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Dr. Alan Franklin

Contact Information

Title: Project Leader

Address: NWRC, 4101 LaPorte Avenue, Fort Collins, Colorado 80521

Telephone: 970-266-6137                                                         

Fax: 970-266-6138



NWRC Research ProjectWildlife-Associated Pathogens Affecting Agricultural Health, Food Security, and Food Safety



Ph.D., Colorado State University, Wildlife Ecology, Factors affecting temporal and spatial variation in northern spotted owl populations

M.S., Humbolt State University, Natural Resources, Breeding biology of great gray owls

B.S., Cornell University, Wildlife Science

International Experience

  • Kenya (avian influenza in wild birds)
  • China (avian influenza in wild birds)
  • South Africa (conducted training in distance sampling)
  • Mexico (management of spotted owls)
  • Galapagos Islands, Ecuador (biological and geological research)


Dr. Alan Franklin is Project Leader for the Wildlife Pathogens and Food Security & Safety Project. Dr. Franklin's expertise is primarily on the ecology and dynamics of wildlife populations, particularly in integrating quantitative analysis of empirical data with ecological theory and integrating wildlife population ecology with wildlife disease ecology. He currently works on avian influenza surveillance and monitoring in wildlife, and ecology of pathogenic and antimicrobial resistant bacteria in wildlife populations at the wildlife-agricultural interface.

Recent Publications

Bevins, S.N., M. Lutman, K. Pedersen, N. Barrett, T. Gidlewski, T.J. DeLiberto, and A.B. Franklin. 2018. Spillover of swine coronaviruses, United States. Emerging Infectious Diseases 24(7):1390-1392. doi: 10.3201/eid2407.172077

Franklin, A.B., P.C. Carlson, A. Rex, J.T. Rockweit, D.Garza, E. Culhane, S.F. Volker, R.J. Dusek, V.I. Shearn-Bochsler, M.W. Gabriel, and K.E. Horak. 2018. Grass is not always greener: rodenticide exposure of a threatened species near marijuana growing operations. BMC Research Notes 11:94. doi: 10.1186/s13104-018-3206-z

Miller, M.P., S.M. Haig, E.D. Forsman, R.G. Anthony, L. Diller, K.M. Dugger, A.B. Franklin, T.L. Fleming, S. Gremel, D.B. Lesmeister, M. Higley, D.R. Herter, and S.G. Sovern. 2018. Variation in inbreeding rates across the range of Northern Spotted Owls (Strix occidentalis caurina): Insights from over 30 years of monitoring data. The Auk 135(4):821-833. doi: 10.1642/AUK-18-1.1

Schaeffer, J.W., J.C. Chandler, M. Davidson, S.L. Magzamen, A. Perez-Mendez, S.J. Reynolds, L.D. Goodridge, J. Volckens, A.B. Franklin, S.A. Shriner, and B. Bisha. 2018. Detection of viruses from bioaerosols using anion exchange resin. Journal of Visualized Experiments 138:e58111. doi: 10.3791/58111

Chandler, J.C., J.W. Schaeffer, M. Davidson, S.L. Magzamen, A. Perez-Mendez, S.J. Reynolds, L.D. Goodridge, J. Volckens, A.B. Franklin, S.A. Shriner, and B. Bisha. 2017. A method for the improved detection of aerosolized influenza viruses and the male-specific (F+) RNA coliphage MS2.Journal of Virological Methods 246:38-41.  doi: 10.1016/j.jviromet.2017.04.004

Dannemiller, N.G., C.T. Webb, K.R. Wilson, K.T. Bentler, N.L. Mooers, J.W. Ellis, J.J. Root, A.B. Franklin, and S.A. Shriner. 2017. Impact of body condition on influenza A virus infection dynamics in mallards following a secondary exposure. Plos ONE 12(4): e0175757.  doi: 10.1371/journal.pone.0175757

