Zhang, L., Zhang, S., Xia, X. Battin, T.J., S. Liu, Q. Wang, R. Liu, Z. Yang, J. Ni, and E.H. Stanley. 2022. Unexpectedly minor nitrous oxide emissions from fluvial networks draining large permafrost catchments of the East Qinghai-Tibet Plateau. Nature Communications. doi: 10.1038/s41467-022-28651-8

Butitta, V.L., A.L. Rypel, and E.H. Stanley. 2021. Environmental controls on long-term growth of freshwater mussels in an oligotrophic lake. Freshwater Science 40:316-327. doi: 10.1086/714596

Gómez-Gener, L. Rocher-Ros, G., T. Battin, M.J. Cohen, H.J. Dalmagro, K.J. Dinsmore, T.W. Drake, C. Duvert, A. Enrich-Prast, Å. Horgby, M.S. Johnson, L. Kirk, F. Machado-Silva, N.S. Marzolf, M.J. McDowell, W.H. McDowell, H. Miettinen, A.K. Ojala, H. Peter, J. Pumpanen, L. Ran, D.A. Riveros-Iregui, I.R. Santos, J. Six, E.H. Stanley, M.B. Wallin, S.A. White, and R.A. Sponseller. 2011. Global carbon dioxide efflux from rivers enhanced by high nocturnal emissions. Nature Geoscience 14: 289-294. doi: 10.1038/s41561-021-00722-3

Topp, S.N., T.M. Pavelsky, X. Yang, E.H. Stanley C. G. Griffin, and M.R.V. Ross. 2021. Multi-decadal increases in U.S. lake water clarity. Environmental Research Letters 16: 055025. doi: 10.1088/1748-9326/abf002

Welti, E.A.R., A. Joern, A.M. Ellison, D.C. Lightfoot, S. Record, N. Rodenhouse, E.H. Stanley, and M. Kaspari. 2021. Studies of insect temporal trends must account for the complex sampling histories inherent to many long-term monitoring efforts. Nature Ecology and Evolution 5: 589-591. doi: 10.1038/s41559-021-01424-0

Lapierre, J.F., S.M. Collins, S.K. Oliver, T. Wagner, and E.H. Stanley. 2021. Inconsistent browning of Northeastern US lakes despite increased precipitation and recovery from acidification. Ecosphere12:e03415. doi: 10.1002/ecs2.3415

Jones, J.A., P.M. Groffman, J. Blair, F.W. Davis, H. Dugan, E.E. Eukirchen, S.D. Frey, T.K. Harms, E.L. Hinckley, M. Kosmala, S. Loberg, S. Malone, K. Novick, S. Record, A.V. Rocha, B. Ruddell, E.H. Stanley, C. Sturtevant, A. Thorpe, T. White, W.R. Wieder, L. Zhai, and K. Zhu. 2021. Synergies among environmental science research and monitoring networks: research agenda. Earth’s Future 9: e2020EF001631. doi: 10.1029/2020EF001631

Cowles, J., L. Templeton, J.J. Battles, P.J. Edmunds, R.C. Carpenter, S.R. Carpenter, Stephen, M.P. Nelson, N.L. Cleavitt, T.J. Fahey, P.M. Groffman, J.H. Sullivan, M.C. Neel, G.J.A. Hansen, S. Hobbie, S.J. Holbrook, C.E. Kazanski, E.W. Seabloom, R.J. Schmitt, E.H. Stanley, N.S. van Doorn, and M.J. Vander Zanden. 2021. Ecosystem trajectories, resilience, and the state of our future Earth: Insight from the U.S. LTER Network. Ecosphere 12:e03434. doi: 10.1002/ecs2.3434

Schliep, E.M., S.M. Collins, S. Rojas Salazar, N.R. Lottig, and E.H. Stanley. 2020. Data fusion model to identify environmental drivers and improve estimation of total nitrogen in lakes. Annals of Applied Statistics 14:1651-1675. doi: 10.1214/20-AOAS1371

Mooney, R.J., E.H. Stanley, W. Rosenthal, P.C. Esselman, A.D. Kendall, and P.B. McIntyre. 2020. Outsized contributions from small tributaries to a Great Lake. Proceedings of the National Academy of Sciences 117:28175-28182. doi: 10.1073/pnas.2001376117

Baldocchi, A.K., D.E. Reed, L.C. Loken, E.H. Stanley, H. Huerd, and A.R. Desai. 2020. Comparing spatial and temporal variation of lake-atmosphere carbon dioxide fluxes using multiple methods. Journal of Geophysical Research-Biogeosciences 125: e2019JG0056231. doi: 10.1029/2019JG005623

Blackburn, S.R. and E.H. Stanley. 2021. Floods increase carbon dioxide and methane fluxes and concentrations in agricultural streams. Freshwater Biology 66:62-77. doi: 10.1111/fwb.13614

Matsuzaki, S.I., R.C. Lathrop, S.R. Carpenter, J.R. Walsh, M.J. Vander Zanden, M.R. Gahler, and E.H. Stanley. 2020. Climate and food web effects on the spring clear-water phase in two north-temperate eutrophic lakes. Limnology and Oceanography 66: 30- 46. doi: 10.1002/lno.11584

