemiological tool to investigate outbreaks caused by milk-borne Campylobacter jejuni isolates in California. Journal of Clinical Microbiology 51:195-201.

Kilonzo, C., X. Li, E. J. Vivas, M. T. Jay-Russell, K. L. Fernandez, and E. R. Atwill. 2013. Fecal shedding of zoonotic food-borne pathogens by wild rodents in a major agricultural region of the Central California Coast. Appl Environ Microbiol.

Langholz, J. A., and M. T. Jay-Russell. 2013. Potential role of wildlife in pathogenic contamination of fresh produce. Hum Wildl Interact 7:140-157.

Li, D., L. M. Friedrich, M. D. Danyluk, L. J. Harris, and D. W. Schaffner. 2013. Development and validation of a mathematical model for growth of pathogens in cut melons. J Food Prot 76:953-958.

Pereira, M., B. A. Byrne, T. B. Nguyen, D. J. Lewis, and E. R. Atwill. 2013. The occurrence of subtilase-cytotoxin-encoding genes in environmental Escherichia coli isolated from a Northern California estuary. Can J Microbiol 59:437-441.

Roche, L. M., L. Kromschroeder, E. R. Atwill, R. A. Dahlgren, and K. W. Tate. 2013. Water quality conditions associated with cattle grazing and recreation on national forest lands. PloS one 8:e68127.

Schaffner, D. W., R. L. Buchanan, S. Calhoun, M. D. Danyluk, L. J. Harris, D. Djordjevic, R. C. Whiting, B. Kottapalli, and M. Wiedmann. 2013. Issues to consider when setting intervention targets with limited data for low-moisture food commodities: a peanut case study. J Food Prot 76:360-369.

Vandamm, J. P., D. Li, L. J. Harris, D. W. Schaffner, and M. D. Danyluk. 2013. Fate of Escherichia coli O157:H7, Listeria monocytogenes, and Salmonella on fresh-cut celery. Food Microbiol 34:151-157.

VanderWaal, K. L., E. R. Atwill, S. Hooper, K. Buckle, and B. McCowan. 2013. Network structure and prevalence of Cryptosporidium in Belding’s ground squirrels. Behavioral Ecology and Sociobiology 67:1951-1959.

Williams, T. R., A.-L. Moyne, L. J. Harris, and M. L. Marco. 2013. Season, irrigation, leaf age, and Escherichia coli inoculation influence the bacterial diversity in the lettuce phyllosphere. PloS one 8:e68642.

2012

Abd, S. J., K. L. McCarthy, and L. J. Harris. 2012. Impact of storage time and temperature on thermal inactivation of Salmonella enteritidis pt 30 on oil-roasted almonds. Journal of Food Science 77:M42-M47.

Blessington, T., E. J. Mitcham, and L. J. Harris. 2012. Survival of Salmonella enterica, Escherichia coli O157:H7, and Listeria monocytogenes on inoculated walnut kernels during storage. J Food Prot 75:245-254.

Harris, L. J., J. Bender, E. A. Bihn, T. Blessington, M. D. Danyluk, P. Delaquis, L. Goodridge, A. M. Ibekwe, S. Ilic, K. Kniel, J. T. LeJeune, D. W. Schaffner, D. Stoeckel, and T. V. Suslow. 2012a. A framework for developing research protocols for evaluation of microbial hazards and controls during production that pertain to the quality of agricultural water contacting fresh produce that may be consumed raw. J Food Prot 75:2251-2273.

Harris, L. J., A. R. Uesugi, S. J. Abd, and K. L. McCarthy. 2012. Survival of Salmonella enteritidis PT30 on inoculated almond kernels in hot water treatments. Food Research International 45:1093-1098.

Jay-Russell, M. T., A. Bates, L. Harden, W. G. Miller, and R. E. Mandrell. 2012. Isolation of Campylobacter from feral swine (Sus scrofa) on the ranch associated with the 2006 Escherichia coli O157:H7 Spinach outbreak investigation in California. Zoonoses and Public Health 59:314-319.

Kimber, M. A., H. Kaur, L. Wang, M. D. Danyluk, and L. J. Harris. 2012. Survival of Salmonella, Escherichia coli O157:H7, and Listeria monocytogenes on inoculated almonds and pistachios stored at -19, 4, and 24° C. J Food Prot 75:1394-1403.

Lambertini, E., M. D. Danyluk, D. W. Schaffner, C. K. Winter, and L. J. Harris. 2012. Risk of salmonellosis from consumption of almonds in the North American market. Food Research International 45:1166-1174.

Lewis, D.J., E. R. Atwill, M.d.G.C. Pereira and R.F. Bond. 2012. Spatial and temporal dynamics of fecal coliform and Escherichia coli associated with suspended solids and water within five northern California estuaries. Journal of Environmental Quality 42: 229-238. doi:10.2134/jeq2011.0479.