Rockweit, J.T., A.B. Franklin, and P.C. Carlson. 2017. Differential impacts of wildfire on the population dynamics of an old-forest species.Ecology 98(6):1574-1582.  doi: 10.1002/ecy.1805

Root, J.J., S.A. Shriner, J.W. Ellis, K.K. VanDalen, and A.B. Franklin. 2017. Transmission of H6N2 wild bird-origin influenza A virus among multiple bird species in a stacked-cage setting. Archives of Virology 162(9):2617-2624. doi: 10.1007/s00705-017-3397-y

Shriner, S.A., J.J. Root, N.L. Mooers, J.W. Ellis, S.R. Stopak, H.J. Sullivan, K.K. VanDalen, and A.B. Franklin. 2016. Susceptibility of rock doves to low-pathogenic avian influenza A viruses. Archives of Virology 161:715-720.   doi:  10.1007/s00705-015-2685-7  

Franklin, A.B. and K.C. VerCauteren. 2016. Keeping wildlife out of your food: Mitigation and control strategies to reduce the transmission risk of food-borne pathogens. In M. Jay-Russell and M. P. Doyle, editors. Food Safety Risks from Wildlife. Springer International Publishing. Pgs.183-199.  doi: 10.1007/978-3-319-24442-6_8

Duggar, K.M., E.D. Forsman, A.B. Franklin, R.J. Davis, G.C. White, et al. 2016. The effects of habitat, climate, and Barred Owls on long-term demography of Northern Spotted Owls. The Condor. 118:57-116.  doi: 10.1650/CONDOR-15-24.1  

Root, J.J., S.A. Shriner, J.W. Ellis, K.K. VanDalen, H.J. Sullivan, and A.B. Franklin. 2015. When fur and feather occur together: Interclass transmission of avian influenza A virus from mammals to birds through common resources. Scientific Reports 5:14354.  doi: 10.1038/srep14354

Lewicki, K.E., K.P. Huyvaert, A.J. Piaggio, L.V. Diller, and  A.B. Franklin. 2015. Effects of barred owl (Strix varia) range expansion on Haemoproteus parasite assemblage dynamics and transmission in barred and northern spotted owls (Strix occidentalis caurina). Biological Invasions 17(6):1713-1727. doi: 10.1007/s10530-014-0828-5

Bevins, S. N., and A. B. Franklin. One health in action: Reducing feral swine damage and disease. One Health Newsletter 7(2):4-6

Root, J.J., S.A. Shriner, K.T. Bentler, T. Gidlewski, N.L. Mooers, J.W. Ellis, T.R. Spraker, K.K. VanDalen, H.J. Sullivan, and A.B. Franklin. 2014. Shedding of a low pathogenic Avian Influenza virus in a common synanthropic mammal - the cottontail rabbit . PLoSOne 9(8): e102513. doi: 10.1371/journal.pone.0102513.

Root, J.J., K.T. Bentler, S.A. Shriner, N.L. Mooers, K.K. VanDalen, H.J. Sullivan, and A.B. Franklin. 2014. Ecological routes of Avian Influenza virus transmission to a common mesopredator: An experimental evaluation of alternatives . PLoSONE 9(8): e102964. doi: 10.1371/journal.pone.0102964.

Pepin, K.M., E. Spackman, J.D. Brown, K.L. Pabilonia, L.P. Garber, J.T. Weaver, D.A. Kennedy, K.A. Patyk, K.P. Huyvaert, R.S. Miller, A.B. Franklin, K. Pedersen, T.L. Bogich, P. Rohani, S.A. Shriner, C.T. Webb, and S. Riley. 2014. Using quantitative disease dynamics as a tool for guiding response to avian influenza in poultry in the United States of AmericaPreventive Veterinary Medicine 113(4): 376-397. doi: 10.1016/j.prevetmed.2013.11.011.