Zhang, L., X. Xia, S. Liu, S. Zhang, J. Wang, S. Li, G. Wang, H. Gao, Z. Zhang, W. Wen, Q. Wang, R. Liu, Z. Yang, E.H. Stanley, and P.A. Raymond. 2020. Significant methane ebullition from alpine permafrost rivers on the East Qinghai-Tibet Plateau. Nature Geoscience 13:349-354. doi: 10.1038/s41561-020-0571-8

Carpenter, S.R., B.M.S. Arani, P.C. Hanson, M. Scheffer, E.H. Stanley, and E. van Nes. 2020. Stochastic dynamics of Cyanobacteria in long-term high-frequency observations of a eutrophic lake. Limnology and Oceanography Letters 5:331-336. doi: 10.1002/lol2.10152

Stanley, E.H., Rojas Salazar, S., N.R. Lottig, E.M. Schliep, C.T. Filstrup, and S.M. Collins. 2019. Comparison of total nitrogen data from direct and Kjeldahl-based approaches in integrated datasets. Limnology and Oceanography: Methods 64: 1572-1585. doi: 10.1002/lom3.10338

Loken, L.C., J.T. Crawford, P.J. Schramm, P. Stadler, and E.H. Stanley. 2019. Large spatial and temporal variability of carbon dioxide and methane in a eutrophic lake. Journal of Geophysical Research – Biogeosciences 124: 2248–2266.  doi: 10.1029/2019JG005186

Stanley, E.H., S.M. Collins, N.R. Lottig, S.K. Oliver, K.E. Webster, K.S. Cheruvelil, and P.A. Soranno. 2019. Biases in lake water quality sampling and implications for macroscale research. Limnology and Oceanography 64:1572-1585. doi: 10.1002/lno.11136

Stadler, P., L.C Loken, J.T. Crawford, P.J. Schramm, K. Sorsa, C. Kuhn, D. Savio, R.G. Striegl, D. Butman, E.H. Stanley, A.H. Farneitner, and M. Zessner. 2019. Spatial patterns of enzymatic activity in large water bodies: Ship-borne measurements of beta-D-glucuronidase activity as a rapid indicator of microbial water quality. Science of the Total Environment 651: 1742-1752. doi: 10.1016/j.scitotenv.2018.10.084

Loken, L.C., J.T. Crawford, M.M. Dornblaser, R.G. Striegl, J.N. Houser, P.A. Turner, and E.H. Stanley. 2018. Limited nitrate retention capacity in the Upper Mississippi River. Environmental Research Letters 13: 074030. doi: 10.1088/1748-9326/aacd51

Bertolet, B.L., J.R. Corman, N.J. Casson, S.D. Sebestyen, R.K. Kolka, and E.H. Stanley. 2018. Influence of soil temperature and moisture on the dissolved carbon, nitrogen, and phosphorus in organic matter entering lake ecosystems. Biogeochemistry 139: 293-305. doi: 10.1007/s10533-018-0469-3

Loken, L.C., J.T. Crawford, M.M. Dornblaser, R.G. Striegl, J.N. Houser, P.A. Turner, and E.H. Stanley. 2018. Limited nitrate retention capacity in the Upper Mississippi River. Environmental Research Letters 13: 074030.

Appling, A., J. Read, L. Winslow, M. Arroita, E. Bernhardt, N. Griffiths, R. Hall, J. Harvey, J. Heffernan, E. Stanley, E. Stets, and C. Yackulic. 2018. The metabolic regimes of 356 U.S. rivers. Scientific Data 5: 180292. doi: 10.1038/sdata.2018.292

Dornelas, M., L.H. Antao, F. Moyes, A.E. Bates, A.E. Magurran, and BioTIME consortium (200+ authors including E.H. Stanley). 2018. BioTIME: a database of biodiversity time-series for the Anthropocene. Global Ecology and Biogeography 27: 760-786. doi: 10.1111/geb.12729

Corman, J.R., B.L. Bertolet, N.J. Casson, S.D. Sebestyen, R.K. Kolka, and E.H. Stanley. 2018. Nitrogen and phosphorus loads to temperate seepage lakes associated with allochthonous dissolved organic carbon loads. Geophysical Research Letters. 45: doi: 10.1029/2018GL077219

Bernhardt, E.S., J.B. Heffernan, N.B. Grimm, E.H. Stanley, J.W. Harvey, M. Arroita, A.P. Appling, M.J. Cohen, W.H. McDowell, R.O. Hall, J.S. Read, B.J. Roberts, and E.G. Stets. 2018. The metabolic regimes of flowing waters. Limnology and Oceanography 63:S99-S118. doi: 10.1002/lno.10726

Filstrup, C.T., T. Wagner, S.K. Oliver, C.A. Stow, K.E. Webster, E.H. Stanley, and J.A. Downing. 2018. Evidence for regional nitrogen stress on lake phytoplankton biomass across large landscape and climate gradients. Limnology and Oceanography doi: 10.1002/lno.10742

Lottig, N.R., P.-N. Tan, T. Wagner, K.S. Cheruvelil, P.A. Soranno, E.H. Stanley, C.E. Scott, C.A. Stow, and S. Yuan. Macroscale patterns of synchrony identify complex relationships among spatial and temporal ecosystem drivers. Ecosphere 8:e02024. doi:10.1002/ecs2.2024

Golub, M., A.R. Desai, G.A. McKinley, C.K. Remucal, and E.H. Stanley. 2017. Large uncertainty in estimating pCO2 from carbonate equilibria in lakes. Journal of Geophysical Research Biogeosciences 122:2909-2924. Doi: 10.1002/2017JG00394

