Publications
Follow my research on Google Scholar and ResearchGate.
Peer-reviewed articles
†Equal contribution
2024
Cortes-Azuero O, Lefrancq N, Nikolay B, McKee C, Cappelle J, Hul V, Ou TP, Hoem T, Lemey P, Rahman MZ, Islam A, Gurley ES, Duong V, Salje H. The genetic diversity of Nipah virus across spatial scales. The Journal of Infectious Diseases; jiae221. PDF
Jung S-m, Loo SL, Howerton E, Contamin L, Smith CP, Carcelén EC, Yan K, Bents SJ, Levander J, Espino J, Lemaitre JC, …, McKee CD, …, Lessler J. Potential impact of annual vaccination with reformulated COVID-19 vaccines: lessons from the US COVID-19 scenario modeling hub. PLOS Medicine 21(4): e1004387. PDF
Lemaitre JC, Loo SL, Kaminsky J, Lee EC, McKee C, Smith C, Jung S-m, Sato K, Carcelen E, Hill A, Lessler J, Truelove S. flepiMoP: the evolution of a flexible infectious disease modeling pipeline during the COVID-19 pandemic. Epidemics. 2024; 47: 100753. PDF
2023
Howerton E, Contamin L, Mullany LC, Qin MM, Reich NG, Bents SJ, Borchering RK, Jung SM, Loo SL, Smith CP, Levander J, …, McKee C, …, Viboud C, Lessler J. Evaluation of the US COVID-19 Scenario Modeling Hub for informing pandemic response under uncertainty. Nature Communications. 2023; 14: 7260. PDF
Fagre AC, Islam A, Reeves WK, Kading RC, Plowright RK, Gurley ES, McKee CD. Bartonella infection in fruit bats and bat flies, Bangladesh. Microbial Ecology. 2023; 86: 2910–2922. PDF
Szentiványi T, McKee C, Jones G, Foster JT. Trends in bacterial pathogens of bats: global distribution and knowledge gaps. Transboundary and Emerging Diseases. 2023; 9285855. PDF
2022
Seidlova V, Straková P, Kejíková R, Nemcova M, Bartonička T, Salát J, Dufková L, Šikutová S, Mendel J, McKee C, Zukal J, Pikula J, Rudolf I. Detection of Leptospira species in bat cadavers, Czech and Slovak Republics. Emerging Microbes & Infections. 2022; 11(1): 2211–2213. PDF
Kejíková R, McKee C, Straková P, Šikutová S, Mendel J, Rudolf I. First detection of Bartonella spp. in bat bugs Cimex pipistrelli (Hemiptera: Cimicidae), Central Europe. Parasitology Research. 2022; 121: 3341–3345. PDF
Goodrich I, McKee C, Margos G, Kosoy M. Molecular characterization of a novel relapsing fever Borrelia species from the desert cottontail (Sylvilagus audubonii) in New Mexico, USA. Journal of Wildlife Diseases. 2022; 58(3): 646–651. PDF
McKee CD†, Islam A†, Rahman MZ, Khan SU, Rahman M, Satter SM, Islam A, Yinda CK, Epstein JH, Daszak P, Munster VJ, Hudson PJ, Plowright RK, Luby SP, Gurley ES. Nipah virus detection at bat roosts after spillover events, Bangladesh, 2012–2019. Emerging Infectious Diseases. 2022; 28(7): 1384–1392. PDF
Rice BL†, Lessler J†, McKee C†, Metcalf CJE†. Why do some coronaviruses become pandemic threats when others do not? PLOS Biology. 2022; 20(5): e3001652. PDF
Ruiz-Aravena M†, McKee C†, Gamble A, Lunn T, Morris A, Snedden CE, Yinda CK, Port JR, Buchholz DW, Yeo YY, Faust C, Jax E, Dee L, Jones DN, Kessler MK, Falvo C, Crowley D, Bharti N, Brook CE, Aguilar HC, Peel AJ, Restif O, Schountz T, Parrish CR, Gurley ES, Lloyd-Smith JO, Hudson PJ, Munster VJ, Plowright RK. Ecology, evolution and spillover of coronaviruses from bats. Nature Reviews Microbiology. 2022; 20: 299–314. PDF
