Kueppers, L. and J.S. Clark (Co-directors and editors) U.S. DOE. 2018. Disturbance and Vegetation Dynamics in Earth System Models, DOE/SC-0196. Office of Biological and Environmental Research, U.S. Department of Energy Office of Science.
Clark, J. S., B. J. Stocks, H. Cachier, and J. G. Goldammer (eds). 1997. Sediment Records of Biomass Burning and Global Change. Springer Verlag, Berlin, Germany.
Articles
Journé, V., Bogdziewicz, M., Courbaud, B., Kunstler, G., Qiu, T., Acuña, M.-C., Ascoli, D., Bergeron, Y., Berveiller, D., Boivin, T., Bonal, R., Caignard, T., Cailleret, M., Calama, R., Camarero, J. ., Chang-Yang, C.-H., Chave, J., Chianucci, F., Curt, T., Cutini, A., Das, A., Daskalakou, E., Davi, H., Delpierre, N., Delzon, S., Dietze, M., Calderon, S., Dormont, L., Espelta, J., Farfan-Rios, W., Fenner, M., Franklin, J., Gehring, C., Gilbert, G., Gratzer, G., Greenberg, C., Guignabert, A., Guo, Q., Hacket-Pain, A., Hampe, A., Han, Q., Hanley, M., Lambers, J., Holík, J., Hoshizaki, K., Ibanez, I., Johnstone, J., Knops, J. ., Kobe, R., Kurokawa, H., Lageard, J., LaMontagne, J., Ledwon, M., Lefèvre, F., Leininger, T., Limousin, J.-M., Lutz, J., Macias, D., Mårell, A., McIntire, E., Moran, E., Motta, R., Myers, J., Nagel, T., Naoe, S., Noguchi, M., Norghauer, J., Oguro, M., Ourcival, J.-M., Parmenter, R., Pearse, I., Pérez-Ramos, I., Piechnik, Ł., Podgórski, T., Poulsen, J., Redmond, M., Reid, C., Samonil, P., Scher, C. ., Schlesinger, W., Seget, B., Sharma, S., Shibata, M., Silman, M., Steele, M., Stephenson, N., Straub, J., Sutton, S., Swenson, J., Swift, M., Thomas, P., Uriarte, M., Vacchiano, G., Whipple, A., Whitham, T., Wright, S. ., Zhu, K., Zimmerman, J., Żywiec, M. and Clark, J.S. 2024. The relationship between maturation size and maximum tree size from tropical to boreal climates. Ecology Letters, 27: e14500. https://doi.org/10.1111/ele.14500.
Qiu, Tong, J. S. Clark, K. R. Kovach, P. A. Townsend, and J. J. Swenson. 2024. Remotely Sensed Crown Nutrient Concentrations Modulate Forest Reproduction across the Contiguous United States. Ecology 105(8): e4366. https://doi.org/10.1002/ecy.4366
Núñez, C. L., Clark, J. S., & Poulsen, J. R. 2024. Disturbance sensitivity shapes patterns of tree species distribution in Afrotropical lowland rainforests more than climate or soil. Ecology and Evolution, 14, e11329. https://doi.org/10.1002/ece3.11329
Scher, C. L., Roberts, S. M., Krause, K. P., and Clark, J. S. 2024. Leveraging relationships between species abundances to improve predictions and inform conservation. Journal of Applied Ecology, 61, 1662–1672. https://doi.org/10.1111/1365-2664.14670
Kays, R., Snider, M. H., Hess, G., Cove, M. V., Jensen, A., Shamon, H., McShea, W. J., Rooney, B., Allen, M. L., Pekins, C. E., Wilmers, C. C., Pendergast, M. E., Green, A. M., Suraci, J., Leslie, M. S., Nasrallah, S., Farkas, D., Jordan, M., Grigione, M., … Parsons, A. 2024. Climate, food and humans predict communities of mammals in the United States. Diversity and Distributions, 00, e13900. https://doi.org/10.1111/ddi.13900
Tang, B., Roberts, S. M., Clark, J. S., and Gelfand, A. E. 2023. Mechanistic modeling of climate effects on redistribution and population growth in a community of fish species. Global Change Biology, 29, 6399–6414. https://doi.org/10.1111/gcb.16963
Palacio, R.D. and Clark, J.S. 2023, Incorporating intraspecific variation into species responses reveals both their resilience and vulnerability to future climate change. Ecography, 2023: e06769. https://doi.org/10.1111/ecog.06769
Qiu, T. M.-C. Aravena Acuña, D. Ascoli, Y. Bergeron, M.Bogdziewicz, R. Bonal, T. Boivin, T. Caignard, M. Cailleret, R. Calama, J. J. Camarero, C.-H. Chang-Yang, J. Chave, F. Chianucci, B. Courbaud, A. Cutini, A. Das, N. Delpierre, S. Delzon, M. Dietze, S. Donoso Calderon, L. Dormont, J. M. Espelta, T. Fahey, W. Farfan-Rios, J. Franklin, C. Gehring, G. Gilbert, G. Gratzer, C. Greenberg, A. Guignabert, Q. Guo, A. Hacket-Pain, A. Hampe, Q. Han, J. Holík, K. Hoshizaki, I. Ibañez, J. Johnstone, V. Journé, T. Kitzberger, J. Knops, G. Kunstler, J. Lageard, J. LaMontagne, F. Lefevre, T. Leininger, J.-M. Limousin, J. Lutz, D. Macias, A. Marell, E. McIntire, C. Moore, E. Moran, R. Motta, J. Myers, T. Nagel, M. Noguchi, R. Parmenter, P. Samonil, I. Pearse, I. Perez-Ramos, L. Piechnik, T. Podgorski, J. Poulsen, M. Redmond, C. Reid, K. Rodman, F. Roiguez-Sanchez, J. Sanguinetti, C. L. Scher, B. Seget, S. Sharma, M. Silman, M. Steele, N. Stephenson, J. Straub, S. Sutton, J. Swenson, M. Swift, P. Thomas, M. Uriarte, G. Vacchiano, A. Whipple, T. Whitham, A. Wion, S. Wright, K. Zhu, J. Zimmerman, M. Żywiec, and J. S. Clark. 2023. Masting is uncommon in trees that depend on mutualist dispersers in the context of global climate and fertility gradients.Nature Plants, https://doi.org/10.1038/s41477-023-01446-5.
Bogdziewicz, M., Calama, R., Courbaud, B., Espelta, J.M., Hacket-Pain, A., Journé, V., Kunstler, G., Steele, M., Qiu, T., Zywiec, M. and Clark, J.S. 2023, How to measure mast seeding? New Phytologist, 239: 830-838. https://doi.org/10.1111/nph.18984.
Qiu, T., Bell, A. J., Swenson, J. J., & Clark, J. S. 2023. Habitat–trait interactions that control response to climate change: North American ground beetles (Carabidae). Global Ecology and Biogeography, 32, 987–1001. https://doi.org/10.1111/geb.13670
Scher, C. Lane, and James S. Clark. 2023. Species traits and observer behaviors that bias data assimilation and how to accommodate them. Ecological Applications 33(3): e2815. https://doi.org/10.1002/eap.2815
Bogdziewicz,, M, M.-C. Aravena Acuña, R. Andrus, D. Ascoli, Y. Bergeron, D. Brveiller, T. Boivin, R. Bonal, T. Caignard, M. Cailleret, R. Calama, S. Donoso Calderon, J. J. Camarero, C.-H. Chang-Yang, J. Chave, F. Chianucci, Natalie L. Cleavitt, B. Courbaud, A. Cutini, T. Curt, A. J. Das, H. Davi, N. Delpierre, S. Delzon, M. Dietze, L. Dormont , W. Farfan-Rios, C. A. Gehring, G. S. Gilbert, G. Gratzer, C. H. Greenberg, A. Guignabert, Q. Guo, A. Hacket-Pain, A. Hampe, Q. Han, K. Hoshizaki, I. Ibanez, J. F. Johnstone, V. Journé, T. Kitzberger, J. M.H. Knops , Georges Kunstler, R. Kobe, J. G.A. Lageard, J. M. LaMontagne, M. Ledwon, T. Leininger, J.-M. Limousin, J. A. Lutz, D. Macias, A. Marell, E. J.B. McIntire, E. Moran, R. Motta, J. A. Myers, T. A. Nagel, S. Naoe, K. Noguchi, M. Oguro, H. Kurokawa, J.-M. Ourcival, R. Parmenter, I. M. Perez-Ramos, L. Piechnik, Tomasz Podgórski, J. Poulsen, T. Qiu, M. D. Redmond, C. D. Reid, K. C. Rodman, P. Šamonil, J. Holik, C. L. Scher, H. Schmidt Van Marle, B. Seget, M. Shibata, S. Sharma, M. Silman, M. A. Steele, J. N. Straub, I-F. Sun, S. Sutton, J. J. Swenson, P. A. Thomas, M. Uriarte, G. Vacchiano, T. T. Veblen, B. Wright, S. J. Wright, T. G. Whitham, K. Zhu, J. K. Zimmerman, M. Zywiec, and J. S. Clark 2023. Linking seed size and number to trait syndromes in trees. Global Ecology and Biogeography, 32, 683–694. https://doi.org/10.1111/geb.13652
Tang, B., J.S.Clark, P. Marra, and A.E. Gelfand. 2023. Modeling community dynamics through environmental effects, species interactions and movement. Journal of Agricultural Biological and Environmental Statistics, 28, 178–195. https://doi.org/10.1007/s13253-022-00520-3
Knowlton, A. R., Clark, J. S., Hamilton, P. K., Kraus, S. D., Pettis, H. M., Rolland, R. M., & Schick, R. S. 2022. Fishing gear entanglement threatens recovery of critically endangered North Atlantic right whales. Conservation Science and Practice, 4(8), e12736. https://doi.org/10.1111/csp2.12736.