Soranno, P.A., L.C. Bacon, M. Beauchene, K.E. Bednar, E.G. Bissell, C.K. Boudreau, M.G. Boyer, M.T. Bremigan, S.R. Carpenter, J.W. Carr, K.S. Cheruvelil, S.T. Christel, M. Claucherty, S.M. Collins, J.D. Conroy, J. Duckett, J.A. Downing, C.E. Fergus, C.T. Filstrup, C.S. Funk, M.J. Gonzalez, L.T. Green, C. Gries, J.D. Halfman, S.K. Hamilton, P.C. Hanson, E.N. Henry, E.M. Herron, C. Hockings, J.R. Jackson, K. Jacobson-Hedin, L.L. Janus, W.W. Jones, J.R. Jones, C.M. Keson, K.B.S. King, S.A. Kishbaugh, J.-F. Lapierre, B.F. Lathrop, J.A. Latimore, Y. Lee, N.R. Lottig, J.A. Lynch, L.J. Matthews, B.H. McDowell, K.E.B. Moore, B.P. Neff, S.J. Nelson, S.K. Oliver, M.L. Pace, D.C. Pierson, A.C. Poisson, A.I. Pollard, D.M. Post, P.O Reyes, D.O. Rosenberry, K.M. Roy, L.G. Rudstam, O. Sarnelle, N.J. Schuldt, C.E. Scott, N.K. Skaff, N.J. Smith, N.R. Spinelli, J.J. Stachelek, E.H. Stanley, J.L. Stoddard, S.B. Stopyak, C.A. Stow, J.M. Tallant, P.-N. Tan, T.P. Thorpe, T. Wagner, M.J. Vanni, G. Watkins, K.C. Weathers, K.E. Webster, J.D. White, M.K. Wilmes, and S. Yuan. 2017. LAGOS-NE: A multi-scaled geospatial and temporal database of lake ecological context and water quality for thousands of U.S. lakes. GigaScience 6:1-22. doi: 10.1093/gigascience/gix101

Bernhardt, E.S., J.B. Heffernan, N.B. Grimm, E.H. Stanley, J.W. Harvey, M. Arroita, A.P. Appling, M.J. Cohen, W.H. McDowell, R.O. Hall, J.S. Read, B.J. Roberts, and E.G. Stets. 2017. The metabolic regimes of flowing waters. Limnology and Oceanography. doi: 10.1002/lno.10726

Powers, S.M., H.M. Baulch, S.E. Hampton, S.G. Labou, N.R. Lottig, and E.H. Stanley. 2017. Nitrification contributes to winter oxygen depletion in seasonally frozen forested lakes. Biogeochemistry Letters 136:119-129. doi: 10.1007/s10533-017-0382-1

Powers, S.M., S.G. Labou, H.M. Baulch, R.J. Hunt, N.R. Lottig, J.F. Walker, S.E. Hampton, and E.H. Stanley. 2017. Ice duration drives winter nitrate accumulation in north temperate lakes. Limnology and Oceanography Letters 2:177-186. doi: 10.1002/lol2.10048

Butitta, V.L., S.R. Carpenter, L.C. Loken, M.L. Pace, and E.H. Stanley. 2017. Spatial early warning indicators in a lake manipulation. Ecosphere doi: 10.1002/ecs2.1941

Oliver, S.K., S.M. Collins, P.A. Soranno, T. Wagner, E.H. Stanley, J.R. Jones, C.A. Stow, N.R. Lottig. 2017. Unexpected stasis in a changing world: Lake nutrient and chlorophyll trends since 1990. Global Change Biology 23:5455-5467. doi: 10.1111/gcb.13810

Crawford, J. T., L.C. Loken, W.E. West, B. Crary, S.A. Spawn, N. Gubbins, S.E. Jones, R.G. Striegl, and E.H. Stanley. 2017. Spatial heterogeneity of within-stream methane concentrations. Journal of Geophysical Research Biogeosciences 122:1036-1048. doi: 10.1002/2016JG003698

Collins, S.M., S.K. Oliver, J.F. Lapierre, E.H. Stanley, J. R. Jones, T. Wagner, and P.A. Soranno. 2017. Lake nutrient stoichiometry is less predictable than nutrient concentrations at regional and sub-continental scales. Ecological Applications 27:1529-1540. doi: 10.1002/eap.1545

Crawford, J.T., E.H. Stanley, M.M. Dornblaser, and R.G. Striegl. 2016. CO2 time series patterns in contrasting headwater streams of the Northern Hemisphere. Aquatic Sciences 79:473-486. doi: 10.1007/s00027-016-0511-2

Jones, J.B. and E.H. Stanley, editors. 2016. Streams in a Changing Environment. Academic Press/Elsevier, London. ISBN: 9780124058903

Jones, J.B. and E.H. Stanley 2016. Synthesis and conclusions. Pages 525-533 in J.B. Jones and E.H. Stanley, editors. Streams in a Changing Environment. Academic Press/Elsevier, London. ISBN: 9780124058903

Stanley, E.H., R.A. Sponseller, and J.B. Heffernan. 2016. Chapter 9: Landscape and Regional Stream Ecology. Pages 389-415 in J.B. Jones and E.H. Stanley, editors. Streams in a Changing Environment. Academic Press/Elsevier, London. doi: 10.1016/B978-0-12-405890-3.00009-9

