Articles | Volume 18, issue 16
https://doi.org/10.5194/gmd-18-5143-2025
© Author(s) 2025. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
https://doi.org/10.5194/gmd-18-5143-2025
© Author(s) 2025. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Model description paper
| 
25 Aug 2025
Model description paper |
| 25 Aug 2025
| 25 Aug 2025
TROLL 4.0: representing water and carbon fluxes, leaf phenology, and intraspecific trait variation in a mixed-species individual-based forest dynamics model – Part 1: Model description
Isabelle Maréchaux
CORRESPONDING AUTHOR
AMAP, Univ Montpellier, CIRAD, CNRS, INRAE, IRD, 34000 Montpellier, France
Fabian Jörg Fischer
CRBE, Université de Toulouse, CNRS, IRD, Toulouse INP, 118 route de Narbonne, 31062 Toulouse, France
School of Biological Sciences, University of Bristol, Bristol, BS8 1TQ, United Kingdom
Sylvain Schmitt
AMAP, Univ Montpellier, CIRAD, CNRS, INRAE, IRD, 34000 Montpellier, France
CIRAD, UPR Forêts et Sociétés, 34398 Montpellier, France
Forêts et Sociétés, Univ Montpellier, CIRAD, Montpellier, France
Jérôme Chave
CRBE, Université de Toulouse, CNRS, IRD, Toulouse INP, 118 route de Narbonne, 31062 Toulouse, France
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Sylvain Schmitt, Fabian J. Fischer, James G. C. Ball, Nicolas Barbier, Marion Boisseaux, Damien Bonal, Benoit Burban, Xiuzhi Chen, Géraldine Derroire, Jeremy W. Lichstein, Daniela Nemetschek, Natalia Restrepo-Coupe, Scott Saleska, Giacomo Sellan, Philippe Verley, Grégoire Vincent, Camille Ziegler, Jérôme Chave, and Isabelle Maréchaux
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We evaluate the capability of TROLL 4.0, a simulator of forest dynamics, to represent tropical forest structure, diversity, dynamics, and functioning in two Amazonian forests. Evaluation data include forest inventories, carbon and water fluxes between the forest and the atmosphere, and leaf area and canopy height from remote sensing products. The model realistically predicts the structure and composition as well as the seasonality of carbon and water fluxes at both sites.
Julien Lamour, Shawn P. Serbin, Alistair Rogers, Kelvin T. Acebron, Elizabeth Ainsworth, Loren P. Albert, Michael Alonzo, Jeremiah Anderson, Owen K. Atkin, Nicolas Barbier, Mallory L. Barnes, Carl J. Bernacchi, Ninon Besson, Angela C. Burnett, Joshua S. Caplan, Jérôme Chave, Alexander W. Cheesman, Ilona Clocher, Onoriode Coast, Sabrina Coste, Holly Croft, Boya Cui, Clément Dauvissat, Kenneth J. Davidson, Christopher Doughty, Kim S. Ely, Jean-Baptiste Féret, Iolanda Filella, Claire Fortunel, Peng Fu, Maquelle Garcia, Bruno O. Gimenez, Kaiyu Guan, Zhengfei Guo, David Heckmann, Patrick Heuret, Marney Isaac, Shan Kothari, Etsushi Kumagai, Thu Ya Kyaw, Liangyun Liu, Lingli Liu, Shuwen Liu, Joan Llusià, Troy Magney, Isabelle Maréchaux, Adam R. Martin, Katherine Meacham-Hensold, Christopher M. Montes, Romà Ogaya, Joy Ojo, Regison Oliveira, Alain Paquette, Josep Peñuelas, Antonia Debora Placido, Juan M. Posada, Xiaojin Qian, Heidi J. Renninger, Milagros Rodriguez-Caton, Andrés Rojas-González, Urte Schlüter, Giacomo Sellan, Courtney M. Siegert, Guangqin Song, Charles D. Southwick, Daisy C. Souza, Clément Stahl, Yanjun Su, Leeladarshini Sujeeun, To-Chia Ting, Vicente Vasquez, Amrutha Vijayakumar, Marcelo Vilas-Boas, Diane R. Wang, Sheng Wang, Han Wang, Jing Wang, Xin Wang, Andreas P. M. Weber, Christopher Y. S. Wong, Jin Wu, Fengqi Wu, Shengbiao Wu, Zhengbing Yan, Dedi Yang, and Yingyi Zhao
Earth Syst. Sci. Data Discuss., https://doi.org/10.5194/essd-2025-213, https://doi.org/10.5194/essd-2025-213, 2025
Preprint under review for ESSD
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We present the Global Spectra-Trait Initiative (GSTI), a collaborative repository of paired leaf hyperspectral and gas exchange measurements from diverse ecosystems. This repository provides a unique source of information for creating hyperspectral models for predicting photosynthetic traits and associated leaf traits in terrestrial plants.
Rafael Poyatos, Víctor Granda, Víctor Flo, Mark A. Adams, Balázs Adorján, David Aguadé, Marcos P. M. Aidar, Scott Allen, M. Susana Alvarado-Barrientos, Kristina J. Anderson-Teixeira, Luiza Maria Aparecido, M. Altaf Arain, Ismael Aranda, Heidi Asbjornsen, Robert Baxter, Eric Beamesderfer, Z. Carter Berry, Daniel Berveiller, Bethany Blakely, Johnny Boggs, Gil Bohrer, Paul V. Bolstad, Damien Bonal, Rosvel Bracho, Patricia Brito, Jason Brodeur, Fernando Casanoves, Jérôme Chave, Hui Chen, Cesar Cisneros, Kenneth Clark, Edoardo Cremonese, Hongzhong Dang, Jorge S. David, Teresa S. David, Nicolas Delpierre, Ankur R. Desai, Frederic C. Do, Michal Dohnal, Jean-Christophe Domec, Sebinasi Dzikiti, Colin Edgar, Rebekka Eichstaedt, Tarek S. El-Madany, Jan Elbers, Cleiton B. Eller, Eugénie S. Euskirchen, Brent Ewers, Patrick Fonti, Alicia Forner, David I. Forrester, Helber C. Freitas, Marta Galvagno, Omar Garcia-Tejera, Chandra Prasad Ghimire, Teresa E. Gimeno, John Grace, André Granier, Anne Griebel, Yan Guangyu, Mark B. Gush, Paul J. Hanson, Niles J. Hasselquist, Ingo Heinrich, Virginia Hernandez-Santana, Valentine Herrmann, Teemu Hölttä, Friso Holwerda, James Irvine, Supat Isarangkool Na Ayutthaya, Paul G. Jarvis, Hubert Jochheim, Carlos A. Joly, Julia Kaplick, Hyun Seok Kim, Leif Klemedtsson, Heather Kropp, Fredrik Lagergren, Patrick Lane, Petra Lang, Andrei Lapenas, Víctor Lechuga, Minsu Lee, Christoph Leuschner, Jean-Marc Limousin, Juan Carlos Linares, Maj-Lena Linderson, Anders Lindroth, Pilar Llorens, Álvaro López-Bernal, Michael M. Loranty, Dietmar Lüttschwager, Cate Macinnis-Ng, Isabelle Maréchaux, Timothy A. Martin, Ashley Matheny, Nate McDowell, Sean McMahon, Patrick Meir, Ilona Mészáros, Mirco Migliavacca, Patrick Mitchell, Meelis Mölder, Leonardo Montagnani, Georgianne W. Moore, Ryogo Nakada, Furong Niu, Rachael H. Nolan, Richard Norby, Kimberly Novick, Walter Oberhuber, Nikolaus Obojes, A. Christopher Oishi, Rafael S. Oliveira, Ram Oren, Jean-Marc Ourcival, Teemu Paljakka, Oscar Perez-Priego, Pablo L. Peri, Richard L. Peters, Sebastian Pfautsch, William T. Pockman, Yakir Preisler, Katherine Rascher, George Robinson, Humberto Rocha, Alain Rocheteau, Alexander Röll, Bruno H. P. Rosado, Lucy Rowland, Alexey V. Rubtsov, Santiago Sabaté, Yann Salmon, Roberto L. Salomón, Elisenda Sánchez-Costa, Karina V. R. Schäfer, Bernhard Schuldt, Alexandr Shashkin, Clément Stahl, Marko Stojanović, Juan Carlos Suárez, Ge Sun, Justyna Szatniewska, Fyodor Tatarinov, Miroslav Tesař, Frank M. Thomas, Pantana Tor-ngern, Josef Urban, Fernando Valladares, Christiaan van der Tol, Ilja van Meerveld, Andrej Varlagin, Holm Voigt, Jeffrey Warren, Christiane Werner, Willy Werner, Gerhard Wieser, Lisa Wingate, Stan Wullschleger, Koong Yi, Roman Zweifel, Kathy Steppe, Maurizio Mencuccini, and Jordi Martínez-Vilalta
Earth Syst. Sci. Data, 13, 2607–2649, https://doi.org/10.5194/essd-13-2607-2021, https://doi.org/10.5194/essd-13-2607-2021, 2021
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Transpiration is a key component of global water balance, but it is poorly constrained from available observations. We present SAPFLUXNET, the first global database of tree-level transpiration from sap flow measurements, containing 202 datasets and covering a wide range of ecological conditions. SAPFLUXNET and its accompanying R software package
sapfluxnetrwill facilitate new data syntheses on the ecological factors driving water use and drought responses of trees and forests.
Sylvain Schmitt, Fabian J. Fischer, James G. C. Ball, Nicolas Barbier, Marion Boisseaux, Damien Bonal, Benoit Burban, Xiuzhi Chen, Géraldine Derroire, Jeremy W. Lichstein, Daniela Nemetschek, Natalia Restrepo-Coupe, Scott Saleska, Giacomo Sellan, Philippe Verley, Grégoire Vincent, Camille Ziegler, Jérôme Chave, and Isabelle Maréchaux
Geosci. Model Dev., 18, 5205–5243, https://doi.org/10.5194/gmd-18-5205-2025, https://doi.org/10.5194/gmd-18-5205-2025, 2025
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We evaluate the capability of TROLL 4.0, a simulator of forest dynamics, to represent tropical forest structure, diversity, dynamics, and functioning in two Amazonian forests. Evaluation data include forest inventories, carbon and water fluxes between the forest and the atmosphere, and leaf area and canopy height from remote sensing products. The model realistically predicts the structure and composition as well as the seasonality of carbon and water fluxes at both sites.
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Earth Syst. Sci. Data Discuss., https://doi.org/10.5194/essd-2025-213, https://doi.org/10.5194/essd-2025-213, 2025
Preprint under review for ESSD
Short summary
Short summary
We present the Global Spectra-Trait Initiative (GSTI), a collaborative repository of paired leaf hyperspectral and gas exchange measurements from diverse ecosystems. This repository provides a unique source of information for creating hyperspectral models for predicting photosynthetic traits and associated leaf traits in terrestrial plants.
Martin Schwartz, Philippe Ciais, Aurélien De Truchis, Jérôme Chave, Catherine Ottlé, Cedric Vega, Jean-Pierre Wigneron, Manuel Nicolas, Sami Jouaber, Siyu Liu, Martin Brandt, and Ibrahim Fayad
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As forests play a key role in climate-related issues, their accurate monitoring is critical to reduce global carbon emissions effectively. Based on open-access remote-sensing sensors, and artificial intelligence methods, we created high-resolution tree height, wood volume, and biomass maps of metropolitan France that outperform previous products. This study, based on freely available data, provides essential information to support climate-efficient forest management policies at a low cost.
Shengli Tao, Zurui Ao, Jean-Pierre Wigneron, Sassan Saatchi, Philippe Ciais, Jérôme Chave, Thuy Le Toan, Pierre-Louis Frison, Xiaomei Hu, Chi Chen, Lei Fan, Mengjia Wang, Jiangling Zhu, Xia Zhao, Xiaojun Li, Xiangzhuo Liu, Yanjun Su, Tianyu Hu, Qinghua Guo, Zhiheng Wang, Zhiyao Tang, Yi Y. Liu, and Jingyun Fang
Earth Syst. Sci. Data, 15, 1577–1596, https://doi.org/10.5194/essd-15-1577-2023, https://doi.org/10.5194/essd-15-1577-2023, 2023
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We provide the first long-term (since 1992), high-resolution (8.9 km) satellite radar backscatter data set (LHScat) with a C-band (5.3 GHz) signal dynamic for global lands. LHScat was created by fusing signals from ERS (1992–2001; C-band), QSCAT (1999–2009; Ku-band), and ASCAT (since 2007; C-band). LHScat has been validated against independent ERS-2 signals. It could be used in a variety of studies, such as vegetation monitoring and hydrological modelling.