Root, J.J., S.A. Shriner, K.T. Bentler, T. Gidlewski, N.L. Mooers, J.W. Ellis, T.R. Spraker, K.K. VanDalen, H.J. Sullivan, A.B. Franklin. 2014. Extended viral shedding of a low pathogenic avian influenza virus by striped skunks (Mephitis mephitis). PLoS ONE 9(1): e70639. doi: 10.1371/journal.pone.0070639.

Dolbeer, R.A. and A.B. Franklin. 2013. Population management to reduce the risk of wildlife-aircraft collisions. Pages 67-75 in T.L. DeVault, B.F. Blackwell, and J.L. Belant, editors. Wildlife in Airport Environments: Preventing Animal-Aircraft Collisions through Science-Based Management. The Johns Hopkins University Press, Baltimore, Maryland, in association with The Wildlife Society.

Franklin A.B., K.C. VerCauteren, H. Maguire, M.K. Cichon, J.W. Fischer, M.J. Lavelle, A. Powell, J.J. Root, E. Scallan. 2013. Wild Ungulates as Disseminators of Shiga Toxin-Producing Escherichia coli in Urban Areas. PLoS ONE 8(12):e81512 doi:10.1371/journal.pone.0081512.

Oesterle, P.T., K.P. Huyvaert, D. Orahood, N. Mooers, H. Sullivan, A.B. Franklin, and J.J. Root. 2013. Failure of transmission of low-pathogenic avian influenza virus between mallards and freshwater snails: an experimental evaluation. Journal of Wildlife Diseases 49(4): 911-919. doi: 10.7589/2012-04-111.

Ofula, V.O., A.B. Franklin, J.J. Root, H.J. Sullivan, P. Gichuki, A. Makio, W. Bulimo, B.O. Abong'o, M. Muchai, and D. Schnabel. 2013. Detection of avian influenza viruses in wild waterbirds in the Rift Valley of Kenya using fecal sampling. Vector-Borne and Zoonnotic Diseases 13(6): 394-400. doi: 10.1089/vbz.2011.0926.

Carlson J.C., Ellis J.W., Tupper S.K., Franklin A.B., Linz G.M. (2012) The effect of European starlings and ambient air temperature on Salmonella enterica contamination within cattle feed bunks. Human-Wildlife Interactions 6:64-71.

Huyvaert K.P., Carlson J.S., Bentler K.T., Cobble K.R., Nolte D.L., Franklin A.B. (2012) Freshwater Clams As Bioconcentrators of Avian Influenza Virus in Water. Vector Borne Zoonotic Diseases 12:904-906. DOI: 10.1089/vbz.2012.0993.

Pepin K.M., VanDalen K.K., Mooers N.L., Ellis J.W., Sullivan H.J., Root J.J., Webb C.T., Franklin A.B., Shriner S.A. (2012) Quantification of heterosubtypic immunity between avian influenza subtypes H3N8 and H4N6 in multiple avian host species. Journal of General Virology 93:2575-2583.

Piaggio A.J., Shriner S.A., VanDalen K.K., Franklin A.B., Anderson T.D., Kolokotronis S.O. (2012) Molecular Surveillance of Low Pathogenic Avian Influenza Viruses in Wild Birds across the United States: Inferences from the Hemagglutinin Gene. PLoS ONE 7.

Rockweit J.T., Franklin A.B., Bakken G.S., Gutiérrez R.J. (2012) Potential Influences of Climate and Nest Structure on Spotted Owl Reproductive Success: A Biophysical Approach. PLoS ONE 7:e41498. DOI: 10.1371/journal.pone.0041498.

Shriner S.A., VanDalen K.K., Mooers N.L., Ellis J.W., Sullivan H.J., Root J.J., Pelzel A.M., Franklin A.B. (2012) Low-pathogenic avian influenza viruses in wild house mice. PLoS ONE 7:e39206. DOI: 10.1371/journal.pone.0039206.

Carlson J.C., Franklin A.B., Hyatt D.R., Pettit S.E., Linz G.M. (2011) The role of starlings in the spread of Salmonella within concentrated animal feeding operations. Journal of Applied Ecology 48:479-486.