Hampton, S.E., A.W.E. Galloway, S.M. Powers, T. Ozersky, K.H. Woo, R.D. Batt, S.G. Labou, C.M. O’Reilly, S. Sharma, N.R. Lottig, E.H. Stanley, R.L. North, J.D. Stockwell, R. Adrian, G.A. Weyhenmeyer, L. Arvola, H.M. Baulch, I. Bertani, L.L. Bowman, Jr., C.C. Carey, J. Catalan, W. Colom-Montero, L.M. Domine, M. Felip, I. Granadoso, C. Gries, H.P. Grossart, J. Haberan, M. Haldna, B. Hayden, S.N. Higgins, J.C. Jolley, K.K. Kahilainen, E. Kaup, M.J. Kehoe, S. MacIntyre, A.W. Mackay, H.L. Mariash, R.M. McKay, B. Nixdorf, P. Nõges, T. Nõges, M. Palmer, D.C. Pierson, D.M. Post, M.J. Pruett, M. Rautio, J. S. Read, S.L. Roberts, J. Rücker, S. Sadro, E.A. Silow, D.E. Smith, R.W. Sterner, G.E.A. Swann, M.A. Timofeyev, M. Toro, M.R. Twiss, R.J. Vogt, S.B. Watson, E.J. Whiteford, and M.A. Xenopoulos. 2016. Ecology under lake ice. Ecology Letters 20: 98-111. doi: 10.1111/ele.12699

Gries, C., M.R. Gahler, P.C. Hanson, T.K. Kratz, and E.H. Stanley. 2016. Information management at the North Temperate Lakes Long-Term Ecological Research site – successful support of research in a large, diverse, and long running project. Ecological Informatics 36:201-208. doi: 10.1016/j.ecoinf.2016.08.007

Oliver, S.K., P.A. Soranno, C.E. Fergus, T. Wagner, L.A. Winslow, C.E. Scott, K.E. Webster, J.A. Downing, and E.H. Stanley. 2016. Prediction of lake depth across a 17-state region in the U.S. Inland Waters 6:314-324. doi: 10.1080/IW-6.3.957

Crawford, J.T. and E.H. Stanley. 2016. Controls on methane concentrations and fluxes in streams draining human-dominated landscapes. Ecological Applications 26:1581-1591. doi: 10.1890/15-1330

Stanley, E.H., N.J. Casson, S.T. Christel, J.T. Crawford, L.C. Loken, and S.K. Oliver. 2016. The ecology of methane in streams and rivers: patterns, controls, and global significance. Ecological Monographs 86: 146-171. doi: 10.1890/15-1027

Crawford, J.T., L.C. Loken, E.H. Stanley, E.G. Stets, M.M. Dornblaser, and R.G. Striegl. 2016. Basin scale controls on CO2 and CH4 emissions from the Upper Mississippi River. Geophysical Research Letters. doi: 10.1002/2015GL067599

Loken, L.C., G.E. Small, J.C. Finlay, R.W. Sterner, and E.H. Stanley. 2016. Nitrogen cycling in a freshwater estuary. Biogeochemistry 127:199-216. doi: 10.1007/s10533-015-0175-3

Soranno, P.A., E.G. Bissell, K.S. Cheruvelil, S.T. Christel, S.M. Collins, C.E. Fergus, C.T. Filstrup, J.-F. Lapierre, N.R. Lottig, S.K. Oliver, C.E. Scott, N.J. Smith, S. Stopyak, S. Yuan, M.T Bremigan, J.A. Downing, C. Gries, E.N. Henry, N.K. Skaff, E.H. Stanley, C.A. Stow, P.-N. Tan, T. Wagner, and K.E. Webster. 2015. Building a multi-scaled geospatial temporal ecology database from disparate data sources: Fostering open science through data reuse. GigaScience 4: 10.1186/s13742-015-0067-4. doi: 10.1186/s13742-015-0067-4

Crawford, J.T., M.M. Dornblaser, E.H. Stanley, D.W. Clow, and R.G. Striegl. 2015. Source limitation of carbon gas emissions in high-elevation mountain streams and lakes. Journal of Geophysical Research- Biogeosciences 120:10.1002/2014JG002861. doi: 10.1002/2014JG002861

Crawford, J.T., L.C. Loken, N.J. Casson, C.Smith, A.G. Stone, and L.A. Winslow. 2015. High-speed limnology: Using advanced sensors to investigate spatial varibility in biogeochemistry and hydrology. Environmental Science and Technology,49:442-450. doi: 10.1021/es504773x

Hampton, S.E., M.V. Moore, T. Ozersky, E.H. Stanley, C.M. Poleshenski, and A.W.E. Galloway. 2015. Heating up a cold subject: prospects for under‐ice research in lakes. Journal of Plankton Research 37:277-284. doi: 10.1093/plankt/fbv002

Hanson, P.C., M.L. Pace, S.R. Carpenter, J.J. Cole, and E.H. Stanley. 2015. Integrating landscape carbon cycling: research needs for resolving organic carbon budgets. Ecosystems 18: 363–375. doi: 10.1007/s10021-014-9826-9

Winslow, L.A., J.S. Read, P.C. Hanson, and E.H. Stanley. 2015. Does lake size matter?  Combining morphology and process modeling to examine the contribution of lake classes to population-scale processes. Inland Waters 5:7-14. doi: 10.5268/IW-5.1.740

