Publications

Here’s a link to Meghan’s Google Scholar page (which may be more up-to-date than this one!)

Notes on Authorship:

For papers from my laboratory, I have chosen to use the first & last author emphasis
Duffy Lab graduate students/postdocs/technicians are indicated in italics
Duffy Lab undergrads are indicated by underlining
* indicates Duffy or Duffy Lab member corresponding author

If you would like to read any of these papers and cannot access them freely, please email Meghan (duffymeg at umich dot edu), who would be happy to send you a free pdf! 

Preprint

McIntire, K.M.*, M.K. Dziuba, E. Haywood, M. Robertson, Vaandrager, E. Baird, F. Corcoran, M.H. Cortez, and M.A. Duffy. Transgenerational virulence: Maternal exposure to pathogens reduces offspring lifespan.  https://www.biorxiv.org/content/10.1101/2023.03.14.532659v1

Data and code: https://github.com/kmmcintire/TGV

2023

Sun, S-J.*, Calhoun, S.K., and M.A. Duffy. 2023. Host and parasite functional morphology jointly explain parasite specificity. Functional Ecology, in press. https://besjournals.onlinelibrary.wiley.com/doi/10.1111/1365-2435.14323

Data and code: https://doi.org/10.5281/zenodo.7754587

Sánchez, K.F.*, B. Zhong, J.A. Agudelo, and M.A. Duffy. 2023. Infectivity of the parasite Metschnikowia bicuspidata is decreased by time spent as a transmission spore, but exposure to phycotoxins in the water column has no effect. Freshwater Biology, in press. https://onlinelibrary.wiley.com/doi/full/10.1111/fwb.14082

Data and code: https://doi.org/10.5061/dryad.612jm6420

Richards, R.L., B.D. Elderd, and M.A. Duffy. 2023. Unhealthy herds and the predator spreader: understanding when predation increases disease incidence and prevalence. Ecology and Evolution, 13:e9918. http://dx.doi.org/10.1002/ece3.9918

Data and code: No data or code associated with this manuscript

Sun, S-J.*, M.K. Dziuba, R. Jaye, and M.A. Duffy. 2023. Transgenerational plasticity in a zooplankton in response to elevated temperature and parasitism. Ecology and Evolution, in press. http://dx.doi.org/10.1002/ece3.9767

Data and code: https://doi.org/10.5061/dryad.4qrfj6qf5

Shaw, C.L.* and M.A. Duffy. 2023. Rapid evolution of a bacterial parasite during outbreaks in two lakes. Ecology and Evolution, in press. https://doi.org/10.1002/ece3.9676

Data and code: https://github.com/clarashaw/PasteuriaEvolution

Walsman, J., M.A. Duffy, and C.E. Cáceres, and S.R. Hall. 2023. ‘Resistance is futile’: Weaker selection for resistance when parasites are abundant further increases prevalence and depresses host density. American Naturalist, in press. https://doi.org/10.1086/724426

Hasik, A.Z., D. de Angeli Dutra, J-F. Doherty, M.A. Duffy, R. Poulin, and A.M. Siepielski. 2023. Resetting our expectations for parasites and their effects on species interactions: a meta-analysis. Ecology Letters, 26(1):184-‌199. https://onlinelibrary.wiley.com/doi/10.1111/ele.14139

Data and code: https://datadryad.org/stash/dataset/doi:10.5061/dryad.wdbrv15sb

Sun, S-J.*, M.K. Dziuba, R. Jaye, and M.A. Duffy. 2023. Temperature modifies trait-mediated infection outcomes in a Daphnia-fungal parasite system. Philosophical Transactions of the Royal Society, 378:20220009. https://royalsocietypublishing.org/doi/10.1098/rstb.2022.0009

Data and code: https://doi.org/10.6084/m9.figshare.c.6360109.v1

McLean, K.D.*, C.D. Gowler, M.K. Dziuba, H. Zamani, S.R. Hall, and M.A. Duffy. 2023. Sexual recombination and temporal gene flow maintain host resistance and genetic diversity in a population of cyclical parthenogens. Evolutionary Ecology, in press. https://doi.org/10.1007/s10682-022-10193-6

Gowler, C.D., H. Essington, B. O’Brien, C.L. Shaw, R.W. Bilich, P.A. Clay, and M.A. Duffy*. 2023. Virulence evolution during a naturally occurring parasite outbreak. Evolutionary Ecology, 37:113-129. doi: 10.1007/s10682-022-10169-6                 (cover image)

