Publications

Detto M, Katul GG, Molini A, Stoy PC, Palmroth S, Baldocchi D (in review) Assessing cause and effect in ecological time series: An application of conditional Granger’s spectral causality theory. Submitted to American Naturalist.

Rastetter EB, Williams M, Griffin KL, Kwiatkowski BL, Tomasky G, Potosnak MJ, Stoy PC, Shaver GR, Stieglitz M, Kling GW, Hobbie JE (in press) Application of the ensemble Kalman filter to assimilate eddy covariance flux data into a model of arctic carbon exchange. Submitted to Ecological Applications.

Stoy PC (2010) Thermodynamic approaches to ecosystem behaviour: Fundamental principles with case studies from forest succession and management. in: Ecosystem Ecology: A New Synthesis (eds. Raffaelli DG, Frid CLJ) British Ecological Society Ecological Review Series. Cambridge University Press. pages 40-64.

Hollinger D, Ollinger S, Richardson AD, Meyers T, Dail B, Martin MS, Scott N, Arkebauer TJ, Baldocchi DD, Clark K, Curtis P, Davis K, Desai A, Dragoni D, Goulden M, Gu L, Katul GG, Pallardy S, Paw U KT, Schmid H-P, Stoy PC, Suyker A, Verma S (2010) Albedo estimates for land surface models and support for a new paradigm based on foliage nitrogen concentration. Global Change Biology 16: 696-710 doi: 10.1111/j.1365-2486.2009.02028.x.

Lasslop G, Reichstein M, Papale D, Richardson AD, Arneth A, Barr A, Stoy PC, Wohlfahrt G (2010) Separation of net ecosystem exchange into assimilation and respiration using a light response curve approach: critical issues and global evaluation. Global Change Biology 16: 187-208 doi: 10.1111/j.1365-2486.2009.02041.x.

Song C, Katul GG, Oren R, Band LE, Tague CL, Stoy PC, McCarthy HR (2009) Energy, water, and carbon fluxes in a loblolly pine stand: Results from uniform and gappy canopy models with comparisons to eddy flux data. Journal of Geophysical Research 114: G04021, doi:10.1029/2009JG000951.

Stoy PC, Richardson AD, Baldocchi DD, Katul GG, Stanovick J, Mahecha MD, Reichstein M, Detto M, Law BE, Wohlfahrt G, Arriga N, Campos J, McCaughey JH, Montagnani L, Paw U KT, Sevanto S, Williams M (2009) Biosphere-atmosphere exchange of CO₂ in relation to climate: a cross-biome analysis across multiple time scales. Biogeosciences 6: 2297-2312. [link] [pdf]

Williams M, Richardson AD, Reichstein M, Stoy PC, Peylin P, Verbeeck H, Carvalhais N, Jung M, Hollinger DY, Kattge J, Leuning R, Luo Y, Tomelleri E, Trudinger C, Wang Y-P (2009). Improving land surface models with FLUXNET data. Biogeosciences 6: 1341-1359. [link] [pdf]

Stoy PC, Williams M, Disney M, Prieto-Blanco A, Huntley B, Baxter R, Lewis P (2009) Upscaling as ecological information transfer: A simple framework with application to arctic ecosystem carbon exchange. Landscape Ecology 24: 971-986. DOI 10.1007/s10980-009-9367-3. [link]

Mohammed A, Stoy PC, Malthus T (2009) Information preservation and change detection across spatial scales in the assessment of peatland CH₄ emission estimates. The International Journal of Climate Change: Impacts and responses 1: 93-114. [link]

Merbold L, Kutsch WL, Kolle O, Zimov SA, Corradi C, Stoy PC, Schulze E-D (2009) Artificial drainage and associated carbon fluxes (CO₂/CH₄) in tundra ecosystems. Global Change Biology 15: 2599-2614 doi: 10.1111/j.1365-2486.2009.01962.x.