Filstrup, C.T., T. Wagner, P.A. Soranno, E. H. Stanley, C.A. Stow, K.E. Webster, and J.A. Downing. 2014. Regional variability among nonlinear chlorophyll-phosphorus relationships in lakes. Limnology and Oceanography 59:1691-1703. doi: 10.4319/lo.2014.59.5.1691

Powers, S.M., D.M. Robertson, and E.H. Stanley. 2014. Effects of lakes and reservoirs on annual nutrient and sediment export in agricultural and forested landscapes. Hydrological Processes 28:5919-5937. doi: 10.1002/hyp.10083

Crawford, J.T., E.H. Stanley, S.A. Spawn, J.C. Finlay, L.C. Loken, and R.G. Striegl. 2014. Ebullitive methane emissions from oxygenated wetland streams. Global Change Biology 20:3408-3422. doi: 10.1111/gcb.12614

Crawford, J.T., N.R. Lottig, E.H. Stanley, J.F. Walker, P.C. Hanson, J.C. Finlay, and R.G. Striegl. 2014. CO2 and CH4 emissions from streams in a lake-rich landscape: Patterns, controls and regional significance. Global Biogeochemical Cycles 28:197-210. doi: 10.1002/2013GB004661

Crawford, J.T. and E.H. Stanley. 2014. Distinct fluvial patterns of a headwater stream network underlain by discontinuous permafrost. Arctic, Antarctic, and Alpine Research 46:52-62. doi: 10.1657/1938-4246-46.2.344

Orr, C.H., K.I. Predick, K.L. Rogers, and E.H. Stanley. 2014. Spatial autocorrelation of denitrification in a restored and a natural floodplain. Wetlands 34:89-100. doi: 10.1007/s13157-013-0488-8

Soranno, P.A., K.S. Cheruvilil, E.G. Bissell, M.T. Bremigan, J.A. Downing, C.E. Fergus, C.T. Filstrup, N.R. Lottig, E.N. Henry, E.H. Stanley, C.A. Stow, P.-N. Tang, T. Wagner, and K.E. Webster. 2014. Cross-scale interactions: quantifying multi-scaled cause-effect relationships in macrosystems. Frontiers in Ecology and the Environment 12:65-73. doi: 10.1890/120366

Watras, C.J., J.S. Read, K.D. Holman, Z. Liu, Y.-Y. Song, A.J. Watras, S. Morgan, and E. H. Stanley. 2014. Decadal oscillation of lakes and aquifers in the upper Great Lakes region of North America: hydroclimatic implications. Geophysical Research Letters 41:456-462. doi: 10.1002/2013GL058679

Hanson, P.C., I. Buffam, J. Rusak, E.H. Stanley, and C. Watras. 2014. Quantifying lake allochthonous organic carbon budgets using a simple equilibrium model. Limnology and Oceanography 59:167-181. doi: 10.4319/lo.2014.59.1.0167

Winslow, L.A., J.S. Read, P.C. Hanson, and E.H. Stanley. 2014. Lake shoreline in the contiguous United States: quantity, distribution and sensitivity to observation resolution. Freshwater Biology 59:213-223. doi: 10.1111/fwb.12258

Lottig, N.R., I. Buffam, and E.H. Stanley. 2013. Comparisons of wetland and drainage lake influences on stream dissolved carbon concentrations and yields in a north temperate lake-rich region. Aquatic Sciences 75:619-630. doi: 10.1007/s00027-013-0305-8

Crawford, J.T., R.G. Striegl, K.P. Wickland, M.M. Dornblaser, and E.H. Stanley. 2013. Emissions of carbon dioxide and methane from a headwater stream network of interior Alaska. Journal of Geophysical Research Biogeosciences 118:482-494. doi: 10.1002/jgrg.20034

Powers, S.M., J.P. Julian, M.W. Doyle, and E.H. Stanley. 2013. Retention and transport of nutrients in a mature agricultural impoundment. Journal of Geophysical Research Biogeosciences 118:91-103. doi: 10.1029/2012JG002148

Stanley, E.H. 2013. Understanding the ecological effects of dams. Pages 253-258 in K.C. Weathers, D.L. Strayer, and G.E. Likens, editors. Fundamentals of Ecosystem Science. Academic Press. Chapter 14

Shade, A., J.S. Read, N.D. Youngblut, N. Fierer, R. Knight, T.K. Kratz, N.R. Lottig, E.E. Roden, E.H. Stanley, J. Stombaugh, R.J. Whitaker, C.H. Wu, and K.D. McMahon. 2012. Lake microbial communities are resilient after a whole-ecosystem disturbance. ISME Journal 6:2153–2167.

Lottig, N.R., E.H. Stanley, and J.T. Maxted. 2012. Assessing the influence of upstream drainage lakes on fluvial organic carbon in a wetland rich region. Journal of Geophysical Research Biogeosciences 117:G3. doi: 10.1029/2012JG001983

Powers, S.M., R.A. Johnson, and E.H. Stanley. 2012. Nutrient retention and the problem of hydrologic disconnection in streams and wetlands. Ecosystems 15:435-449.

Robertson, G.P., N. Brokaw, S.L. Collins, H.W. Ducklow, D.R. Foster, T.L. Gragson, C. Gries, S.K. Hamilton, A.D. McGuire, J.C. Moore, E.H. Stanley, R.B. Waide and M.W. Williams. 2012. Long term ecological research in a human dominated world. BioScience 62:342-353.

