{"id":113,"date":"2023-10-23T17:12:13","date_gmt":"2023-10-24T00:12:13","guid":{"rendered":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/?page_id=113"},"modified":"2025-10-20T12:09:08","modified_gmt":"2025-10-20T19:09:08","slug":"publications-2","status":"publish","type":"page","link":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/publications-2\/","title":{"rendered":"Publications"},"content":{"rendered":"\n<style type=\"text\/css\" data-created_by=\"avia_inline_auto\" id=\"style-css-av-lo3kodni-858ef6dca842bff85f7dbf5381b41105\">\n#top .av-special-heading.av-lo3kodni-858ef6dca842bff85f7dbf5381b41105{\npadding-bottom:10px;\n}\nbody .av-special-heading.av-lo3kodni-858ef6dca842bff85f7dbf5381b41105 .av-special-heading-tag .heading-char{\nfont-size:25px;\n}\n.av-special-heading.av-lo3kodni-858ef6dca842bff85f7dbf5381b41105 .av-subheading{\nfont-size:15px;\n}\n<\/style>\n<div  class='av-special-heading av-lo3kodni-858ef6dca842bff85f7dbf5381b41105 av-special-heading-h2 blockquote modern-quote  avia-builder-el-0  el_before_av_one_full  avia-builder-el-first '><h2 class='av-special-heading-tag '  itemprop=\"headline\"  >Publications<\/h2><div class=\"special-heading-border\"><div class=\"special-heading-inner-border\"><\/div><\/div><\/div>\n<div  class='flex_column av-bfaex-c2ccdc08797e0c8077e3a8feb446196a av_one_full  avia-builder-el-1  el_after_av_heading  el_before_av_heading  first flex_column_div  '     ><p>\n<style type=\"text\/css\" data-created_by=\"avia_inline_auto\" id=\"style-css-av-lo4ha4gi-d6c08acc5e968f40018cfe581a970006\">\n#top .hr.hr-invisible.av-lo4ha4gi-d6c08acc5e968f40018cfe581a970006{\nheight:10px;\n}\n<\/style>\n<div  class='hr av-lo4ha4gi-d6c08acc5e968f40018cfe581a970006 hr-invisible  avia-builder-el-2  el_before_av_heading  avia-builder-el-first '><span class='hr-inner '><span class=\"hr-inner-style\"><\/span><\/span><\/div><br \/>\n\n<style type=\"text\/css\" data-created_by=\"avia_inline_auto\" id=\"style-css-av-lo3nfj1l-9643613583c9ed4d07f1688b94deb1ac\">\n#top .av-special-heading.av-lo3nfj1l-9643613583c9ed4d07f1688b94deb1ac{\npadding-bottom:10px;\n}\nbody .av-special-heading.av-lo3nfj1l-9643613583c9ed4d07f1688b94deb1ac .av-special-heading-tag .heading-char{\nfont-size:25px;\n}\n.av-special-heading.av-lo3nfj1l-9643613583c9ed4d07f1688b94deb1ac .av-subheading{\nfont-size:15px;\n}\n<\/style>\n<div  class='av-special-heading av-lo3nfj1l-9643613583c9ed4d07f1688b94deb1ac av-special-heading-h3  avia-builder-el-3  el_after_av_hr  el_before_av_textblock '><h3 class='av-special-heading-tag '  itemprop=\"headline\"  >Journal Articles<\/h3><div class=\"special-heading-border\"><div class=\"special-heading-inner-border\"><\/div><\/div><\/div><br \/>\n<section  class='av_textblock_section av-lo3ko2lh-89ce6bcc93b05bb7a6a282c406e595e6 '   itemscope=\"itemscope\" itemtype=\"https:\/\/schema.org\/CreativeWork\" ><div class='avia_textblock'  itemprop=\"text\" ><h2><\/h2>\n<h3 style=\"padding-left: 40px\"><i>2025<\/i><\/h3>\n<p style=\"padding-left: 40px\">Friant, J. Mistrick, A.D. Luis, C. Harden, D. Simons, E. Fichet-Calvet, R. Gibb, N. Grube, H. Henttonen, N. Imirizian, L. Moses, G.H. Perry, D. Redding, N. Chr Stenseth, K. Vandegrift, O.N. Bjornstad, A. Dobson, J.O. Lloyd-Smith, P.J. Hudson. (2025) Reducing the threats of rodent-borne diseases requires understanding and leveraging three key pillars: ecology, synanthropy, and rodentation. <strong>The Lancet Planetary Health <\/strong><a href=\"https:\/\/doi.org\/10.1016\/j.lanplh.2025.101300\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">F. D\u2019Azeredo Torres, M.E. Martinez, M. Rivard, P. Duignan, K.C. Prager, J.O. Lloyd-Smith, M.I. Nogueira Di Azevedo, W. Lilenbaum. (2025) Leptospirosis in marine mammals: an in-depth look at an underexplored ecosystem. <strong>Research in Veterinary Science<\/strong>, 193: 105760. <a href=\"https:\/\/doi.org\/10.1016\/j.rvsc.2025.105760\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">S.A. Sura, J.O. Lloyd-Smith*, P. Fong*. (2025) Herbivore community function shapes resilience and bistability of coral reefs. <strong>PLOS Computational Biology<\/strong>, 21: e1013221. <a href=\"https:\/\/doi.org\/10.1371\/journal.pcbi.1013221\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">F. Kaiser, S. Cardenas, K.C. Yinda, R. Mukesh, M. Ochwoto, S. Gallogly, A. Wickenhagen, K. Bibby, E. de Wit, D. Morris, J.O. Lloyd-Smith, Vincent Munster. (2025) Highly Pathogenic Avian Influenza A(H5N1) virus stability in irradiated raw milk and wastewater and on surfaces, United States. <strong>Emerging Infectious Diseases<\/strong>, 31:833-837. <a href=\"https:\/\/wwwnc.cdc.gov\/eid\/article\/31\/4\/24-1615_article\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">D.R. Daversa, J.O. Lloyd-Smith, G.M. Bucciarelli, H.B. Shaffer, D.T. Blumstein. (2025) The non-lethal effects of climate change and infectious disease on individuals and populations. <strong>Functional Ecology<\/strong>, 39: 916-928. <a href=\"https:\/\/besjournals.onlinelibrary.wiley.com\/doi\/10.1111\/1365-2435.14745\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">T. Peacock, L. Moncla, G. Dudas, D. VanInsberghe, K. Sukhova, J.O. Lloyd-Smith, M. Worobey, A.C. Lowen, M.I. Nelson (2025). The global H5N1 influenza panzootic in mammals. <strong>Nature <\/strong>637: 304-313. <a href=\"https:\/\/www.nature.com\/articles\/s41586-024-08054-z\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2024<\/i><\/h3>\n<p style=\"padding-left: 40px\">E.N. Blackmore, J.O. Lloyd-Smith (2024) Reply to Uzoigwe: Modeling and the historic record. <strong>PNAS<\/strong>, 121: e2417598121. <a href=\"https:\/\/www.pnas.org\/doi\/abs\/10.1073\/pnas.2417598121\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">R. Mummah, A.C.R. Gomez, A.H. Guglielmino, B. Borremans, R.L. Galloway, K.C. Prager, J.O. Lloyd-Smith (2024) Navigating cross-reactivity and host species effects in a serological assay: A case study of the microscopic agglutination test for Leptospira serology. <strong>PLOS Neglected Tropical Diseases<\/strong>. 18:e0012042. <a href=\"https:\/\/journals.plos.org\/plosntds\/article?id=10.1371\/journal.pntd.0012042\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">B. Borremans, C.A. Falvo, D.E. Crowley, A. Hoegh, J.O. Lloyd-Smith, A.J. Peel, O. Restif, M. Ruiz-Aravena, R.K. Plowright (2024) Reconstructing prevalence dynamics of wildlife pathogens from pooled and individual samples. <strong>Peer Community Journal<\/strong>, 4: e80. <a href=\"https:\/\/peercommunityjournal.org\/articles\/10.24072\/pcjournal.455\/\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">F. Kaiser, D.H. Morris, A. Wickenhagen, R. Mukesh, S. Gallogly, K.C. Yinda, E. de Wit, J.O. Lloyd-Smith, V.J. Munster (2024) Inactivation of avian influenza A (H5N1) virus in raw milk at 63\u00b0C and 72\u00b0C. <strong>New England Journal of Medicine<\/strong>, 391: 90-92. <a href=\"https:\/\/www.nejm.org\/doi\/full\/10.1056\/NEJMc2405488\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">K.C. Prager, K. Danil, E. Wurster, K.M. Colegrove, R. Galloway, N. Kettler, R. Mani, R.F. McDonough, J.W. Sahl, N.E. Stone, D.M. Wagner, J.O. Lloyd-Smith (2024) Detection of Leptospira kirschneri in a short-beaked common dolphin (<em>Delphinus delphis delphis<\/em>) stranded off the coast of southern California, USA. <strong>BMC Veterinary Research<\/strong> 20: 266. <a href=\"https:\/\/link.springer.com\/article\/10.1186\/s12917-024-04111-x\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">E.N. Blackmore, J.O. Lloyd-Smith (2024) Transoceanic pathogen circulation in the age of sail and steam. <strong>PNAS<\/strong>, 121: e2400425121. <a href=\"https:\/\/www.pnas.org\/doi\/abs\/10.1073\/pnas.2400425121\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">C.E. Snedden, J.O. Lloyd-Smith (2024) Predicting the presence of infectious virus from PCR data: A meta-analysis of SARS-CoV-2 in non-human primates. <strong>PLOS Pathogens<\/strong> 20: e1012171.\u00a0 <a href=\"https:\/\/doi.org\/10.1371\/journal.ppat.1012171\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">The Lancet-PPATS Commission on Prevention of Viral Spillover, T.C. Mettenleiter, A.S. Winkler (2024). Draft of WHO Pandemic Agreement plays down primary prevention [Correspondence]. <strong>The Lancet <\/strong>403: 525-526.