Data and code: https://doi.org/10.5061/dryad.b8gtht7db

2022

Sun, S-J.*, M.K. Dziuba, K.M. McIntire, R. Jaye, and M.A. Duffy. 2022. Transgenerational plasticity alters parasite fitness in changing environments. Parasitology, 149(11):1515-1520. https://doi.org/10.1017/S0031182022001056

Data and code: https://github.com/syuanjyunsun/parasite-transgen-exp

Elderd, B., N. Mideo, and M.A. Duffy. 2022. Looking across scales in disease ecology and evolution. American Naturalist, 199(1):51-58. https://doi.org/10.1086/717176

Data and code: https://github.com/duffymeg/LookingAcrossScales

Penczykowski, R.M.*, M. Shocket, J.H. Ochs, B.C.P. Lemanski, H. Sundar, M.A. Duffy, and S.R. Hall. 2022. Virulent disease epidemics can increase host density by depressing foraging of hosts. American Naturalist, 199(1):75-90. https://doi.org/10.1086/717175

Data and code: https://doi.org/10.5061/dryad.np5hqbzsd

2021

Wale, N.*, Fuller, R.C., Johnsen, S., Turrill, M.T., and M.A. Duffy. 2021. The visual ecology of selective predation: Are unhealthy hosts less stealthy hosts? Ecology and Evolution 11:18591-18603. http://doi.org/10.1002/ece3.8464

Data and code: https://datadryad.org/stash/dataset/doi:10.5061/dryad.dv41ns20h

Rogalski, M.A.*, T. Stewart Merrill, C.D. Gowler, C.E. Cáceres, and M.A. Duffy. 2021. Context dependent host-symbiont interactions: shifts along the parasitism-mutualism continuum. American Naturalist, 198(5):563-575. https://www.journals.uchicago.edu/doi/abs/10.1086/716635

Data and code: https://doi.org/10.5061/dryad.1ns1rn8t4

Lopez, L.K. and M.A. Duffy*. 2021. Mechanisms by which predators mediate host-parasite interactions in aquatic systems. Trends in Parasitology, 37(10):890-906. https://doi.org/10.1016/j.pt.2021.06.006

Data and code: none associated with this review manuscript

Gowler, C.G., M.A. Rogalski, C.L. Shaw, K.K. Hunsberger, and M.A. Duffy*. 2021. Density, parasitism, and sexual reproduction are strongly correlated in lake Daphnia populations. Ecology and Evolution, 11:10446-10456. https://doi.org/10.1002/ece3.7847

Data and code: https://doi.org/10.5061/dryad.pzgmsbcm6

Shaw, C.L.*, R. Bilich, B. O’Brien, C.E. Cáceres, S.R. Hall, T.Y. James, and M.A. Duffy. 2021. Genotypic variation in an ecologically important parasite is associated with host species, lake, and spore size. Parasitology, 148(11):1303-1312. doi:10.1017/S0031182021000949

Data and code: https://doi.org/10.5061/dryad.nk98sf7tc

Duffy, M.A.* 2021. Why we should preach to the climate change choir: the importance of science communication that engages people who already accept climate change. American Naturalist, 198(3):433-436. https://www.journals.uchicago.edu/doi/10.1086/715153

Data and code: none associated with this manuscript

Clay, P.A.*, M.H. Cortez, and M.A. Duffy. 2021. Dose relationships can exacerbate, mute or reverse the impact of heterospecific host density on infection prevalence. Ecology, 102(8):e03422. https://esajournals.onlinelibrary.wiley.com/doi/abs/10.1002/ecy.3422

Data and code: https://doi.org/10.5061/dryad.3tx95x6fz

Duffy, M.A.*, C. Garcia-Robledo, S. Gordon, N.A. Grant, D.A. Green II, A. Kamath, R.M. Penczykowski, M. Rebolleda Gómez, N. Wale, and L. Zaman. 2021. Model systems in ecology, evolution, and behavior: A call for diversity in our model systems and discipline. American Naturalist, 198:53-68. https://www.journals.uchicago.edu/doi/10.1086/714574

Data and code: none associated with this manuscript

Cortez, M.H. and M.A. Duffy. 2021. The context dependent effects of host competence, competition, and pathogen transmission mode on disease prevalence. American Naturalist, 198(2):179-194. https://www.journals.uchicago.edu/doi/abs/10.1086/715110