Stanley, E.H., S.M. Powers, N.R. Lottig, I. Buffam, and J.T. Crawford. 2012. Contemporary changes in dissolved organic carbon of human-dominated rivers: Is there a role for DOC management? Freshwater Biology 57 (Suppl. 1): 26–42.

Carpenter, S.R., E.H. Stanley, and M.J. Vander Zanden. 2011. State of the world’s freshwater ecosystems: physical, chemical, and biological changes. Annual Review of the Environment and Resources 36:75-99.

Baulch, H.M., E.H. Stanley, and E.S. Bernhardt. 2011. Can algal uptake stop NO3 pollution? Nature 477, E3.  doi: 10.1038/nature10418

Lottig, N.R., E.H. Stanley, P.C. Hanson, and T.K. Kratz. 2011. Comparison of regional stream and lake chemistry: Differences, similarities, and potential drivers. Limnology and Oceanography 56:1551-1562. doi: 10.4319/lo.2011.56.5.1551

Hanson, P.C., D.P. Hamilton, E.H. Stanley, N. Preston, O. Langman, and E.L. Kara. 2011. Fate of allochthonous dissolved organic carbon in lakes: A quantitative approach.  PLoS ONE 6: e21884. doi: 10.1371/journal.pone.0021884

Julian, J.P, S.Z. Seegert, S.M. Powers, E.H. Stanley, and M.W. Doyle. 2011. Light as a first-order control on ecosystem structure in a small Midwestern stream. Ecohydrology 4:422-432. doi:

Buffam, I., M.G. Turner, A. Desai, P.C. Hanson, J.A. Rusak, N.R. Lottig, E.H. Stanley, and S.R. Carpenter. 2011. Integrating aquatic and terrestrial components to construct a complete carbon budget for a north temperate lake district. Global Change Biology 17:1193–1211. doi: 10.1111/j.1365-2486.2010.02313.x

Stanley, E.H. and A.K. Ward. 2010. Effects of vascular plants on seasonal pore water carbon dynamics in a lotic wetland. Wetlands 30:889-900. doi: 10.1007/s13157-010-0087-x

Predick, K.I. and E.H. Stanley. 2010. Influence of vegetation and seasonal flow patterns on hyporheic nitrogen retention in a 7th-order river. Journal of the North American Benthological Society 29:904-917. doi: 10.1899/09-049.1

Stanley, E.H., S.M. Powers, and N.R. Lottig. 2010. The evolving legacy of disturbance in stream ecology: concepts, contributions and coming challenges. Journal of the North American Benthological Society 29:67-83. doi: 10.1899/08-027.1

Powers, S.M., E.H. Stanley, and N.R. Lottig. 2009. Quantifying phosphorus uptake using pulse and steady-state approaches in streams. Limnology and Oceanography Methods 7:498-508. doi: 10.4319/lom.2009.7.498

Solomon, C.T., E.R. Hotchkiss, J.M. Moslemi, A.J. Ulseth, E.H. Stanley, R.O. Hall, and A.S. Flecker. 2009. Sediment size and nutrients regulate denitrification in a tropical stream. Journal of the North American Benthological Society 28:480–490. doi: 10.1899/07-157.1

Stanley, E.H. 2009. Lake levels and drought indices in northern Wisconsin: data, graphs, and photographs.  Ecological Society of American EcoEd Digital Library, Ecological Society of America. Download doc

Julian, J.P., E.H. Stanley, and M.W. Doyle. 2008. Basin-scale consequences of agricultural land use on benthic light availability and primary production along a 6th-order temperate river. Ecosystems 11:1091-1105. doi: 10.1007/s10021-008-9181-9

Julian, J.P., M.W. Doyle, S.M. Powers, E.H. Stanley and J.A. Riggsbee. 2008. Optical water quality in rivers. Water Resources Research 44: W10411. doi: 10.1029/2007WR006457

Julian, J.P., M.W. Doyle, and E.H. Stanley. 2008. Empirical modeling of light availability in rivers. Journal of Geophysical Research- Biogeosciences 113:G3. doi: 10.1029/2007JG000601

Stanley, E.H. and J.T. Maxted. 2008. Changes in the dissolved nitrogen pool across land cover gradients in Wisconsin streams. Ecological Applications 18:1579-1590. doi: 10.1890/07-1379.1

Doyle, M.W., E.H. Stanley, D. Havlick, M.J. Kaiser, G. Steinbach, W. Graf, and G. Galloway. 2008. Aging infrastructure and ecosystem restoration. Science 319:286-287. doi: 10.1126/science.1149852

Orr, C.H., S.J. Kroiss, K.L. Rogers, and E.H. Stanley. 2008. Downstream benthic responses to small dam removal in a coldwater stream. River Research and Applications 24:804-822. doi: 10.1002/rra.1084

Turner, M. G., E. H. Stanley, M. Bürgi and D. J. Mladenoff.  2008. Changes in the Wisconsin River and its floodplain.  Pages 229-249 in D. M. Waller and T. P. Rooney, editors. The vanishing present: ecological change in Wisconsin.  University of Chicago Press. doi: 10.7208/chicago/9780226871745.001.0001

Orr, C.H., E.H. Stanley, K.A. Wilson and J.C. Finlay. 2007. Effects of restoration and reflooding on soil denitrification in a leveed Midwestern floodplain.  Ecological Applications 17:2365-2376. doi: 10.1890/06-2113.1