\u00a0 <a href=\"https:\/\/doi.org\/10.1016\/S0140-6736(24)00066-7\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">J.R. Port, D.H. Morris, J.C. Riopelle, C.K. Yinda, V.A. Avanzato, M.G. Holbrook, T. Bushmaker, J.E. Schulz, T.A. Saturday, K. Barbian, C.A. Russell, R. Perry-Gottschalk, C.I. Shaia, C. Martens, J.O. Lloyd-Smith, R.J. Fischer, V.J. Munster. (2024) Host and viral determinants of airborne transmission of SARS-CoV-2 in the Syrian hamster. <strong>eLife<\/strong>. 12:RP87094. <a href=\"https:\/\/elifesciences.org\/articles\/87094\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2023<\/i><\/h3>\n<p style=\"padding-left: 40px\">A.D. Rosen, M. Javanbakht, S.J. Shoptaw, M.J. Seamans, J.O. Lloyd-Smith*, P.M. Gorbach* (2023) Association of current substance use treatment with future reduced methamphetamine use in an observational cohort of men who have sex with men in Los Angeles. <strong>Journal of Substance Use and Addiction Treatment <\/strong>157: 209228. <a href=\"https:\/\/doi.org\/10.1016\/j.josat.2023.209228\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">C.K. Yinda*, D.H. Morris*, R.J. Fischer, S. Gallogly, Z.A. Weishampel, J.R. Port, T. Bushmaker, J.E. Schulz, K. Bibby, N. van Doremalen, J.O. Lloyd-Smith, V.J. Munster. (2023) Stability of monkeypox virus in body fluids and wastewater. <strong>Emerging Infectious Diseases <\/strong>29: 2065-2072. <a href=\"https:\/\/wwwnc.cdc.gov\/eid\/article\/29\/10\/23-0824_article\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">S.K. Helman, A.F.N. Tokuyama, R.O. Mummah, Nathan E. Stone, M.W. Gamble, C.E. Snedden, B. Borremans, A.C.R. Gomez, C. Cox\u2020, J. Nussbaum\u2020, I. Tweedt\u2020, D.A. Haake, R.L. Galloway, J. Monz\u00f3n, S.P.D. Riley, J.A. Sikich, J. Brown, A. Friscia, Jason W. Sahl, David M. Wagner, J.W. Lynch, K.C. Prager, J.O. Lloyd-Smith. (2023) Pathogenic Leptospira are widespread in the urban wildlife of southern California. <strong>Scientific Reports <\/strong>13: 14368. <a href=\"https:\/\/www.nature.com\/articles\/s41598-023-40322-2\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">B. Borremans, R.O. Mummah, A.H. Guglielmino, R.L. Galloway, N. Hens, K.C. Prager, J.O. Lloyd-Smith. (2023) Inferring time of infection from field data using dynamic models of antibody decay. <strong>Methods in Ecology and Evolution <\/strong>14: 2654-2667. <a href=\"https:\/\/besjournals.onlinelibrary.wiley.com\/doi\/full\/10.1111\/2041-210X.14165\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Z. Qian *, D.H. Morris*, A. Avery, K.A. Kormuth, M.M. Myerburg, J.O. Lloyd-Smith, L.C. Marr, S.S. Lakdawala. (2023) Variability in donor lung culture and relative humidity impact the stability of 2009 pandemic H1N1 influenza virus on nonporous surfaces. <strong>Applied and Environmental Microbiology<\/strong> 89: e00633-23. <a href=\"https:\/\/journals.asm.org\/doi\/full\/10.1128\/aem.00633-23\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">T. Bushmaker*, C.K. Yinda*, D.H. Morris*, M.G. Holbrook, A. Gamble, D. Adney, C. Bushmaker, N. van Doremalen, R.J. Fischer, R.K. Plowright, J.O. Lloyd-Smith, V.J. Munster (2023) Comparative aerosol and surface stability of SARS-CoV-2 Variants of Concern. <strong>Emerging Infectious Diseases <\/strong>29: 1033-1036. <a href=\"https:\/\/doi.org\/10.3201\/eid2905.221752\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">J.C. Taube, E.C. Rest, J.O. Lloyd-Smith, S. Bansal. (2023) The global landscape of smallpox vaccination history and implications for current and future orthopoxvirus susceptibility: a modelling study. <strong>The Lancet Infectious Diseases<\/strong>, 23: 454-462. <a href=\"https:\/\/doi.org\/10.1016\/S1473-3099(22)00664-8.\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2022<\/i><\/h3>\n<p style=\"padding-left: 40px\">S. Blumberg, P. Lu, A.T. Kwan, C.M. Hoover, J.O. Lloyd-Smith, D. Sears, S.M. Bertozzi, L. Worden. (2022) Modeling scenarios for mitigating outbreaks in congregate settings. <strong>PLOS Computational Biology<\/strong>. 18:e1010308. <a href=\"https:\/\/doi.org\/10.1371\/journal.pcbi.1010308\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">C.A. Whittier, F.B. Nutter, P.L.F. Johnson, P. Cross, J.O. Lloyd-Smith, B.D. Slenning, M.K. Stoskopf. (2022) Population structure, intergroup interaction, and human contact govern infectious disease impacts in mountain gorilla populations. <strong>American Journal of Primatology<\/strong>. 84:e23291. <a href=\"https:\/\/doi.org\/10.1002\/ajp.23350\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2021<\/i><\/h3>\n<p style=\"padding-left: 40px\">M. Ruiz-Aravena*, C. McKee*, A. Gamble, T. Lunn, A. Morris, C.E. Snedden, C.K. Yinda, J.R. Port, D.W. Buchholz, Y.Y. Yeo, C. Faust, E. Jax, L. Dee, C. Falvo, D. Jones, M. Kessler, C. Falvo, D. Crowley, N. Bharti, C.E. Brook, H.C. Aguilar, A.J. Peel, O. Restif, T. Schountz, C.R. Parrish, E.S. Gurley, J.O. Lloyd-Smith, P. Hudson, V.J. Munster, R.K. Plowright. (2022) Ecology, evolution and spillover of coronaviruses from bats. <strong>Nature Reviews Microbiology<\/strong>. 20:299-314. <a href=\"https:\/\/doi.org\/10.1038\/s41579-021-00652-2\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">L. Muylaert, B. Davidson, A. Ngabirano, G. Kalema-Zikusoka, H. MacGregor, J.O. Lloyd-Smith, A. Fayaz, M.A. Knox, D.T.S. Hayman. (2021) Community health and human-animal contacts on the edges of Bwindi Impenetrable National Park, Uganda. <strong>PLOS ONE<\/strong>. 16:e0254467.\u00a0<a href=\"https:\/\/doi.org\/10.1371\/journal.pone.0254467\" target=\"_blank\" rel=\"noopener\">https:\/\/doi.org\/10.1371\/journal.pone.0254467<\/a><\/p>\n<p style=\"padding-left: 40px\">Gamble A., Yeo Y.Y.*, Butler A.A.*, Tang H., Snedden C.E., Mason C.T., Buchholz D.W., Bingham J., Aguilar H.C. and Lloyd-Smith J.O. (2021). Drivers and distribution of henipavirus-induced syncytia: what do we know? <b>Viruses<\/b> 13:1755. <a href=\"https:\/\/doi.org\/10.3390\/v13091755\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Gamble A.*, Fischer R.J.*, Morris D.H., Yinda K.C., Munster V.J. and Lloyd-Smith J.O. (2021). Heat-treated virus inactivation rate depends strongly on treatment procedure: illustration with SARS-CoV-2. <b>Applied and Environmental Microbiology<\/b> 87:e00314-21. <a href=\"https:\/\/doi.org\/10.1128\/aem.00314-21\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Snedden, C.E.*, Makanani, S.K.*, Schwartz, S.T., Gamble, A., Blakey, R.V., Borremans, B., Helman, S.K., Espericueta, L., Valencia, A., Endo, A., Alfaro, M.E., Lloyd-Smith, J.O. (2021). SARS-CoV-2: cross-scale insights from ecology and evolution. <b>Trends in Microbiology<\/b> 29:593-605. <a href=\"https:\/\/doi.org\/10.1016\/j.tim.2021.03.013\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Morris, D.H.*, Yinda, K.C.*, Gamble, A.*, Rossine, F.W., Huang, Q., Bushmaker, T., Fischer, R.J., Matson, M.J., van Doremalen, N., Vikesland, P.J., Marr, L.C., Munster, V.J., Lloyd-Smith, J.O. (2021). Mechanistic theory predicts the effects of temperature and humidity on inactivation of SARS-CoV-2 and other enveloped viruses. <b>eLife<\/b> 10:e65902. <a href=\"https:\/\/doi.org\/10.7554\/eLife.65902\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Du, Y.*, Dai, L.*, Qi, H., Huber, C., Chen, D., Zhang, T., Wu, N.C., Wang, E., Lloyd\u2010Smith,<br \/>\nJ.O., Sun, R. (2021). Quantifying the evolutionary constraints and potential of HCV NS5A protein.