Yitong Yao, Emilie Joetzjer, Philippe Ciais, Nicolas Viovy, Fabio Cresto Aleina, Jerome Chave, Lawren Sack, Megan Bartlett, Patrick Meir, Rosie Fisher, and Sebastiaan Luyssaert
Geosci. Model Dev., 15, 7809–7833, https://doi.org/10.5194/gmd-15-7809-2022, https://doi.org/10.5194/gmd-15-7809-2022, 2022
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To facilitate more mechanistic modeling of drought effects on forest dynamics, our study implements a hydraulic module to simulate the vertical water flow, change in water storage and percentage loss of stem conductance (PLC). With the relationship between PLC and tree mortality, our model can successfully reproduce the large biomass drop observed under throughfall exclusion. Our hydraulic module provides promising avenues benefiting the prediction for mortality under future drought events.
Mathilda Hancock, Stephen Sitch, Fabian Jörg Fischer, Jérôme Chave, Michael O'Sullivan, Dominic Fawcett, and Lina María Mercado
Biogeosciences Discuss., https://doi.org/10.5194/bg-2022-87, https://doi.org/10.5194/bg-2022-87, 2022
Publication in BG not foreseen
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Global vegetation models often underestimate the spatial variability of carbon stored in the Amazon forest. This paper demonstrates that including spatially varying tree mortality rates, as opposed to a homogeneous rate, in one model, significantly improves its simulations of the forest carbon store. To overcome the limited resolution of tree mortality data, this research presents a simple method of calculating mortality rates across Amazonia using a dependence on wood density.
Lore T. Verryckt, Sara Vicca, Leandro Van Langenhove, Clément Stahl, Dolores Asensio, Ifigenia Urbina, Romà Ogaya, Joan Llusià, Oriol Grau, Guille Peguero, Albert Gargallo-Garriga, Elodie A. Courtois, Olga Margalef, Miguel Portillo-Estrada, Philippe Ciais, Michael Obersteiner, Lucia Fuchslueger, Laynara F. Lugli, Pere-Roc Fernandez-Garberí, Helena Vallicrosa, Melanie Verlinden, Christian Ranits, Pieter Vermeir, Sabrina Coste, Erik Verbruggen, Laëtitia Bréchet, Jordi Sardans, Jérôme Chave, Josep Peñuelas, and Ivan A. Janssens
Earth Syst. Sci. Data, 14, 5–18, https://doi.org/10.5194/essd-14-5-2022, https://doi.org/10.5194/essd-14-5-2022, 2022
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We provide a comprehensive dataset of vertical profiles of photosynthesis and important leaf traits, including leaf N and P concentrations, from two 3-year, large-scale nutrient addition experiments conducted in two tropical rainforests in French Guiana. These data present a unique source of information to further improve model representations of the roles of N and P, and other leaf nutrients, in photosynthesis in tropical forests.
Yuanyuan Huang, Phillipe Ciais, Maurizio Santoro, David Makowski, Jerome Chave, Dmitry Schepaschenko, Rose Z. Abramoff, Daniel S. Goll, Hui Yang, Ye Chen, Wei Wei, and Shilong Piao
Earth Syst. Sci. Data, 13, 4263–4274, https://doi.org/10.5194/essd-13-4263-2021, https://doi.org/10.5194/essd-13-4263-2021, 2021
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Roots play a key role in our Earth system. Here we combine 10 307 field measurements of forest root biomass worldwide with global observations of forest structure, climatic conditions, topography, land management and soil characteristics to derive a spatially explicit global high-resolution (~ 1 km) root biomass dataset. In total, 142 ± 25 (95 % CI) Pg of live dry-matter biomass is stored belowground, representing a global average root : shoot biomass ratio of 0.25 ± 0.10.
Rafael Poyatos, Víctor Granda, Víctor Flo, Mark A. Adams, Balázs Adorján, David Aguadé, Marcos P. M. Aidar, Scott Allen, M. Susana Alvarado-Barrientos, Kristina J. Anderson-Teixeira, Luiza Maria Aparecido, M. Altaf Arain, Ismael Aranda, Heidi Asbjornsen, Robert Baxter, Eric Beamesderfer, Z. Carter Berry, Daniel Berveiller, Bethany Blakely, Johnny Boggs, Gil Bohrer, Paul V. Bolstad, Damien Bonal, Rosvel Bracho, Patricia Brito, Jason Brodeur, Fernando Casanoves, Jérôme Chave, Hui Chen, Cesar Cisneros, Kenneth Clark, Edoardo Cremonese, Hongzhong Dang, Jorge S. David, Teresa S. David, Nicolas Delpierre, Ankur R. Desai, Frederic C. Do, Michal Dohnal, Jean-Christophe Domec, Sebinasi Dzikiti, Colin Edgar, Rebekka Eichstaedt, Tarek S. El-Madany, Jan Elbers, Cleiton B. Eller, Eugénie S. Euskirchen, Brent Ewers, Patrick Fonti, Alicia Forner, David I. Forrester, Helber C. Freitas, Marta Galvagno, Omar Garcia-Tejera, Chandra Prasad Ghimire, Teresa E. Gimeno, John Grace, André Granier, Anne Griebel, Yan Guangyu, Mark B. Gush, Paul J. Hanson, Niles J. Hasselquist, Ingo Heinrich, Virginia Hernandez-Santana, Valentine Herrmann, Teemu Hölttä, Friso Holwerda, James Irvine, Supat Isarangkool Na Ayutthaya, Paul G. Jarvis, Hubert Jochheim, Carlos A. Joly, Julia Kaplick, Hyun Seok Kim, Leif Klemedtsson, Heather Kropp, Fredrik Lagergren, Patrick Lane, Petra Lang, Andrei Lapenas, Víctor Lechuga, Minsu Lee, Christoph Leuschner, Jean-Marc Limousin, Juan Carlos Linares, Maj-Lena Linderson, Anders Lindroth, Pilar Llorens, Álvaro López-Bernal, Michael M. Loranty, Dietmar Lüttschwager, Cate Macinnis-Ng, Isabelle Maréchaux, Timothy A. Martin, Ashley Matheny, Nate McDowell, Sean McMahon, Patrick Meir, Ilona Mészáros, Mirco Migliavacca, Patrick Mitchell, Meelis Mölder, Leonardo Montagnani, Georgianne W. Moore, Ryogo Nakada, Furong Niu, Rachael H. Nolan, Richard Norby, Kimberly Novick, Walter Oberhuber, Nikolaus Obojes, A. Christopher Oishi, Rafael S. Oliveira, Ram Oren, Jean-Marc Ourcival, Teemu Paljakka, Oscar Perez-Priego, Pablo L. Peri, Richard L. Peters, Sebastian Pfautsch, William T. Pockman, Yakir Preisler, Katherine Rascher, George Robinson, Humberto Rocha, Alain Rocheteau, Alexander Röll, Bruno H. P. Rosado, Lucy Rowland, Alexey V. Rubtsov, Santiago Sabaté, Yann Salmon, Roberto L. Salomón, Elisenda Sánchez-Costa, Karina V. R. Schäfer, Bernhard Schuldt, Alexandr Shashkin, Clément Stahl, Marko Stojanović, Juan Carlos Suárez, Ge Sun, Justyna Szatniewska, Fyodor Tatarinov, Miroslav Tesař, Frank M. Thomas, Pantana Tor-ngern, Josef Urban, Fernando Valladares, Christiaan van der Tol, Ilja van Meerveld, Andrej Varlagin, Holm Voigt, Jeffrey Warren, Christiane Werner, Willy Werner, Gerhard Wieser, Lisa Wingate, Stan Wullschleger, Koong Yi, Roman Zweifel, Kathy Steppe, Maurizio Mencuccini, and Jordi Martínez-Vilalta
Earth Syst. Sci. Data, 13, 2607–2649, https://doi.org/10.5194/essd-13-2607-2021, https://doi.org/10.5194/essd-13-2607-2021, 2021
Short summary
Short summary
Transpiration is a key component of global water balance, but it is poorly constrained from available observations. We present SAPFLUXNET, the first global database of tree-level transpiration from sap flow measurements, containing 202 datasets and covering a wide range of ecological conditions. SAPFLUXNET and its accompanying R software package
sapfluxnetrwill facilitate new data syntheses on the ecological factors driving water use and drought responses of trees and forests.
Cited articles
Aguilos, M., Hérault, B., Burban, B., Wagner, F., and Bonal, D.: What drives long-term variations in carbon flux and balance in a tropical rainforest in French Guiana?, Agr. Forest Meteorol., 253–254, 114–123, https://doi.org/10.1016/j.agrformet.2018.02.009, 2018.
Albert, L. P., Restrepo-Coupe, N., Smith, M. N., Wu, J., Chavana-Bryant, C., Prohaska, N., Taylor, T. C., Martins, G. A., Ciais, P., Mao, J., Arain, M. A., Li, W., Shi, X., Ricciuto, D. M., Huxman, T. E., McMahon, S. M., and Saleska, S. R.: Cryptic phenology in plants: Case studies, implications, and recommendations, Glob. Change Biol., 25, 3591–3608, https://doi.org/10.1111/gcb.14759, 2019.
Albert, L. P., Wu, J., Prohaska, N., de Camargo, P. B., Huxman, T. E., Tribuzy, E. S., Ivanov, V. Y., Oliveira, R. S., Garcia, S., Smith, M. N., Oliveira Junior, R. C., Restrepo-Coupe, N., da Silva, R., Stark, S. C., Martins, G. A., Penha, D. V., and Saleska, S. R.: Age-dependent leaf physiology and consequences for crown-scale carbon uptake during the dry season in an Amazon evergreen forest, New Phytol., 219, 870–884, https://doi.org/10.1111/nph.15056, 2018.
Albrich, K., Rammer, W., Turner, M. G., Ratajczak, Z., Braziunas, K. H., Hansen, W. D., and Seidl, R.: Simulating forest resilience: A review, Global Ecol. Biogeogr., 29, 2082–2096, https://doi.org/10.1111/geb.13197, 2020.
Amthor, J. S.: The role of maintenance respiration in plant growth, Plant Cell Environ., 7, 561–569, https://doi.org/10.1111/1365-3040.ep11591833, 1984.
Anderegg, W. R. L., Schwalm, C., Biondi, F., Camarero, J. J., Koch, G., Litvak, M., Ogle, K., Shaw, J. D., Shevliakova, E., Williams, A. P., Wolf, A., Ziaco, E., and Pacala, S.: Pervasive drought legacies in forest ecosystems and their implications for carbon cycle models, Science, 349, 528–532, https://doi.org/10.1126/science.aab1833, 2015.
Anderegg, W. R. L., Wolf, A., Arango-Velez, A., Choat, B., Chmura, D. J., Jansen, S., Kolb, T., Li, S., Meinzer, F., Pita, P., Dios, V. R. de, Sperry, J. S., Wolfe, B. T., and Pacala, S.: Plant water potential improves prediction of empirical stomatal models, PLOS ONE, 12, e0185481, https://doi.org/10.1371/journal.pone.0185481, 2017.
Anderegg, W. R. L., Wolf, A., Arango-Velez, A., Choat, B., Chmura, D. J., Jansen, S., Kolb, T., Li, S., Meinzer, F. C., Pita, P., Dios, V. R. de, Sperry, J. S., Wolfe, B. T., and Pacala, S.: Woody plants optimise stomatal behaviour relative to hydraulic risk, Ecol. Lett., 21, 968–977, https://doi.org/10.1111/ele.12962, 2018.
Arora, V. K. and Boer, G. J.: A Representation of Variable Root Distribution in Dynamic Vegetation Models, Earth Interact., 7, 1–19, https://doi.org/10.1175/1087-3562(2003)007<0001:AROVRD>2.0.CO;2, 2003.
Asao, S., Bedoya-Arrieta, R., and Ryan, M. G.: Variation in foliar respiration and wood CO2 efflux rates among species and canopy layers in a wet tropical forest, Tree Physiol., 35, 148–159, https://doi.org/10.1093/treephys/tpu107, 2015.
Atkin, O. K., Evans, J. R., Ball, M. C., Lambers, H., and Pons, T. L.: Leaf respiration of snow gum in the light and dark. Interactions between temperature and irradiance, Plant Physiol., 122, 915–924, https://doi.org/10.1104/pp.122.3.915, 2000.
Atkin, O. K., Meir, P., and Turnbull, M. H.: Improving representation of leaf respiration in large-scale predictive climate–vegetation models, New Phytol., 202, 743–748, https://doi.org/10.1111/nph.12686, 2014.