Park, Y., E. R. Atwill, L. Hou, A. I. Packman, and T. Harter. 2012. Deposition of Cryptosporidium parvum oocysts in porous media: a synthesis of attachment efficiencies measured under varying environmental conditions. Environmental Science and Technology 46:9491-9500.

Unc, A., M. J. Goss, S. Cook, X. Li, E. R. Atwill, and T. Harter. 2012. Analysis of matrix effects critical to microbial transport in organic waste-affected soils across laboratory and field scales. Water Resources Research 48:n/a-n/a.

 

2011

Gorski, L., C. T. Parker, A. Liang, M. B. Cooley, M. T. Jay-Russell, A. G. Gordus, E. R. Atwill, and R. E. Mandrell. 2011. Prevalence, distribution, and diversity of Salmonella enterica in a major produce region of California. Appl Environ Microbiol 77:2734-2748.

Kilonzo, C., E. R. Atwill, R. Mandrell, M. Garrick, V. Villanueva, and B. R. Hoar. 2011. Prevalence and molecular characterization of Escherichia coli O157:H7 by multiple-locus variable-number tandem repeat analysis and pulsed-field gel electrophoresis in three sheep farming operations in California. J Food Prot 74:1413-1421.

Moyne, A.-l., M. R. Sudarshana, T. Blessington, S. T. Koike, M. D. Cahn, and L. J. Harris. 2011. Fate of Escherichia coli O157:H7 in field-inoculated lettuce. Food Microbiology 28:1417-1425.

 

2010

Bansal, A., T. M. Jones, S. J. Abd, M. D. Danyluk, and L. J. Harris. 2010. Most-probable-number determination of Salmonella levels in naturally contaminated raw almonds using two sample preparation methods. J Food Prot 73:1986-1992.

Du, W.-X., S. J. Abd, K. L. McCarthy, and L. J. Harris. 2010. Reduction of Salmonella on inoculated almonds exposed to hot oil. J Food Prot 73:1238-1246.

Du, W.-X., M. D. Danyluk, and L. J. Harris. 2010. Efficacy of aqueous and alcohol-based quaternary ammonium sanitizers for reducing Salmonella in dusts generated in almond hulling and shelling facilities. Journal of Food Science 75:M7-M13.

Jay-Russell, M. T. 2010. Raw (unpasteurized) milk: Are health-conscious consumers making an unhealthy choice? Clinical Infectious Diseases 51:1418-1419.

 

2009

Theofel, C. G., and L. J. Harris. 2009. Impact of preinoculation culture conditions on the behavior of Escherichia coli O157:H7 inoculated onto romaine lettuce (Lactuca sativa) plants and cut leaf surfaces. J Food Prot 72:1553-1559.

Reports

Bond, R. F., M. L. Partyka, and J. A. Chase. 2016. Water Sampling 101. Good Fruit Grower Magazine. July 13th 2016. Article by Shannon Dininny-Good Fruit Grower.

Partyka, M.L., R. F. Bond, and I. Hanrahan. 2016. Water Sampling Done Simply. Washington State University Tree Fruit Extension. Washington State University/Washington State Tree Fruit Research Commission/Western Center for Food Safety.

Partyka, M. L., R. F. Bond, and E. R. Atwill. 2016. Grazing management practice implementation and assessment in one or more targeted watersheds in the Lahontan Region, or “Rivers and Ranches” Final Report prepared for the Lahontan Regional Water Quality Control Board, Agreement Number (BSTP-UCD-11-01).

 

Flores, K., X. Li, E. R. Atwill, C. Xiao, D. Pedersen, T. Nguyen, K. W. Tate, R. K. Pisano, P. Lor, and J. A. Chase. 2014. Statewide coordination of a science-based response to waterborne pathogen concerns of beef cattle on California rangelands. Final Report: Russell L. Rustici Rangeland and Cattle Research Endowment, CAES, UC Davis. March 31.

K. W. Tate, R. A. Dahlgren, L. M. Roche, B. M. Karle, and E. R. Atwill. 2014. Management practices to improve water quality on central and western rangelands. Duke University, Durham, NC.

Partyka, M. L. and E. R. Atwill. 2014. Summary Report for the Western US Irrigation Water Conference. in Western US Irrigation Water Conference, University of California, Davis.

2013

Atwill, E. R., J. A. Chase, M. L. Partyka. 2013. Final Report: Optimizing produce sampling for detection of E. coli O157:H7, E. coli O145, E. coli O103 and Salmonella on romaine and iceberg lettuce. California Department of Public Health. November 19. pp 1-15.