<br \/>\nmSystems. <b>mSystems<\/b>, in press. <a href=\"https:\/\/doi.org\/10.1101\/078428\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Whitmer, E.R., Borremans, B., Duignan, P.J., Johnson, S.P., Lloyd-Smith, J.O., McClain, A.M., Field, C.L., Prager, K.C. (2021). Classification and regression tree (CART) analysis for predicting prognosis in wildlife rehabilitation: a case study of leptospirosis in California sea lions (<i>Zalophus californianus<\/i>). <b>Journal of Zoo and Wildlife Medicine<\/b> 52:38-48. <a href=\"https:\/\/doi.org\/10.1638\/2020-0111\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Schreiber, S.J., Ke, R., Loverdo, C., Park, M., Ahsan, P., Lloyd-Smith, J.O. (2021). Cross-scale dynamics and the evolutionary emergence of infectious diseases. <b>Virus Evolution<\/b> 7:veaa105. <a href=\"https:\/\/doi.org\/10.1093\/ve\/veaa105\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2020<\/i><\/h3>\n<p style=\"padding-left: 40px\">Mummah, R.O., Hoff, N.A., Rimoin, A.W., Lloyd-Smith, J.O. (2020). Controlling emerging zoonoses at the animal-human interface. <b>One Health Outlook<\/b> 2:1-15. <a href=\"https:\/\/doi.org\/10.1186\/s42522-020-00024-5\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Zhang, T.H., Dai, L., Barton, J.P., Du, Y., Tan, Y., Pang, W., &#8230; Sun, R. (2020). Predominance of positive epistasis among drug resistance-associated mutations in HIV-1 protease. <b>PLoS Genetics<\/b> 16:e1009009. <a href=\"https:\/\/doi.org\/10.1371\/journal.pgen.1009009\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Matson, M.J., Yinda, C.K., Seifert, S.N., Bushmaker, T., Fischer, R.J., van Doremalen, N., &#8230;, Munster, V.J. (2020). Effect of environmental conditions on SARS-CoV-2 stability in human nasal mucus and sputum. <b>Emerging Infectious Diseases<\/b> 26:2276. <a href=\"https:\/\/dx.doi.org\/10.3201%2Feid2609.202267\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Fischer, R.J.*, Morris, D.H.*, van Doremalen, N., Sarchette, S., Matson, J., Bushmaker, T., Yinda, C.K., Seifert, S., Gamble, A., Williamson, B., Judson, S., de Wit, E., Lloyd-Smith, J.O., Munster, V.J. (2020). Effectiveness of N95 respirator decontamination and reuse against SARS-CoV-2 virus. <b>Emerging Infectious Diseases<\/b> 26:2253. <a href=\"https:\/\/doi.org\/10.3201\/eid2609.201524\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Vespignani, A., Tian, H., Dye, C., Lloyd-Smith, J.O., Eggo, R.M., Shrestha, M., &#8230; Leung, G.M. (2020). Modelling covid-19. <b>Nature Reviews Physics<\/b> 2:279-281. <a href=\"https:\/\/doi.org\/10.1038\/s42254-020-0178-4\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Borremans, B., Gamble, A., Prager, K.C., Helman, S.K., McClain, A.M., Cox, C., Savage, V., Lloyd-Smith, J.O. (2020). Quantifying antibody kinetics and RNA shedding during early-phase SARS-CoV-2 infection. <b>eLife<\/b> 9:e60122. <a href=\"https:\/\/doi.org\/10.7554\/eLife.60122\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">van Doremalen, N.*, Bushmaker, T.*, Morris, D.H.*, Holbrook, M.G., Gamble, A., Williamson, B.N., Tamin, A., Harcourt, J.L., Thornburg, N.J., Gerber, S.I., Lloyd-Smith, J.O., de Wit, E., Munster, V.J. (2020). Aerosol and surface stability of SARS-CoV-2 as compared with SARS-CoV-1. <b>New England Journal of Medicine<\/b> 382:1564-1567. <a href=\"https:\/\/doi.org\/10.1056\/NEJMc2004973\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Prager, K.C., Buhnerkempe, M.G., Greig, D.J., Orr, A.J., Jensen, E.D., Gomez, F., Galloway, R.L., Wu, Q., Gulland, F.M.D., Lloyd-Smith, J.O. (2020). Linking longitudinal and cross-sectional biomarker data to understand host-pathogen dynamics: Leptospira in California sea lions (<i>Zalophus californianus<\/i>) as a Case Study. <b>PLoS Neglected Tropical Diseases<\/b> 6:e0008407. <a href=\"https:\/\/doi.org\/10.1371\/journal.pntd.0008407\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Helman, S., Mummah, R., Gostic, K.M., Buhnerkempe, M., Prager, K.C., Lloyd-Smith, J.O. (2020). Estimating prevalence and test accuracy in disease ecology: how Bayesian latent class analysis can boost or bias imperfect test results. <b>Ecology and Evolution<\/b> 14:7221-7232. <a href=\"https:\/\/doi.org\/10.1002\/ece3.6448\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Gostic, K., Gomez, A. C., Mummah, R. O., Kucharski, A. J., Lloyd-Smith, J. O. (2020). Estimated effectiveness of symptom and risk screening to prevent the spread of COVID-19. <b>eLife<\/b> 9:e55570. <a href=\"https:\/\/doi.org\/10.7554\/eLife.55570\" target=\"_blank\" rel=\"noopener noreferrer\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Schreiber, S.J., Ke, R., Loverdo, C., Park, M., Ahsan, P., Lloyd-Smith, J.O. (2019). Cross-scale dynamics and the evolutionary emergence of infectious diseases. <b>Virus Evolution<\/b> in press. <a href=\"https:\/\/doi.org\/10.1101\/066688\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2019<\/i><\/h3>\n<p style=\"padding-left: 40px\">Gostic, K.M., Wunder Jr, E.A., Bisht, V., Hamond, C., Julian, T.R., Ko, A.I., Lloyd-Smith, J.O. (2019). Mechanistic dose\u2013response modelling of animal challenge data shows that intact skin is a crucial barrier to leptospiral infection. <b>Philosophical Transactions of The Royal Society B<\/b> 374:20190367. <a href=\"https:\/\/doi.org\/10.1098\/rstb.2019.0367\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Wasik, B. R., de Wit, E., Munster, V., Lloyd-Smith, J. O., Martinez-Sobrido, L., &amp; Parrish, C. R. (2019). Onward transmission of viruses: how do viruses emerge to cause epidemics after spillover? <b>Philosophical Transactions of The Royal Society B<\/b> 374:20190017. <a href=\"https:\/\/doi.org\/10.1098\/rstb.2019.0017\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Borremans, B., Faust, C., Manlove, K.R., Sokolow, S.S., Lloyd-Smith, J.O. (2019). Cross-species pathogen spillover across ecosystem boundaries: mechanisms and theory.<br \/>\n<b>Philosophical Transactions of The Royal Society B<\/b> 374:20180344. <a href=\"https:\/\/doi.org\/10.1098\/rstb.2018.0344\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Becker, D.J., Washburne, A.D., Faust, C.L., Pulliam, J.R., Mordecai, E.A., Lloyd-Smith, J.O., Plowright, R.K. (2019). Dynamic and integrative approaches to understanding pathogen spillover. <b>Philosophical Transactions of the Royal Society B<\/b> 374:20190014 <a href=\"https:\/\/doi.org\/10.1098\/rstb.2019.0014\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Pepin, K.M., Hopken, M.W., Shriner, S.A., Spackman, E., Abdo, Z., Parrish, C., &#8230; &amp; Piaggio, A.J. (2019). Improving risk assessment of the emergence of novel influenza A viruses by incorporating environmental surveillance. <b>Philosophical Transactions of the Royal Society B<\/b> 374, 20180346. <a href=\"https:\/\/doi.org\/10.1098\/rstb.2018.0346\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Sura, S.A., Smith, L.L., Ambrose, M.R., Amorim, C.E.G., Beichman, A.C., Gomez, A.C., &#8230; Lloyd-Smith, J.O. (2019). Ten simple rules for giving an effective academic job talk. <b>PLoS Computational Biology<\/b> 15:e1007163. <a href=\"https:\/\/doi.org\/10.1371\/journal.pcbi.1007163\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Nelson, M.I., Lloyd-Smith, J.O., Simonsen, L., Rambaut, A., Holmes, E.C., Chowell, G., &#8230; Viboud, C. (2019). Fogarty International Center collaborative networks in infectious disease modeling: Lessons learnt in research and capacity building. <b>Epidemics<\/b> 26, 116-127. <a href=\"https:\/\/doi.org\/10.1016\/j.epidem.2018.10.004\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Ambrose, M.R., Kucharski, A.J., Formenty, P., Muyembe-Tamfum, J.J., Rimoin, A.W., Lloyd-Smith, J.O. (2019). Quantifying transmission of emerging zoonoses: using mathematical models to maximize the value of surveillance data. <b>BioRxiv<\/b> 677021. <a href=\"https:\/\/doi.org\/10.1101\/677021\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Gostic, K.M., Bridge, R., Brady, S., Viboud, C., Worobey, M., Lloyd-Smith, J.O. (2019). Childhood immune imprinting to influenza A shapes birth year-specific risk during seasonal H1N1 and H3N2 epidemics. <b>PLoS pathogens<\/b> 15, e1008109. <a href=\"https:\/\/doi.org\/10.1371\/journal.ppat.1008109\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2018<\/i><\/h3>\n<p style=\"padding-left: 40px\">Nelson, M. I., Lloyd-Smith, J. O., Simonsen, L., Rambaut, A., Holmes, E. C., Chowell, G., \u2026 Viboud, C. (2018). Fogarty International Center collaborative networks in infectious disease modeling: Lessons learnt in research and capacity building. <b>Epidemics<\/b> 26:116-127. <a