Atkin, O. K., Bloomfield, K. J., Reich, P. B., Tjoelker, M. G., Asner, G. P., Bonal, D., Bönisch, G., Bradford, M. G., Cernusak, L. A., Cosio, E. G., Creek, D., Crous, K. Y., Domingues, T. F., Dukes, J. S., Egerton, J. J. G., Evans, J. R., Farquhar, G. D., Fyllas, N. M., Gauthier, P. P. G., Gloor, E., Gimeno, T. E., Griffin, K. L., Guerrieri, R., Heskel, M. A., Huntingford, C., Ishida, F. Y., Kattge, J., Lambers, H., Liddell, M. J., Lloyd, J., Lusk, C. H., Martin, R. E., Maksimov, A. P., Maximov, T. C., Malhi, Y., Medlyn, B. E., Meir, P., Mercado, L. M., Mirotchnick, N., Ng, D., Niinemets, Ü., O'Sullivan, O. S., Phillips, O. L., Poorter, L., Poot, P., Prentice, I. C., Salinas, N., Rowland, L. M., Ryan, M. G., Sitch, S., Slot, M., Smith, N. G., Turnbull, M. H., VanderWel, M. C., Valladares, F., Veneklaas, E. J., Weerasinghe, L. K., Wirth, C., Wright, I. J., Wythers, K. R., Xiang, J., Xiang, S., and Zaragoza-Castells, J.: Global variability in leaf respiration in relation to climate, plant functional types and leaf traits, New Phytol., 206, 614–636, https://doi.org/10.1111/nph.13253, 2015.
Ball, J. T., Woodrow, I. E., and Berry, J. A.: A model predicting stomatal conductance and its contribution to the control of photosynthesis under different environmental conditions, in: Progress in photosynthesis research, edited by: Biggins, J., Springer Netherlands, 221–224, https://doi.org/10.1007/978-94-017-0519-6_48, 1987.
Baltzer, J. L., Davies, S. J., Bunyavejchewin, S., and Noor, N. S. M.: The role of desiccation tolerance in determining tree species distributions along the Malay–Thai Peninsula, Funct. Ecol., 22, 221–231, https://doi.org/10.1111/j.1365-2435.2007.01374.x, 2008.
Baraloto, C., Paine, C. E. T., Patiño, S., Bonal, D., Hérault, B., and Chave, J.: Functional trait variation and sampling strategies in species-rich plant communities, Funct. Ecol., 24, 208–216, https://doi.org/10.1111/j.1365-2435.2009.01600.x, 2010a.
Baraloto, C., Timothy Paine, C. E., Poorter, L., Beauchene, J., Bonal, D., Domenach, A.-M., Hérault, B., Patiño, S., Roggy, J.-C., and Chave, J.: Decoupled leaf and stem economics in rain forest trees, Ecol. Lett., 13, 1338–1347, https://doi.org/10.1111/j.1461-0248.2010.01517.x, 2010b.
Bartlett, M. K., Scoffoni, C., Ardy, R., Zhang, Y., Sun, S., Cao, K., and Sack, L.: Rapid determination of comparative drought tolerance traits: using an osmometer to predict turgor loss point, Methods Ecol. Evol., 3, 880–888, https://doi.org/10.1111/j.2041-210X.2012.00230.x, 2012a.
Bartlett, M. K., Scoffoni, C., and Sack, L.: The determinants of leaf turgor loss point and prediction of drought tolerance of species and biomes: a global meta-analysis, Ecol. Lett., 15, 393–405, https://doi.org/10.1111/j.1461-0248.2012.01751.x, 2012b.
Bartlett, M. K., Zhang, Y., Yang, J., Kreidler, N., Sun, S.-W., Lin, L., Hu, Y.-H., Cao, K.-F., and Sack, L.: Drought tolerance as a driver of tropical forest assembly: resolving spatial signatures for multiple processes, Ecology, 97, 503–514, https://doi.org/10.1890/15-0468.1, 2016a.
Bartlett, M. K., Klein, T., Jansen, S., Choat, B., and Sack, L.: The correlations and sequence of plant stomatal, hydraulic, and wilting responses to drought, P. Natl. Acad. Sci. USA, 113, 13098–13103, https://doi.org/10.1073/pnas.1604088113, 2016b.
Beer, C., Reichstein, M., Tomelleri, E., Ciais, P., Jung, M., Carvalhais, N., Rödenbeck, C., Arain, M. A., Baldocchi, D., Bonan, G. B., Bondeau, A., Cescatti, A., Lasslop, G., Lindroth, A., Lomas, M., Luyssaert, S., Margolis, H., Oleson, K. W., Roupsard, O., Veenendaal, E., Viovy, N., Williams, C., Woodward, F. I., and Papale, D.: Terrestrial gross carbon dioxide uptake: global distribution and covariation with climate, Science, 329, 834–838, https://doi.org/10.1126/science.1184984, 2010.
Bennett, A. C., McDowell, N. G., Allen, C. D., and Anderson-Teixeira, K. J.: Larger trees suffer most during drought in forests worldwide, Nat. Plants, 1, 15139, https://doi.org/10.1038/nplants.2015.139, 2015.
Bernacchi, C. J., Pimentel, C., and Long, S. P.: In vivo temperature response functions of parameters required to model RuBP-limited photosynthesis, Plant Cell Environ., 26, 1419–1430, https://doi.org/10.1046/j.0016-8025.2003.01050.x, 2003.
Berzaghi, F., Wright, I. J., Kramer, K., Oddou-Muratorio, S., Bohn, F. J., Reyer, C. P. O., Sabaté, S., Sanders, T. G. M., and Hartig, F.: Towards a New Generation of Trait-Flexible Vegetation Models, Trends Ecol. Evol., 35, 191–205, https://doi.org/10.1016/j.tree.2019.11.006, 2020.
Blanchard, G., Barbier, N., Vieilledent, G., Ibanez, T., Hequet, V., McCoy, S., and Birnbaum, P.: UAV-Lidar reveals that canopy structure mediates the influence of edge effects on forest diversity, function and microclimate, J. Ecol., 111, 1411–1427, https://doi.org/10.1111/1365-2745.14105, 2023.
Bohlman, S. and O'Brien, S.: Allometry, adult stature and regeneration requirement of 65 tree species on Barro Colorado Island, Panama, J. Trop. Ecol., 22, 123–136, https://doi.org/10.1017/S0266467405003019, 2006.
Bonal, D., Bosc, A., Ponton, S., Goret, J.-Y., Burban, B., Gross, P., Bonnefond, J.-M., Elbers, J., Longdoz, B., Epron, D., Guehl, J.-M., and Granier, A.: Impact of severe dry season on net ecosystem exchange in the Neotropical rainforest of French Guiana, Glob. Change Biol., 14, 1917–1933, https://doi.org/10.1111/j.1365-2486.2008.01610.x, 2008.
Bonan, G. B.: Forests and Climate Change: Forcings, Feedbacks, and the Climate Benefits of Forests, Science, 320, 1444–1449, https://doi.org/10.1126/science.1155121, 2008.
Bonan, G. B., Williams, M., Fisher, R. A., and Oleson, K. W.: Modeling stomatal conductance in the earth system: linking leaf water-use efficiency and water transport along the soil–plant–atmosphere continuum, Geosci. Model Dev., 7, 2193–2222, https://doi.org/10.5194/gmd-7-2193-2014, 2014.
Bondeau, A., Smith, P. C., Zaehle, S., Schaphoff, S., Lucht, W., Cramer, W., Gerten, D., Lotze-Campen, H., Müller, C., Reichstein, M., and Smith, B.: Modelling the role of agriculture for the 20th century global terrestrial carbon balance, Glob. Change Biol., 13, 679–706, https://doi.org/10.1111/j.1365-2486.2006.01305.x, 2007.
Botkin, D. B., Janak, J. F., and Wallis, J. R.: Some Ecological Consequences of a Computer Model of Forest Growth, J. Ecol., 60, 849–872, https://doi.org/10.2307/2258570, 1972.
Bradford, K. J.: A Water Relations Analysis of Seed Germination Rates, Plant Physiol., 94, 840–849, https://doi.org/10.1104/pp.94.2.840, 1990.
Braghiere, R. K., Quaife, T., Black, E., He, L., and Chen, J. M.: Underestimation of Global Photosynthesis in Earth System Models Due to Representation of Vegetation Structure, Global Biogeochem. Cy., 33, 1358–1369, https://doi.org/10.1029/2018GB006135, 2019.
Braghiere, R. K., Wang, Y., Doughty, R., Sousa, D., Magney, T., Widlowski, J.-L., Longo, M., Bloom, A. A., Worden, J., Gentine, P., and Frankenberg, C.: Accounting for canopy structure improves hyperspectral radiative transfer and sun-induced chlorophyll fluorescence representations in a new generation Earth System model, Remote Sens. Environ., 261, 112497, https://doi.org/10.1016/j.rse.2021.112497, 2021.
Brodribb, T. J.: Progressing from “functional” to mechanistic traits, New Phytol., 215, 9–11, https://doi.org/10.1111/nph.14620, 2017.
Brodribb, T. J., Holbrook, N. M., and Gutiérrez, M. V.: Hydraulic and photosynthetic co-ordination in seasonally dry tropical forest trees, Plant Cell Environ., 25, 1435–1444, https://doi.org/10.1046/j.1365-3040.2002.00919.x, 2002.
Brodribb, T. J., Holbrook, N. M., Edwards, E. J., and Gutiérrez, M. V.: Relations between stomatal closure, leaf turgor and xylem vulnerability in eight tropical dry forest trees, Plant Cell Environ., 26, 443–450, https://doi.org/10.1046/j.1365-3040.2003.00975.x, 2003.
Brooks, R. H. and Corey, A. T.: Hydraulic properties of porous media. Hydrology Paper No. 3, Civil Engineering Department, Colorado State University, Fort Collins, 1964.
Brum, M., Vadeboncoeur, M. A., Ivanov, V., Asbjornsen, H., Saleska, S., Alves, L. F., Penha, D., Dias, J. D., Aragão, L. E. O. C., Barros, F., Bittencourt, P., Pereira, L., and Oliveira, R. S.: Hydrological niche segregation defines forest structure and drought tolerance strategies in a seasonal Amazon forest, J. Ecol., 107, 318–333, https://doi.org/10.1111/1365-2745.13022, 2019.
Bruno, R. D., da Rocha, H. R., de Freitas, H. C., Goulden, M. L., and Miller, S. D.: Soil moisture dynamics in an eastern Amazonian tropical forest, Hydrol. Process., 20, 2477–2489, https://doi.org/10.1002/hyp.6211, 2006.
Bucci, S., Scholz, F. G., Goldstein, G., Meinzer, F. C., Hinojosa, J. A., Hoffman, W. A., and Franco, A. C.: Processes preventing nocturnal equilibration between leaf and soil water potential in tropical savanna woody species, Tree Physiol., 24, 1119–1127, 2004.
Buchmann, N., Guehl, J.-M., Barigah, T. S., and Ehleringer, J. R.: Interseasonal comparison of CO2 concentrations, isotopic composition, and carbon dynamics in an Amazonian rainforest (French Guiana), Oecologia, 110, 120–131, https://doi.org/10.1007/s004420050140, 1997.
Budyko, M. I.: The Heat Balance of the Earth’s Surface, Soviet Geography, 2, 3–13, https://doi.org/10.1080/00385417.1961.10770761, 1961.
Bugmann, H.: A review of forest gap models, Climatic Change, 51, 259–305, https://doi.org/10.1023/A:1012525626267, 2001.
Burgess, S. S. O., Adams, M. A., Turner, N. C., and Ong, C. K.: The redistribution of soil water by tree root systems, Oecologia, 115, 306–311, https://doi.org/10.1007/s004420050521, 1998.
Camargo, J. L. C. and Kapos, V.: Complex edge effects on soil moisture and microclimate in central Amazonian forest, J. Trop. Ecol., 11, 205–221, 1995.
Canadell, J., Jackson, R. B., Ehleringer, J. R., Mooney, H. A., Sala, O. E., and Schulze, E. D.: Maximum rooting depth of vegetation types at the global scale, Oecologia, 108, 583–595, https://doi.org/10.1007/BF00329030, 1996.
Cannell, M. G. R. and Thornley, J. H. M.: Modelling the components of plant respiration: some guiding principles, Ann. Bot., 85, 45–54, https://doi.org/10.1006/anbo.1999.0996, 2000.
Cavaleri, M. A., Oberbauer, S. F., and Ryan, M. G.: Wood CO2 efflux in a primary tropical rain forest, Glob. Change Biol., 12, 2442–2458, https://doi.org/10.1111/j.1365-2486.2006.01269.x, 2006.