Parsons, A.W., J.S. Clark, and R Kays. 2022. Monitoring small mammal abundance using NEON data: are calibrated indices useful? Journal of Mammalogy, 104, 292–302, https://doi.org/10.1093/jmammal/gyac096
Qiu T., R. Andrus, M.-C. Aravena, D. Ascoli, Y. Bergeron, R. Berretti, D. Berveiller, M. Bogdziewicz, T. Boivin, R. Bonal, D. C. Bragg, T. Caignard, R. Calama, J. J. Camarero, C.-H. Chang-Yang, N. L. Cleavitt, B. Courbaud, F. Courbet, T. Curt, A. J. Das, E. Daskalakou, H. Davi, N. Delpierre , S. Delzon, M. Dietze, S. Donoso Calderon, L. Dormont, J. Espelta, T. J. Fahey, W. Farfan-Rios, C. A. Gehring, G. S. Gilbert, G. Gratzer, C. H. Greenberg, Q. Guo, A. Hacket-Pain, A. Hampe, Q. Han, J. Hille Ris Lambers, K. Hoshizaki, I. Ibanez, J. F. Johnstone, V. Journ ́e, D. Kabeya, C. L. Kilner, T. Kitzberger, J. M.H. Knops, R. K. Kobe, G. Kunstler, J. G.A. Lageard, J. M. LaMontagne, M. Ledwon, F. Lefevre, T. Leininger, J.-M. Limousin, J. A. Lutz, D. Macias, E. J.B. McIntire, C. M. Moore, E. Moran, R. Motta, J. A. Myers, T. A. Nagel, K. Noguchi, J.-M. Ourcival, R. Parmenter, I. S. Pearse, I. M. Perez-Ramos, L. Piechnik, J. Poulsen, R. Poulton-Kamakura, M. D. Redmond, C. D. Reid, K. C. Rodman, F. Rodriguez-Sanchez, J. D. Sanguinetti, C. L. Scher, W. H. Schlesinger, H. Schmidt Van Marle, B. Seget, S. Sharma, M. Silman, M. A. Steele, N. L. Stephenson, J. N. Straub, I-Fang Sun, S. Sutton, J. J. Swenson, M. Swift, P. A. Thomas, M. Uriarte, G. Vacchiano, T. T. Veblen, A. V. Whipple, T. G. Whitham, A. P. Wion, B. Wright, S. J. Wright, K. Zhu, J. K. Zimmerman, R. Zlotin, M. Zywiec, and J. S. Clark. 2022. Limits to reproduction and seed size-number tradeoffs that shape forest dominance and future recovery. Nature Communications, 13:2381 https://doi.org/10.1038/s41467-022-30037-9.
Journ ́e, V., R. Andrus, M.-C. Aravena, D. Ascoli, Y. Bergeron, R. Berretti, D. Berveiller, M. Bogdziewicz, T. Boivin, R. Bonal, D. C. Bragg, T. Caignard, R. Calama, J. J. Camarero, C.-H. Chang-Yang, N. L. Cleavitt, B. Courbaud, F. Courbet, T. Curt, A. J. Das, E. Daskalakou, H. Davi, N. Delpierre , S. Delzon, M. Dietze, S. Donoso Calderon, L. Dormont, J. Espelta, T. J. Fahey, W. Farfan-Rios, C. A. Gehring, G. S. Gilbert, G. Gratzer, C. H. Greenberg, Q. Guo, A. Hacket-Pain, A. Hampe, Q. Han, J. Hille Ris Lambers, K. Hoshizaki, I. Ibanez, J. F. Johnstone, D. Kabeya, C. L. Kilner, T. Kitzberger, J. M.H. Knops, R. K. Kobe, G. Kunstler, J. G.A. Lageard, J. M. LaMontagne, M. Ledwon, F. Lefevre, T. Leininger, J.-M. Limousin, J. A. Lutz, D. Macias, E. J.B. McIntire, C. M. Moore, E. Moran, R. Motta, J. A. Myers, T. A. Nagel, K. Noguchi, J.-M. Ourcival, R. Parmenter, I. S. Pearse, I. M. Perez-Ramos, L. Piechnik, J. Poulsen, R. Poulton-Kamakura, Qiu T., M. D. Redmond, C. D. Reid, K. C. Rodman, F. Rodriguez-Sanchez, J. D. Sanguinetti, C. L. Scher, W. H. Schlesinger, H. Schmidt Van Marle, B. Seget, S. Sharma, M. Silman, M. A. Steele, N. L. Stephenson, J. N. Straub, I-Fang Sun, S. Sutton, J. J. Swenson, M. Swift, P. A. Thomas, M. Uriarte, G. Vacchiano, T. T. Veblen, A. V. Whipple, T. G. Whitham, A. P. Wion, B. Wright, S. J. Wright, K. Zhu, J. K. Zimmerman, R. Zlotin, M. Zywiec, and J. S. Clark. 2022. Globally, tree fecundity exceeds productivity gradients. Ecology Letters, DOI: 10.1111/ele.14012, pdf: EcologyLetters2022.
Hurst, J.H., A. W. McCumber, J. N. Aquino, J. Rodriguez, S. M. Heston, D. J. Lugo, A. T. Rotta, N. A. Turner, MD, T. S. Pfeiffer, T. C. Gurley, M. A. Moody, T. N. Denny, MSc, J. F. Rawls, J. S. Clark, C. W. Woods, M. S. Kelly. 2022. Age-related changes in the nasopharyngeal microbiome are associated with SARS-CoV-2 infection and symptoms among children, adolescents, and young adults.Clinical Infectious Diseases, ciac184, https://doi.org/10.1093/cid/ciac184.
Nunez, C.L., J. R. Poulsen, L.J.T. White, V. Medjibe, and J. S. Clark. 2021. Distinct community-wide responses to forecasted climate change in Afrotropical forests.Frontiers in Ecology and Evolution, nunezFEVO, https://doi.org/10.3389/fevo.2021.719141.
Sharma, S., Y. Bergeron, M. Bogdziewicz, D.C. Bragg, D. Brockway, N.L. Cleavitt, B. Courbaud, A.J. Das, M. Dietze, T.J. Fahey, J.F. Franklin, G.S. Gilbert, C.H. Greenberg, Q. Guo, J. Hille Ris Lambers, I. Ibanez, J. Johnstone, C.L. Kilner, G. Kunstler, J.M. LaMontagne, D. Macias, J.A. Myers, R. Parmenter, C.L. Scher, W.H. Schlesinger, M. Steele, N.L. Stephenson, M. Swift, T.T. Veblen, A.V. Whipple, T.G. Whitham, A.P. Wion, K. Zhu, R. Zlotin, and J.S. Clark, 2022. North American tree migration paced by recruitment through contrasting east-west mechanisms.Proceedings of the National Academy of Sciences, 119 (3) e2116691118; https://doi.org/10.1073/pnas.2116691118. pdf: e2116691118.full
Qiu, T., S. Shubhi, C. W. Woodall, and J.S. Clark. 2021. Niche shifts from trees to fecundity to recruitment that determine species response to climate change. Frontiers in Ecologyand Evolution 9, 863. https://www.frontiersin.org/article/10.3389/fevo.2021.719141, DOI10.3389/fevo.2021.719141.
Qiu, T., M.-C. Aravena, R. Andrus, D. Ascoli, Y. Bergeron, R. Berretti, M. Bogdziewicz, T. Boivin, R. Bonal, T. Caignard, R. Calama, J. J. Camarero, C.J. Clark, B. Courbaud, S. Delzon, S. Donoso Calderon, W. Farfan-Rios, C. A. Gehring, G. S. Gilbert, C. H. Greenberg, Q. Guo, J. Hille Ris Lambers, K. Hoshizaki, I. Ibanez, V. Journé, C. L. Kilner, R. K. Kobe, W. D. Koenig, G. Kunstler, J. M. LaMontagne, M. Ledwon, J. A. Lutz, R. Motta, J. A. Myers, T. A. Nagel, C. L. Nuñez, I. S. Pearse, Ł. Piechnik, J. R. Poulsen, R. Poulton-Kamakura, M. D. Redmond, C. D. Reid, K. C. Rodman, C. L. Scher, H. Schmidt Van Marle, B. Seget, S. Sharma, M. Silman, J. J. Swenson, M. Swift, M. Uriarte, G. Vacchiano, T. T. Veblen, A. V. Whipple, T. G. Whitham, A. P. Wion, S. J. Wright, K. Zhu, J. K. Zimmerman, M. Żywiec, and J. S. Clark. 2021. Is there tree senescence? The fecundity evidence. Proceedings of the National Academy of Sciences, 118, e2106130118; DOI: 10.1073/pnas.2106130118. e2106130118.full, pdf: qiuPNAS2021
Tang, B. J. S. Clark, and A. E. Gelfand. 2021. Modeling spatially biased citizen science effort through the eBird database. Environmental and Ecological Statistics, https://doi.org/10.1007/s10651-021-00508-1.