href=\"http:\/\/doi.org\/10.1016\/J.EPIDEM.2018.10.004\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Whitaker, D., Reichly, S., Griffin, M., Prager, K. C., Richey, C., Kenelty, K., Stevens, B., Lloyd-Smith, J. O., Kreuder Johnson, C., Duignan, P., Johnson, S., Rios, C., DeLong, R., Halaska, B., Rust, L., Byrne, B., Struve, C., Mapes, S., Soto., E. (2018) Hypermucoviscous <i>Klebsiella pneumoniae<\/i> isolates from stranded and wild-caught marine mammals of the United States Pacific Coast: prevalence, phenotype and genotype. <b>Journal of Wildlife Diseases<\/b>, 54(4), 659\u2013670. <a href=\"https:\/\/doi.org\/10.7589\/2017-07-178\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2017<\/i><\/h3>\n<p style=\"padding-left: 40px\">Gostic, K. M., Ambrose, M., Worobey, M., &amp; Lloyd-Smith, J. O. (2017). Do maternal antibodies facilitate hemagglutinin imprinting to influenza A viruses encountered early in childhood? <b>BioRxiv<\/b>, 110981. <a href=\"http:\/\/doi.org\/10.1101\/110981\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Hoff, N. A., Morier, D. S., Kisalu, N. K., Johnston, S. C., Doshi, R. H., Hensley, L. E., \u2026 Rimoin, A. W. (2017). Varicella Coinfection in Patients with Active Monkeypox in the Democratic Republic of the Congo. <b>EcoHealth<\/b>, 14(3), 564\u2013574. <a href=\"http:\/\/doi.org\/10.1007\/s10393-017-1266-5\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O. (2017) Predictions of virus spillover across species. <b>Nature.<\/b> 546: 603-604. [News &amp; Views] <a href=\"https:\/\/www.nature.com\/nature\/journal\/v546\/n7660\/full\/nature23088.html\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Plowright, R.K., Parrish, C.R., McCallum, H., Hudson, P.J., Ko, A.I., Graham, A.L., Lloyd-Smith, J.O. (2017) Pathways to zoonotic spillover. <b>Nature Reviews Microbiology.<\/b> 15: 502-510. <a href=\"https:\/\/www.nature.com\/nrmicro\/journal\/v15\/n8\/full\/nrmicro.2017.45.html\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Buhnerkempe, M.G., K. C. Prager, Strelioff, C.C., Greig, D.J., Laake, J.L., Melin, S.R., DeLong, R.L., Gulland, F.M.D., Lloyd-Smith, J.O. (2017) Detecting signals of chronic shedding to explain pathogen persistence: <i>Leptospira interrogans<\/i> in California sea lions as a case study. <b>Journal of Animal Ecology.<\/b> 86: 460-472. <a href=\"https:\/\/www.ncbi.nlm.nih.gov\/pubmed\/28207932\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Pepin, K.M., Kay, S.L., Golas, B.D., Shriner, S.S., Gilbert, A.T., Miller, R.S., Graham, A.L., Riley, S., Cross, P.C., Samuel, M.D., Hooten, M.B., Hoeting, J.A., Lloyd-Smith, J.O., Webb, C.T., Buhnerkempe, M.G. (2017) Inferring infection hazard in wildlife populations by linking data across individual and population scales. <b>Ecology Letters.<\/b> 20: 275-292 doi: 10.1111\/ele.12732. <a href=\"http:\/\/onlinelibrary.wiley.com\/doi\/10.1111\/ele.12732\/full\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2016<\/i><\/h3>\n<p style=\"padding-left: 40px\">Lipsitch, M., Barclay, W., Raman, R., Russell, C.J., Belser, J.A., Cobey, S., Kasson, P.M., Lloyd-Smith, J.O., Maurer-Stroh, S., Riley, S., Beauchemin, C.A.A., Bedford, T., Friedrich, T.C., Handel, A., Herfst, S., Murcia, P.R., Roche, B., Wilke, C., Russell, C.A. (2016) Viral factors in influenza pandemic risk assessment. <b>eLife.<\/b> 5:e18491. <a href=\"https:\/\/elifesciences.org\/content\/5\/e18491\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Schakner, Z., Buhnerkempe, M.G., Tennis, M.J., van der Leeuw, B.K., Lloyd-Smith, J.O., Blumstein, D.T. (2016) Epidemiological models to control the spread of information in marine mammals. <b>Proceedings of the Royal Society of London, B.<\/b> 283: 20162037. <a href=\"http:\/\/rspb.royalsocietypublishing.org\/content\/283\/1844\/20162037\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Gostic, K.M., Ambrose, M.R., Worobey, M, Lloyd-Smith, J.O. (2016) Potent protection against H5N1 and H7N9 influenza via childhood hemagglutinin imprinting. <b>Science.<\/b> 354: 722-726. <a href=\"http:\/\/science.sciencemag.org\/content\/354\/6313\/722.full?ijkey=72WPAKDbWQ3WA&amp;keytype=ref&amp;siteid=sci\" target=\"_blank\" rel=\"noopener\">Online<\/a> \u00a0 <a href=\"http:\/\/science.sciencemag.org\/content\/sci\/354\/6313\/722.full.pdf?ijkey=72WPAKDbWQ3WA&amp;keytype=ref&amp;siteid=sci\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Wu, N.C., Dai, L., Olson, C.A., Lloyd-Smith, J.O., Sun, R. (2016) Adaptation in protein fitness landscapes is facilitated by indirect paths. <b> eLife.<\/b> 5:e16965. <a href=\"https:\/\/elifesciences.org\/content\/5\/e16965\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Muthukrishnan, R., Lloyd-Smith, J.O., Fong, P. (2016) Mechanisms of resilience: Empirically quantified positive feedbacks produce alternate stable states dynamics in a model of a tropical reef. <b>Journal of Ecology.<\/b> 104: 1662-1672. <a href=\"http:\/\/onlinelibrary.wiley.com\/doi\/10.1111\/1365-2745.12631\/abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">A. L. Graham, D. H. Nussey, J. O. Lloyd-Smith, M. Maley, J. M. Pemberton, J. G. Pilkington, K. C. Prager, L. Smith, K. A. Watt, K. Wilson, T. N. McNeilly &amp; F. Brulisauer. (2016) Exposure to viral and bacterial infections among Soay sheep of the St. Kilda archipelago. <b>Epidemiology and Infection.<\/b> 144: 1879-1888. <a href=\"https:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC4890341\/\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Laake, J. L., S. R. Melin, A. J. Orr, D. J. Greig, K. C. Prager, R. L. DeLong, and J. D. Harris. 2016. California sea lion sex and age specific morphometry. Page 21 in N. T. M. U.S. Dep. Commer., editor.<br \/>\nBurge, C. A., C. S. Friedman, R. Getchell, M. House, K. D. Lafferty, L. D. Mydlarz, K. C. Prager, K. P. Sutherland, T. Renault, I. Kiryu, and R. Vega-Thurber. (2016) Complementary approaches to diagnosing marine diseases: a union of the modern and the classic. <b>Philosophical Transactions of the Royal Society of London B: Biological Sciences<\/b> 371.<\/p>\n<h3 style=\"padding-left: 40px\"><i>2015<\/i><\/h3>\n<p style=\"padding-left: 40px\">Buhnerkempe, M.G., Gostic, K.M., Park, M., Ahsan, P., Belser, J.A., Lloyd-Smith, J.O. (2015) Mapping influenza transmission in the ferret model to transmission in humans. <b>eLife.<\/b> 4:e07969. <a href=\"https:\/\/elifesciences.org\/content\/4\/e07969\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Biek, R., Pybus, O.G., Lloyd-Smith, J.O., Didelot, X. (2015) Measurably evolving pathogens in the genomic era. <b>Trends in Ecology and Evolution.<\/b> DOI: http:\/\/dx.doi.org\/10.1016\/j.tree.2015.03.009. <a href=\"http:\/\/www.cell.com\/trends\/ecology-evolution\/abstract\/S0169-5347%2815%2900068-3\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Gostic, K.M., Kucharski, A.J., Lloyd-Smith, J.O. (2015) Effectiveness of traveller screening for emerging pathogens is shaped by epidemiology and natural history of infection. <b>eLife<\/b> 4:e05564. <a href=\"http:\/\/elifesciences.org\/content\/4\/e05564\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Heesterbeek, H., Anderson, R., Andreasen, V., Bansal, S., De Angelis, D., Dye, C., Eames, K., Edmunds, J., Frost, S, Funk, S., Hollingsworth, D., House, T., Isham, V., Klepac, P., Lessler, J., Lloyd-Smith, J., Metcalf, J., Mollison, D., Pellis, L., Pulliam, J., Roberts, M., Viboud, C., Isaac Newton Institute IDD Collaboration (2015) Modeling infectious disease dynamics in the complex landscape of global health. <b>Science<\/b> 347: aaa439-1-10. <a href=\"http:\/\/www.sciencemag.org\/content\/347\/6227\/aaa4339.abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Prager KC, Alt DP, Buhnerkempe MG, Greig DJ, Galloway RL, Wu Q, Gulland FMD, &amp; Lloyd-Smith JO. (2015). Antibiotic efficacy in eliminating leptospiruria in California sea lions (<i>Zalophus californianus<\/i>) stranding with leptospirosis stranding with leptospirosis: 14 cases (2010-2011). <b>Aquatic Mammals<\/b> 41(2): 203-212. DOI: 10.1578\/AM.41.2.2015.203.