Code: https://doi.org/10.5061/dryad.kwh70rz27

Wale, N.* and M.A. Duffy. 2021. The use and underuse of model systems in infectious disease ecology and evolutionary biology. American Naturalist, 198:69-92. https://www.journals.uchicago.edu/doi/abs/10.1086/714595

Data: https://doi.org/10.5061/dryad.fbg79cntb

2020

Cortez, M.H. and M.A. Duffy. 2020. Comparing the indirect effects of predators that share prey with those of pathogens that share hosts. American Naturalist, 196(6):E144-E159. DOI: 10.1086/711345

Code: https://doi.org/10.5061/dryad.pzgmsbchp

Shaw, C.L.*, E. Overholt, C. Williamson, C.E. Cáceres, S.R. Hall, and M.A. Duffy. 2020. Shedding light on environmentally transmitted parasites: Lighter conditions within lakes restrict epidemic size. Ecology, 101(11): e03168. DOI: 10.1002/ecy.3168 (Recipient of the 2021 Frost Award for Excellence in Graduate Research from the ESA Aquatic Ecology section)

Data and code: https://doi.org/10.5061/dryad.w3r2280nk

Clay, P.A*, M.A. Duffy, and V.H.W. Rudolf. 2020. Within-host priority effects and epidemic timing determine disease outbreak severity in coinfected populations. Proceedings of the Royal Society, B, 287:20200046. DOI: 10.1098/rspb.2020.0046

Data and code: https://doi.org/10.5061/dryad.pnvx0k6h6

Rogalski, M.A.* and M.A. Duffy. 2020. Local adaptation of a parasite to solar radiation impacts disease transmission potential, spore yield, and host fecundity. Evolution, 74(8):1856-1864. DOI:10.1111/evo.13940

Data and code: https://doi.org/10.5061/dryad.2jm63xskd

Overholt, E.P., M.A. Duffy, M.P. Meeks, T.H. Leach, and C.E. Williamson. 2020. Light exposure decreases infectivity of the Daphnia parasite Pasteuria ramosa. Journal of Plankton Research, 42(1):41-44. DOI: 10.1093/plankt/fbz070

McLean, K.D.* and M.A. Duffy. 2020. Ecological context influences evolution in host-parasite interactions: insights from the Daphnia-parasite model system. Chapter 21, pages 289-307 in Evolution in Action: Past, Present and Future (eds: Banzhaf W. et al.) 10.1007/978-3-030-39831-6_21

2019

Fox, C.W., M.A. Duffy, D.J. Fairbairn, and J.A. Meyer. 2019. Gender diversity of editorial boards and gender differences in the peer review process at six journals of ecology and evolution. Ecology & Evolution, 9:13636-13649. DOI: 10.1002/ece3.5794

Duffy, M.A.*, S.J. Cheng, and J.W. Hammond. 2019. Preaching to the choir or composing new verses? Toward a writerly climate literacy in introductory undergraduate biology. Ecology & Evolution, 9:12360-12373. DOI: 10.1002/ece3.5736

Duffy, M.A.*, C.E. Cáceres, and S.R. Hall. 2019. Healthy herds or predator spreaders? Insights from the plankton into how predators suppress and spread disease. Chapter 16, pages 458-479 in Wildlife Disease Ecology: Linking theory to data and application (eds: Ken Wilson, Andy Fenton, and Dan Tompkins, Cambridge University Press) DOI: 10.1017/9781316479964.016

Duffy, M.A.*, C.A. Thanhouser, and H.A. Derry. 2019. A lack of evidence for six times more anxiety and depression in US graduate students than in the general population. Nature Biotechnology doi: 10.1038/s41587-019-0179-y

Shocket, M.S., A. Magnante, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2019. Can hot temperatures limit disease transmission? A test of mechanisms in a zooplankton–fungus system. Functional Ecology, 33(10):2017-2029.

Emery, N., A. Hund, R. Burks, M.A. Duffy, C. Scoffoni, and A. Swei. 2019. Students as ecologists: Strategies for successful mentorship of undergraduate researchers. Ecology and Evolution, in press.