Redd AD, Peetluk LS, Jarrett BA, Hanrahan C, Schwartz S, Rao A, Jaffe AE, Peer AD, Jones CB, Lutz CS, McKee CD, Patel EU, Rosen JG, Garrison Desany H, McKay HS, Muschelli J, Andersen KM, Link MA, Wada N, Baral P, Young R, Boon D, Grabowski MK, Gurley ES, the Novel Coronavirus Research Compendium Team. Curating the evidence about COVID-19 for frontline public health and clinical care: the Novel Coronavirus Research Compendium. Public Health Reports. 2022; 137(2): 197–202. PDF
2021
Islam A, McKee C, Ghosh PK, Abedin J, Epstein JH, Daszak P, Luby SP, Khan SU, Gurley ES. Seasonality of date palm sap feeding behavior by bats in Bangladesh. EcoHealth. 2021; 18: 359–371. PDF
Zorrilla VO, Lozano ME, Espada LJ, Kosoy M, McKee C, Valdivia HO, Arevalo H, Troyes M, Stoops CA, Fisher ML, Vásquez GM. Comparison of sand fly trapping approaches for vector surveillance of Leishmania and Bartonella species in ecologically distinct, endemic regions of Peru. PLOS Neglected Tropical Diseases. 2021; 15(7): e0009517. PDF
McKee CD, Islam A, Luby SP, Salje H, Hudson PJ, Plowright RK, Gurley ES. The ecology of Nipah virus in Bangladesh: a nexus of land-use change and opportunistic feeding behavior in bats. Viruses. 2021; 13(2): 169. PDF
McKee C, Bai Y, Webb C, Kosoy M. Bats are key hosts in the radiation of mammal-associated Bartonella bacteria. Infection, Genetics and Evolution. 2021; 89: 104719. PDF
2020
Goodrich I, McKee C, Kosoy M. Trypanosoma (Herpetosoma) diversity in rodents and lagomorphs of New Mexico with a focus on epizootological aspects of infection in Southern Plains woodrats (Neotoma micropus). PLOS ONE. 2020; 15(12): e0244803. PDF
Rudolf I, Blažejová H, Mendel J, Straková P, Šebesta O, Rettich F, Čabanová V, Miterpáková M, Betášová L, Peško J, Barbušinová E, McKee C, Osikowicz L, Šikutová S, Hubálek Z, Kosoy M. Bartonella species in medically important mosquitoes, Central Europe. Parasitology Research. 2020; 119(8): 2713–2717. PDF
Goodrich I, McKee C, Kosoy M. Longitudinal study of bacterial infectious agents in a community of small mammals in New Mexico. Vector-Borne and Zoonotic Diseases. 2020; 20(7): 496–508. PDF
2019
McKee CD, Krawczyk AI, Sándor AD, Görföl T, Földvári M, Földvári G, Dekeukeleire D, Haarsma A-J, Kosoy MY, Webb CT, Sprong H. Host phylogeny, geographic overlap, and roost sharing shape parasite communities in European bats. Frontiers in Ecology and Evolution. 2019; 7: 69. PDF
2018
Bai Y, Osinubi MOV, Osikowicz L, McKee C, Vora NM, Rizzo MR, Recuenco S, Davis L, Niezgoda M, Ehimiyein AM, Kia GSN, Oyemakinde A, Adeniyi OS, Gbadegesin YH, Saliman OA, Ogunniyi A, Ogunkoya AB, Kosoy MY, Idanre Bat Festival Investigation Team. Human exposure to novel Bartonella species from contact with fruit bats. Emerging Infectious Diseases. 2018; 24(12): 2317–23. PDF
Kellner A, Carver S, Scorza V, McKee CD, Lappin M, Crooks KR, VandeWoude S, Antolin MF. Transmission pathways and spillover of an erythrocytic bacterial pathogen from domestic cats to wild felids. Ecology and Evolution. 2018; 8(19): 9779–9792. PDF
McKee CD, Osikowicz LM, Schwedhelm TR, Maes SE, Enscore RE, Gage KL, Kosoy MY. Acquisition of Bartonella elizabethae by experimentally exposed oriental rat fleas (Xenopsylla cheopis; Siphonaptera, Pulicidae) and excretion of Bartonella DNA in flea feces. Journal of Medical Entomology. 2018; 55(5): 1292–1298. PDF