<\/p>\n<h3 style=\"padding-left: 40px\"><i>2014<\/i><\/h3>\n<p style=\"padding-left: 40px\">Buhnerkempe, M.G., Roberts, M.G., Dobson, A.P., Heesterbeek, H., Hudson, P.J., Lloyd-Smith,J.O. (2014) Eight challenges in modelling disease ecology in systems with multiple host species and multiple infectious agents. <b>Epidemics.<\/b> DOI:10.1016\/j.epidem.2014.10.001. <a href=\"http:\/\/www.sciencedirect.com\/science\/article\/pii\/S1755436514000693\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Metcalf, C.J.E., Birger, R., Funk, S., Kouyos, R.D., Lloyd-Smith, J.O., Jansen, V.A.A. (2014) Five challenges in evolution and infectious diseases. <b>Epidemics.<\/b> DOI:10.1016\/j.epidem.2014.12.003 <a href=\"http:\/\/www.sciencedirect.com\/science\/article\/pii\/S1755436514000723\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Gog, J.R., Pellis, L., Wood, J.L.N., McLean, A.R., Arinaminpathy, N., Lloyd-Smith, J.O. (2014) Seven challenges in modelling pathogen dynamics within-host and across scales. <b>Epidemics.<\/b> DOI: 10.1016\/j.epidem.2014.09.009. <a href=\"http:\/\/www.sciencedirect.com\/science\/article\/pii\/S1755436514000589\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O., Funk, S., McLean, A.R., Riley, S., Wood, J.L.N. (2014) Nine challenges in modelling the emergence of novel pathogens. <b>Epidemics.<\/b> DOI: 10.1016\/j.epidem.2014.09.00. <a href=\"http:\/\/www.sciencedirect.com\/science\/article\/pii\/S1755436514000504\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Russell CA, Kasson PM, Donis RO, Riley S, Dunbar J, Rambaut A, Asher J, Burke S, Davis CT, Garten RJ, Gnanakaran S, Hay SI, Herfst S, Lewis NS, Lloyd-Smith JO, Macken CA, Maurer-Stroh S, Neuhaus E, Parrish CR, Pepin KM, Shepard S, Smith DL, Suarez DL, Trock SC, Widdowson M, George D, Lipsitch M, Bloom JD. (2014) Improving pandemic influenza risk assessment. <b>eLife.<\/b> 3:e03883. <a href=\"http:\/\/elifesciences.org\/content\/3\/e03883\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Viana, M., Mancy, R., Biek, R., Cleaveland, S., Cross, P.C., Lloyd-Smith, J.O., Haydon, D.T. (2014) Assembling evidence for identifying disease reservoirs. <b>Trends in Ecology and Evolution.<\/b> 29: 270-279. <a href=\"http:\/\/www.cell.com\/trends\/ecology-evolution\/abstract\/S0169-5347(14)00060-3\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Wu, Q., Prager, K.C., Goldstein, T., Alt, D.P., Galloway, R.L., Zuerner, R.L., Lloyd-Smith, J.O., Schwacke , L. (2014) Development of a real-time PCR for the detection of pathogenic <i>Leptospira<\/i> spp. in California sea lions (<i>Zalophus californianus<\/i>). <b>Diseases of Aquatic Organisms.<\/b> 110: 165-172. <a href=\"http:\/\/www.int-res.com\/abstracts\/dao\/v110\/n3\/p165-172\/\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Qi, H., Olson, C.A., Wu, N.C., Ke, R., Loverdo, C., Remenyi, R., Chu, V., Truong, S., Chen, Z., Su, S.-Y., Al-Mawsawi, L.Q., Wu, T.-T., Chen, S.-W., Lin, C., Zhong, W., Lloyd-Smith, J.O., Sun, R. (2014) A quantitative high-resolution genetic profile rapidly identifies sequence determinants of viral fitness and drug sensitivity. <b>PLoS Pathogens.<\/b> 10:e1004064. <a href=\"http:\/\/www.plospathogens.org\/article\/info%3Adoi%2F10.1371%2Fjournal.ppat.1004064\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Blumberg, S., Enanoria, W.T., Lloyd-Smith, J.O., Lietman, T.M., Porco, T.C. (2014) Identifying post-elimination trends for the introduction and transmissibility of measles in the United States. <b>American Journal of Epidemiology.<\/b> 179: 1375-1382. <a href=\"http:\/\/aje.oxfordjournals.org\/content\/179\/11\/1375.long\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Barclay, V.C., Kennedy, D.,Weaver, V.C., Sim, D., Lloyd-Smith, J.O., Read, A.F. (2014) The effect of immunodeficiency on the evolution of virulence: an experimental test with the rodent malaria <i>Plasmodium chabaudi<\/i>. <b>American Naturalist.<\/b> 184: S47-S57. <a href=\"http:\/\/www.jstor.org\/stable\/10.1086\/676887\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2013<\/i><\/h3>\n<p style=\"padding-left: 40px\">Burge, C. A., C. M. Eakin, C. S. Friedman, B. Froelich, P. K. Hershberger, E. E. Hofmann, L. E. Petes, K. C. Prager, E. Weil, B. L. Willis, S. E. Ford, and C. D. Harvell. 2013. Climate Change Influences on Marine Infectious Diseases: Implications for Management and Society. <b>Annual review of marine science<\/b> 6:249-277.<\/p>\n<p style=\"padding-left: 40px\">Ke, R., Loverdo, C., Qi, H., Olson, C.A., Wu, N.C., Sun, R., Lloyd-Smith, J.O. Modelling clinical data shows active tissue concentration of daclatasvir is ten-fold lower than its plasma concentration. (2013) <b>Journal of Antimicrobial Chemotherapy.<\/b> <a href=\"http:\/\/jac.oxfordjournals.org\/content\/early\/2013\/10\/28\/jac.dkt423.abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Loverdo, C. and Lloyd-Smith, J.O. (2013) Evolutionary invasion and escape in the presence of deleterious mutations. <b> PLoS ONE.<\/b> 8: e68179. <a href=\"http:\/\/www.plosone.org\/article\/info:doi\/10.1371\/journal.pone.0068179\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Blumberg, S. and Lloyd-Smith, J.O. (2013) Comparing methods for estimating R<sub>0<\/sub> from the size distribution of subcritical transmission chains. <b>Epidemics.<\/b> 5: 131-145. <a href=\"http:\/\/www.sciencedirect.com\/science\/article\/pii\/S1755436513000236\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Thomassen, H.A., Fuller, T., Asefi-Najafabady, S., Shiplacoff, J., Mulembakani, P.M., Johnston, S.C., Kisalu, N.K., Lutathe, T.K., Blumberg, S., Fair, J.N., Wolfe, N.D., Shongo, R.L., LeBreton, M., Meyer, H., Wright, L.L., Muyembe, J.-J., Buermann, W., Okitolonda, E., Hensley, L., Lloyd-Smith, J.O., Smith, T. B., Rimoin A.W. (2013) Pathogen-host associations and predicted range shifts of human monkeypox in response to climate change in central Africa.<b> PLoS ONE.<\/b> 8: e66071. <a href=\"http:\/\/www.plosone.org\/article\/authors\/info%3Adoi%2F10.1371%2Fjournal.pone.0066071\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Strelioff, C.C., Vijaykrishna, D., Riley, S., Guan, Y., Peiris, J.S.M., Lloyd-Smith, J.O. Inferring patterns of influenza transmission in swine from multiple streams of surveillance data. (2013) <b> Proceedings of the Royal Society of London, B.<\/b> 280: 20130872. <a href=\"http:\/\/rspb.royalsocietypublishing.org\/content\/280\/1762\/20130872.short\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Ke, R. and Lloyd-Smith, J.O. Coadaptive stability of interfering particles with HIV-1 when there is an evolutionary conflict. [letter] <b>Journal of Virology.<\/b> 87: 9959.<\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O. (2013) Vacated niches, competitive release and the community ecology of pathogen eradication. <b>Philosophical Transactions of the Royal Society of London, B.<\/b> 368: 20120150. <a href=\"http:\/\/rstb.royalsocietypublishing.org\/content\/368\/1623\/20120150.abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Blumberg, S. and Lloyd-Smith, J.O. (2013) Inference of R<sub>0<\/sub> and transmission heterogeneity from the size distribution of stuttering chains. <b>PLoS Computational Biology.<\/b> 9: e1002993. <a href=\"http:\/\/www.ploscompbiol.org\/article\/info%3Adoi%2F10.1371%2Fjournal.pcbi.1002993\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Ke, R., Aaskov, J., Holmes, E.C., Lloyd-Smith, J.O. (2013) Phylodynamic analysis of the emergence and epidemiological impact of transmissible defective dengue viruses. <b>PLoS Pathogens.<\/b> 9: e1003193. <a href=\"http:\/\/www.plospathogens.org\/article\/info%3Adoi%2F10.1371%2Fjournal.ppat.1003193\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Prager, K.C., Greig, D.J., Alt, D.P., Galloway, R.L., Hornsby, R.L., Palmer, L.J., Soper, J., Zuerner, R.L., Gulland, F.M.D., Lloyd-Smith, J.O. (2013) Asymptomatic and chronic carriage of <i>Leptospira interrogans<\/i> serovar Pomona in California sea lions (<i>Zalophus californianus<\/i>). <b>Veterinary Microbiology.<\/b> 164: 177-183. <a href=\"http:\/\/www.sciencedirect.com\/science\/article\/pii\/S0378113513000849\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Loverdo, C. and Lloyd-Smith, J.O. (2013) Inter-generational phenotypic mixing in viral evolution. <b>Evolution.