Carlson J.C., Linz G.M., Ballweber L.R., Elmore S.A., Pettit S.E., Franklin A.B. (2011) The role of European starlings in the spread of coccidia within concentrated animal feeding operations. Veterinary Parasitology 180:340-343.

Forsman E.D., Anthony R.G., Dugger K.M., Glenn E.M., Franklin A.B., White G.C., Schwarz C.J., Burnham K.P., Anderson D.R., Nichols J.D., Hines J.E., Lint J.B., Davis J.D., Ackers S.H., Andrews L.S., Biswell B.L., Carlson P.C., Diller L.V., Gremel S.A., Herter D.R., Higley J.M., Horn R.B., Reid J.A., Rockweit J., Schaberl J.P., Snetsinger T.J., Sovern S.G. (2011) Population demography of northern spotted owls. University of California Press, Berkeley, CA.

Franklin A.B., VanDalen K.K., Huyvaert K.P. (2011) Avian influenza virus in aquatic environments--an ecological perspective, in: S. K. Majumdar, et al. (Eds.), Pandemics influenza viruses: science, surveillance and public health. Pennsylvania Academy of Science, Easton, PA. pp. 59-72.

Van Lanen N.J., Franklin A.B., Huyvaert K.P., Reiser Ii R.F., Carlson P.C. (2011) Who hits and hoots at whom? Potential for interference competition between barred and northern spotted owls. Biological Conservation 144:2194-2201.

Blakesley J.A., Seamans M.E., Conner M.M., Franklin A.B., White G.C., Gutiérrez R.J., Hines J.E., Nichols J.D., Munton T.E., Shaw D.W.H., Keane J.J., Steger G.N., McDonald T.L. (2010) Population dynamics of spotted owls in the Sierra Nevada, California. Wildlife Monographs 174: 1-36.

Blitvitch B.J., Ibara-Juarez L.A., Cortes-Guzman A.J., Root J.J., Franklin A.B., Sullivan H.J., Fernandez-Salas I. (2010) Seroprevalence of equine influenza virus in northeast and southern Mexico. Veterinary Record 166:565-566.

Loroño-Pino M.A., Frfan-Ale J.A., Garcia-Rejon J.E., Rosado-Paredes E., Puerto F.I., Lin M., Blitvich B.J., Bates A., Root J.J., Franklin A.B., Sullivan H.J. (2010) Antibodies to influenza and West Nile viruses in horses in Mexico. Veterinary Record 166:22-24.

McClintock B.T., Nichols J.D., Bailey L.L., MacKenzie D.I., Kendall W.L., Franklin A.B. (2010) Seeking a second opinion: Uncertainty in disease ecology. Ecology Letters 13:659-674.

Piaggio A.J., Clark L., Franklin A.B., Kolokotronis S.O. (2010) Erratum: Wild bird's-eye view of influenza virus A(H1N1) phylogenetic evolution (EcoHealth (2009) 6 (346-350) DOI: 10.1007/S10393-009-0270-9). EcoHealth 7:408-409.

Root J.J., Bentler K.T., Nemeth N.M., Gidlewski T., Spraker T.R., Franklin A.B. (2010) Experimental infection of raccoons (Procyon lotor) with West Nile virus. American Journal of Tropical Medicine and Hygiene 83:803-807.

Root J.J., Bentler K.T., Sullivan H.J., Blitvich B.J., McLean R.G., Franklin A.B. (2010) Antibody responses of raccoons naturally exposed to influenza A virus. Vector Borne Zoonotic Dis 10:821-3. DOI: 10.1089/vbz.2009.0184.

VanDalen K.K., Franklin A.B., Mooers N.L., Sullivan H.J., Shriner S.A. (2010) Shedding light on avian influenza H4N6 infection in mallards: modes of transmission and implications for surveillance. PloS one 5.
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