Clark, J.S., R. Andrus, M. Aubry-Kientz, Y. Bergeron, M. Bogdziewicz, D.C. Bragg, D. Brockway, N.L. Cleavitt, S. Cohen, B. Courbaud, R. Daley, A.J. Das, M. Dietze, T.J. Fahey, I. Fer, J.F. Franklin, C.A. Gehring, G.S. Gilbert, C.H. Greenberg, Q. Guo, J. Hille Ris Lambers, I. Ibanez, J. Johnstone, C.L. Kilner, J. Knops, W.D. Koenig, G. Kunstler, J.M. Lamontagne, K.L. Legg, J. Luongo, J.A. Lutz, D. Macias, E.J. Mcintire, Y. Messaoud, C.M. Moore, E. Moran, J.A. Myers, O.B. Myers, C. Nunez, R. Parmenter, S. Pearson, R. Poulton-Kamakura, E. Ready, M.D. Redmond, C.D. Reid, K.C. Rodman, C.L. Scher, W.H. Schlesinger, A.M. Schwantes, E. Shanahan, S. Sharma, M. Steele, N.L. Stephenson, S. Sutton, J.J. Swenson, M. Swift, T.T. Veblen, A.V. Whipple, T.G. Whitham, A.P. Wion, K. Zhu, and R. Zlotin. 2021. Continent-wide tree fecundity driven by indirect climate effects. Nature Communications DOI: 10.1038/s41467-020-20836-3. pdf: s41467-020-20836-3
Bystrova, D., G. Poggiato, B. Bektaş, J. Arbel, J. S. Clark, A. Guglielmi, and W. Thuiller. 2021. Clustering species with residual covariance matrix in joint species distribution models. Frontiers in Ecology and Evolution, https://doi.org/10.3389/fevo.2021.601384.
Poggiato, G., Münkemüller, T., Bystrova, D., Arbel, J., Clark, J.S. and Thuiller, W. 2021. On the interpretations of joint species distribution models. Trends in Ecology and Evolution, https://doi.org/10.1016/j.tree.2021.01.002.
Clark, J. S., C. L. Scher, and M. Swift. 2020. The emergent interactions that govern biodiversity change. Proceedings of the National Academy of Sciences, 117, 17074-17083.clarkPNAS2003852117.full
Qiu, T., C. Song, J. S. Clark, B. Seyednasrollah, and N. Rathnayaka. 2020. Understanding the continuous phenological development at daily time step with a Bayesian hierarchical space-time model: impacts of climate change and extreme weather events. Remote Sensing of Environment, in press.
McDowell, N. G., C. D. Allen, K. Anderson-Teixeira, B. H. Aukema, B. Bond-Lamberty, L. Chini, J. S. Clark, M. Dietze, C. Grossiord, A. Hanbury-Brown, G. C. Hurtt, R. B. Jackson, D. J. Johnson, L. Kueppers, J. W. Lichstein, K. Ogle, B. Poulter, T. A. M. Pugh, R. Seidl, M. G. Turner, M. Uriarte, A. P. Walker, C. Xu. 2020. Pervasive shifts in forest dynamics in a changing world. Science, 368, eaaz9463 DOI:10.1126/science.aaz9463.
Clark, J.S., C.L. Nuñez, and B. Tomasek. 2019. Foodwebs based on unreliable foundations: spatio-temporal masting merged with consumer movement, storage, and diet. Ecological Monographs, 89:e01381. 10.1002/ecm.1381Appendix
Wang, Z., D. L. Juarez, J.-F. Pan,2, S. K. Blinebry, J. Gronniger, J. S. Clark, Z. I. Johnson, and D. E. Hunt. 2019. Microbial communities across nearshore to offshore coastal transects are shaped by both distance from shore and seasonality. Environmental Microbiology, 21, 3862-3872.
Seyednasrollah, B., J.-C. Domec, and J.S. Clark. 2019. Spatiotemporal sensitivity of thermal stress for monitoring canopy hydrological stress in near real-time.Agricultural and Forest Meteorology, 270, 220-230.
Nuñez, C.L., J.S. Clark, and J. Poulson. 2019. Low-intensity logging and hunting have long-term effects on seed dispersal but not fecundity in Afrotropical forests. Annals of Botany https://doi.org/10.1093/aobpla/ply074.
Domke, G.M., Fettig, C.J., Joyce, L.A., Keane, R.E., Luce, C.H., Prestemon, J.P., Band, L.E., Clark, J.S., Cooley, N.E., D’Amato, A., and Halofsky, J.E., 2018 in USGCRP, 2019: Impacts, Risks, and Adaptation in the United States: Fourth National Climate Assessment, Volume II [Reidmiller, D.R., C.W. Avery, D.R. Easterling, K.E. Kunkel, K.L.M. Lewis, T.K. Maycock, and B.C. Stewart (eds.)]. U.S. Global Change Research Program, Washington, DC, USA. doi: 10.7930/NCA4.2018.
Bachelot B., Uriarte M., Muscarella R., Forero-Montana J., Thompson J., McGuire K., Zimmerman J.K., Swenson N.G. and J.S. Clark. 2018. Associations among arbuscular mycorrhizal fungi and seedlings are predicted to change with tree successional status. Ecology, 99: 607-620.
Seyednasrollah, B. J. Swenson, J.-C. Domec, and J. S. Clark. 2018. Leaf phenology paradox: why warming matters most where it is already warm. Remote Sensing of Environment, 209, 446 – 455. 209: 446-455.
Knoepp, J., See, C., Vose, J., Miniat, C., and J.S. Clark. 2018. Total C and N pools and fluxes vary with time, soil temperature, and moisture along an elevation, precipitation and vegetation gradient in southern Appalachian forests. Ecosystems, 21: 1623–1638.
Clark, J.S. and A.E. Gelfand. 2018. Accommodating so many zeros: univariate and multivariate data. Pages 211 – 239 in A.E. Gelfand, M. Fuentes, J. Hoeting, and R. Smith (eds) Handbook of Environmental Statistics. CRC Press, Boca Rotan, FL. in press.
Clark, J.S., D. Nemergut, B. Seyednasrollah, P. Turner, and S. Zhang. 2017. Generalized joint attribute modeling for biodiversity analysis: Median-zero, multivariate, multifarious data. Ecological Monographs, 87, 34–56. Clark2017EcolMonogr, appendixs1.
Kim, D., R. Oren, J. S. Clark, S. Palmroth1, A. C. Oishi, H. R. McCarthy, C. A. Maier, and K. Johnsen. 2017. Dynamics of soil CO2 efflux under varying atmospheric CO2 concentrations reveal dominance of slow processes. Global Change Biology, 23:3501 –3512.
Schliep, E., A.E. Gelfand, J.S. Clark, B. Tomasek. 2017. Biomass prediction using density dependent diameter distribution models. Annals of Applied Statistics, 11, 340–361.
Taylor-Rodríguez, D., Kaufeld, K., Schliep, E. M., Clark, J. S., Gelfand, A. E. 2017. Joint species distribution modeling: Dimension reduction using Dirichlet processes. Bayesian Analysis, 12, 939–967. doi: 10.1214/16-BA1031. bayesAnaly2016
Usinowicz, J., Chang-Yang, C.H., Chen, Y.Y., Clark, J.S., Fletcher, C., Garwood, N.C., Hao, Z., Johnstone, J., Lin, Y., Metz, M.R. and Masaki, T., 2017. Temporal coexistence mechanisms contribute to the latitudinal gradient in forest diversity. Nature, 550, 105-108.
Sánchez Goñi, M.F., et al., 2017. The ACER pollen and charcoal database: a global resource to document vegetation and fire response to abrupt climate changes during the last glacial period. Earth Syst. Sci. Data 9, 679-695.
Clark, J.S., J.M. Vose, and C. Luce. 2016. Forest drought as an emerging research priority. Global Change Biology, 22,2317,doi:10.1111/gcb.13252. gcb2016b
Berdanier, A. and J.S. Clark. 2016. Divergent reproductive allocation trade-offs with canopy exposure across tree species in temperate forests. Ecosphere, DOI:10.1002/ecs2.1313.