<\/b> 67: 1815-1822. <a href=\"http:\/\/onlinelibrary.wiley.com\/doi\/10.1111\/evo.12048\/abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Bulterys, P.L., Le, T., Quang, V.M., Nelson, K.E., Lloyd-Smith, J.O. (2013) Environmental predictors and incubation period of AIDS-associated <i>Penicillium marneffei<\/i> infection in Ho Chi Minh City, Vietnam <b>Clinical Infectious Diseases.<\/b> 56: 1273-1279. <a href=\"http:\/\/cid.oxfordjournals.org\/content\/early\/2013\/02\/04\/cid.cit058.abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><\/p>\n<p style=\"padding-left: 40px\">Park, M.H., Loverdo, C., Schreiber, S.J., Lloyd-Smith, J.O. (2013) Multiple scales of selection influence the evolutionary emergence of novel pathogens. <b>Philosophical Transactions of the Royal Society of London, B.<\/b> 368: 20120333. <a href=\"http:\/\/rstb.royalsocietypublishing.org\/content\/368\/1614\/20120333.abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><br \/>\n<a href=\"publications_files\/PhilTransB_Park_2013_Multiple scales of selection influence the evolutionary emergence of novel pathogens.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2012<\/i><\/h3>\n<p style=\"padding-left: 40px\">Karesh, W.B., Dobson, A.P., Lloyd-Smith, J.O., Lubroth, J., Dixon, M.A., Bennett, M., Aldrich, S., Harrington, T., Loh, E., Machalaba, C., Thomas, M.J., Heymann, D.L. (2012) Ecology of zoonoses: natural and unnatural histories. <b>The Lancet.<\/b> 380: 1936-1945. <a href=\"http:\/\/www.thelancet.com\/journals\/lancet\/article\/PIIS0140-6736(12)61678-X\/abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><br \/>\n<a href=\"publications_files\/Lancet_Karesh_2012_Ecology of zoonoses.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Ke, R. and Lloyd-Smith, J.O. (2012) Evolutionary analysis of Human Immunodeficiency Virus type 1 therapies based on conditionally replicating vectors. <b>PLoS Computational Biology.<\/b> 8: e1002744. <a href=\"http:\/\/www.ploscompbiol.org\/article\/info:doi\/10.1371\/journal.pcbi.1002744\" target=\"_blank\" rel=\"noopener\">Online<\/a><br \/>\n<a href=\"publications_files\/PLoSCompBio_Ke_2012_Evolutionary analysis of HIV-1 therapies based on conditionally replicating viruses.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><br \/>\n<a href=\"publications_files\/PLoSCompBio_Ke_2012_Evolutionary analysis of HIV-1 therapies based on conditionally replicating viruses_SuppInfo.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Loverdo, C., Park, M., Schreiber, S.J., Lloyd-Smith, J.O. (2012) Influence of viral replication mechanisms on within-host evolutionary dynamics. <b>Evolution.<\/b> 66: 3462-3471. <a href=\"http:\/\/onlinelibrary.wiley.com\/doi\/10.1111\/j.1558-5646.2012.01687.x\/abstract\" target=\"_blank\" rel=\"noopener\">Online<\/a><br \/>\n<a href=\"publications_files\/Evolution_Loverdo_2012_Influence of viral replication mechanisms on within-host evolutionary dynamics.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><br \/>\n<a href=\"publications_files\/Evolution_Loverdo_2012_Influence of viral replication mechanisms on within-host evolutionary dynamics_SuppInfo.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2011<\/i><\/h3>\n<p style=\"padding-left: 40px\">Raffel, T.R., Lloyd-Smith, J.O., Sessions, S.K., Hudson, P.J., Rohr, J.R. (2011) Does the early frog catch the worm? Disentangling potential drivers of a parasite age-intensity relationship in<br \/>\ntadpoles. <b>Oecologia<\/b>. 165: 1031-1042.<br \/>\n<a href=\"publications_files\/Oecologia_Raffel_2010_Disentangling potential drivers of parasite age-intensity relationship.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/Oecologia_Raffel_2010_Disentangling potential drivers of parasite age-intensity relationship_SOM.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Metzger, V., Lloyd-Smith, J.O., Weinberger, L.S. (2011) Autonomous targeting of infectious superspreaders using engineered transmissible therapies. <b>PLoS Computational Biology<\/b>. 7:<br \/>\ne1002015.<br \/>\n<a href=\"publications_files\/PLoSCompBio_Metzger_2011_Autonomous targeting of infectious superspreaders using engineered transmissible therapies.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/PLoSCompBio_Metzger_2011_Autonomous targeting of infectious superspreaders using engineered transmissible therapies_SOM.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2010<\/i><\/h3>\n<p style=\"padding-left: 40px\">Pepin, K.M., Lass, S., Pulliam, J.R.C., Read, A.F., Lloyd-Smith, J.O. (2010) Identifying<br \/>\ngenetic markers for surveillance of viral host jumps. <b>Nature Reviews Microbiology<\/b>. 8: 802-<br \/>\n813.<br \/>\n<a href=\"publications_files\/NatureRevMicro_Pepin_2010_Identifying genetic markers of adaptation for surveillance of viral host jumps.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/NatureRevMicro_Pepin_2010_Identifying genetic markers of adaptation for surveillance of viral host jumps_SOM.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Fuller, T., Thomassen, H.A., Mulembakani, P.M., Johnston, S.C., Lloyd-Smith, J.O., Kisalu, N.K., Lutete, T.K., Blumberg, S., Fair, J.N., Wolfe, N.D., Shongo, R.L., Formenty, P., Meyer,<br \/>\nH., Wright, L.L., Muyembe, J.-J., Buermann, W., Saatchi, S.S., Okitolonda, E., Hensley, L.,<br \/>\nSmith, T. B., Rimoin A.W. (2010) Using remote sensing to map the risk of human<br \/>\nmonkeypox in the Congo basin. <b>EcoHealth<\/b> doi:10.1007\/s10393-010-0355-5.<br \/>\n<a href=\"publications_files\/EcoHealth_Fuller_2010_Using remote sensing to map the risk of human MPX.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/EcoHealth_Fuller_2010_Using remote sensing to map the risk of human MPX_SOM.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Rimoin A.W., Mulembakani, P.M., Johnston, S., Lloyd-Smith, J.O., Kisalu, N.K., Lutete,<br \/>\nT.K., Blumberg, S., Thomassen, H.A., Pike, B.L., Fair, J.N., Wolfe, N.D., Shongo, R.L.,<br \/>\nGraham, B.S., Formenty, P., Okitolonda, E., Hensley, L., Meyer, H., Wright, L.L., Muyembe,<br \/>\nJ.-J. (2010) Major increase in human monkeypox incidence 30 years after smallpox<br \/>\nvaccination campaigns cease in the Democratic Republic of Congo. <b>Proceedings of the<br \/>\nNational Academy of Sciences<\/b>. 107: 16262-16267.<br \/>\n<a href=\"publications_files\/PNAS_Rimoin_2010_Major increase in human monkeypox incidence.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/PNAS_Rimoin_2010_Major increase in human monkeypox incidence_SI.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Volkov, I., Pepin, K., Lloyd-Smith, J.O., Banavar, J., Grenfell, B. (2010) Synthesizing within-<br \/>\nhost and population level selective pressures on viral populations: the impact of adaptive<br \/>\nimmunity on viral immune escape. <b>Journal of the Royal Society Interface<\/b>. 7: 1311-1318.<br \/>\n<a href=\"publications_files\/JRSInterface_Volkov_2010_Synthesizing within-host and population-level selective pressures on viral populations.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/JRSInterface_Volkov_2010_Synthesizing within-host and population-level selective pressures on viral populations_Supp.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J. O. (2010) Modeling density dependence in heterogeneous landscapes:<br \/>\ndispersal as a case study. <b>Journal of Theoretical Biology<\/b> 265: 160-166.<br \/>\n<a href=\"publications_files\/JTB_LloydSmith_2010_Modeling density dependence in heterogeneous landscapes.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Sanchez, M.S., Lloyd-Smith, J. O., Getz, W.M. (2010) Monitoring linked epidemics: the case of tuberculosis and HIV. <b>PLoS ONE<\/b> 5: e8796.<br \/>\n<a href=\"publications_files\/PLoSONE_Sanchez_2010_Monitoring linked epidemics.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2009<\/i><\/h3>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J. O., George, D., Pepin, K.M., Pitzer, V.E., Pulliam, J., Dobson, A.P., Hudson, P.J., Grenfell, B.T. (2009) Epidemic dynamics at the human-animal interface. <b>Science<\/b> 326:<br \/>\n1362-1367.