McLean, K.D.* and M.A. Duffy. 2019. Ecological context influences evolution in host-parasite interactions: insights from the Daphnia-parasite model system. Evolution in Action: Past, Present and Future, in press. (invited submission)

Sánchez, K.F.*, N. Huntley, M.A. Duffy, and M.D. Hunter. 2019. Toxins or medicines? Phytoplankton diets mediate host and parasite fitness in a freshwater system. Proceedings of the Royal Society, B, in press. https://doi.org/10.1098/rspb.2018.2231

Duffy, M.A.* and K.K. Hunsberger. 2019. Infectivity is influenced by parasite spore age and exposure to freezing: do shallow waters provide Daphnia a refuge from some parasites? Journal of Plankton Research, 41(1):12-16. doi: 10.1093/plankt/fby046

Clay, P.A., M.H. Cortez, M.A. Duffy, and V.H.W. Rudolf. 2019. Priority effects within coinfected hosts can drive unexpected population-scale patterns of parasite prevalence. Oikos, in press. doi: 10.1111/oik.05937

Wale, N.*, M.L. Turrill, and M.A. Duffy. 2019. A colorful killer: Daphnia infected with the bacterium Spirobacillus cienkowskii exhibit unexpected color variation. Ecology, 100(3):e02562. https://doi.org/10.1002/ecy.2562

Clay, P.A., K.L. Dhir, V.H.W. Rudolf, and M.A. Duffy. 2019. Within host priority effects systematically alter pathogen coexistence. American Naturalist, 193(2):187-199. https://doi.org/10.1086/701126

Duffy, M.A.*, C.E. Cáceres, and S.R. Hall. 2019. Healthy herds or predator spreaders? Insights from the plankton into how predators suppress and spread disease. Wildlife Disease Ecology: Linking theory to data and application (eds: Ken Wilson, Andy Fenton, and Dan Tompkins, Cambridge University Press)

2018

Bresciani, L., L.N. Lemos, N. Wale, J.Y. Lin, A.T. Strauss, M.A. Duffy, and J.L.M. Rodrigues. 2018. Draft genome sequence of “Candidatus Spirobacillus cienkowskii,” a pathogen of freshwater Daphnia species, reconstructed from hemolymph metagenomic reads. Microbiology Resource Announcements, 7(22):e01175-18.

Shocket, M.S., D. Vergara, A.J. Sickbert, J.M. Walsman, J.L. Hite, A.T. Strauss, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2018. Parasite rearing and infection temperatures jointly influence disease transmission and shape seasonality of epidemics. Ecology, 99(9):1975-1987.

Strauss, A.T., A.M. Bowling, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2018. Linking host traits, interactions with competitors and disease: Mechanistic foundations for disease dilution. Functional Ecology, 32(5):1271-1279. (recipient of the 2018 Haldane Prize for Early Career Research)

Shocket, M.S., A.T. Strauss, J.L. Hite, M. Šlijvar, D.J. Civitello, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2018. Temperature drives epidemics in a zooplankton-fungus disease system: A trait-driven approach points to transmission via host foraging. American Naturalist, 191(4): 435-451. (recipient of the 2018 American Naturalist Student Paper Award)

2017

Strauss, A.T., J.L. Hite, M.S. Shocket, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2017. Rapid evolution rescues hosts from competition and disease but – despite a dilution effect – increases the density of infected hosts. Proceedings of the Royal Society, B, 284:20171970.

Saunders, Manu E., M.A. Duffy, S.B. Heard, M. Kosmala, S.R. Leather, T. McGlynn, J. Ollerton, and A.E. Parachnowitsch. 2017. Bringing ecology blogs into the scientific fold: quantifying reach and impact of science-community blogs. Royal Society Open Science, 4:170957.

Duffy, M.A. 2017. Last and corresponding authorship practices in ecology. Ecology and Evolution, 7:8876-8887. doi: 10.1002/ece3.3435

Hite, J.L., R.M. Penczykowski, M.S. Shocket, K. Griebel, A.T. Strauss, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2017. Allocation, not male resistance, increases male frequency during epidemics: A case study in facultatively sexual hosts. Ecology, 98(11): 2773-2783.

Auld, S.K.J.R., C.L. Searle, and M.A. Duffy. 2017. Parasite transmission in a natural multihost-multiparasite community. Philosophical Transactions of the Royal Society, B, 372:20160097.