Stanley, E.H., M.J. Catalano, N. Mercado-Silva, and C.H. Orr. 2007. Effects of dam removal on brook trout in a Wisconsin stream. River Research and Applications 23:792-798. doi: 10.1002/rra.1021

Watters, J.R. and E.H. Stanley. 2007. Stream channels in peatlands: the role of biological processes in controlling channel form. Geomorphology 89:97-110. doi: 10.1016/j.geomorph.2006.07.015

Lottig, N.R. and E.H. Stanley. 2007. Benthic sediment influence on dissolved phosphorus concentrations in a headwater stream. Biogeochemistry 84:297-309. doi: 10.1007/s10533-007-9116-0

Carpenter, S.R., B.J. Benson, R. Biggs, J.W. Chipman, J.A. Foley, S.A. Golding, R.B. Hammer, P.C. Hanson, P.T.J. Johnson, A.M. Kamarainen, T.K. Kratz, R.C. Lathrop, K.D. McMahon, B. Provencher, J.A. Rusak, C.T. Solomon, E.H. Stanley, M.G. Turner, M.J. Vander Zanden, C.-H. Wu and H. Yuan. 2007. Understanding regional change: Comparison of two lake districts. BioScience 57:323-335. doi: 10.1641/B570407

Doyle, M.W. and E.H. Stanley. 2006. Exploring potential spatial-temporal links between fluvial geomorphology and nutrient-periphyton dynamics in streams using simulation models. Annals of the Association of American Geographers 96:687-698. doi: 10.1111/j.1467-8306.2006.00511.x

Kondolf, G. M., A. J. Boulton, S. O’Daniel, G. C. Poole, F. J. Rahel, E. H. Stanley, E. Wohl, A. Bang, J. Carlstrom, C. Cristoni, H. Huber, S. Koljonen, P. Louhi and K. Nakamura 2006. Process-based ecological river restoration: visualizing three-dimensional connectivity and dynamic vectors to recover lost linkages. Ecology and Society 11:5. [online] URL:

Orr, C.H., K.L. Rogers, and E.H. Stanley. 2006. Channel geomorphology and P uptake following removal of a small dam. Journal of the North American Benthological Society 25:556-568. doi: 10.1899/0887-3593(2006)25[556:CMAPUF]2.0.CO;2

Hanson, P.C., S.R. Carpenter, D.E. Armstrong, E.H. Stanley, and T.K. Kratz. 2006. Drivers of lake dissolved inorganic carbon and dissolved oxygen across scales from days to decades. Ecological Monographs 76:343-363. doi: 10.1890/0012-9615(2006)076[0343:LDICAD]2.0.CO;2

Orr, C.H. and E.H. Stanley. 2006. Vegetation development and restoration potential of drained reservoirs following dam removal in Wisconsin. River Research and Applications 22:281-295. doi: 10.1002/rra.891

Forshay, K.J. and E.H. Stanley. 2005. Rapid nitrate loss and denitrification in a temperate river floodplain. Biogeochemistry 75:43-64. doi: 10.1007/s10533-004-6016-4

Doyle, M.W., E.H. Stanley, D.L. Strayer, R.B. Jacobson, and J.C. Schmidt. 2005. Effective discharge analysis of ecological processes in streams. Water Resources Research 41:W11411.  10.1029/2005WR004222

Doyle, M.W., E.H. Stanley, C.H. Orr, A.R. Selle, S.A. Sethi, and J.M. Harbor. 2005. Stream ecosystem response to small dam removal: lessons from the Heartland. Geomorphology 71: 227-244. doi: 10.1016/j.geomorph.2004.04.011

Gergel, S.E., S.R. Carpenter, and E.H. Stanley. 2005. Do dams and levees impact nitrogen cycling? Simulating the effects of flood alterations on floodplain denitrification. Global Change Biology 11:1352-1367. doi: 10.1111/j.1365-2486.2005.00966.x

Jansson, R., H. Backx, A.J. Boulton, M. Dixon, D. Dudgeon, F. Hughes, K. Nakamura, E. Stanley, and K. Tockner 2005. Stating mechanisms and refining criteria for ecologically successful river restoration:  A comment on Palmer et al. (2004).  Journal of Applied Ecology 42:218-222. doi: 10.1111/j.1365-2664.2005.01022.x

Kang, H. and E.H. Stanley. 2005. Effects of levees on soil microbial activities in a large river floodplain. River Research and Applications 21:19-25. doi: 10.1002/rra.811

Doyle, M. and Stanley, E. 2005. Stream ecosystem response to experimental dam removals. Pages 1-12 in G.E. Moglen (ed.), Managing Watersheds for Human and Natural Impacts: pp. 1-12. doi: 10.1061/40763(178)20. doi: 10.1061/40763%28178%2920

Sethi, S.A., A.R. Selle, M.W. Doyle, E.H. Stanley, and H.E. Kitchel. 2004. Response of unionid mussels to dam removal in Koshkonong Creek, Wisconsin (U.S.A.). Hydrobiologia 525:157-165. doi: 10.1023/B:HYDR.0000038862.63229.56

Miller, J. R., M. G. Turner, E. A. H. Smithwick, C. L. Dent, and E. H. Stanley.  2004. Spatial extrapolation: the science of predicting ecological patterns and processes. BioScience 54:310-320. doi: 10.1641/0006-3568(2004)054[0310:SETSOP]2.0.CO;2

Stanley, E.H., S.G. Fisher, and J.B. Jones. 2004. Effects of water loss on primary producers: a landscape-scale model. Aquatic Sciences 66:130-138. doi: 10.1007/s00027-003-0646-9