<br \/>\n<a href=\"publications_files\/Science_LloydSmith_2009_Epidemic dynamics at the human-animal interface.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/Science_LloydSmith_2009_Epidemic dynamics at the human-animal interface_SOM.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Schreiber, S.J. and Lloyd-Smith, J. O. (2009) Invasion dynamics in spatially heterogeneous environments. <b>American Naturalist<\/b> 174: 490-505.<br \/>\n<a href=\"publications_files\/AmNat_Schreiber_2009_Invasion dynamics in spatially heterogeneous environments.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/AmNat_Schreiber_2009_Invasion dynamics in spatially heterogeneous environments_Appendices.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Polansky, L., de Valpine, P., Lloyd-Smith, J. O., Getz, W.M. (2009) Likelihood ridges and<br \/>\nmultimodality in population growth rate models. <b>Ecology<\/b> 90: 2313-2320.<br \/>\n<a href=\"publications_files\/Ecology_Polansky_2009_Likelihood ridges in population growth rate models.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/Ecology_Polansky_2009_Likelihood ridges in population growth rate models_Appendix.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Hahn, J.A., Wylie, D., Dill, J., Sanchez, M., Lloyd-Smith, J. O., Page-Shafer, K., Getz, W.M. (2009) Potential impact of vaccination on the hepatitis C virus epidemic in injecting drug<br \/>\nusers. <b>Epidemics<\/b> 1: 47-57.<br \/>\n<a href=\"publications_files\/Epidemics_Hahn_2009_Potential impact of vaccination on HCV in IDUs.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Sanchez, M.S., Lloyd-Smith, J.O., Williams, B.G., Porco, T.C., Ryan, S. J., Borgdorff, M.W, Mansoer, J., Dye, C., Getz, W.M. (2009) Incongruent HIV and tuberculosis epidemics in<br \/>\nKenya: Interacting epidemics monitor each other. <b>Epidemics<\/b> 1: 14-20.<br \/>\n<a href=\"publications_files\/Epidemics_Sanchez_2009_Incongruent HIV and TB co-dynamics in Kenya.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/Epidemics_Sanchez_2009_Incongruent HIV and TB co-dynamics in Kenya_Supp.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2008<\/i><\/h3>\n<p style=\"padding-left: 40px\">Polansky, L., de Valpine, P., Lloyd-Smith, J.O., Getz, W.M. (2008) Parameter estimation in a generalized discrete-time model of density dependence. <b>Theoretical Ecology<\/b> 1:221-229.<br \/>\n<a href=\"publications_files\/TheorEcol_Polansky_2008_Parameter estimation for density dependence.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/TheorEcol_Polansky_2008_Parameter estimation for density dependence_Supplementary_material.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Auvert, B., Marseille, E., Korenromp, E.L., Lloyd-Smith, J.O., Sitta, R., Taljaard, D.,<br \/>\nPretorius, C., Williams, B., Kahn, J.G. (2008) Estimating the resources needed and savings<br \/>\nanticipated from roll-out of adult male circumcision in sub-Saharan Africa. <b>PLoS ONE<\/b> 3:<br \/>\ne2679.<br \/>\n<a href=\"publications_files\/PLoSONE_Auvert_2008_Cost effectiveness analysis of male circumcision for HIV prevention.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O., Poss, M., Grenfell, B.T. (2008) HIV-1\/parasite co-infection and the<br \/>\nemergence of new parasite strains. <b>Parasitology<\/b> 135: 795-806.<br \/>\n<a href=\"publications_files\/Parasitology_LloydSmith_2008_HIV-parasite coinfection and the emergence of new parasite strains.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Sanchez, M.S., Lloyd-Smith, J.O., Porco, T.C., Williams, B.G., Borgdorff, M.W, Mansoer, J., Salomon, J.A., Getz, W.M. (2008) Impact of HIV on novel strategies for tuberculosis control.<br \/>\n<b>AIDS<\/b> 22: 963-972.<br \/>\n<a href=\"publications_files\/Parasitology_LloydSmith_2008_HIV-parasite coinfection and the emergence of new parasite strains\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2007<\/i><\/h3>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O., Greig, D., Ghneim, G., Hietala, S., Palmer, L., St. Leger, J., Grenfell, B.T., Gulland, F.M.D. (2007) Cyclical changes in seroprevalence of leptospirosis in California sea<br \/>\nlions: endemic and epidemic disease in one host species? <b>BMC Infectious Diseases<\/b> 7: 125.<br \/>\n<a href=\"publications_files\/BMCInfDis_LloydSmith_2007_Cyclic changes of seroprevalence of leptospirosis in California sea lions.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Graham, A.L., Cattadori, I.M., Lloyd-Smith, J.O., Ferrari, M.J., Bjornstad, O.N. (2007)<br \/>\nTransmission consequences of co-infection: cytokines writ large? <b>Trends in Parasitology<\/b><br \/>\n23: 284-291.<br \/>\n<a href=\"publications_files\/TrendsPar_Graham_2007_Transmission consequences of coinfection.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Cross, P.C., Johnson, P.L., Lloyd-Smith, J.O., Getz, W.M. (2007) Utility of R0 as a predictor of disease invasion in structured populations. <b>Journal of the Royal Society Interface<\/b> 4: 315-324.<br \/>\n<a href=\"publications_files\/JRSInterface_Cross_2007_Utility of R0 as a predictor of disease invasion in structured populations.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O. (2007) Maximum likelihood estimation of the negative binomial dispersion<br \/>\nparameter for highly overdispersed datasets, with applications to infectious disease data.<br \/>\n<b>PLoS ONE<\/b> 2: e180.<br \/>\n<a href=\"publications_files\/PLoSONE_LloydSmith_Maximum likelihood estimation of NB dispersion parameter.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2006<\/i><\/h3>\n<p style=\"padding-left: 40px\">Salomon, J.A., Lloyd-Smith, J.O., Getz, W.M., Resch, S., Sanchez, M.S., Porco, T.C.,<br \/>\nBorgdorff, M.W. (2006) Prospects for advancing tuberculosis control efforts through novel<br \/>\ntherapies. <b>PLoS Medicine<\/b> 3: 1302-1309.<br \/>\n<a href=\"publications_files\/PLoSMed_Salomon_2006_Prospects for advancing TB control efforts through novel therapies.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/PLoSMed_Salomon_2006_Prospects for advancing TB control efforts through novel therapies_SuppInfo.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Williams, B.G., Lloyd-Smith, J.O., Gouws, E., Hankins, C., Getz, W.M., Dye, C., Hargrove,<br \/>\nJ., de Zoysa, I., Auvert, B. (2006) The potential impact of male circumcision on HIV in sub-<br \/>\nSaharan Africa. <b>PLoS Medicine<\/b> 3: 1032-1040.<br \/>\n<a href=\"publications_files\/PLoSMed_Williams_2006_Potential impact of male circumcision on HIV in sub-Saharan Africa.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/PLoSMed_Williams_2006_Potential impact of male circumcision on HIV in sub-Saharan Africa -- SuppInfo.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Bar-David, S., Lloyd-Smith, J.O., Getz, W.M. (2006) Dynamics and management of<br \/>\ninfectious disease in colonizing populations. <b>Ecology<\/b> 87: 1215-1224.<br \/>\n<a href=\"publications_files\/Ecology_BarDavid_2006_Dynamics and management of infectious disease in colonizing populations.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Getz, W.M. and Lloyd-Smith, J.O. (2006) Comment on &#8216;On the regulation of populations in<br \/>\nmammals, birds, fish and insects&#8217; I. <b>Science<\/b> 311: 1100.<br \/>\n<a href=\"#\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2005<\/i><\/h3>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O., Schreiber, S.J., Kopp, P.E., Getz, W.M. (2005) Superspreading and the<br \/>\neffect of individual variation on disease emergence. <b>Nature<\/b> 438: 355-359.<br \/>\n<a href=\"publications_files\/Nature_LloydSmith_2005_Superspreading and individual variation.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a> \u00a0<a href=\"publications_files\/Nature_LloydSmith_2005_Superspreading and individual variation_SuppInfo.pdf\" target=\"_blank\" rel=\"noopener\">SUPP<\/a><\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O., Cross, P.C., Briggs, C.J., Daugherty, M., Getz, W.M., Latto, J., Sanchez, M.S., Smith, A.B., Swei, A. (2005) Should we expect population thresholds for wildlife<br \/>\ndisease? <b>Trends in Ecology &amp; Evolution<\/b> 20: 511-519.