Rogalski, M.A., C.D. Gowler, C.L. Shaw, R.A. Hufbauer, and M.A. Duffy. 2017. Human drivers of ecological and evolutionary dynamics in emerging and disappearing infectious disease systems. Philosophical Transactions of the Royal Society, B, 372:20160043.

2016

Strauss, A.T., M.S. Shocket, D.J. Civitello, J.L. Hite, R.M. Penczykowski, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2016. Habitat, predators, and hosts regulate disease in Daphnia through direct and indirect pathways. Ecological Monographs, 86:393-411.

Searle, C.L., M.H. Cortez, K.K. Hunsberger, D.C. Grippi, I.A. Oleksy, C.L. Shaw, S.B. de la Serna, C.L. Lash, K.L. Dhir, and M.A. Duffy. 2016. Population density, not host competence, drives patterns of disease in an invaded community. American Naturalist, 188(5):554-566.

Searle, C.L., C.L. Shaw, K.K. Hunsberger, M. Prado, and M.A. Duffy. 2016. Salinization decreases population densities of the freshwater crustacean, Daphnia dentifera. Hydrobiologia, 770:165-172.

Hite, J.L., R.M. Penczykowski, M.S. Shocket, A.T. Strauss, P.A. Orlando, M.A. Duffy, C.E. Cáceres, and S.R. Hall. 2016. Parasites destabilize host populations by shifting stage-structured interactions. Ecology, 97:439-449.

2015

Duffy, M.A., T.Y. James, and A. Longworth. 2015. Ecology, virulence, and phylogeny of Blastulidium paedophthorum, a widespread brood parasite of Daphnia spp. Applied and Environmental Microbiology, 81(16):5486-5496.                       (cover article)

Searle, C.L., J. Housley Ochs, C.E. Cáceres, S. Chiang, N.M. Gerardo, S.R. Hall, and M.A. Duffy. 2015. Plasticity, not genetic variation, drives infection success of a fungal parasite. Parasitology, 142:839-848.

Civitello, D.J., A.N. Smith, R.M. Penczykowski, M.S. Shocket, M.A. Duffy, and S.R. Hall. 2015. Resources, key traits, and the size of fungal epidemics in Daphnia populations. Journal of Animal Ecology, 84:1010-1017.

2014

Duffy, M.A. 2014. It helps to be well-connected. (Invited Perspective, not peer-reviewed) Science, 344:1229-1230.

Lively, C.M., J.C. de Roode, M.A. Duffy, A.L. Graham, and B. Koskella. 2014. Interesting open questions in disease ecology and evolution. American Naturalist, 18:S1-S8.

Auld, S.K.J.R., S.R. Hall, J.H. Ochs, M. Sebastian, and M.A. Duffy. 2014. Predators and patterns of within-host growth can mediate both among-host competition and the evolution of transmission potential of parasites. American Naturalist, 184:S77-S90. (Supplement)

Penczykowski, R.M., B.C.P. Lemanski, R.D. Sieg, S.R. Hall, J.H. Ochs, J. Kubanek, and M.A. Duffy. Poor resource quality lowers transmission potential by changing foraging behavior. Functional Ecology, 28: 1245-1255.

Cáceres, C.E., A.J. Tessier, M.A. Duffy, and S.R. Hall. 2014. Disease in freshwater zooplankton: what have we learned and where are we going? J. Plankton Res. 0(0): 1–8.

Penczykowski, R.M., S.R. Hall, D.J. Civitello, and M.A. Duffy*. 2014. Habitat structure and ecological drivers of disease. Limnology and Oceanography, 59(2), 340–348.

2013

Searle, C.L., J.R. Mendelson III, L.E. Green, and M.A. Duffy*. 2013. Daphnia predation on the amphibian chytrid fungus and its impacts on disease risk in tadpoles. Ecology and Evolution, 3(12):4129-4138.  (cover article)

Bertram, C.R., M. Pinkowski, S.R. Hall, M.A. Duffy, and C.E. Cáceres. 2013. Trait-mediated indirect effects, predators, and disease: test of a size-based model. Oecologia, 173:1023–1032.

Auld, S.K.J.R., R.M. Penczykowski, J.H. Ochs, D.C. Grippi, S.R. Hall, and M.A. Duffy*. 2013. Variation in costs of parasite resistance among natural host populations. Journal of Evolutionary Biology, 26(11):2479-2486.

Civitello, D.J., S. Pearsall, M.A. Duffy, and S.R. Hall. 2013. Parasite consumption and host interference can inhibit disease spread in dense populations. Ecology Letters, 16(5):626-634.