Clark, J.S., L. Iverson, C. W. Woodall, C. D. Allen, D. M. Bell, D. C. Bragg, A. W. D’Amato, F. W. Davis, M. H. Hersh, I. Ibanez, S. T. Jackson, S. Matthews, N. Pederson, M. Peters, M. W. Schwartz, K. M. Waring, and N. E. Zimmermann. 2016. The impacts of increasing drought on forest dynamics, structure, and biodiversity in the United States. Global Change Biology, 22, 2329–2352. gcb2016b
Berdanier, A. and J.S. Clark. 2016. Multi-year drought-induced morbidity preceding tree death in Southeastern US forests. Ecological Applications, 26:17-23. BerdanierEA2016
Clark, J.S., L. Iverson, C. W. Woodall, C. D. Allen, D. M. Bell, D. Bragg, A. D’Amato, F. W. Davis, M. Hersh, I. Ibanez, S. T. Jackson, S. Matthews, N. Pederson, M. Peters, M. W. Schwartz, K. Waring, and N. E. Zimmermann. 2016. The impacts of increasing drought on forest dynamics, structure, diversity, and management. In J Vose, J.M., J. S. Clark C. H. Luce, T. Patel-Weynand (editors) Effects of Drought on Forests and Rangelands in the United States: A Comprehensive Science Synthesis. United States Department of Agriculture, Forest Service Gen. Tech. Report WO-93b.
Rolland, R., R. S. Schick, H. M. Pettis, A. R. Knowlton, P. K. Hamilton, J. S. Clark and S. D. Kraus. 2015. Health of North Atlantic right whales (Eubalaena glacialis) over three decades: from individual health to demographic and population trends. meps2016, 542: 265–282. rolland2016
Bell, D.M. and J.S. Clark 2015. Seed predation and climate impacts on reproductive variation in temperate forests of the southeastern USA. Oecologia, 180, 1223–1234. bell2016
Schliep, E.M., A.E. Gelfand, J.S. Clark, and K. Zhu. 2015. Modeling change in forest biomass across the eastern US. Environmental and Ecological Statistics, 23: 23-41. eesSchleip2015
Schliep, E.M., A.E. Gelfand, and J.S. Clark. 2015. Stochastic modeling for velocity of climate change. Journal of Agricultural, Biological, and Environmental Statistics, 20: 323-342.jabesSchliep2014a
Bell, D.M., E. J. Ward, C. Oishi, R. Oren, P. Flikkema, and J. S. Clark. 2015. A state-space modeling approach to estimating canopy conductance and associated uncertainties from sap flux density data. Tree Physiology,35: 792-802. berdanierTreePhys2016
Zhu, K., C. Woodall, and J.S. Clark. 2015. Prevalence and strength of density-dependent tree recruitment, Ecology,96:2319–2327. ecologyZhu2015
Clark, J.S., J. Melillo, J. Mohan, and C. Salk. 2014. The seasonal timing of warming that controls onset of the growing season. Global Change Biology, 20:1136-1145.
Clark, J.S., A.E. Gelfand, C.W. Woodall, and K. Zhu. 2014. More than the sum of the parts: forest climate response from joint species distribution models, Ecological Applications, 24:990–999.
Clark, J.S., D.M. Bell, M.C. Kwit, and K. Zhu. 2014. Competition-interaction landscapes for the joint response of forests to climate change. Global Change Biology, 20, 1979-1991.
Clark, J.S., J. Melillo, J. Mohan, and C. Salk. 2014. Tree phenology responses to winter chilling and spring warming, at north and south range limits. Functional Ecology, 28, 1344-1355. funcEcol2014, funcEcol2014supplement
Zhu, K, C. W. Woodall, S. Ghosh, A. E. Gelfand, and J. S. Clark. 2014. Dual impacts of climate change: forest migration and turnover through life history. Global Change Biology, 20:251-264.
Ghosh, S., D.M. Bell, J.S. Clark, A.E. Gelfand, P.G. Flikkema. 2014. Process modeling for soil moisture using sensor network data. Statistical Methodology 17, 99-112.
New, L.F., J. S. Clark, D. P. Costa, E. Fleishman, M. A. Hindell, T. Klanjšček, D. Lusseau, S. Kraus, C. R. McMahon, P. W. Robinson, R. S. Schick, L. K. Schwarz, S. E. Simmons, L. Thomas, P. Tyack and J. Harwood. 2014. Using short-term measures of behaviour to estimate long-term fitness of southern elephant seals. Marine Ecology Progress Series, 496:99-108.
Wu, W., Clark, J.S., and J. Vose. 2014. Response of hydrology to climate change in the southern Appalachian Mountains using Bayesian inference. Hydrologic Processes, 28, 1616-1626.
Schick, R.S., J. J. Roberts, S. A. Eckert, P. N. Halpin, H. Bailey, F. Chai, L. Shi and J. S Clark. 2013. Pelagic movements of Pacific leatherback turtles (Dermochelys coriacea) highlight the role of prey and ocean currents. Movement Ecology, doi:10.1186/2051-3933-1-11.
Clark, J.S., D. M Bell, M. Kwit, A. Powell, And K. Zhu. 2013. Dynamic inverse prediction and sensitivity analysis with high-dimensional responses: application to climate-change vulnerability of biodiversity. Journal of Biological, Environmental, and Agricultural Statistics, 18:376-404.
Benitez, S.B., M. Hersh, R. Vilgalys, and J.S. Clark. 2013. Pathogen regulation of plant diversity via effective specialization. Trends in Ecology and Evolution, 12: 705-711.
Valle, D. and J.S. Clark. 2013. Improving the modeling of disease data from the government surveillance system: a case study on malaria in the Brazilian Amazon. Plos Computational Biology, 9: e1003312. doi:10.1371/journal.pcbi.1003312
Gelfand, A.E., S. Ghosh and J. S. Clark. 2013. Scaling integral projection models for analyzing size demography. Statistical Science, 28, 641-658. statSci2013
Bugalho, M.N., I. Ibánez, and J.S Clark. 2013. The effects of deer herbivory and forest type on tree recruitment vary with plant growth stage. Forest Ecology and Management, 308, 90–100. fem2013
Schick, R.S., L. F. New, L. Thomas, D. P. Costa, M. A. Hindell, C. R. McMahon, P. W. Robinson, S. E. Simmons, M. Thums, J. Harwood, and J. S. Clark. 2013. Estimating resource acquisition and at-sea body condition of a marine predator with implications for population health. Journal of Animal Ecology, 82: 1300–1315.
Schick, R.S., S. D. Kraus, R. M. Rolland, A. R. Knowlton, P. K. Hamilton, H. M. Pettis, R. D. Kenney, and J. S. Clark. 2013. Using hierarchical Bayes to understand movement, health, and survival in critically endangered marine mammals. PLOS One, 8: e64166. doi:10.1371/journal.pone.0064166.
Ghosh, S., D. M. Bell, J.S. Clark, A.E. Gelfand, and P. Flikkema. 2013. Process modeling for soil moisture using sensor network data. Statistical Methodology, in press. statMeth2013
New, L. F., J. Harwood, L. Thomas, C. Donovan, J. S. Clark, G. Hastie, P. M. Thompson, B. Cheney, L. Scott-Hayward and D. Lusseau. 2013. Modelling the biological significance of behavioural change in coastal bottlenose dolphins in response to disturbance.Functional Ecology 27, 314–322.
Valle, D. and J.S. Clark 2013. Conservation efforts may increase malaria burden in the Brazilian Amazon. Plos One 8: e57519. doi:10.1371/journal.pone.0057519.plosOne2012
Ward, E.J., D.M. Bell, J.S. Clark and R. Oren. 2012. Hydraulic time constants for transpiration of loblolly pine at Duke FACE. Tree Physiology, 33, 123-134. treePhys2012a, treePhys2012aAppendix
Ward, E.J., R. Oren, D.M. Bell, J.S. Clark, H.R. McCarthy, H. Seok-Kim and J.-C. Domec. 2012. The effects of long-term elevated CO2 and nitrogen fertilization on stomatal conductance estimated from scaled sap flux measurements at Duke FACE. Tree Physiology, 33, 135-151. treePhys2012a, treePhys2013bAppendix
Moran E.V. and J.S. Clark 2012. Between-site differences in the scale of dispersal and gene flow in red oak. PLoS ONE 7: e36492. doi:10.1371/journal.pone.0036492.
Rapp, J.M., M. R. Silman, J. S. Clark, C.A. J. Girardin, D. Galiano, and R. Tito. 2012. Intra- and inter-specific tree growth across a long altitudinal gradient in the Peruvian Andes. Ecology, 93:2061-2072. ecologyRapp2012
Clark, J.S., B.D. Soltoff, A.S. Powell, and Q.D. Read. 2012. Evidence from individual inference for high-dimensional coexistence: long-term experiments on recruitment response. PLoS ONE 7(2): e30050. doi:10.1371/journal.pone.0030050.
Moran, E.V. and J.S. Clark. 2012. Causes and consequences of unequal seed production in forest trees: a case study in red oaks. Ecology, 93:1082-1094.
Ghosh, S., A.E. Gelfand, K. Zhu, and J.S. Clark. 2012. The k-ZIG: flexible modeling for zero-inflated counts. Biometrics, 68, 878-885.