Nilsson, C., J.E. Pizzuto, G.E. Moglen, M.A. Palmer, E.H. Stanley, N.E. Bockstael, and L.C. Thompson. 2003. Ecological forecasting and urbanized streams: challenges for economists, hydrologists, geomorphologists, and ecologists.  Ecosystems 6:659-674. doi: 10.1007/s10021-002-0217-2

Kang, H., E.H. Stanley, and S.S. Park. 2003. A sensitive method for the measurement of ammonium in soil extract and water using an OPA compound. Communications in Soil Science and Plant Analysis 34:2193-2201. doi: 10.1081/CSS-120024057

Doyle, M.W., A.R. Selle, J.M. Stofleth, E.H. Stanley, and J.M. Harbor. 2003.  Predicting the depth of erosion following dam removal using a bank stability model. International Journal of Sediment Research 18:128-134. doi:

Doyle, M.W., E.H. Stanley, and J.M. Harbor. 2003. Hydrogeomorphic controls on phosphorus retention in streams. Water Resources Research 39:1147. doi: 10.1029/2003WR002038

Jones, J.B., E.H. Stanley, and P.J. Mulholland. 2003. Increased alkalinity in the Mississippi River. Science 302:985-986. doi: 10.1126/science.302.5647.985c

Jones, J.B., E.H. Stanley and P.J. Mulholland. 2003. Long-term decline in carbon dioxide supersaturation in rivers across the contiguous United States. Geophysical Research Letters 30. doi: 10.1029/2003GL017056

Freeman, R.E., E.H. Stanley, and M.G. Turner. 2003. Analysis and conservation implications of landscape change in the floodplain of the Wisconsin River, USA. Ecological Applications 13:416-431.

Doyle, M.W., J.M. Harbor, and E.H. Stanley. 2003. Towards policies and decision-making for dam removal. Environmental Management 31:453-465. doi: 10.1007/s00267-002-2819-z

Stanley, E.H. and M.W. Doyle. 2003. Trading off: the ecological effects of dam removal. Frontiers in Ecology and the Environment 1:15-22. doi: 10.1890/1540-9295(2003)001[0015:TOTEEO]2.0.CO;2

Doyle, M.W., E.H. Stanley, and J.M. Harbor. 2003. Channel adjustments following two dam removals in Wisconsin. Water Resource Research 39:1011, doi 10.1029/2002WR001714. doi: 10.1029/2002WR001714

Benda, L.E., N. L. Poff, C. Tague, M.A. Palmer, J. Pizzuto, N. Bockstael, S. Cooper, E. Stanley, and G. Moglen. 2002.  Avoiding train wrecks in the use of science in environmental problem solving. BioScience 52:1127-1136. doi: 10.1641/0006-3568(2002)052[1127:HTATWW]2.0.CO;2

Stanley, E.H. and M.W. Doyle. 2002. A geomorphic perspective on nutrient retention following dam removal. BioScience 52:693-701. doi: 10.1641/0006-3568(2002)052[0693:AGPONR]2.0.CO;2

Doyle, M.W., E.H. Stanley, and J.M. Harbor. 2002. Assessing probable channel response to dam removal using geomorphic analogies.  Journal of the American Water Resources Association 38:1567-1580. doi: 10.1111/j.1752-1688.2002.tb04365.x

Gergel, S.E., M.G. Turner, J.R. Miller, J.M. Melack, and E.H. Stanley. 2002. Landscape indicators of human impacts to river-floodplain systems. Aquatic Sciences 64:118-128. doi: 10.1007/s00027-002-8060-2

Stanley, E.H., M.A. Luebke, M.W. Doyle, and D.W. Marshall. 2002. Short-term changes in channel form and macroinvertebrate communities following low-head dam removal. Journal of the North American Benthological Society 21:172-187. doi: 10.2307/1468307

Doyle, M.W., E.H. Stanley, M.A. Luebke, and J.M. Harbor. 2000. Dam removal: physical, biological, and societal considerations. American Society of Civil Engineering Joint Conference on Water Resources Engineering and Water Resources Planning and Management, Minneapolis, MN. pdf

Stanley, E.H. and A.J. Boulton. 2000. River size as a factor in conservation. Pages 403-413 in P.J. Boon, B.R. Davies, and G.E. Petts (eds.), Global perspectives on river conservation: science, policy, and practice. John Wiley and Sons. ISBN: 978-0-471-96062-1

Boulton, A.J. F. Sheldon, M.C. Thoms, and E.H. Stanley. 2000. Problems and constraints in managing rivers with contrasting flow regimes.  Pages 415-430 in P.J. Boon, B.R. Davies, and G.E. Petts (eds.), Global perspectives on river conservation: science, policy, and practice. John Wiley and Sons. pdf

Stanley, E.H. and J.B. Jones, Jr. 2000. Surface-subsurface interactions: past, present, and future. Pp. 405-417 in J.B. Jones, Jr. and P.J. Mulholland (eds.), Streams and Groundwater. Academic Press. doi: 10.1016/0169-5347(96)10013-6

Boulton, A.J., S. Findlay, P. Marmonier, E.H. Stanley, and H.M. Valett. 1998. The functional significance of the hyporheic zone in streams and rivers.  Annual Review of Ecology and Systematics 29:59-81. doi: 10.1146/annurev.ecolsys.29.1.59

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