Civitello, D.J., R.M. Penczykowski, J.L. Hite, M.A. Duffy*, and S.R. Hall. 2013. Potassium stimulates fungal epidemics in a freshwater invertebrate. Ecology, 94:380–388.

Auld, S.K.J.R.*, S.R. Hall, and M.A. Duffy*. 2012. Epidemiology of a Daphnia-multiparasite system and its implications for the Red Queen. PLoS ONE, 7(6): e39564.

2012

Duffy, M.A.*, J. Housley Ochs, R.M. Penczykowski, D.J. Civitello, C.A. Klausmeier, and S.R. Hall. Ecological context influences epidemic size and parasite-mediated selection. Science, 335:1636-1638. / cover image

Hall, S.R., C.R. Becker, M.A. Duffy, and C.E. Cáceres. 2012. A power-efficiency tradeoff in resource use alters epidemiological relationships. Ecology, 93:645-656.

Overholt, E.P., S.R. Hall, C.E. Williamson, C.E. Meikle, M.A. Duffy, and C.E. Cáceres. 2012. Solar radiation decreases parasitism in Daphnia. Ecology Letters, 15:47-54.

2011

Prior, N.H., C.N. Washington, J.M. Housley, S.R. Hall, M.A. Duffy, and C.E. Cáceres. 2011. Maternal effects and epidemiological traits in a planktonic host-parasite system. Evolutionary Ecology Research, 13:401-413.

Duffy, M.A.*, J.M. Housley, R.M. Penczykowski, C.E. Cáceres, S.R. Hall. 2011. Unhealthy herds: indirect effects of predators enhance two drivers of disease spread. Functional Ecology, 25(5):945-953. (This article was the focus of a Spotlight by Welch & Harwood, pages 943-944.)

Thomas, S.H., C. Bertram, K. van Rensburg, C.E. Cáceres, and M.A. Duffy*. 2011. Spatiotemporal dynamics of free-living stages of a bacterial parasite of zooplankton. Aquatic Microbial Ecology, 63(3):265-272.

Hall, S.R., C.R. Becker, M.A. Duffy, C.E. Cáceres. 2011. Epidemic size determines population-level effects of parasites. Oecologia, 166:833-842.

Kestrup, Å.M.*, S.H. Thomas*, K. van Rensburg, A. Ricciardi, and M.A. Duffy*. 2011. Differential infection of exotic and native freshwater amphipods by a parasitic water mold in the St. Lawrence River. Biological Invasions, 13(3):769-779.
*these authors contributed equally

Thomas, S.H., J.M. Housley, A.N. Reynolds, R.M. Penczykowski, K.H. Kenline, N. Hardegree, S. Schmidt, and M.A. Duffy*. 2011. The ecology and phylogeny of oomycete infections in Asplanchna rotifers. Freshwater Biology, 56:384-394.

Penczykowski, R.M., S.E. Forde and M.A. Duffy*.2011. Rapid evolution as a possible constraint on emerging infectious diseases. Freshwater Biology, 56:689-704.

2010

Hall, S.R., C.R. Becker, M.A. Duffy, and C.E. Cáceres. 2010. Variation in resource acquisition and use among hosts can create key epidemiological tradeoffs. American Naturalist, 176:557-565.

Duffy, M.A.*, C.E. Cáceres, S.R. Hall, A.J. Tessier and A.R. Ives. 2010. Temporal, spatial and between-host comparisons of patterns of parasitism in lake zooplankton. Ecology, 91(11):3322-3331.

Hall, S.R., R. Smyth, C.R. Becker, M.A. Duffy, C.M. Knight, S. MacIntyre, A.J. Tessier, and C.E. Cáceres. 2010. Why are some lakes sicker? Disease ecology, habitat structure and the plankton. BioScience, 60(5):363-375.

Duffy, M.A.* 2010. Ecological consequences of intraspecific variation in lake Daphnia. Freshwater Biology, 55: 995-1004.

2009

Duffy, M.A.* and S.E. Forde. 2009. Ecological feedbacks and the evolution of resistance. Journal of Animal Ecology,78:1106-1112.