Clark, J.S. 2012. The coherence problem with the Unified Neutral Theory of Biodiversity. Trends in Ecology and Evolution, 27:198-202 .
Hersh, M.H., J.S. Clark, and R. Vilgalys. 2012. Evaluating the impacts of fungal seedling pathogens on temperate forest seedling survival. Ecology, 93: 511-520. ecologyHersh2012
Moran, E.V., J. Willis, and J.S. Clark. 2012. Genetic evidence for hybridization in red oaks. American Journal of Botany, 99, 92-100. ajb_moran2012
Uriarte M., J. S. Clark, J. K. Zimmerman, L. S. Comita, J. Forero-Montaña, and J. Thompson. 2012. Multi-dimensional tradeoffs in species responses to disturbance: Implications for diversity in a subtropical forest. Ecology, 93:191–205.
Evans, L., J.S. Clark, A. Whipple, and T. Whitham. 2012. The relative influences of host plant genotype and yearly abiotic variability in determining herbivore abundance. Oecologia, 168:483-489. oecologiaEvans2012
Zhu, K., C.W. Woodall, and J.S. Clark. 2012. Failure to migrate: lack of tree range expansion in response to climate change. Global Change Biology, 18, 1042-1052.
Ghosh, S., A. E. Gelfand, and J. S. Clark. 2012. Inference for size demography from point pattern data using integral projection models. Journal of Agricultural, Biological and Environmental Statistics, 17, 641-677. jabes_ghosh2012
Wu, W., J. Clark, and J. Vose, 2012. Application of a full hierarchical Bayesian model in assessing streamflow response to a climate change scenario at the Coweeta Basin, NC, USA”. Journal of Resources and Ecology3:118-128.
Valle D., J.S. Clark, and K. Zhao. 2011. Enhanced understanding of infectious diseases by fusing multiple datasets: a case study on malaria in the western Brazilian Amazon Region. PLoS ONE 6(11): e27462. doi:10.1371/journal.pone.0027462
Colchero, F. and J.S. Clark. 2011. Bayesian inference on age-specific survival for censored and truncated data. Journal of Animal Ecology 80 DOI: 10.1111/j.1365-2656.2011.01898.x youtube video
Clark, J.S., D.M. Bell, M.H. Hersh, M. Kwit, E. Moran, C. Salk, A. Stine, D. Valle, and K. Zhu. 2011. Individual-scale variation, species-scale differences: Inference needed to understand diversity. Ecology Letters, 14, 1273–1287.
Luo,Y. K. Ogle, C. Tucker, S. Fei, C, Gao, S. Ladeau, J. S. Clark, and D. S. Schimel. 2011. Ecological forecasting and data assimilation in a data-rich era. Ecological Applications 21, 1429–1442.
Clark, J.S., P. Agarwal , D.M. Bell , P. Flikkema , A. Gelfand , X. Nguyen , E. Ward , and J. Yang. 2011. Inferential ecosystem models, from network data to prediction. Ecological Applications, 21,1523–1536.
Luo Y.Q., J. Melillo, S.L. Niu, C. Beier, J.S. Clark, A.T. Classen, E. Davidson, J.S. Dukes, R.D. Evans, C.B. Field, C.I. Czimczik, M. Keller, B.A. Kimball, L. Kueppers, R.J. Norby, S.L. Pelini, E. Pendall, E. Rastetter, J. Six, M. Smith, M. Tjoelker, M. Torn. 2011. Coordinated approaches to quantify long-term ecosystem dynamics in response to global change. Global Change Biology, 17, 843-854, DOI: 10.1111/j.1365-2486.2010.02265.x.
Clark, J.S., D.M. Bell, M.H. Hersh, and L. Nichols. 2011. Climate change vulnerability of forest biodiversity: climate and resource tracking of demographic rates. Global Change Biology, 17, 1834–1849.
Wu, W., J.S. Clark, and J. Vose. 2010. Assimilating multi-source uncertainties of a parsimonious conceptual hydrological model using hierarchical Bayesian modeling, Journal of Hydrology 394, 436-446.
Moran, E.V. and J.S. Clark. 2010. Estimating seed and pollen movement in a monoecious plant: a hierarchical Bayesian approach integrating genetic and ecological data. Molecular Ecology, 20, 1248–1262. molEcol_moran2011
Clark, J.S., D. Bell, C. Chu, B. Courbaud, M. Dietze, M. Hersh, J. HilleRisLambers, I. Ibanez, S. L. LaDeau, S. M. McMahon, C.J.E. Metcalf, J. Mohan, E. Moran, L. Pangle, S. Pearson, C. Salk, Z. Shen, D. Valle, and P. Wyckoff. 2010. High dimensional coexistence based on individual variation: a synthesis of evidence. EM2010, 80, 569–608. EM2010appendix-A, EM2010appendix-B
Clark, J.S. 2010. Individuals and the variation needed for high species diversity. Science 327, 1129-1132, science2010. scienceAppend2010
Vieilledent, G., B. Courbaud, G. Kunstler, J.-F. Dhote, and J.S. Clark. 2010. Individual variability in tree allometry determines light resource allocation in forest ecosystems: a hierarchical Bayesian approach. Oecologia, in press.
Way, D.A., S. L. LaDeau, H. R. McCarthy, J. S. Clark, R. Oren, A. C. Finzi and R. B. Jackson. 2010. Greater seed production in elevated CO2 is not accompanied by reduced seed quality in Pinus taeda L.. Global Change Biology, 16, 1046-1056.
Clark, J.S., D. Bell, M. Dietze, M. Hersh, I. Ibanez, S. LaDeau, S. M. McMahon, C.J.E. Metcalf, E. Moran, L. Pangle, and M. Wolosin. 2010. Models for demography of plant populations. Pages 431 – 481 in T. O’Hagan and M. West (eds) Handbook of Bayesian Analysis, Oxford University Press.
Clark, J.S. and M. H. Hersh. 2009. Inference when multiple pathogens affect multiple hosts: Bayesian model selection. Bayesian Analysis 4:337–366. bayesAnal2009
Schick, R.S., Halpin, P.N., Read, A.J., Slay, C.K., Kraus, S.D., Mate, B.R., Baumgartner, M.F., Roberts, J.J., Best, B.D., Good, C.P., Loarie, S.R., and J.S. Clark. 2009. Striking the right balance in right whale conservation. Canadian Journal of Fisheries and Aquatic Sciences, 66(9):1399-1403.
Metcalf, C.J.E., J. S. Clark, and S. M. McMahon. 2009. Overcoming data sparseness and parametric constraints in modeling of tree mortality: a new non-parametric Bayesian model. Canadian Journal of Forest Research, 39:1677-1687.
McMahon, S. M., M. C. Dietze, M. H. Hersh, E. V. Moran, and J. S. Clark. 2009. A predictive framework to understand forest responses to global change. Pages 221-236 in R. Ostfeld and W.H. Schlesinger (eds). Year in Ecology and Conservation Biology 2009.
Vieilledent, G., B. Courbaud, G. Kunstler, J.-F. Dhote, and J. S. Clark. 2009. Biases in the estimation of size dependent mortality models: advantages of a semi-parametric approach. Canadian Journal of Forest Research, 39:1430-1443.
Colchero, F., R. A. Medellin, J. S. Clark, R. Lee, and G. G. Katul. 2009. Predicting population survival under future climate change: density dependence, drought and extraction in an insular bighorn sheep. Journal of Animal Ecology, 78:666-673.
Metcalf, C.J.E., J. S. Clark, and D. A. Clark. 2009. Tree growth inference and prediction when the point of measurement changes: modelling around buttresses in tropical forests. Journal of Tropical Ecology, 25:1-12.
Cressie, N., C. A. Calder, J. S. Clark, J. M. Ver Hoef, and C. K. Wikle. 2009. Accounting for uncertainty in ecological analysis: the strengths and limitations of hierarchical statistical modeling. Ecological Applications, 19:553-570.
Gugger, P.F., J.S. Mclachlan, P.S. Manos, and J.S. Clark. 2008. Inferring long-distance dispersal and topographic barriers during postglacial colonization from the genetic structure of red maple (Acer rubrum L.) in New England. Journal of Biogeography 35, 1665–1673.
Schick, R.S., S.R. Loarie, F. Colchero, B.D. Best, A. Boustany, D.A. Conde, P.N. Halpin, L.N. Joppa, C.M. McClellan, and J.S. Clark. 2008. Understanding movement data and processes: emerging techniques. Ecology Letters, 11:1338-1350.
Ibanez, I., Clark, J.S. and Dietze, M. 2008. Evaluating the sources of potential migrant species: Implications under climate change. Ecological Applications, 18:1664-1678.
Dietze, M., M. Wolosin, J. S. Clark. 2008. Tree allometries: capturing diversity using a Hierarchical Bayes approach. Forest Ecology and Management 256:1939-1948.