Cavaleri, M. A., Oberbauer, S. F., and Ryan, M. G.: Foliar and ecosystem respiration in an old-growth tropical rain forest, Plant Cell Environ., 31, 473–483, https://doi.org/10.1111/j.1365-3040.2008.01775.x, 2008.
Charney, J. G.: Dynamics of deserts and drought in the Sahel, Q. J. Roy. Meteor. Soc., 101, 193–202, https://doi.org/10.1002/qj.49710142802, 1975.
Chase, J. M., Blowes, S. A., Knight, T. M., Gerstner, K., and May, F.: Ecosystem decay exacerbates biodiversity loss with habitat loss, Nature, 584, 238–243, https://doi.org/10.1038/s41586-020-2531-2, 2020.
Chave: Study of structural, successional and spatial patterns in tropical rain forests using TROLL, a spatially explicit forest model, Ecol. Model., 124, 233–254, https://doi.org/10.1016/S0304-3800(99)00171-4, 1999.
Chave, J., Olivier, J., Bongers, F., Châtelet, P., Forget, P.-M., van der Meer, P., Norden, N., Riéra, B., and Charles-Dominique, P.: Above-ground biomass and productivity in a rain forest of eastern South America, J. Trop. Ecol., 24, 355–366, https://doi.org/10.1017/S0266467408005075, 2008.
Chave, J., Coomes, D., Jansen, S., Lewis, S. L., Swenson, N. G., and Zanne, A. E.: Towards a worldwide wood economics spectrum, Ecol. Lett., 12, 351–366, https://doi.org/10.1111/j.1461-0248.2009.01285.x, 2009.
Chave, J., Navarrete, D., Almeida, S., Álvarez, E., Aragão, L. E. O. C., Bonal, D., Châtelet, P., Silva-Espejo, J. E., Goret, J.-Y., von Hildebrand, P., Jiménez, E., Patiño, S., Peñuela, M. C., Phillips, O. L., Stevenson, P., and Malhi, Y.: Regional and seasonal patterns of litterfall in tropical South America, Biogeosciences, 7, 43–55, https://doi.org/10.5194/bg-7-43-2010, 2010.
Chave, J., Réjou-Méchain, M., Búrquez, A., Chidumayo, E., Colgan, M. S., Delitti, W. B. C., Duque, A., Eid, T., Fearnside, P. M., Goodman, R. C., Henry, M., Martínez-Yrízar, A., Mugasha, W. A., Muller-Landau, H. C., Mencuccini, M., Nelson, B. W., Ngomanda, A., Nogueira, E. M., Ortiz-Malavassi, E., Pélissier, R., Ploton, P., Ryan, C. M., Saldarriaga, J. G., and Vieilledent, G.: Improved allometric models to estimate the aboveground biomass of tropical trees, Glob. Change Biol., 20, 3177–3190, https://doi.org/10.1111/gcb.12629, 2014.
Chen, X., Maignan, F., Viovy, N., Bastos, A., Goll, D., Wu, J., Liu, L., Yue, C., Peng, S., Yuan, W., da Conceição, A. C., O'Sullivan, M., and Ciais, P.: Novel Representation of Leaf Phenology Improves Simulation of Amazonian Evergreen Forest Photosynthesis in a Land Surface Model, J. Adv. Model. Earth Sy., 12, e2018MS001565, https://doi.org/10.1029/2018MS001565, 2020.
Chen, X., Ciais, P., Maignan, F., Zhang, Y., Bastos, A., Liu, L., Bacour, C., Fan, L., Gentine, P., Goll, D., Green, J., Kim, H., Li, L., Liu, Y., Peng, S., Tang, H., Viovy, N., Wigneron, J.-P., Wu, J., Yuan, W., and Zhang, H.: Vapor Pressure Deficit and Sunlight Explain Seasonality of Leaf Phenology and Photosynthesis Across Amazonian Evergreen Broadleaved Forest, Global Biogeochem. Cy., 35, e2020GB006893, https://doi.org/10.1029/2020GB006893, 2021.
Chen, Y., Ryder, J., Bastrikov, V., McGrath, M. J., Naudts, K., Otto, J., Ottlé, C., Peylin, P., Polcher, J., Valade, A., Black, A., Elbers, J. A., Moors, E., Foken, T., van Gorsel, E., Haverd, V., Heinesch, B., Tiedemann, F., Knohl, A., Launiainen, S., Loustau, D., Ogée, J., Vessala, T., and Luyssaert, S.: Evaluating the performance of land surface model ORCHIDEE-CAN v1.0 on water and energy flux estimation with a single- and multi-layer energy budget scheme, Geosci. Model Dev., 9, 2951–2972, https://doi.org/10.5194/gmd-9-2951-2016, 2016.
Chesson, P. L. and Warner, R. R.: Environmental variability promotes coexistence in lottery competitive systems, Am. Natural., 117, 923–943, 1981.
Christoffersen, B. O., Gloor, M., Fauset, S., Fyllas, N. M., Galbraith, D. R., Baker, T. R., Kruijt, B., Rowland, L., Fisher, R. A., Binks, O. J., Sevanto, S., Xu, C., Jansen, S., Choat, B., Mencuccini, M., McDowell, N. G., and Meir, P.: Linking hydraulic traits to tropical forest function in a size-structured and trait-driven model (TFS v.1-Hydro), Geosci. Model Dev., 9, 4227–4255, https://doi.org/10.5194/gmd-9-4227-2016, 2016.
Chuine, I. and Beaubien, E. G.: Phenology is a major determinant of tree species range, Ecol. Lett., 4, 500–510, https://doi.org/10.1046/j.1461-0248.2001.00261.x, 2001.
Clark, D. B., Mercado, L. M., Sitch, S., Jones, C. D., Gedney, N., Best, M. J., Pryor, M., Rooney, G. G., Essery, R. L. H., Blyth, E., Boucher, O., Harding, R. J., Huntingford, C., and Cox, P. M.: The Joint UK Land Environment Simulator (JULES), model description – Part 2: Carbon fluxes and vegetation dynamics, Geosci. Model Dev., 4, 701–722, https://doi.org/10.5194/gmd-4-701-2011, 2011.
Cochard, H.: A new mechanism for tree mortality due to drought and heatwaves, Peer Community Journal, 1, e36, https://doi.org/10.24072/pcjournal.45, 2021.
Cochard, H., Torres-Ruiz, J. M., and Delzon, S.: Let plant hydraulics catch the wave, J. Plant Hydraul., 3, e002–e002, https://doi.org/10.20870/jph.2016.e002, 2016.
Cochard, H., Pimont, F., Ruffault, J., and Martin-StPaul, N.: SurEau: a mechanistic model of plant water relations under extreme drought, Ann. Forest Sci., 78, 55, https://doi.org/10.1007/s13595-021-01067-y, 2021.
Collalti, A., Tjoelker, M. G., Hoch, G., Mäkelä, A., Guidolotti, G., Heskel, M., Petit, G., Ryan, M. G., Battipaglia, G., Matteucci, G., and Prentice, I. C.: Plant respiration: Controlled by photosynthesis or biomass?, Glob. Change Biol., 26, 1739–1753, https://doi.org/10.1111/gcb.14857, 2020.
Collatz, G. J., Ball, J. T., Grivet, C., and Berry, J. A.: Physiological and environmental regulation of stomatal conductance, photosynthesis and transpiration: a model that includes a laminar boundary layer, Agr. Forest Meteorol., 54, 107–136, https://doi.org/10.1016/0168-1923(91)90002-8, 1991.
Coomes, D. A. and Grubb, P. J.: Colonization, tolerance, competition and seed-size variation within functional groups, Trend. Ecol. Evol., 18, 283–291, https://doi.org/10.1016/S0169-5347(03)00072-7, 2003.
Cosby, B. J., Hornberger, G. M., Clapp, R. B., and Ginn, T. R.: A Statistical Exploration of the Relationships of Soil Moisture Characteristics to the Physical Properties of Soils, Water Resour. Res., 20, 682–690, https://doi.org/10.1029/WR020i006p00682, 1984.
Costa, F. R. C., Schietti, J., Stark, S. C., and Smith, M. N.: The other side of tropical forest drought: do shallow water table regions of Amazonia act as large-scale hydrological refugia from drought?, New Phytol., 237, 714–733, https://doi.org/10.1111/nph.17914, 2023.
Coussement, J. R., De Swaef, T., Lootens, P., Roldán-Ruiz, I., and Steppe, K.: Introducing turgor-driven growth dynamics into functional–structural plant models, Ann. Bot., 121, 849–861, https://doi.org/10.1093/aob/mcx144, 2018.
Cox, P. M., Betts, R. A., Jones, C. D., Spall, S. A., and Totterdell, I. J.: Acceleration of global warming due to carbon-cycle feedbacks in a coupled climate model, Nature, 408, 184–187, https://doi.org/10.1038/35041539, 2000.
Craine, J. M., Engelbrecht, B. M. J., Lusk, C. H., McDowell, N. G., and Poorter, H.: Resource limitation, tolerance, and the future of ecological plant classification, Front. Plant Sci., 3, https://doi.org/10.3389/fpls.2012.00246, 2012.
Crawford, M. S., Barry, K. E., Clark, A. T., Farrior, C. E., Hines, J., Ladouceur, E., Lichstein, J. W., Maréchaux, I., May, F., Mori, A. S., Reineking, B., Turnbull, L. A., Wirth, C., and Rüger, N.: The function-dominance correlation drives the direction and strength of biodiversity–ecosystem functioning relationships, Ecol. Lett., 24, 1762–1775, https://doi.org/10.1111/ele.13776, 2021.
Cubiña, A. and Aide, T. M.: The Effect of Distance from Forest Edge on Seed Rain and Soil Seed Bank in a Tropical Pasture, Biotropica, 33, 260–267, https://doi.org/10.1646/0006-3606(2001)033[0260:TEODFF]2.0.CO;2, 2001.
Cusack, D. F., Christoffersen, B., Smith-Martin, C. M., Andersen, K. M., Cordeiro, A. L., Fleischer, K., Wright, S. J., Guerrero-Ramírez, N. R., Lugli, L. F., McCulloch, L. A., Sanchez-Julia, M., Batterman, S. A., Dallstream, C., Fortunel, C., Toro, L., Fuchslueger, L., Wong, M. Y., Yaffar, D., Fisher, J. B., Arnaud, M., Dietterich, L. H., Addo-Danso, S. D., Valverde-Barrantes, O. J., Weemstra, M., Ng, J. C., and Norby, R. J.: Toward a coordinated understanding of hydro-biogeochemical root functions in tropical forests for application in vegetation models, New Phytol., 242, 351–371, https://doi.org/10.1111/nph.19561, 2024.
Damour, G., Simonneau, T., Cochard, H., and Urban, L.: An overview of models of stomatal conductance at the leaf level, Plant Cell Environ., 33, 1419–1438, https://doi.org/10.1111/j.1365-3040.2010.02181.x, 2010.
Daws, M. I., Crabtree, L. M., Dalling, J. W., Mullins, C. E., and Burslem, D. F. R. P.: Germination Responses to Water Potential in Neotropical Pioneers Suggest Large-seeded Species Take More Risks, Ann. Bot., 102, 945–951, https://doi.org/10.1093/aob/mcn186, 2008.
Dawson, T. E.: Hydraulic lift and water use by plants: implications for water balance, performance and plant-plant interactions, Oecologia, 95, 565–574, https://doi.org/10.1007/BF00317442, 1993.
De Cáceres, M., Molowny-Horas, R., Cabon, A., Martínez-Vilalta, J., Mencuccini, M., García-Valdés, R., Nadal-Sala, D., Sabaté, S., Martin-StPaul, N., Morin, X., D'Adamo, F., Batllori, E., and Améztegui, A.: MEDFATE 2.9.3: a trait-enabled model to simulate Mediterranean forest function and dynamics at regional scales, Geosci. Model Dev., 16, 3165–3201, https://doi.org/10.5194/gmd-16-3165-2023, 2023.
De Deurwaerder, H., Hervé-Fernández, P., Stahl, C., Burban, B., Petronelli, P., Hoffman, B., Bonal, D., Boeckx, P., and Verbeeck, H.: Liana and tree below-ground water competition – evidence for water resource partitioning during the dry season, Tree Physiol., 38, 1071–1083, https://doi.org/10.1093/treephys/tpy002, 2018.
De Frenne, P., Zellweger, F., Rodríguez-Sánchez, F., Scheffers, B. R., Hylander, K., Luoto, M., Vellend, M., Verheyen, K., and Lenoir, J.: Global buffering of temperatures under forest canopies, Nat. Ecol. Evol., 3, 744–749, https://doi.org/10.1038/s41559-019-0842-1, 2019.