Novick KA, Oren R, Stoy PC, Siqueira MBS, Katul GG (2009) Nocturnal evapotranspiration in eddy covariance records from three co-located ecosystems in the southeastern U.S. Agricultural and Forest Meteorology149: 1491-1504 doi:10.1016/j.agrformet.2009.04.005. [link]

Daly E, Palmroth S, Stoy PC, Siqueira MBS, Oishi AC, Juang J-Y, Oren R, Porporato A, Katul GG (2009) Subsurface CO₂ dynamics under different atmospheric CO₂ and soil nitrogen conditions in a pine forest. Biogeochemistry 94: 271–287. [link]

Novick KA, Oren R, Stoy PC, Juang J-Y, Siqueira MBS, Katul GG (2009) The relationship between reference canopy conductance and simplified hydraulic architecture. Advances in Water Resources 32: 809–819. [link]

Stoy PC, Williams M, Spadavecchia L, Bell RA, Prieto-Blanco A, Evans JG, van Wijk M (2009) Using information theory to determine optimum pixel size and shape for ecological studies: Aggregating land surface characteristics in Arctic ecosystems. Ecosystems 12: 574–589. [link]

Lin H, Cao M, Stoy PC, Zhang Y (2009) Assessing self-organization of plant communities – A thermodynamic approach. Ecological Modelling 220: 784–790. [link]

Drake JE, Stoy PC, Jackson RB, DeLucia EH (2008) Fine root respiration in a loblolly pine (Pinus taeda) forest: Proximal limits, temperature dependence, and dynamic coupling with canopy photosynthesis. Plant, Cell and Environment 31: 1663-1672. [link]

Spadavecchia L, Williams M, Bell R, Stoy PC, Huntley B, van Wijk M (2008) Topographic controls on the leaf area index and plant functional type of a Fennoscandian tundra ecosystem. Journal of Ecology 96: 1238–1251. [link] [pdf]

Oishi AC, Oren R, Stoy PC (2008) Estimating components of forest evapotranspiration: A footprint approach for scaling sap flux measurements. Agricultural and Forest Meteorology 148: 1719-1732 [link]

Detto M, Katul GG, Siqueira MBS, Juang J-Y, Stoy PC (2008). The structure of turbulence near a tall forest edge: The backward facing step flow analogy. Ecological Applications 18:1420-1435. [link]

Juang J-Y, Katul GG, Siqueira MBS Stoy PC, McCarthy HR (2008) Investigating a hierarchy of Eulerian closure models for scalar transfer inside forested canopies. Boundary-Layer Meteorology 128:1-32.[link]

Stoy PC, Katul GG, Siqueira MBS, Juang J-Y, Novick KA, McCarthy HR, Oishi AC, Oren R (2008) Role of vegetation in determining carbon sequestration along ecological succession in the southeastern United States. Global Change Biology 14: 1409–1427, doi:10.1111/j.1365-2486.2008.01587.x [link] [pdf]

Juang J-Y, Katul GG, Siqueira MBS, Stoy PC, Novick KA (2007) Separating the effects of albedo from eco-physiological changes on surface temperature along a successional chronosequence in the southeastern US. Geophysical Research Letters 34: L21408, doi:10.1029/2007GL031296.[press] [link]

Katul GG, Porporato A, Daly E, Oishi AC, Kim H-S, Stoy PC, Juang J-Y, Siqueira MBS (2007). On the spectrum of soil moisture in a shallow-rooted uniform pine forest: from hourly to inter-annual scales. Water Resources Research 43: W05428, doi:10.1029/2006WR005356.[pdf]

Stoy PC, Palmroth S, Oishi AC, Siqueira MBS, Juang J-Y, Novick KA, Ward EJ, Katul GG, Oren R (2007). Are ecosystem carbon inputs and outputs coupled at short time scales? A case study from adjacent pine and hardwood forests using impulse-response analysis. Plant, Cell and Environment 30: 700-710, doi:10.1111/j.1365-3040.2007.01655.x [pdf] [cover]

Juang J-Y, Porporato A, Stoy PC, Siqueira MBS, Oishi AC, Detto M, Kim H-S, Katul GG (2007). Hydrologic and atmospheric controls on convective precipitation events in a southeastern US mosaic landscape. Water Resources Research 43:W03421, doi:10.1029/2006WR004954 [pdf]

Juang J-Y, Katul GG, Porporato A, Stoy PC, Siqueira MBS, Kim H-S, Oren R (2007). Eco-hydrological controls on summertime convective rainfall triggers. Global Change Biology 13: 887-896. [pdf]