Power, M.J., Marlon, J., Ortiz, N., Bartlein, P.J., Harrison, S.P., Mayle, F.E., Ballouche, A., Bradshaw, R.H.W., Carcaillet, C., Cordova, C., Mooney, S., Moreno, P.I., Prentice, I.C., Thonicke, K., Tinner, W., Whitlock, C., Zhang, Y., Zhao, Y., Ali, A.A., Anderson, R.S., Beer, R., Behling, H., Briles, C., Brown, K.J., Brunelle, A., Bush, M., Camill, P., Chu, G.Q., Clark, J.S., Colombaroli, D., Connor, S., Daniau, A.-L., Daniels, M., Dodson, J., Doughty, E., Edwards, M.E., Finsinger, W., Foster, D., Frechette, J., Gaillard, M.-J., Gavin, D.G., Gobet, E., Haberle, S., Hallett, D.J., Higuera, P., Hope, G., Horn, S., Inoue, J., Kaltenrieder, P., Kennedy, L., Kong, Z.C., Larsen, C., Long, C.J., Lynch, J., Lynch, E.A., McGlone, M., Meeks, S., Mensing, S., Meyer, G., Minckley, T., Mohr, J., Nelson, D.M., New, J., Newnham, R., Noti, R., Oswald, W., Pierce, J., Richard, P.J.H., Rowe, C., Sanchez Goñi, M.F., Shuman, B.N., Takahara, H., Toney, J., Turney, C., Urrego-Sanchez, D.H., Umbanhowar, C., Vandergoes, M., Vanniere, B., Vescovi, E., Walsh, M., Wang, X., Williams, N., Wilmshurst, J. and Zhang, J.H. 2008. Changes in fire regimes since the last glacial maximum: an assessment based on a global synthesis and analysis of charcoal data.Climate Dynamics, 30, 887-907.
Dietze, M., and J.S. Clark. 2008. Changing the gap-dynamics paradigm: vegetative regeneration control on forest response to disturbance. Ecological Monographs 78:331347.
Clark, J.S., M. Wolosin, M. Dietze, I. Ibanez, S. LaDeau, M. Welsh, and B. Kloeppel. 2007. Tree growth inference and prediction from diameter censuses and ring widths. Ecological Applications, 17, 1942-1953.
Ibanez, I., J.S. Clark, S. LaDeau, and J. Hille Ris Lambers 2007. Exploiting temporal variability to understand tree recruitment response to climate change, Ecological Monographs, 77:163-177.
Flikkema, P.G., P.J. K. Agarwal, J. S. Clark, C. Ellis, A. Gelfand, K. Munagala, and J. Yang. 2007. From data reverence to data relevance: Model-mediated wireless sensing of the physical environment. Pages 988–994 in Y. Shi et al. (Eds.): ICCS 2007, Part I, LNCS 4487.
Mohan, J.E., J. S. Clark, and W. H. Schlesinger. 2007. Long-term CO2 enrichment of an intact forest ecosystem: implications for temperate forest regeneration and succession. Ecological Applications, 17:1198-1212.
Flikkema, P.G., P.K. Agarwal, J.S. Clark, C. Ellis, A. Gelfand, K. Munagala, and J. Yang. 2006. Model-driven dynamic control of embedded wireless sensor networks. Proc. 6th International Conference on Computational Science, Workshop on Dynamic Data Driven Application Systems, Reading, UK.
LaDeau, S.L. and J.S. Clark. 2006. Elevated CO2 and tree fecundity: the role of tree size, interannual variability, and population heterogeneity. Global Change Biology, 12:822-833.
Mohan, J. E., L. H. Ziska, R. B. Thomas, R. C. Sicher, K. George, J. S. Clark, W. H. Schlesinger. 2006. Biomass and toxicity responses of poison ivy (Toxicodendron radicans) to elevated atmospheric CO2. Proceedings of the National Academy of Sciences. 103 (24): 9086.
Carlin, B., J.S. Clark, and A. Gelfand. 2006. Elements of Bayesian Inference. Pages 3-24 in J.S. Clark and A. Gelfand (eds). Hierarchical Models of the Environment. Oxford University Press(in press).
LaDeau, S. and J.S. Clark. 2006. Pollen production by Pinus taeda L.(Pinaceae) growing in elevated atmospheric CO2. Functional Ecology, 20:541-547.
Ibanez, I., J. S. Clark, M. C. Dietze, K. Feeley, M. Hersh, S. LaDeau, A. McBride, N. E. Welch, and M. S. Wolosin. 2006. Predicting biodiversity change: Outside the climate envelope, beyond the species-area curve. Ecology, 87:1896-1906.
Clark, J.S. and S.L. LaDeau. 2006. Synthesizing ecological experiments and observational data with Hierarchical Bayes. Pages 41 – 58 in J.S. Clark and A. Gelfand (eds). Hierarchical Models of the Environment. Oxford University Press.
Lewis, M.A., Neubert, M.G., Caswell, H., Clark, J.S., and Shea, K. 2006. A guide to calculating discrete-time invasion rates from data. Pages 169-192 in M. W. Cadotte, S. M. McMahon and T. Fukami (eds) Conceptual ecology and invasions biology: Reciprocal approaches to nature. Springer, Dordrecht, The Netherlands.
Beckage, B., M. Lavine, and J.S. Clark. 2005. Estimating variability in seedling survival from count data. Journal of Ecology, 93: 1177-1184.
Clark, J.S., G. Ferraz, N. Oguge, H. Hays, and J. DiCostanzo. 2005. Hierarchical Bayes for structured and variable populations: from capture-recapture data to life-history prediction. Ecology 86:2232-2244. Appendix.
HilleRisLambers, J. and J.S. Clark. 2005. The benefits of seed banking for Acer rubrum: maximizing seedling recruitment. Canadian Journal of Forest Research 35: 806-813.
Beckage, B. and J.S. Clark. 2005. Do seed and seedling predation contribute to the coexistence of three co-occuring tree species? Oecologia, 143:458-469.
McLachlan, J.S., J.S. Clark, and P.S. Manos. 2005. Molecular indicators of tree migration capacity under rapid climate change. Ecology,86:2088-2098.
Hille Ris Lambers, J., J.S. Clark., and M. Lavine. 2005. Seed banking in temperate forests: Implications for recruitment limitation. Ecology, 86:85-95.
Clark, J.S. and O. Bjornstad. 2004. Population time series: Process variability, observation errors, missing values, lags, and hidden states. Ecology, 85:3140-3150. Appendix.
Clark, J.S., S. LaDeau, and I. Ibanez. 2004. Fecundity of trees and the colonization-competition hypothesis, Ecological Monographs, 74:415-442.
Clark, J.S. and J.S. McLachlan. 2004. Neutral theory (communication arising): The stability of forest biodiversity. Nature 427, 696 – 697.
Mohan, J. E., J.S. Clark, and W. H. Schlesinger. 2004 Genetic variation in germination, growth, and survivorship of red maple in response to subambient through elevated atmospheric CO2. Global Change Biology 10, 233-247
Lynch, J.A., J.S. Clark, and B. J. Stocks. 2004. Charcoal production, dispersal and deposition from the Fort Providence Experimental Fire: Interpreting fire regimes from charcoal records in boreal forests. Canadian Journal of Forest Research, 34: 1642–1656.
Clark, J.S. 2004. Reid’s Paradox: Tree migration capacity and rapid climate change. In T. Lovejoy (ed) Conservation and Global Change. Yale University Press.
Clark, J.S. and J.S. McLachlan. 2003. Stability of forest diversity. Nature, 423: 635-638.
Higgins, S.I., J. S. Clark, R. Nathan, T. Hovestadt, F. Schurr, J. M. V. Fragoso, M. R. Aguiar, E. Ribbens, and S. Lavorel. 2003. Forecasting plant migration rates: managing uncertainty for risk assessment. Journal of Ecology, 91:341-347.
Hille Ris Lambers, J. and J.S. Clark. 2003. Effects of dispersal, shrubs, and density-dependent mortality on seed and seedling distributions in temperate forests. Canadian Journal of Forest Research 33: 783-795.
Beckage, B. and J.S. Clark. 2003. Seedling survival and growth in Southern Appalachian forests: Does spatial heterogeneity maintain species diversity?Ecology 84:1849-1861.
Clark, J.S., M. Lewis, J.S. McLachlan, J. Hille Ris Lambers. 2003. Estimating population spread: what can we forecast and how well? Ecology 84:1979-1988.
Calder, K. M. Lavine, P. Mueller, and J.S. Clark. 2003. Incorporating multiple sources of stochasticity in population dynamic models. Ecology 84:1395-1402.
Clark, J.S. 2003. Uncertainty in ecological inference and forecasting. (Special Feature). Ecology 84:1349-1350.
Clark, J.S. 2003. Uncertainty in population growth rates calculated from demography: the hierarchical approach. Ecology 84:1370-1381.
Clark, J. S., J. Mohan, M. Dietze, and I. Ibanez. 2003. Coexistence: how to identify trophic tradeoffs. Ecology, 84:17-31. Appendix.
Hille Ris Lambers, J. S. Clark, and J., B. Beckage. 2002. Density dependent mortality and the latitudinal gradient in species diversity. Nature, 417:732–735.