De Frenne, P., Lenoir, J., Luoto, M., Scheffers, B. R., Zellweger, F., Aalto, J., Ashcroft, M. B., Christiansen, D. M., Decocq, G., De Pauw, K., Govaert, S., Greiser, C., Gril, E., Hampe, A., Jucker, T., Klinges, D. H., Koelemeijer, I. A., Lembrechts, J. J., Marrec, R., Meeussen, C., Ogée, J., Tyystjärvi, V., Vangansbeke, P., and Hylander, K.: Forest microclimates and climate change: Importance, drivers and future research agenda, Glob. Change Biol., 27, 2279–2297, https://doi.org/10.1111/gcb.15569, 2021.
De Kauwe, M. G., Zhou, S.-X., Medlyn, B. E., Pitman, A. J., Wang, Y.-P., Duursma, R. A., and Prentice, I. C.: Do land surface models need to include differential plant species responses to drought? Examining model predictions across a mesic-xeric gradient in Europe, Biogeosciences, 12, 7503–7518, https://doi.org/10.5194/bg-12-7503-2015, 2015a.
De Kauwe, M. G., Kala, J., Lin, Y.-S., Pitman, A. J., Medlyn, B. E., Duursma, R. A., Abramowitz, G., Wang, Y.-P., and Miralles, D. G.: A test of an optimal stomatal conductance scheme within the CABLE land surface model, Geosci. Model Dev., 8, 431–452, https://doi.org/10.5194/gmd-8-431-2015, 2015b.
De Kauwe, M. G., Medlyn, B. E., Knauer, J., and Williams, C. A.: Ideas and perspectives: how coupled is the vegetation to the boundary layer?, Biogeosciences, 14, 4435–4453, https://doi.org/10.5194/bg-14-4435-2017, 2017.
Delhaye, G., Bauman, D., Séleck, M., Ilunga wa Ilunga, E., Mahy, G., and Meerts, P.: Interspecific trait integration increases with environmental harshness: A case study along a metal toxicity gradient, Funct. Ecol., 34, 1428–1437, https://doi.org/10.1111/1365-2435.13570, 2020.
Dewar, R., Mauranen, A., Mäkelä, A., Hölttä, T., Medlyn, B., and Vesala, T.: New insights into the covariation of stomatal, mesophyll and hydraulic conductances from optimization models incorporating nonstomatal limitations to photosynthesis, New Phytol., 217, 571–585, https://doi.org/10.1111/nph.14848, 2018.
Díaz, S., Kattge, J., Cornelissen, J. H. C., Wright, I. J., Lavorel, S., Dray, S., Reu, B., Kleyer, M., Wirth, C., Colin Prentice, I., Garnier, E., Bönisch, G., Westoby, M., Poorter, H., Reich, P. B., Moles, A. T., Dickie, J., Gillison, A. N., Zanne, A. E., Chave, J., Joseph Wright, S., Sheremet'ev, S. N., Jactel, H., Baraloto, C., Cerabolini, B., Pierce, S., Shipley, B., Kirkup, D., Casanoves, F., Joswig, J. S., Günther, A., Falczuk, V., Rüger, N., Mahecha, M. D., and Gorné, L. D.: The global spectrum of plant form and function, Nature, 529, 167–171, https://doi.org/10.1038/nature16489, 2016.
Díaz-Yáñez, O., Käber, Y., Anders, T., Bohn, F., Braziunas, K. H., Brůna, J., Fischer, R., Fischer, S. M., Hetzer, J., Hickler, T., Hochauer, C., Lexer, M. J., Lischke, H., Mairota, P., Merganič, J., Merganičová, K., Mette, T., Mina, M., Morin, X., Nieberg, M., Rammer, W., Reyer, C. P. O., Scheiter, S., Scherrer, D., and Bugmann, H.: Tree regeneration in models of forest dynamics: A key priority for further research, Ecosphere, 15, e4807, https://doi.org/10.1002/ecs2.4807, 2024.
Dietze, M. C., Lebauer, D. S., and Kooper, R.: On improving the communication between models and data, Plant Cell Environ., 36, 1575–1585, https://doi.org/10.1111/pce.12043, 2013.
Dilley, A. C. and O'Brien, D. M.: Estimating downward clear sky long-wave irradiance at the surface from screen temperature and precipitable water, Q. J. Roy. Meteor. Soc., 124, 1391–1401, https://doi.org/10.1002/qj.49712454903, 1998.
Domingues, T. F., Meir, P., Feldpausch, T. R., Saiz, G., Veenendaal, E. M., Schrodt, F., Bird, M., Djagbletey, G., Hien, F., Compaore, H., Diallo, A., Grace, J., and Lloyd, J.: Co-limitation of photosynthetic capacity by nitrogen and phosphorus in West Africa woodlands, Plant Cell Environ., 33, 959–980, https://doi.org/10.1111/j.1365-3040.2010.02119.x, 2010.
Domingues, T. F., Martinelli, L. A., and Ehleringer, J. R.: Seasonal patterns of leaf-level photosynthetic gas exchange in an eastern Amazonian rain forest, Plant Ecol. Divers., 7, 189–203, https://doi.org/10.1080/17550874.2012.748849, 2014.
Donovan, L. A., Richards, J. H., and Linton, M. J.: Magnitude and mechanisms of disequilibrium between predawn plant and soil water potentials, Ecology, 84, 463–470, https://doi.org/10.1890/0012-9658(2003)084[0463:MAMODB]2.0.CO;2, 2003.
d'Orgeval, T., Polcher, J., and de Rosnay, P.: Sensitivity of the West African hydrological cycle in ORCHIDEE to infiltration processes, Hydrol. Earth Syst. Sci., 12, 1387–1401, https://doi.org/10.5194/hess-12-1387-2008, 2008.
Dormann, C. F., Schymanski, S. J., Cabral, J., Chuine, I., Graham, C., Hartig, F., Kearney, M., Morin, X., Römermann, C., Schröder, B., and Singer, A.: Correlation and process in species distribution models: bridging a dichotomy, J. Biogeogr., 39, 2119–2131, https://doi.org/10.1111/j.1365-2699.2011.02659.x, 2012.
Doughty, C. E. and Goulden, M. L.: Seasonal patterns of tropical forest leaf area index and CO2 exchange, J. Geophys. Res., 113, G00B06, https://doi.org/10.1029/2007JG000590, 2008.
Doughty, C. E., Malhi, Y., Araujo-Murakami, A., Metcalfe, D. B., Silva-Espejo, J. E., Arroyo, L., Heredia, J. P., Pardo-Toledo, E., Mendizabal, L. M., Rojas-Landivar, V. D., Vega-Martinez, M., Flores-Valencia, M., Sibler-Rivero, R., Moreno-Vare, L., Viscarra, L. J., Chuviru-Castro, T., Osinaga-Becerra, M., and Ledezma, R.: Allocation trade-offs dominate the response of tropical forest growth to seasonal and interannual drought, Ecology, 95, 2192–2201, https://doi.org/10.1890/13-1507.1, 2014.
Doughty, C. E., Gaillard, C., Burns, P., Keany, J. M., Abraham, A. J., Malhi, Y., Aguirre-Gutierrez, J., Koch, G., Jantz, P., Shenkin, A., and Tang, H.: Tropical forests are mainly unstratified especially in Amazonia and regions with lower fertility or higher temperatures, Environ. Res. Ecol., 2, 035002, https://doi.org/10.1088/2752-664X/ace723, 2023.
Drake, J. E., Power, S. A., Duursma, R. A., Medlyn, B. E., Aspinwall, M. J., Choat, B., Creek, D., Eamus, D., Maier, C., Pfautsch, S., Smith, R. A., Tjoelker, M. G., and Tissue, D. T.: Stomatal and non-stomatal limitations of photosynthesis for four tree species under drought: A comparison of model formulations, Agr. Forest Meteorol., 247, 454–466, https://doi.org/10.1016/j.agrformet.2017.08.026, 2017.
Drake, P. L., Boer, H. J. de, Schymanski, S. J., and Veneklaas, E. J.: Two sides to every leaf: water and CO2 transport in hypostomatous and amphistomatous leaves, New Phytol., 222, 1179–1187, https://doi.org/10.1111/nph.15652, 2019.
Duffy, P. B., Brando, P., Asner, G. P., and Field, C. B.: Projections of future meteorological drought and wet periods in the Amazon, P. Natl. Acad. Sci. USA, 112, 13172–13177, https://doi.org/10.1073/pnas.1421010112, 2015.
Dunne, T. and Black, R. D.: An Experimental Investigation of Runoff Production in Permeable Soils, Water Resour. Res., 6, 478–490, https://doi.org/10.1029/WR006i002p00478, 1970.
Duursma, R. A.: Plantecophys – An R Package for Analysing and Modelling Leaf Gas Exchange Data, PLOS ONE, 10, e0143346, https://doi.org/10.1371/journal.pone.0143346, 2015.
Duursma, R. A. and Medlyn, B. E.: MAESPA: a model to study interactions between water limitation, environmental drivers and vegetation function at tree and stand levels, with an example application to [CO2] × drought interactions, Geosci. Model Dev., 5, 919–940, https://doi.org/10.5194/gmd-5-919-2012, 2012.
Duursma, R. A., Blackman, C. J., Lopéz, R., Martin-StPaul, N. K., Cochard, H., and Medlyn, B. E.: On the minimum leaf conductance: its role in models of plant water use, and ecological and environmental controls, New Phytol., 221, 693–705, https://doi.org/10.1111/nph.15395, 2019.
Dwyer, J. M. and Laughlin, D. C.: Constraints on trait combinations explain climatic drivers of biodiversity: the importance of trait covariance in community assembly, Ecol. Lett., 20, 872–882, https://doi.org/10.1111/ele.12781, 2017.
Egea, G., Verhoef, A., and Vidale, P. L.: Towards an improved and more flexible representation of water stress in coupled photosynthesis–stomatal conductance models, Agr. Forest Meteorol., 151, 1370–1384, https://doi.org/10.1016/j.agrformet.2011.05.019, 2011.
Elias, M. and Potvin, C.: Assessing inter- and intra-specific variation in trunk carbon concentration for 32 neotropical tree species, Can. J. For. Res., 33, 1039–1045, https://doi.org/10.1139/x03-018, 2003.
Elith, J. and Leathwick, J. R.: Species Distribution Models: Ecological Explanation and Prediction Across Space and Time, Annu. Rev. Ecol. Evol. S., 40, 677–697, https://doi.org/10.1146/annurev.ecolsys.110308.120159, 2009.
Engelbrecht, B. M. J., Dalling, J. W., Pearson, T. R. H., Wolf, R. L., Galvez, D. A., Koehler, T., Tyree, M. T., and Kursar, T. A.: Short dry spells in the wet season increase mortality of tropical pioneer seedlings, Oecologia, 148, 258–269, https://doi.org/10.1007/s00442-006-0368-5, 2006.
Estes, L., Elsen, P. R., Treuer, T., Ahmed, L., Caylor, K., Chang, J., Choi, J. J., and Ellis, E. C.: The spatial and temporal domains of modern ecology, Nat. Ecol. Evol., 2, 819–826, https://doi.org/10.1038/s41559-018-0524-4, 2018.
Evans, M. R.: Modelling ecological systems in a changing world, Phil. Trans. R. Soc. B, 367, 181–190, https://doi.org/10.1098/rstb.2011.0172, 2012.
Farrior, C. E., Dybzinski, R., Levin, S. A., and Pacala, S. W.: Competition for Water and Light in Closed-Canopy Forests: A Tractable Model of Carbon Allocation with Implications for Carbon Sinks, Am. Nat., 181, 314–330, https://doi.org/10.1086/669153, 2013.
Farquhar, G. D., Caemmerer, S. von, and Berry, J. A.: A biochemical model of photosynthetic CO2 assimilation in leaves of C3 species, Planta, 149, 78–90, 1980.
Farrell, C., Szota, C., and Arndt, S. K.: Does the turgor loss point characterize drought response in dryland plants?, Plant Cell Environ., 40, 1500–1511, https://doi.org/10.1111/pce.12948, 2017.
Fatichi, S., Pappas, C., and Ivanov, V. Y.: Modeling plant–water interactions: an ecohydrological overview from the cell to the global scale, WIREs Water, 3, 327–368, https://doi.org/10.1002/wat2.1125, 2016.
Fauset, S., Baker, T. R., Lewis, S. L., Feldpausch, T. R., Affum-Baffoe, K., Foli, E. G., Hamer, K. C., and Swaine, M. D.: Drought-induced shifts in the floristic and functional composition of tropical forests in Ghana, Ecol. Lett., 15, 1120–1129, https://doi.org/10.1111/j.1461-0248.2012.01834.x, 2012.