Atwill, E. R. 2013. Opportunities and threats to widespread adoption of bacterial standards for agricultural water. Food Safety, Security, and Defense: Focus on Food and Water; Institute for Science and Global Policy. Lincoln, Nebraska. October 20-23

Palumbo, M., L. J. Harris, and M. D. Danyluk. 2013. Survival of foodborne pathogens on berries. FSHN13-12.  Food Science and Human Nutrition Department, Florida Cooperative Extension Service, Institute of Food and Agricultural Sciences, University of Florida.

Palumbo, M., L. J. Harris, and M. D. Danyluk. 2013. Outbreaks of foodborne illness associated with common berries, 1983 through May 2013. FSHN13-08. Food Science and Human Nutrition Department, Florida Cooperative Extension Service, Institute of Food and Agricultural Sciences, University of Florida.

2012

Harris, L. J. 2012. Prevention and control of Salmonella and enterohemorrhagic E. coli in tree nuts (p. 1–4). FAO, Emergency Prevention System (EMPRES) Food Safety, Lessons Learned Series No. 2.

Danyluk, M. D., R. M. Goodrich-Schneider, K. R. Schneider, L. J. Harris, and R. W. Worobo. 2012. Outbreaks of foodborne disease associated with fruit and vegetable juices, 1922-2010.  FSHN12-04.  Food Science and Human Nutrition Department, Florida Cooperative Extension Service, Institute of Food and Agricultural Sciences, University of Florida.

2011

Atwill, E. R. and J. A. Chase. 2011. Ambient monitoring of bacterial indicators and enteric pathogens (Salmonella & E. coli O157:H7) along California’s central coastal watersheds. Prepared for Central Coast Ambient Monitoring Program, Central Coast Regional Water Quality Control Board, Contract #08-051-130, Western Institute for Food Safety and Security.

Atwill, E. R., L. Harris, M. Jay-Russell, and K. W. Tate. 2011. Epidemiologic analysis and risk management practices for reducing E. coli in irrigation source water supplies and distribution systems., University of California, Davis, Center for Produce Safety.

Atwill, E. R., M. L. Partyka, and E. Lambertini. 2011. Final Report: Epidemiologic analysis and risk management practices for reducing E. coli in irrigation source water supplies and distribution systems. Center for Produce Safety, University of California, Davis. December 2. pp 1-22

2010

Bond, R. F., M. L. Partyka, J. A. Chase, and E. R. Atwill. 2010. Source identification, optimized monitoring, and local outreach for reducing animal agricultural inputs of pathogens into the Sacramento-San Joaquin Delta Estuary., Final Report prepared for the Central Valley Regional Water Quality Control Board, Agreement Number (04-122-555-0).

Perry, E., L. J. Harris, M. Giovanni, D. Metz, and C. Bruhn. 2010. Nuts: Safe methods for home gardeners to harvest, store, and enjoy. Almonds, chestnuts, pecans, pistachios, and walnuts. University of California, Agriculture and Natural Resources, Publication 8407.

Books

Michele Jay-Russell, Michael P. Doyle (editors) Food Safety Risks From Wildlife – Challenges in Agriculture, Conservation, and Public Health. 2016. Springer. New York. Contributing Author: Amanda Arens, Cheryl Scott, Bennie Osburn – A One Health Approach to Wildlife and Food Safety p 241-248

Harris, L. J., A. R. Bontempo, T. Jones, and A. R. Uesugi. 2014. Nut meats. In K. Ito (ed.), The compendium of methods for the microbiological examination of foods, 5th ed. American Public Health Association, Washington, DC.

2013

Chen, S., X. Li, J. Li, and E. R. Atwill. 2013. Rapid Detection of Brucella spp. Using Loop-Mediated Isothermal Amplification (LAMP). Pages 99-108 in D. M. Kolpashchikov and Y. V. Gerasimova, editors. Nucleic Acid Detection: Methods and Protocols. Humana Press Inc, Totowa, NJ.

Harris, L. J., and L. Ferguson. 2013. Improving the safety of almonds and pistachios. Pages 350-378 Improving the Safety and Quality of Nuts. Woodhead Publishing. Philadelphia, PA.

Harris, L. J., J. R. Shebuski, M. D. Danyluk, M. S. Palumbo, and L. R. Beuchat. 2013. Nuts, Seeds, and Cereals. in M. P. Doyle and R. L. Buchanan, editors. Food Microbiology: Fundamentals and Frontiers. American Society for Microbiology Press, Washington, DC.

2012

Atwill, E. R., M. L. Partyka, R. F. Bond, X. Li, C. Xiao, B. Karle, and L. Kiger. 2012. An introduction to waterborne pathogens in agricultural watersheds. 2nd edition. Nutrient Management Technical Note No. 9. National Resource Conservation Service (NRCS), United States Department of Agriculture. Washington DC.

Gannon, V. P. J., D. Grace, E.R Atwill. 2012. Animal Waste, Water Quality and Human Health. World Health Organization, Emerging Issues in Water & Infectious Disease Series. IWA Publishing, London, UK.

Abstracts & Posters