Wyckoff, P.H. and J.S. Clark. 2002. Growth and mortality for seven co-occurring tree species in the southern Appalachian Mountains: implications for future forest composition. Journal of Ecology, 90:604–615.
Clark, J.S., E.C. Grimm, J. J. Donovan, S.C. Fritz, D.R. Engstrom, and J.E. Almendinger. 2002. Drought cycles and landscape responses to past aridity on prairies of the Northern Great Plains, USA. Ecology, 83:595-601.
Clark, J.S., B. Beckage, J. HilleRisLambers, I. Ibanez, S. LaDeau, J. MacLachlan, J. Mohan, and M. Rocca. 2002. Dispersal and plant migration. Pages 81-93 in H. Mooney and J. Canadell (eds) Encyclopedia of Global Environmental Change, Vol 3, Wiley, Chichester, England.
Clark, J.S., A. M. Gill, and A. P. Kershaw. 2002. Spatial variability in fire regimes: its effects on recent and past vegetation, Pages 125-144 in R. A. Bradstock, J.E. Williams, and A.M. Gill (eds) Flammable Australia: the Fire Regimes and Biodiversity of a Continent, Cambridge University Press, Cambridge, England.
Kershaw, A.P., Clark, J.S., A. M. Gill, and D.M. D�Costa. 2002. A history of fire in Australia, Pages 3-25 in R. Bradstock and A.M. Gill (eds) Flammable Australia: the Fire Regimes and Biodiversity of a Continent, Cambridge University Press, Cambridge, England.
Clark, J.S. S. R. Carpenter, M. Barber, S. Collins, A. Dobson, J. Foley, D. Lodge, M. Pascual, R. Pielke, Jr, W. Pizer, C. Pringle, W. V. Reid, K. A. Rose, O. Sala, W. H. Schlesinger, D. Wall, and D. Wear. 2001. Ecological forecasts: an emerging imperative. Science 293:657-660.
Camill, P., J.A Lynch, J.S. Clark, J.B. Adams and B. Jordan. 2001. Changes in biomass, aboveground NPP, and peat accumulation following permafrost thaw in the boreal peatlands of Manitoba, Canada. Ecosystems, 4:461-478.
LaDeau, S. and J.S. Clark. 2001. Rising CO2 and the fecundity of forest trees, Science 292:95-98.
Clark, J.S., Lewis, M., and L. Horvath. 2001. Invasion by extremes: variation in dispersal and reproduction retards population spread. American Naturalist 157:537-554.
Schlesinger, W.H., J.S. Clark, J. E. Mohan and C. D. Reid. 2001. Global environmental change: effects on biodiversity. 2001. Pages 175-224 in G. Orians and M. Soule. Research Priorities for Conservation Biology, Island Press.
Clark, J.S., E.C. Grimm, J. Lynch, and P.J. Mueller. 2001. Effects of Holocene climate change on the C4 grassland/woodland boundary in the Northern Central Plains. Ecology 82:620-636.
Clark, J.S. and M. Lavine. 2001. Bayesian statistics in ecology. Pages 327 – 346 in S.M. Scheiner and J. Gurevitch (eds) Design and Analysis of Ecological Experiments Oxford Univ Press, Oxford, England.
Beckage, B., J.S. Clark, B.D. Clinton, and B.L. Haines. 2000. A long-term study of tree seedling recruitment in southern Appalachian forests: the effects of canopy gaps and shrub understories. Canadian Journal of Forest Research 30: 1617-1631.
Camill, P. and J.S. Clark. 2000. Complex long-term climate responses of North American boreal forest and savanna. Ecosystems3:534-544.
Wyckoff, P.H. and J.S. Clark. 2000. Predicting tree mortality from diameter growth: a comparison of maximum likelihood and Bayesian approaches. Canadian Journal of Forest Research, 30: 156-167.
Knoepp, J.D., D.C. Coleman, D.A. Crossley, and J.S. Clark. 2000. Biological indices of soil quality: an ecosystem case study of their use. Forest Ecology and Management 138:357-368.
Clark, J.S., B. Beckage, P. Camill, B. Cleveland, J. Hille Ris Lambers, J. Lichter, J. MacLachlan, J. Mohan, and P. Wyckoff. 1999. Interpreting recruitment limitation in forests. American Journal of Botany, 86:1-16.
Clark, J.S., M. Silman, R. Kern, E. Macklin, and J. Hille Ris Lambers. 1999. Seed dispersal near and far: generalized patterns across temperate and tropical forests. Ecology 80:1475-1494.
Clark, J. S., C. Fastie, G. Hurtt, S. T. Jackson, C. Johnson, G. King, M. Lewis, J. Lynch, S. Pacala, I.C. Prentice, E. W. Schupp, T. Webb III, and P. Wyckoff. 1998. Reid’s Paradox of rapid plant migration. BioScience, 48:13-24.
Clark, J. S., J. Lynch, and B. J. Stocks. 1998. Relationships between charcoal particles in air and sediments in west-central Siberia. The Holocene 8:19-30.
Clark, J. S., E. Macklin, and L. Wood. 1998. Stages and spatial scales of recruitment limitation in southern Appalachian forests. Ecological Monographs 68:213-235.
Camill, P. and J. S. Clark. 1998. Climate change disequilibrium of boreal permafrost peatlands caused by local processes. American Naturalist 151:207-222.
Collatz, G.J., J.A. Berry, and J. S. Clark. 1998. Effects of climate and atmospheric CO2 partial pressure on the global distribution of C4 plants: past, present, and future. Oecologia, 114:441-454.
Clark, J.S. 1998. Why trees migrate so fast: Confronting theory with dispersal biology and the paleo record. American Naturalist, 152: 204-224.
Clark, J.S. 1997. Introduction to sediment records of biomass burning and global change. Pages 1-9. in J.S. Clark, H. Cachier , J.G. Goldammer, and B.J. Stocks, editor. Sediment Records of Biomass Burning and Global Change. Springer Verlag, Berlin, Germany.
Clark, J. S., and W. A. Patterson. 1997. Background and local charcoal in sediments: scales of fire evidence in the paleorecord. Pages 23-48. in J.S. Clark, H. Cachier, J.G. Goldammer, and B.J. Stocks, editor. Sediment Records of Biomass Burning and Global Change. Springer Verlag, Berlin, Germany.
Clark, J.S. 1997. Facing short-term extrapoloation with long-term evidence: Holocene fire in the north-eastern US forests. Journal of Ecology, 85: 377-380.
Pitelka, L. F., J. Ash, S. Berry, R.H.W. Bradshaw, L. Brubaker, J.S. Clark, M.B. Davis, J.M. Dyer, R.H. Gardner, H. Gitay, G. Hope R. Hengeveld, B. Huntley, G.A. King, S. Lavorel, R.N. Mack, G.P. Malanson, M. McGlone, I.R. Noble, I.C. Prentice, M. Rejmanek, A. Saunders, A.M. Solomon, S. Sugita, and M.T. Sykes. 1997. Plant migration and climate change. American Scientist, 85:464-473.
Clark, J. S., and T. C. Hussey. 1996. Estimating the mass flux of charcoal from sediment records: the effect of particle size, morphology, and orientation. The Holocene6:129-144.
Clark, J. S. 1996. Baseline biomass burning emissions of eastern North America. Pages 750-757. in J.S. Levine, editor. Biomass Burning and Global Change. MIT Press, Cambridge, Massachusetts, USA.
Clark, J. S., and P. J. H. Richard. 1996. The role of paleofire in boreal and other cool-coniferous forests. Pages 65-89 in J.G. Goldammer and V.V. Furyaev (eds). Fire in Ecosystem of Boreal Eurasia, Kluwer, Dordrecht, The Netherlands.
Clark, J. S., T. C. Hussey, and P. D. Royall. 1996. Presettlement analogs for Quaternary fire regimes in eastern North America. Journal of Paleolimnology 16: 79-96.
Clark, J. S., and P. D. Royall. 1996. Local and regional sediment charcoal evidence for fire regimes in presettlement northeastern North America. Journal of Ecology84, 365-382.
Clark, J. S., P. D. Royall, and C. Chumbley. 1996. The role of fire during climate change in an eastern North American forest at Devil’s Bathtub, New York. Ecology77, 2148-2166.
Clark, J.S., B.J. Stocks, and P. J.H. Richard. 1996. Climate implications of biomass burning since the 19th century in eastern North America. Global Change Biology, 2:433-458.
Clark, J.S. 1996. Testing disturbance theory with long-term data: alternative life history solutions to the distribution of events. American Naturalist, 148:976-996.
Contributor to IPCC: 1996. Terrestrial biotic responses to environmental change and feedbacks to climate. Pages 445-482. in J.T. Houghton, L. G. Meira Filho, B.A. Callander, N. Harris, A. Kattenberg, and K. Maskell, editor. Climate Change 1995: The Science of Climate Change. Intergovernmental Panel on Climate Change, Cambridge University Press, Cambridge, England.