Feeley, K. J., Davies, S. J., Perez, R., Hubbell, S. P., and Foster, R. B.: Directional changes in the species composition of a tropical forest, Ecology, 92, 871–882, 2011.
Fer, I., Kelly, R., Moorcroft, P. R., Richardson, A. D., Cowdery, E. M., and Dietze, M. C.: Linking big models to big data: efficient ecosystem model calibration through Bayesian model emulation, Biogeosciences, 15, 5801–5830, https://doi.org/10.5194/bg-15-5801-2018, 2018.
Fernández-Martínez, M., Vicca, S., Janssens, I. A., Sardans, J., Luyssaert, S., Campioli, M., Chapin Iii, F. S., Ciais, P., Malhi, Y., Obersteiner, M., Papale, D., Piao, S. L., Reichstein, M., Rodà, F., and Peñuelas, J.: Nutrient availability as the key regulator of global forest carbon balance, Nat.Clim. Change, 4, 471–476, https://doi.org/10.1038/nclimate2177, 2014.
Ferrier, S. and Guisan, A.: Spatial modelling of biodiversity at the community level, J. Appl. Ecol., 43, 393–404, https://doi.org/10.1111/j.1365-2664.2006.01149.x, 2006.
Fichtner, A., Härdtle, W., Bruelheide, H., Kunz, M., Li, Y., and Oheimb, G.: Neighbourhood interactions drive overyielding in mixed-species tree communities, Nat. Commun., 9, 1144, https://doi.org/10.1038/s41467-018-03529-w, 2018.
Fischer, F. J.: Inferring the structure and dynamics of tropical rain forests with individual-based forest growth models, Doctoral Dissertation, Université Paul Sabatier-Toulouse III, 2019.
Fischer, F. J., Maréchaux, I., and Chave, J.: Improving plant allometry by fusing forest models and remote sensing, New Phytol., 223, 1159–1165, https://doi.org/10.1111/nph.15810, 2019.
Fischer, F. J., Labrière, N., Vincent, G., Hérault, B., Alonso, A., Memiaghe, H., Bissiengou, P., Kenfack, D., Saatchi, S., and Chave, J.: A simulation method to infer tree allometry and forest structure from airborne laser scanning and forest inventories, Remote Sens. Environ., 251, 112056, https://doi.org/10.1016/j.rse.2020.112056, 2020.
Fischer, R., Armstrong, A., Shugart, H. H., and Huth, A.: Simulating the impacts of reduced rainfall on carbon stocks and net ecosystem exchange in a tropical forest, Environ. Model. Softw., 52, 200–206, https://doi.org/10.1016/j.envsoft.2013.10.026, 2014.
Fisher, J. B., Huntzinger, D. N., Schwalm, C. R., and Sitch, S.: Modeling the Terrestrial Biosphere, Annu. Rev. Environ. Resour., 39, 91–123, https://doi.org/10.1146/annurev-environ-012913-093456, 2014.
Fisher, R. A., Williams, M., Do Vale, R. L., Da Costa, A. L., and Meir, P.: Evidence from Amazonian forests is consistent with isohydric control of leaf water potential, Plant Cell Environ., 29, 151–165, https://doi.org/10.1111/j.1365-3040.2005.01407.x, 2006.
Fisher, R. A., Williams, M., Da Costa, A. L., Malhi, Y., Da Costa, R. F., Almeida, S., and Meir, P.: The response of an Eastern Amazonian rain forest to drought stress: results and modelling analyses from a throughfall exclusion experiment, Glob. Change Biol., 13, 2361–2378, https://doi.org/10.1111/j.1365-2486.2007.01417.x, 2007.
Fisher, R. A., Muszala, S., Verteinstein, M., Lawrence, P., Xu, C., McDowell, N. G., Knox, R. G., Koven, C., Holm, J., Rogers, B. M., Spessa, A., Lawrence, D., and Bonan, G.: Taking off the training wheels: the properties of a dynamic vegetation model without climate envelopes, CLM4.5(ED), Geosci. Model Dev., 8, 3593–3619, https://doi.org/10.5194/gmd-8-3593-2015, 2015.
Fisher, R. A., Koven, C. D., Anderegg, W. R. L., Christoffersen, B. O., Dietze, M. C., Farrior, C. E., Holm, J. A., Hurtt, G. C., Knox, R. G., Lawrence, P. J., Lichstein, J. W., Longo, M., Matheny, A. M., Medvigy, D., Muller-Landau, H. C., Powell, T. L., Serbin, S. P., Sato, H., Shuman, J. K., Smith, B., Trugman, A. T., Viskari, T., Verbeeck, H., Weng, E., Xu, C., Xu, X., Zhang, T., and Moorcroft, P. R.: Vegetation demographics in Earth System Models: A review of progress and priorities, Glob. Change Biol., 24, 35–54, https://doi.org/10.1111/gcb.13910, 2018.
Fisher, R. A. and Koven, C. D.: Perspectives on the Future of Land Surface Models and the Challenges of Representing Complex Terrestrial Systems, J. Adv. Model. Earth Sy., 12, e2018MS001453, https://doi.org/10.1029/2018MS001453, 2020.
Flexas, J., Bota, J., Loreto, F., Cornic, G., and Sharkey, T. D.: Diffusive and Metabolic Limitations to Photosynthesis under Drought and Salinity in C3 Plants, Plant Biol., 6, 269–279, https://doi.org/10.1055/s-2004-820867, 2004.
Flexas, J., Galmes, J., Ribas-Carbo, M., and Medrano, H.: The Effects of Water Stress on Plant Respiration, in: Plant Respiration, Springer, Dordrecht, 85–94, https://doi.org/10.1007/1-4020-3589-6_6, 2005.
Flexas, J., Bota, J., Galmés, J., Medrano, H., and Ribas-Carbó, M.: Keeping a positive carbon balance under adverse conditions: responses of photosynthesis and respiration to water stress, Physiol. Plant., 127, 343–352, https://doi.org/10.1111/j.1399-3054.2006.00621.x, 2006.
Flexas, J., Barbour, M. M., Brendel, O., Cabrera, H. M., Carriquí, M., Díaz-Espejo, A., Douthe, C., Dreyer, E., Ferrio, J. P., Gago, J., Gallé, A., Galmés, J., Kodama, N., Medrano, H., Niinemets, Ü., Peguero-Pina, J. J., Pou, A., Ribas-Carbó, M., Tomás, M., Tosens, T., and Warren, C. R.: Mesophyll diffusion conductance to CO2: An unappreciated central player in photosynthesis, Plant Science, 193–194, 70–84, https://doi.org/10.1016/j.plantsci.2012.05.009, 2012.
Franks, P. J., Bonan, G. B., Berry, J. A., Lombardozzi, D. L., Holbrook, N. M., Herold, N., and Oleson, K. W.: Comparing optimal and empirical stomatal conductance models for application in Earth system models, Glob. Change Biol., 24, 5708–5723, https://doi.org/10.1111/gcb.14445, 2018.
Franks, S. W., Beven, K. J., Quinn, P. F., and Wright, I. R.: On the sensitivity of soil-vegetation-atmosphere transfer (SVAT) schemes: equifinality and the problem of robust calibration, Agr. Forest Meteorol., 86, 63–75, https://doi.org/10.1016/S0168-1923(96)02421-5, 1997.
Friedlingstein, P., Joel, G., Field, C. B., and Fung, I. Y.: Toward an allocation scheme for global terrestrial carbon models, Glob. Change Biol., 5, 755–770,https://doi.org/10.1046/j.1365-2486.1999.00269.x, 1999.
Friend, A. D., Lucht, W., Rademacher, T. T., Keribin, R., Betts, R., Cadule, P., Ciais, P., Clark, D. B., Dankers, R., Falloon, P. D., Ito, A., Kahana, R., Kleidon, A., Lomas, M. R., Nishina, K., Ostberg, S., Pavlick, R., Peylin, P., Schaphoff, S., Vuichard, N., Warszawski, L., Wiltshire, A., and Woodward, F. I.: Carbon residence time dominates uncertainty in terrestrial vegetation responses to future climate and atmospheric CO2, P. Natl. Acad. Sci. USA, 111, 3280–3285, https://doi.org/10.1073/pnas.1222477110, 2014.
Fyllas, N. M., Gloor, E., Mercado, L. M., Sitch, S., Quesada, C. A., Domingues, T. F., Galbraith, D. R., Torre-Lezama, A., Vilanova, E., Ramírez-Angulo, H., Higuchi, N., Neill, D. A., Silveira, M., Ferreira, L., Aymard C., G. A., Malhi, Y., Phillips, O. L., and Lloyd, J.: Analysing Amazonian forest productivity using a new individual and trait-based model (TFS v.1), Geosci. Model Dev., 7, 1251–1269, https://doi.org/10.5194/gmd-7-1251-2014, 2014.
Garcia, M. N., Domingues, T. F., Oliveira, R. S., and Costa, F. R. C.: The biogeography of embolism resistance across resource gradients in the Amazon, Global Ecol. Biogeogr., 32, 2199–2211, https://doi.org/10.1111/geb.13765, 2023.
Gardner, W. R.: Relation of Root Distribution to Water Uptake and Availability, Agron. J., 56, 41–45, https://doi.org/10.2134/agronj1964.00021962005600010013x, 1964.
Gash, J. H. C.: An analytical model of rainfall interception by forests, Q. J. Roy. Meteor. Soc., 105, 43–55, https://doi.org/10.1002/qj.49710544304, 1979.
Gash, J. H. C., Lloyd, C. R., and Lachaud, G.: Estimating sparse forest rainfall interception with an analytical model, J. Hydrol., 170, 79–86, https://doi.org/10.1016/0022-1694(95)02697-N, 1995.
Girard-Tercieux, C., Maréchaux, I., Clark, A. T., Clark, J. S., Courbaud, B., Fortunel, C., Guillemot, J., Künstler, G., le Maire, G., Pélissier, R., Rüger, N., and Vieilledent, G.: Rethinking the nature of intraspecific variability and its consequences on species coexistence, Ecol. Evol., 13, e9860, https://doi.org/10.1002/ece3.9860, 2023.
Girard-Tercieux, C., Vieilledent, G., Clark, A., Clark, J. S., Courbaud, B., Fortunel, C., Kunstler, G., Pélissier, R., Rüger, N., and Maréchaux, I.: Beyond variance: simple random distributions are not a good proxy for intraspecific variability in systems with environmental structure, Peer Community Journal, 4, e28, https://doi.org/10.24072/pcjournal.360, 2024.
Gourlet-Fleury, S., Blanc, L., Picard, N., Sist, P., Dick, J., Nasi, R., Swaine, M. D., and Forni, E.: Grouping species for predicting mixed tropical forest dynamics: looking for a strategy, Ann. Forest Sci., 62, 12, https://doi.org/10.1051/forest:2005084, 2005.
Griffin-Nolan, R. J., Ocheltree, T. W., Mueller, K. E., Blumenthal, D. M., Kray, J. A., and Knapp, A. K.: Extending the osmometer method for assessing drought tolerance in herbaceous species, Oecologia, 189, 353–363, https://doi.org/10.1007/s00442-019-04336-w, 2019.
Gril, E., Spicher, F., Greiser, C., Ashcroft, M. B., Pincebourde, S., Durrieu, S., Nicolas, M., Richard, B., Decocq, G., Marrec, R., and Lenoir, J.: Slope and equilibrium: A parsimonious and flexible approach to model microclimate, Methods Ecol. Evol., 14, 885–897, https://doi.org/10.1111/2041-210X.14048, 2023a.
Gril, E., Laslier, M., Gallet-Moron, E., Durrieu, S., Spicher, F., Le Roux, V., Brasseur, B., Haesen, S., Van Meerbeek, K., Decocq, G., Marrec, R., and Lenoir, J.: Using airborne LiDAR to map forest microclimate temperature buffering or amplification, Remote Sens. Environ., 298, 113820, https://doi.org/10.1016/j.rse.2023.113820, 2023b.
Grisebach, A.: Die Vegetation der Erde nach ihrer klimatischen Anordnung: Ein Abriss der vergleichenden Geographie der Pflanzen. Bd. I und II, Verlag von Wilhelm Engelmann, Leipzig, http://archive.org/details/dievegetationde01grisgoog (last access: 24 July 2025), 1872.
Gu, L., Shugart, H. H., Fuentes, J. D., Black, T. A., and Shewchuk, S. R.: Micrometeorology, biophysical exchanges and NEE decomposition in a two-story boreal forest – development and test of an integrated model, Agr. Forest Meteorol., 94, 123–148, https://doi.org/10.1016/S0168-1923(99)00006-4, 1999.