Kosoy M†, McKee C†, Albayrak L, Fofanov Y. Genotyping of Bartonella bacteria and their animal hosts: current status and perspectives. Parasitology. 2018; 145(5): 543–562. PDF
Gorsich EE, McKee CD, Grear DA, Miller RS, Portacci K, Lindström T, Webb CT. Model-guided suggestions for targeted surveillance based on cattle shipments in the U.S. Preventive Veterinary Medicine. 2018; 150: 52–59. PDF
McKee CD, Osikowicz LM, Schwedhelm TR, Bai Y, Castle KT, Kosoy MY. Survey of parasitic bacteria in bat bugs, Colorado. Journal of Medical Entomology. 2018; 55(1): 237–241. PDF
2017
McKee CD, Kosoy MY, Bai Y, Osikowicz LM, Franka R, Gilbert AT, Boonmar S, Rupprecht CE, Peruski LF. Diversity and phylogenetic relationships among Bartonella strains from Thai bats. PLOS ONE. 2017; 12(7): e0181696. PDF
Urushadze L, Bai Y, Osikowicz L, McKee C, Sidamonidze K, Putkaradze D, Imnadze P, Kandaurov A, Kuzmin I, Kosoy M. Prevalence, diversity, and host associations of Bartonella strains in bats from Georgia (Caucasus). PLOS Neglected Tropical Diseases. 2017; 11(4): e0005428. PDF
Bai Y, Urushadze L, Osikowicz L, McKee C, Kuzmin I, Kandaurov A, Babuadze G, Natradze I, Imnadze P, Kosoy M. Molecular survey of bacterial zoonotic agents in bats from the country of Georgia (Caucasus). PLOS ONE. 2017; 12(1): e0171175. PDF
2016
McKee CD, Hayman DTS, Kosoy MY, Webb CT. Phylogenetic and geographic patterns of bartonella host shifts among bat species. Infection, Genetics and Evolution. 2016; 44: 382–394. PDF
2015
Zinzow-Kramer WM, Horton BM, McKee CD, Michaud JM, Tharp GK, Thomas JW, Tuttle EM, Yi S, Maney DL. Genes located in a chromosomal inversion are correlated with territorial song in white-throated sparrows. Genes, Brain and Behavior. 2015; 14(8): 641–654. PDF
Bai Y, Hayman DTS, McKee CD, Kosoy MY. 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. 2015; 9(1): e0003478. PDF
Preprints
McKee CD, Yu EX, Garcia A, Jackson J, Koyuncu A, Rose S, Azman AS, Lobner K, Sacks E, Van Kerkhove MD, Gurley ES. Superspreading of SARS-CoV-2: a systematic review and meta-analysis of event attack rates and individual transmission patterns. medRxiv. 2024. PDF
Mathis SM, Webber AE, Basu A, Drake JM, White LA, Murray EL, Sun M, Leon TM, Hu AJ, Shemetov D, Brooks LC, …, McKee CD, …, Borchering RK. Evaluation of FluSight influenza forecasting in the 2021-22 and 2022-23 seasons with a new target laboratory-confirmed influenza hospitalizations. medRxiv. 2023. PDF
McKee CD, Webb CT, Kosoy MY, Bai Y, Osikowicz LM, Suu-Ire R, Ntiamoa-Baidu Y, Cunningham AA, Wood JL, Hayman DT. Manipulating vector transmission reveals local processes in bacterial communities of bats. bioRxiv. 2021. PDF
Other contributions
The Flexible Epidemic Modeling Pipeline (flepiMoP): a software suite for simulating a wide range of compartmental models of infectious disease transmission. Available at: https://www.flepimop.org/.
2019 Novel Coronavirus Research Compendium (NCRC). 2021. Available at: https://ncrc.jhsph.edu/.
Owers K, McKee C, Hallman C, Portacci L, Miller R, Lindström T, Webb C. 2015. USAMM R Shiny Visualization. Available at: https://usamm-gen-net.shinyapps.io/usamm-gen-net/.