FIRESCAN. 1996. Fire in ecosystems of boreal Eurasia: the Bor Forest Island Fire Experiment Fire Research Campaign Asia – North (FIRESCAN). Pages 848-873. in J.S. Levine, editor. Biomass Burning and Global Change. MIT Press, Cambridge, Massachusetts, USA.
Weiss, K. F., J. G. Goldammer, J. S. Clark, D. A. Livingstone, and M. O. Andreae. 1996. Reconstruction of prehistoric fire regimes in East Africa by lake sediment analysis. J.S. Levine, editor. Biomass Burning and Global Change. MIT Press, Cambridge, Massachusetts, USA.
Clark, J. S., and Y. Ji. 1995. Fecundity and dispersal in plant populations: implications for structure and diversity. The American Naturalist, 146:72-111.
Clark, J. S., and P. D. Royall. 1995. Transformation of a northern hardwood forest by aboriginal (Iroquois) fire: charcoal evidence from Crawford Lake, Ontario, Canada. The Holocene 5:1-9.
Clark, J. S. 1995. Climate and Indian effects on southern Ontario forests: forum. The Holocene, 5:371-379.
Clark, J. S., and P. D. Royall. 1995. Particle-size evidence for source areas of charcoal accumulation in Late Holocene sediments of eastern North American lakes. Quaternary Research 43:80-89.
Wright, H. E., and J. S. Clark. 1995. Charcoal analysis of varved lake sediments. In S. Hicks, U. Miller , and M. Saarnito (eds).Laminated Sediments and Archaeology, Journal of the European Study Group on Physical, Chemical, Mathematical and Biological Techniques Applied to Archaeology., Rixensart, Belgium 41, 125-130.
FIRESCAN 1994. Fire in boreal ecosystems of Eurasia: first results of the Bor Forest Island Fire Experiment, Fire Research Campaign Asia-North (FIRESCAN). Journal of World Resources Review, 6:499-519.
Clark, J. S., and P. D. Royall. 1994. Pre-industrial particulate emissions and carbon sequestration from biomass burning in North America. Biogeochemistry 23:1-17.
Clark, J.S. 1993. Sensitivity of forest communities to global climate change. Pages 315-332in P. Kareiva, J.G. Kingsolver, and R.B. Huey Biotic Interactions and Global Change, Sinauer, Sunderland, MA.
Clark, J.S. 1993. Functional groups and ecological consistencies: population perspectives on regional forest dynamics. Pages 255-286 in J. Ehleringer and C. Field (eds) Scaling Processes between Leaf and Landscape Levels, Academic Press. New York, NY.
Clark, J.S. and J. Robinson. 1993. Paleoecology of Fire. Pages 193-214 in P. Crutzen and J. Goldammer (editors). Fire in the Environment: its Ecological, Climatic, and Atmospheric Chemical Importance. Dahlem Conference, Wiley.
Clark, J.S. 1993. Fire, climate, and forest processes during the last 2000 yr. Pages 295-308in W.E. Dean and J.P. Bradbury (eds.) Ecology and Paleoecology of Elk Lake. Geological Society of America.
Clark, J.S. 1993. Shifting mosaic population dynamics. Pages Pages 224-246 In S. Levin, T.M. Powell, and J.H. Steele (eds) Patch Dynamics, Springer Verlag, New York, New York.
Binkley, D., P. Becker-Heidman, J.S. Clark, P.J. Crutzen, P. Frost, A.M. Gill, A. Granström, F. Mack, J.–C. Menaut, R.W. Wein, and B. van Wilgren. 1993. Impacts of fires on ecosystems. Pages 359-374 in P. Crutzen and J. Goldammer (editors). Fire in the Environment: its Ecological, Climatic, and Atmospheric Chemical importance. Dahlem Conference, Wiley.
Clark, J.S. 1993. Scale relationships in boreal forest. Trends in Ecology and Evolution 8: 220.
Clark, J. S. and Reid, C. D. 1993. Sensitivity of unmanaged ecosystems to global change. Pages 53-89 in Darmstader, J.; Toman, M. A., editors. Non-linear Responses to Global Change, Resources for the Future, Washington,D.C.
Clark J.S. 1992. Disturbance, climate change, and forest rehabilitation. Pages 165-186 in M. Wali (ed.) Ecosystem Rehabilitation: Preamble to Sustained Development. SPB Academic Publishing, The Hague, Netherlands.
Clark, J.S. 1992. Implications of individual plant growth for landscape patterns of age structure, net primary production, and resource availabilities. Pages 421-454 in D. DeAngelis and L. Gross (eds) Populations, Communities, and Ecosystems: an Individual Perspective, Chapman and Hall, New York, NY.
Clark, J.S. 1992. Validating model predictions of climate and vegetation change. Pages 423-440 in D. Ojima (ed) Earth System Modeling, OIES Global Change Institute, Boulder, CO.
Clark, J.S. 1992. Density-independent mortality, density compensation, and gap formation in plant populations. Theoretical Population Biology 42:172-198.
Morris, L.A., P.B. Bush, and J.S. Clark. 1992. Ecological impacts and risks associated with forest management. Pages 153-214 in J. Cairns, B.R. Niederlehner, and D.R. Orvos (eds). Predicting Ecosystem Risk. Princeton Scientific Publishing Co, Princeton, NJ.
Clark, J.S. 1991. Ecosystem sensitivity to climate change and complex responses. Pages 65-98 in R. Wyman (ed.) Global Change and Life on Earth. Chapman and Hall, New York, New York.
Clark, J.S. 1991. Forest-tree growth rates and probability of gap origin–a comment. Ecology 72:1166-1169.
Clark, J.S. 1991. Disturbance and tree life history on the shifting mosaic landscape. Ecology 72:1102-1118.
Clark, J.S. 1991. Disturbance and population structure on the shifting mosaic landscape. Ecology72:1119-1137.
Clark, J.S. 1990. Fire and climate change during the last 750 years in northwestern Minnesota. Ecological Monographs 60:135-159.
Clark, J.S. 1990. Integration of ecological levels: individual plant growth, population mortality, and ecosystem dynamics. JournalofEcology78:275-299.
Clark, J.S. 1990. Effects of 20th century climate change and fire suppression on forest production and decomposition in northwestern Minnesota. Canadian Journal of Forest Research 20:219-232.
Clark, J.S. 1990. Population and evolutionary consequences of being a coastal plant: long-term evidence from the North Atlantic coasts. Aquatic Science Reviews 2:509-533.
Clark, J.S. 1990. Landscape interactions among nitrogen mineralization, species composition, and long-term disturbance. Biogeochemisty 11:1-22.
Clark, J.S. 1989. Water balance and fire occurrence during the last 160 years in northwestern Minnesota. Journal of Ecology 77:989-1004.
Clark, J.S. 1989. Forests are for burning. Natural History 1:50-53.
Clark, J.S., Merkt, J., and Müller, H. 1989. Post Glacial fire, vegetation, and cultural history of the northern Alpine forelands, southwest Germany. Journal of Ecology 77:897-925.
Clark, J.S. 1989. Ecological disturbance as a renewal process: theory and application to fire history. Oikos 56:17-30.
Clark, J.S. 1988. Effects of climate change on fire regime in northwestern Minnesota. Nature 334:233-235.
Clark, J.S. 1988. Stratigraphic charcoal analysis on petrographic thin sections: recent fire history in northwestern Minnesota. Quaternary Research 30:81-91.
Clark, J.S. 1988. Particle motion and the theory of charcoal analysis: source area, transport, deposition, and sampling. Quaternary Research 30:67-80.
Clark, J.S. and Patterson, W.A. 1987. Dating of the organic deposits. in S.P. Leatherman, (ed.) “Geomorphic Development of Long Island’s South Shore Barriers,” National Park Service Technical Report, Boston, Massachusetts.
Clark, J.S. 1986. Dynamism in the barrier-beach vegetation of Great South Beach, New York. Ecological Monographs 56:97-126.
Clark, J.S. 1986. Late Holocene vegetation and coastal processes at a Long Island tidal marsh. Journal of Ecology 74:561-578.
Clark, J.S. 1986. Coastal forest tree populations in a changing environment, southeastern Long Island, New York. Ecological Monographs 56:259-277.
Clark, J.S., Overpeck, J., Webb, T., and Patterson, W.A. 1986. Pollen stratigraphic correlation and dating of barrier-beach peat sections. Review of Palaeobotany and Palynology 47, 145-168.
Clark, J.S. 1986. Vegetation and land-use history of the William Floyd Estate, Fire Island National Seashore, New York. National Park Service, Office of Scientific Studies Technical Report OSS 86-3, Boston, Massachusetts.
Clark, J.S. and Patterson, W.A. 1985. The development of a tidal marsh: upland and oceanic influences. Ecological Monographs 55, 189-217.
Clark, J.S. 1984. Chronologies for recent sediments in coastal environments. Proceedings of the 12th Nordic Symposium on Sediments, Skallingen, Denmark 12:76-81.
Clark, J.S. and Patterson, W.A. 1984. Pollen, 210Pb, and opaque spherules: an integrated approach to dating and sedimentation in the intertidal environment. Journal of Sedimentary Petrology 54:1249-1263.