Duffy, M.A.*, S.R. Hall, C.E. Cáceres and A.R. Ives. 2009. Rapid evolution, seasonality, and the termination of parasite epidemics. Ecology, 90(6):1441-1448. Appendix Link to supplemental files

Duffy, M.A.* 2009. Staying alive: the post-consumption fate of parasite spores and its implications for disease dynamics. Limnology and Oceanography, 54(3):770-773.

Hall, S.R., C.M. Knight, C.R. Becker, M.A. Duffy, A.J. Tessier and C.E. Cáceres. 2009. Quality matters: resource quality for hosts and the timing of epidemics. Ecology Letters, 12(2):118-128. appendix

Hall, S.R., C.R. Becker, J.L. Simonis, M.A. Duffy, A.J. Tessier, and C.E. Cáceres. 2009. Friendly competition: evidence for a dilution effect in a planktonic host-parasite system. Ecology, 90(3):791-801.

2008

Duffy, M.A.*, C.E. Brassil, S.R. Hall, A.J. Tessier, C.E. Cáceres, and J.K. Conner. 2008. Parasite-mediated disruptive selection in a natural Daphnia population. BMC Evolutionary Biology, 8:80.

Cáceres, C.E., A.J. Tessier, A. Andreou, M.A. Duffy. 2008. Stoichiometric relationships in vernal pond plankton communities. Freshwater Biology 53:1291–1302.

Duffy, M.A.* and S.R. Hall. 2008. Selective predation and rapid evolution can jointly dampen effects of virulent parasites on Daphnia populations. American Naturalist, 171(4): 499-510. / appendices  / profile of this work (This paper received the Mercer Award from the Ecological Society of America.)

Rodrigues, J.L.M., M.A. Duffy, A.J. Tessier, D. Ebert, L. Mouton and T.M. Schmidt. 2008. Phylogenetic characterization and prevalence of Spirobacillus cienkowskii: a red-pigmented, spiral-shaped bacterial pathogen of freshwater Daphnia species. Applied and Environmental Microbiology, 74(5):1575-1582.

2007

Duffy, M.A.* 2007. Selective predation, parasitism, and trophic cascades in a bluegill-Daphnia-parasite system. Oecologia 153(2):453-460. / Code for MAR model (requires Matlab; if doesn’t download properly, right click on link and save file to computer) Data that goes along with code

Hall, S.R., L. Sivars-Becker, C. Becker, M.A. Duffy, A.J. Tessier and C.E. Cáceres. 2007. Eating yourself sick: transmission of disease as a function of foraging ecology. Ecology Letters 10(3):207-218.

Duffy, M.A.* and L. Sivars-Becker. 2007. Rapid evolution and ecological host-parasite dynamics. Ecology Letters 10(1):44-53. code for evolutionary epidemiological model (requires Mathematica; if file doesn’t download properly, right click and save it to your computer)
*reviewed by Faculty of 1000

2006

Hall, S.R., A.J. Tessier, M.A. Duffy, M. Huebner and C.E. Cáceres. 2006. Warmer does not have to mean sicker: Temperature and predators can jointly drive timing of epidemics. Ecology 87(7):1684-1695.

Cáceres, C.E., S.R. Hall, M.A. Duffy, A.J. Tessier, C. Helmle and S. MacIntyre. 2006. Physical structure of lakes constrains epidemics in Daphnia populations. Ecology 87(6):1438-1444.

2005

Hall, S.R., M.A. Duffy, A.J. Tessier and C.E. Cáceres. 2005. Spatial heterogeneity of daphniid parasitism in lakes. Oecologia 143(4):635-644.

Duffy, M.A.*, S.R. Hall, A.J. Tessier and M. Huebner. 2005. Selective predators and their parasitized prey: Are epidemics in zooplankton under top-down control? Limnology and Oceanography 50:412-420.

Hall, S.R., M.A. Duffy and C.E. Cáceres. 2005. Selective predation and productivity jointly drive complex behavior in host-parasite systems. American Naturalist 165:70-81.

2004

Duffy, M. A.*, A.J. Tessier and M.A. Kosnik. 2004. Testing the ecological relevance of Daphnia species designations. Freshwater Biology 49(1):55-64.

2000

Duffy, M.A.*, L.J. Perry, C.M. Kearns, L.J. Weider, and N.G. Hairston, Jr. 2000. Paleogenetic evidence for a past invasion of Onondaga Lake, New York, by exotic Daphnia curvirostris using mtDNA from dormant eggs. Limnology and Oceanography 45(6):1409-1414.

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