Guan, K., Pan, M., Li, H., Wolf, A., Wu, J., Medvigy, D., Caylor, K. K., Sheffield, J., Wood, E. F., Malhi, Y., Liang, M., Kimball, J. S., Saleska, S. R., Berry, J., Joiner, J., and Lyapustin, A. I.: Photosynthetic seasonality of global tropical forests constrained by hydroclimate, Nat. Geosci., 8, 284–289, https://doi.org/10.1038/ngeo2382, 2015.
Guerrero-Ramírez, N. R., Mommer, L., Freschet, G. T., Iversen, C. M., McCormack, M. L., Kattge, J., Poorter, H., van der Plas, F., Bergmann, J., Kuyper, T. W., York, L. M., Bruelheide, H., Laughlin, D. C., Meier, I. C., Roumet, C., Semchenko, M., Sweeney, C. J., van Ruijven, J., Valverde-Barrantes, O. J., Aubin, I., Catford, J. A., Manning, P., Martin, A., Milla, R., Minden, V., Pausas, J. G., Smith, S. W., Soudzilovskaia, N. A., Ammer, C., Butterfield, B., Craine, J., Cornelissen, J. H. C., de Vries, F. T., Isaac, M. E., Kramer, K., König, C., Lamb, E. G., Onipchenko, V. G., Peñuelas, J., Reich, P. B., Rillig, M. C., Sack, L., Shipley, B., Tedersoo, L., Valladares, F., van Bodegom, P., Weigelt, P., Wright, J. P., and Weigelt, A.: Global root traits (GRooT) database, Global Ecol. Biogeogr., 30, 25–37, https://doi.org/10.1111/geb.13179, 2021.
Guillemot, J., Kunz, M., Schnabel, F., Fichtner, A., Madsen, C. P., Gebauer, T., Härdtle, W., von Oheimb, G., and Potvin, C.: Neighbourhood-mediated shifts in tree biomass allocation drive overyielding in tropical species mixtures, New Phytol., 228, 1256–1268, https://doi.org/10.1111/nph.16722, 2020.
Guimberteau, M., Ducharne, A., Ciais, P., Boisier, J. P., Peng, S., De Weirdt, M., and Verbeeck, H.: Testing conceptual and physically based soil hydrology schemes against observations for the Amazon Basin, Geosci. Model Dev., 7, 1115–1136, https://doi.org/10.5194/gmd-7-1115-2014, 2014.
Guisan, A. and Thuiller, W.: Predicting species distribution: offering more than simple habitat models, Ecol. Lett., 8, 993–1009, https://doi.org/10.1111/j.1461-0248.2005.00792.x, 2005.
Guisan, A., Thuiller, W., and Zimmermann, N. E.: Habitat Suitability and Distribution Models: with Applications in R, Cambridge University Press, 513 pp., https://doi.org/10.1017/9781139028271, 2017.
Gutiérrez, A. G., Armesto, J. J., Díaz, M. F., and Huth, A.: Increased Drought Impacts on Temperate Rainforests from Southern South America: Results of a Process-Based, Dynamic Forest Model, PLOS ONE, 9, e103226, https://doi.org/10.1371/journal.pone.0103226, 2014.
Haesen, S., Lenoir, J., Gril, E., De Frenne, P., Lembrechts, J. J., Kopecký, M., Macek, M., Man, M., Wild, J., and Van Meerbeek, K.: Microclimate reveals the true thermal niche of forest plant species, Ecol. Lett., 26, 2043–2055, https://doi.org/10.1111/ele.14312, 2023.
Hanbury-Brown, A. R., Ward, R. E., and Kueppers, L. M.: Forest regeneration within Earth system models: current process representations and ways forward, New Phytol., 235, 20–40, https://doi.org/10.1111/nph.18131, 2022.
Harper, A., Baker, I. T., Denning, A. S., Randall, D. A., Dazlich, D., and Branson, M.: Impact of evapotranspiration on dry season climate in the Amazon forest, J. Climate, 27, 574–591, https://doi.org/10.1175/JCLI-D-13-00074.1, 2013.
Hartig, F., Dyke, J., Hickler, T., Higgins, S. I., O'Hara, R. B., Scheiter, S., and Huth, A.: Connecting dynamic vegetation models to data – an inverse perspective, J. Biogeogr., 39, 2240–2252, https://doi.org/10.1111/j.1365-2699.2012.02745.x, 2012.
Hasselquist, N. J., Allen, M. F., and Santiago, L. S.: Water relations of evergreen and drought-deciduous trees along a seasonally dry tropical forest chronosequence, Oecologia, 164, 881–890, https://doi.org/10.1007/s00442-010-1725-y, 2010.
Hengl, T., Jesus, J. M. de, Heuvelink, G. B. M., Gonzalez, M. R., Kilibarda, M., Blagotić, A., Shangguan, W., Wright, M. N., Geng, X., Bauer-Marschallinger, B., Guevara, M. A., Vargas, R., MacMillan, R. A., Batjes, N. H., Leenaars, J. G. B., Ribeiro, E., Wheeler, I., Mantel, S., and Kempen, B.: SoilGrids250m: Global gridded soil information based on machine learning, PLOS ONE, 12, e0169748, https://doi.org/10.1371/journal.pone.0169748, 2017.
Héroult, A., Lin, Y.-S., Bourne, A., Medlyn, B. E., and Ellsworth, D. S.: Optimal stomatal conductance in relation to photosynthesis in climatically contrasting Eucalyptus species under drought, Plant Cell Environ., 36, 262–274, https://doi.org/10.1111/j.1365-3040.2012.02570.x, 2013.
Heskel, M. A., O'Sullivan, O. S., Reich, P. B., Tjoelker, M. G., Weerasinghe, L. K., Penillard, A., Egerton, J. J. G., Creek, D., Bloomfield, K. J., Xiang, J., Sinca, F., Stangl, Z. R., la Torre, A. M., Griffin, K. L., Huntingford, C., Hurry, V., Meir, P., Turnbull, M. H., and Atkin, O. K.: Convergence in the temperature response of leaf respiration across biomes and plant functional types, P. Natl. Acad. Sci. USA, 113, 3832–3837, https://doi.org/10.1073/pnas.1520282113, 2016.
Hickler, T., Prentice, I. C., Smith, B., Sykes, M. T., and Zaehle, S.: Implementing plant hydraulic architecture within the LPJ Dynamic Global Vegetation Model, Global Ecol. Biogeogr., 15, 567–577, https://doi.org/10.1111/j.1466-8238.2006.00254.x, 2006.
Hodnett, M. G. and Tomasella, J.: Marked differences between van Genuchten soil water-retention parameters for temperate and tropical soils: a new water-retention pedo-transfer functions developed for tropical soils, Geoderma, 108, 155–180, https://doi.org/10.1016/S0016-7061(02)00105-2, 2002.
Horton, R. E.: The role of infiltration in the hydrologic cycle, Eos, T. Am. Geophys. Un., 14, 446–460, https://doi.org/10.1029/TR014i001p00446, 1933.
Hsiao, T. C.: Plant Responses to Water Stress, Annu. Rev. Plant Physiol., 24, 519–570, https://doi.org/10.1146/annurev.pp.24.060173.002511, 1973.
Huaraca Huasco, W., Riutta, T., Girardin, C. A. J., Hancco Pacha, F., Puma Vilca, B. L., Moore, S., Rifai, S. W., del Aguila-Pasquel, J., Araujo Murakami, A., Freitag, R., Morel, A. C., Demissie, S., Doughty, C. E., Oliveras, I., Galiano Cabrera, D. F., Durand Baca, L., Farfán Amézquita, F., Silva Espejo, J. E., da Costa, A. C. L., Oblitas Mendoza, E., Quesada, C. A., Evouna Ondo, F., Edzang Ndong, J., Jeffery, K. J., Mihindou, V., White, L. J. T., N'ssi Bengone, N., Ibrahim, F., Addo-Danso, S. D., Duah-Gyamfi, A., Djaney Djagbletey, G., Owusu-Afriyie, K., Amissah, L., Mbou, A. T., Marthews, T. R., Metcalfe, D. B., Aragão, L. E. O., Marimon-Junior, B. H., Marimon, B. S., Majalap, N., Adu-Bredu, S., Abernethy, K. A., Silman, M., Ewers, R. M., Meir, P., and Malhi, Y.: Fine root dynamics across pantropical rainforest ecosystems, Glob. Change Biol., 27, 3657–3680, https://doi.org/10.1111/gcb.15677, 2021.
Humbel, F.-X.: Caractérisation, par des mesures physiques, hydriques et d`enracinement, de sols de Guyane francaise à dynamique de l'eau superficielle, Sciences du sol, 2, 83–94, 1978.
Huntingford, C., Zelazowski, P., Galbraith, D., Mercado, L. M., Sitch, S., Fisher, R., Lomas, M., Walker, A. P., Jones, C. D., Booth, B. B. B., Malhi, Y., Hemming, D., Kay, G., Good, P., Lewis, S. L., Phillips, O. L., Atkin, O. K., Lloyd, J., Gloor, E., Zaragoza-Castells, J., Meir, P., Betts, R., Harris, P. P., Nobre, C., Marengo, J., and Cox, P. M.: Simulated resilience of tropical rainforests to CO2-induced climate change, Nat. Geosci., 6, 268–273, https://doi.org/10.1038/ngeo1741, 2013.
Hutchinson, G. E.: Concluding remarks, Cold Spring Harbor Symposia on Quantitative Biology, 22, 415–427, 1957.
Igarashi, S., Yoshida, S., Kenzo, T., Sakai, S., Nagamasu, H., Hyodo, F., Tayasu, I., Mohamad, M., and Ichie, T.: No evidence of carbon storage usage for seed production in 18 dipterocarp masting species in a tropical rain forest, Oecologia, 204, 717–726, https://doi.org/10.1007/s00442-024-05527-w, 2024.
Iida, Y., Poorter, L., Sterck, F. J., Kassim, A. R., Kubo, T., Potts, M. D., and Kohyama, T. S.: Wood density explains architectural differentiation across 145 co-occurring tropical tree species, Funct. Ecol., 26, 274–282, https://doi.org/10.1111/j.1365-2435.2011.01921.x, 2012.
Ivanov, V. Y., Hutyra, L. R., Wofsy, S. C., Munger, J. W., Saleska, S. R., Oliveira, R. C. de, and Camargo, P. B. de: Root niche separation can explain avoidance of seasonal drought stress and vulnerability of overstory trees to extended drought in a mature Amazonian forest, Water Resour. Res., 48, W12507, https://doi.org/10.1029/2012WR011972, 2012.
Jackson, R. B., Canadell, J., Ehleringer, J. R., Mooney, H. A., Sala, O. E., and Schulze, E. D.: A global analysis of root distributions for terrestrial biomes, Oecologia, 108, 389–411, https://doi.org/10.1007/BF00333714, 1996.
Jackson, R. B., Moore, L. A., Hoffmann, W. A., Pockman, W. T., and Linder, C. R.: Ecosystem rooting depth determined with caves and DNA, P. Natl. Acad. Sci. USA, 96, 11387–11392, https://doi.org/10.1073/pnas.96.20.11387, 1999.
Jarvis, P. G. and McNaughton, K. G.: Stomatal Control of Transpiration: Scaling Up from Leaf to Region, Adv. Ecol. Res., 15, 1–49, https://doi.org/10.1016/S0065-2504(08)60119-1, 1986.
Joetzjer, E., Delire, C., Douville, H., Ciais, P., Decharme, B., Fisher, R., Christoffersen, B., Calvet, J. C., da Costa, A. C. L., Ferreira, L. V., and Meir, P.: Predicting the response of the Amazon rainforest to persistent drought conditions under current and future climates: a major challenge for global land surface models, Geosci. Model Dev., 7, 2933–2950, https://doi.org/10.5194/gmd-7-2933-2014, 2014.
Joetzjer, E., Maignan, F., Chave, J., Goll, D., Poulter, B., Barichivich, J., Maréchaux, I., Luyssaert, S., Guimberteau, M., Naudts, K., Bonal, D., and Ciais, P.: Effect of tree demography and flexible root water uptake for modeling the carbon and water cycles of Amazonia, Ecol. Modell., 469, 109969, https://doi.org/10.1016/j.ecolmodel.2022.109969, 2022.
Johnson, D. J., Condit, R., Hubbell, S. P., and Comita, L. S.: Abiotic niche partitioning and negative density dependence drive tree seedling survival in a tropical forest, Proc. R. Soc. B, 284, 20172210, https://doi.org/10.1098/rspb.2017.2210, 2017.