Owen KE, Tenhunen J, Reichstein M, Wang Q, Falge E, Geyer R, Xiao X, Stoy PC, Amman C, Arain A, Aubinet M, Aurela M, Bernhofer C, Chojnicki B, Granier A, Gruenwald T, Hadley J, Heinesch B, Hollinger D, Knohl A, Kutsch W, Laurila T, Lohila A, Meyers T, Moors E, Moureaux C, Verma S, Vesala T, Vogel C, (2007). Linking flux network measurements to continental scale simulations: ecosystem gas exchange capacity along a European transect under non-water-stressed conditions. Global Change Biology 13: 734-760. [pdf]

Yuan W, Liu S, Zhou G, Zhou G, Tieszen LL, Baldocchi D, Bernhofer C, Gholz H, Hollinger DY, Hu Y, Law BE, Stoy PC, Vesala T, other AmeriFlux collaborators (2007). Deriving a light use efficiency model from eddy covariance flux data for predicting daily gross primary production across biomes. Agricultural and Forest Meteorology 143: 189-207. [link]

Stoy PC, Katul GG, Siqueira MBS, Juang J-Y, Novick KA, Uebelherr JM, Oren R (2006). An evaluation of methods for partitioning eddy covariance-measured net ecosystem exchange into photosynthesis and respiration. Agricultural and Forest Meteorology 141: 2-18. [pdf]

Stoy PC, Katul GG, Siqueira MBS, Juang J-Y, McCarthy HR, Oishi AC, Uebelherr JM, Kim H-S, Oren R (2006). Separating the effects of climate and vegetation on evapotranspiration along a successional chronosequence in the southeastern U.S. Global Change Biology 12:2115-2135. [pdf]

Heinsch FA, Zhao M, Running SW, Kimball JS, Nemani RR, Davis KJ, Bolstad PV, Cook BD, Desai AR, Ricciuto DM, Law BE, Oechel WC, Kwon H, Luo H, Wofsy SC, Dunn AL, Munger JW, Baldocchi DD, Xu L, Hollinger DY, Richardson AD, Stoy PC, Siqueira MBS, Monson RK, Burns S, Flanagan LB (2006). Evaluation of remote sensing based terrestrial productivity from MODIS using regional tower eddy flux network observations. IEEE Transactions on Geoscience and Remote Sensing 12:1908-1925. [pdf]

Siqueira MBS, Katul GG, Sampson DA, Stoy PC, Juang J-Y, McCarthy HR, Oren R (2006). Multi-scale model inter-comparisons of CO₂ and H₂O exchange in a maturing southeastern U.S. pine forest. Global Change Biology 12:1189-1207. [pdf]

Oren R, Hsieh C-I, Stoy PC, Albertson JD, McCarthy HR, Harrell P, Katul GG (2006). Estimating the uncertainty in annual net ecosystem carbon exchange: spatial variation in turbulent fluxes and sampling errors in eddy-covariance measurements. Global Change Biology 12: 883-896. [pdf]

Juang J-Y, Katul GG, Siqueira MBS, Stoy PC, Palmroth S, McCarthy HR, Kim H-S, Oren R (2006). Modeling nighttime ecosystem respiration from measured CO₂ concentration and air temperature profiles using inverse methods. Journal of Geophysical Research 111: No. D8, D08S05 doi:10.1029/2005JD005976. [pdf]

Richardson AD, Hollinger DY, Burga GG, Davis KJ, Flanagan LB, Katul GG, Munger JW, Ricciuto DM, Stoy PC, Suyker AE, Verma SB, Wofsy SC (2006). A multi-site analysis of random error in tower-based measurements of carbon and energy fluxes. Agricultural and Forest Meteorology 136: 1-18. [pdf]

Stoy PC, Katul GG, Siqueira MBS, Juang J, McCarthy HR, Kim H-S, Oishi AC, Oren R. (2005) Variability in net ecosystem exchange from hourly to inter-annual time scales at adjacent pine and hardwood forests: a wavelet analysis. Tree Physiology 25: 887-902. [pdf]

Novick KA, Stoy PC, Katul GG, Ellsworth DE, Siqueira MBS, Juang J, Oren R (2004) Carbon dioxide and water vapor exchange in a warm temperate grassland. Oecologia 138: 259-274. [pdf]