<br \/>\n<a href=\"publications_files\/TREE_LloydSmith_2005_Population thresholds for disease.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Cross, P.C., Lloyd-Smith, J.O., Johnson, P.L., Getz, W.M. (2005) Dueling time scales of<br \/>\nhost mixing and disease recovery determine invasion of disease in structured populations.<br \/>\n<b>Ecology Letters<\/b> 8: 587-595.<br \/>\n<a href=\"publications_files\/EcolLett_Cross_2005_Duelling timescales of movement and recovery.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Bauch, C.T., Lloyd-Smith, J.O., Coffee, M., Galvani, A.P. (2005) Dynamically modeling<br \/>\nSARS and other newly emerging respiratory illnesses: past, present, future. <b>Epidemiology<\/b> 16:<br \/>\n791-801.<br \/>\n<a href=\"publications_files\/Epidemiology_Bauch_2005_Review of SARS models.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Cross, P.C., Lloyd-Smith, J.O., Getz, W.M. (2005) Disentangling association patterns in<br \/>\nfission-fusion societies using African buffalo as an example. <b>Animal Behaviour<\/b> 69: 499-506.<br \/>\n<a href=\"publications_files\/AnimBehav_Cross_2005_Association in fission-fusion societies.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Porco, T.C., Lloyd-Smith, J.O., Gross, K.L., Galvani, A.P. (2005) The effect of treatment on pathogen virulence. <b>Journal of Theoretical Biology<\/b> 233: 91-102.<br \/>\n<a href=\"publications_files\/JTB_Porco_2005_Effect of treatment on pathogen virulence.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2004<\/i><\/h3>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O., Getz, W.M., Westerhoff, H.V. (2004) Frequency-dependent incidence in<br \/>\nsexually-transmitted disease models: portrayal of pair-based transmission and effects of illness on contact behaviour. <b>Proceedings of the Royal Society of London, B<\/b> 271: 625-634.<br \/>\n<a href=\"publications_files\/ProcRoySocB_LloydSmith_2004_Frequency dependent transmission and effects of illness on contact behaviour.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<p style=\"padding-left: 40px\">Cross, P.C., Lloyd-Smith, J.O., Bowers, J., Hay, C.T., Hofmeyr, M., Getz, W.M. (2004)<br \/>\nIntegrating association data and disease dynamics: an illustration using African Buffalo in<br \/>\nKruger National Park. <b>Annales Zoologici Fennici<\/b> 41: 879-892.<br \/>\n<a href=\"publications_files\/AnZF_Cross_2004_Disease on dynamic network.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<h3 style=\"padding-left: 40px\"><i>2003<\/i><\/h3>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O.*, Galvani, A.P.*, Getz, W.M. (2003) Curtailing transmission of severe acute respiratory syndrome within a community and its hospital. <b>Proceedings of the Royal Society<br \/>\nof London, B<\/b> 270, 1979-1989.<br \/>\n<a href=\"publications_files\/ProcRoySocB_LloydSmith_2003_SARS in hospital and community.pdf\" target=\"_blank\" rel=\"noopener\">PDF<\/a><\/p>\n<div id=\"tab3\" style=\"padding-left: 40px\">\n<h3><i>Before 2000: Work In Other Fields<\/i><\/h3>\n<p>Crawford, M.A., Bloom, M., Broadhurst, C.L., Schmidt, W.F., Cunnane, S.C., Galli, C., Gehbremeskel, K., Linseisen, F., Lloyd-Smith, J., Parkington, J. (1999) Evidence for the unique function of DHA during the evolution of the modern hominid brain. <b>Lipids<\/b> 34 supp: S39-47.<\/p>\n<p>Graham, S.J., Stanchev, P.L., Lloyd-Smith, J.O.A., Bronskill, M.J., Plewes, D.B. (1995) Changes in fibroglandular volume and water content of breast tissue during the menstrual cycle observed by MR imaging at 1.5 T. <b>Journal of Magnetic Resonance Imaging<\/b> 5: 695-701.<\/p>\n<p>Bloom, M., Linseisen, F., Lloyd-Smith, J., Crawford, M.A. (1999) Insights from NMR on the functional role of polyunsaturated lipids in the brain. <i>Proceedings of the 1998 Enrico Fermi International School of Physics, on Magnetic Resonance and Brain Function: Approaches from Physics<\/i>, ed. B. Maraviglia, Italian Physical Society.<\/p>\n<\/div>\n<div id=\"tab2\" style=\"padding-left: 40px\"><\/div>\n<\/div><\/section><\/p><\/div>\n<style type=\"text\/css\" data-created_by=\"avia_inline_auto\" id=\"style-css-av-lo4hbnfq-78a5f7b538372cd35b8b88fdd8e86561\">\n#top .av-special-heading.av-lo4hbnfq-78a5f7b538372cd35b8b88fdd8e86561{\npadding-bottom:10px;\n}\nbody .av-special-heading.av-lo4hbnfq-78a5f7b538372cd35b8b88fdd8e86561 .av-special-heading-tag .heading-char{\nfont-size:25px;\n}\n.av-special-heading.av-lo4hbnfq-78a5f7b538372cd35b8b88fdd8e86561 .av-subheading{\nfont-size:15px;\n}\n<\/style>\n<div  class='av-special-heading av-lo4hbnfq-78a5f7b538372cd35b8b88fdd8e86561 av-special-heading-h3  avia-builder-el-5  el_after_av_one_full  el_before_av_textblock '><h3 class='av-special-heading-tag '  itemprop=\"headline\"  >Book Chapters (Peer Reviewed)<\/h3><div class=\"special-heading-border\"><div class=\"special-heading-inner-border\"><\/div><\/div><\/div><\/p>\n<section  class='av_textblock_section av-lo4hbhhr-422fbe3768743592321f879db4b5f4ec '   itemscope=\"itemscope\" itemtype=\"https:\/\/schema.org\/CreativeWork\" ><div class='avia_textblock'  itemprop=\"text\" ><p style=\"padding-left: 40px\">Shrestha, S. and Lloyd-Smith, J.O. (2010) Introduction to mathematical modelling of infectious disease. In <i>Modeling Paradigms and Analysis of Disease Transmission Models<\/i>, ed. A. Gumel,<br \/>\nS. Lenhart. AMS\/DIMACS Vol. 75: 1-46.<\/p>\n<p style=\"padding-left: 40px\">Sanchez, M.S., Lloyd-Smith, J.O., Williams, B.G., Getz, W.M. (2010) Using mathematical models to monitor and evaluate the impact of public health interventions on epidemics: the case of the TB\/HIV co-pandemic in Africa. In <i>Modeling Paradigms and Analysis of Disease<br \/>\nTransmission Models<\/i>, ed. A. Gumel, S. Lenhart. AMS\/DIMACS Vol. 75: 135-186.<\/p>\n<p style=\"padding-left: 40px\">Bar-David, S., Lloyd-Smith, J.O., Getz, W.M. (2006) Infectious disease in spatially<br \/>\nexpanding populations: a model for reintroduced species. In <i>Conservation Biology in Asia<\/i>, ed. McNeely, J.A., McCarthy, T. M., Smith, A., Olsvig-Whittaker, L., Wikramanayake, E.D.,<br \/>\nSociety for Conservation Biology (Asia Section) and Resources Himalaya, Kathmandu,<br \/>\nNepal, 340-362.<\/p>\n<p style=\"padding-left: 40px\">Lloyd-Smith, J.O., Schreiber, S.J., Getz, W.M. (2006) Moving beyond averages: Individual-<br \/>\nlevel variation in disease transmission. In <i>Mathematical studies of human disease dynamics: Emerging paradigms and challenges<\/i>, ed. Gumel, A.B., Castillo-Chavez, C., Mickens, R.E.,<br \/>\nClemence, D.P., AMS Contemporary Mathematics Series, Vol. 410, 235-258.<\/p>\n<p style=\"padding-left: 40px\">Getz, W. M., and Lloyd-Smith, J. O. (2006) Basic methods for modeling the invasion and<br \/>\nspread of contagious disease. In <i>Disease evolution: Models, concepts and data analysis<\/i>, ed. Feng, Z., Dieckmann, U., Levin, S.A. AMS\/DIMACS Vol. 71: 87-109.<\/p>\n<p style=\"padding-left: 40px\">Getz, W.M., Lloyd-Smith, J.O, Cross, P.C., Bar-David, S., Johnson, P.L., Porco, T.C.,<br \/>\nSanchez, M.S. (2006) Modeling the invasion and spread of contagious disease in<br \/>\nheterogeneous populations. In <i>Disease evolution: Models, concepts and data analysis<\/i>, ed.<br \/>\nFeng, Z., Dieckmann, U., Levin, S.A. AMS\/DIMACS Vol. 71: 113-144.<\/p>\n<p style=\"padding-left: 40px\">*authors contributed equally<\/p>\n<\/div><\/section>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":4,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-113","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/pages\/113","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/users\/4"}],"replies":[{"embeddable":true,"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/comments?post=113"}],"version-history":[{"count":14,"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/pages\/113\/revisions"}],"predecessor-version":[{"id":492,"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/pages\/113\/revisions\/492"}],"wp:attachment":[{"href":"https:\/\/sites.lifesci.ucla.edu\/eeb-lloydsmith\/wp-json\/wp\/v2\/media?parent=113"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}