Johnson, M. O., Galbraith, D., Gloor, M., De Deurwaerder, H., Guimberteau, M., Rammig, A., Thonicke, K., Verbeeck, H., von Randow, C., Monteagudo, A., Phillips, O. L., Brienen, R. J. W., Feldpausch, T. R., Lopez Gonzalez, G., Fauset, S., Quesada, C. A., Christoffersen, B., Ciais, P., Sampaio, G., Kruijt, B., Meir, P., Moorcroft, P., Zhang, K., Alvarez-Davila, E., Alves de Oliveira, A., Amaral, I., Andrade, A., Aragao, L. E. O. C., Araujo-Murakami, A., Arets, E. J. M. M., Arroyo, L., Aymard, G. A., Baraloto, C., Barroso, J., Bonal, D., Boot, R., Camargo, J., Chave, J., Cogollo, A., Cornejo Valverde, F., Lola da Costa, A. C., Di Fiore, A., Ferreira, L., Higuchi, N., Honorio, E. N., Killeen, T. J., Laurance, S. G., Laurance, W. F., Licona, J., Lovejoy, T., Malhi, Y., Marimon, B., Marimon, B. H., Matos, D. C. L., Mendoza, C., Neill, D. A., Pardo, G., Peña-Claros, M., Pitman, N. C. A., Poorter, L., Prieto, A., Ramirez-Angulo, H., Roopsind, A., Rudas, A., Salomao, R. P., Silveira, M., Stropp, J., ter Steege, H., Terborgh, J., Thomas, R., Toledo, M., Torres-Lezama, A., van der Heijden, G. M. F., Vasquez, R., Guimarães Vieira, I. C., Vilanova, E., Vos, V. A., and Baker, T. R.: Variation in stem mortality rates determines patterns of above-ground biomass in Amazonian forests: implications for dynamic global vegetation models, Glob. Change Biol., 22, 3996–4013, https://doi.org/10.1111/gcb.13315, 2016.
Jones, H. G.: Plants and Microclimate: A Quantitative Approach to Environmental Plant Physiology, 3rd Edn., Cambridge University Press, Cambridge, https://doi.org/10.1017/CBO9780511845727, 2013.
Jourdan, M., Kunstler, G., and Morin, X.: How neighbourhood interactions control the temporal stability and resilience to drought of trees in mountain forests, J. Ecol., 108, 666–677, https://doi.org/10.1111/1365-2745.13294, 2020.
Journé, V., Barnagaud, J.-Y., Bernard, C., Crochet, P.-A., and Morin, X.: Correlative climatic niche models predict real and virtual species distributions equally well, Ecology, 101, e02912, https://doi.org/10.1002/ecy.2912, 2020.
Jucker, T., Hardwick, S. R., Both, S., Elias, D. M. O., Ewers, R. M., Milodowski, D. T., Swinfield, T., and Coomes, D. A.: Canopy structure and topography jointly constrain the microclimate of human-modified tropical landscapes, Glob. Change Biol., 24, 5243–5258, https://doi.org/10.1111/gcb.14415, 2018.
Kattge, J. and Knorr, W.: Temperature acclimation in a biochemical model of photosynthesis: a reanalysis of data from 36 species, Plant Cell Environ., 30, 1176–1190, https://doi.org/10.1111/j.1365-3040.2007.01690.x, 2007.
Kazmierczak, M., Wiegand, T., and Huth, A.: A neutral vs. non-neutral parametrizations of a physiological forest gap model, Ecol. Model., 288, 94–102, https://doi.org/10.1016/j.ecolmodel.2014.05.002, 2014.
Kearney, M. and Porter, W.: Mechanistic niche modelling: combining physiological and spatial data to predict species' ranges, Ecol. Lett., 12, 334–350, https://doi.org/10.1111/j.1461-0248.2008.01277.x, 2009.
Keenan, T., Sabate, S., and Gracia, C.: Soil water stress and coupled photosynthesis–conductance models: Bridging the gap between conflicting reports on the relative roles of stomatal, mesophyll conductance and biochemical limitations to photosynthesis, Agr. Forest Meteorol., 150, 443–453, https://doi.org/10.1016/j.agrformet.2010.01.008, 2010.
Kennedy, D., Swenson, S., Oleson, K. W., Lawrence, D. M., Fisher, R., Costa, A. C. L. da, and Gentine, P.: Implementing Plant Hydraulics in the Community Land Model, Version 5, J. Adv. Model. Earth Sy., 11, 485–513, https://doi.org/10.1029/2018MS001500, 2019.
Kenzo, T., Ichie, T., Hattori, D., Itioka, T., Handa, C., Ohkubo, T., Kendawang, J. J., Nakamura, M., Sakaguchi, M., Takahashi, N., Okamoto, M., Tanaka-Oda, A., Sakurai, K., and Ninomiya, I.: Development of allometric relationships for accurate estimation of above- and below-ground biomass in tropical secondary forests in Sarawak, Malaysia, J. Trop. Ecol., 25, 371–386, https://doi.org/10.1017/S0266467409006129, 2009.
Khan, S., Maréchaux, I., Vieilledent, G., Guitet, S., Brunaux, O., Ferry, B., Soulard, F., Stahl, C., Baraloto, C., Fortunel, C., and Freycon, V.: Regional Soil Profile Data Reveals the Predominant Role of Geomorphology and Geology in Accurately Deriving Digital Soil Texture Maps in a Tropical Area, SSRN [preprint], https://doi.org/10.2139/ssrn.4789279, 9 April 2024.
King, D. A., Davies, S. J., Tan, S., and Noor, N. S. Md.: The role of wood density and stem support costs in the growth and mortality of tropical trees, J. Ecol., 94, 670–680, https://doi.org/10.1111/j.1365-2745.2006.01112.x, 2006.
Kitajima, K., Mulkey, S., and Wright, S.: Decline of photosynthetic capacity with leaf age in relation to leaf longevities for five tropical canopy tree species, Am. J. Bot., 84, 702–702, 1997a.
Kitajima, K., Mulkey, S. S., and Wright, S. J.: Seasonal leaf phenotypes in the canopy of a tropical dry forest: photosynthetic characteristics and associated traits, Oecologia, 109, 490–498, https://doi.org/10.1007/s004420050109, 1997b.
Kitajima, K., Mulkey, S. S., Samaniego, M., and Wright, S. J.: Decline of photosynthetic capacity with leaf age and position in two tropical pioneer tree species, Am. J. Bot., 89, 1925–1932, https://doi.org/10.3732/ajb.89.12.1925, 2002.
Kitajima, K., Mulkey, S. S., and Wright, S. J.: Variation in crown light utilization characteristics among tropical canopy trees, Ann. Bot., 95, 535–547, https://doi.org/10.1093/aob/mci051, 2005.
Koch, A., Hubau, W., and Lewis, S. L.: Earth System Models Are Not Capturing Present-Day Tropical Forest Carbon Dynamics, Earth's Future, 9, e2020EF001874, https://doi.org/10.1029/2020EF001874, 2021.
Köhler, P. and Huth, A.: The effects of tree species grouping in tropical rainforest modelling: simulations with the individual-based model Formind, Ecol. Model., 109, 301–321, https://doi.org/10.1016/S0304-3800(98)00066-0, 1998.
Köhler, P., Ditzer, T., and Huth, A.: Concepts for the aggregation of tropical tree species into functional types and the application to Sabah's lowland rain forests, J. Trop. Ecol., 16, 591–602, https://doi.org/null, 2000.
König, L. A., Mohren, F., Schelhaas, M.-J., Bugmann, H., and Nabuurs, G.-J.: Tree regeneration in models of forest dynamics – Suitability to assess climate change impacts on European forests, Forest Ecol. Manage., 520, 120390, https://doi.org/10.1016/j.foreco.2022.120390, 2022.
Körner, C.: Paradigm shift in plant growth control, Curr. Opin. Plant Biol., 25, 107–114, https://doi.org/10.1016/j.pbi.2015.05.003, 2015.
Koven, C. D., Knox, R. G., Fisher, R. A., Chambers, J. Q., Christoffersen, B. O., Davies, S. J., Detto, M., Dietze, M. C., Faybishenko, B., Holm, J., Huang, M., Kovenock, M., Kueppers, L. M., Lemieux, G., Massoud, E., McDowell, N. G., Muller-Landau, H. C., Needham, J. F., Norby, R. J., Powell, T., Rogers, A., Serbin, S. P., Shuman, J. K., Swann, A. L. S., Varadharajan, C., Walker, A. P., Wright, S. J., and Xu, C.: Benchmarking and parameter sensitivity of physiological and vegetation dynamics using the Functionally Assembled Terrestrial Ecosystem Simulator (FATES) at Barro Colorado Island, Panama, Biogeosciences, 17, 3017–3044, https://doi.org/10.5194/bg-17-3017-2020, 2020.
Kraft, N. J. B., Metz, M. R., Condit, R. S., and Chave, J.: The relationship between wood density and mortality in a global tropical forest data set, New Phytol., 188, 1124–1136, https://doi.org/10.1111/j.1469-8137.2010.03444.x, 2010.
Krinner, G., Viovy, N., de Noblet-Ducoudré, N., Ogée, J., Polcher, J., Friedlingstein, P., Ciais, P., Sitch, S., and Prentice, I. C.: A dynamic global vegetation model for studies of the coupled atmosphere-biosphere system, Global Biogeochem. Cy., 19, GB1015, https://doi.org/10.1029/2003GB002199, 2005.
Kume, A., Nasahara, K. N., Nagai, S., and Muraoka, H.: The ratio of transmitted near-infrared radiation to photosynthetically active radiation (PAR) increases in proportion to the adsorbed PAR in the canopy, J. Plant Res., 124, 99–106, https://doi.org/10.1007/s10265-010-0346-1, 2011.
Kupers, S. J., Engelbrecht, B. M. J., Hernández, A., Wright, S. J., Wirth, C., and Rüger, N.: Growth responses to soil water potential indirectly shape local species distributions of tropical forest seedlings, J. Ecol., 107, 860–874, https://doi.org/10.1111/1365-2745.13096, 2019.
Kursar, T. A., Engelbrecht, B. M. J., Burke, A., Tyree, M. T., EI Omari, B., and Giraldo, J. P.: Tolerance to low leaf water status of tropical tree seedlings is related to drought performance and distribution, Funct. Ecol., 23, 93–102, https://doi.org/10.1111/j.1365-2435.2008.01483.x, 2009.
Lagarrigues, G., Jabot, F., Lafond, V., and Courbaud, B.: Approximate Bayesian computation to recalibrate individual-based models with population data: illustration with a forest simulation model, Ecol. Model., 306, 278–286, https://doi.org/10.1016/j.ecolmodel.2014.09.023, 2015.
Laio, F., Porporato, A., Ridolfi, L., and Rodriguez-Iturbe, I.: Plants in water-controlled ecosystems: active role in hydrologic processes and response to water stress: II. Probabilistic soil moisture dynamics, Adv. Water Resour., 24, 707–723, https://doi.org/10.1016/S0309-1708(01)00005-7, 2001.
Lamour, J., Davidson, K. J., Ely, K. S., Le Moguédec, G., Leakey, A. D. B., Li, Q., Serbin, S. P., and Rogers, A.: An improved representation of the relationship between photosynthesis and stomatal conductance leads to more stable estimation of conductance parameters and improves the goodness-of-fit across diverse data sets, Glob. Change Biol., 28, 3537–3556, https://doi.org/10.1111/gcb.16103, 2022.
Lamour, J., Souza, D. C., Gimenez, B. O., Higuchi, N., Chave, J., Chambers, J., and Rogers, A.: Wood-density has no effect on stomatal control of leaf-level water use efficiency in an Amazonian forest, Plant Cell Environ., 46, 3806–3821, https://doi.org/10.1111/pce.14704, 2023.
Lamour, J., Davidson, K. J., Ely, K. S., Le Moguédec, G., Anderson, J. A., Li, Q., Calderón, O., Koven, C. D., Wright, S. J., Walker, A. P., Serbin, S. P., and Rogers, A.: The effect of the vertical gradients of photosynthetic parameters on the CO assimilation and transpiration of a Panamanian tropical forest, New Phytol., 238, 2345–2362, https://doi.org/10.1111/nph.18901, 2023a.
Lapola, D. M., Pinho, P., Barlow, J., Aragão, L. E. O. C., Berenguer, E., Carmenta, R., Liddy, H. M., Seixas, H., Silva, C. V. J., Silva-Junior, C. H. L., Alencar, A. A. C., Anderson, L. O., Armenteras, D., Brovkin, V., Calders, K., Chambers, J., Chini, L., Costa, M. H., Faria, B. L., Fearnside, P. M., Ferreira, J., Gatti, L., Gutierrez-Velez, V. H., Han, Z., Hibbard, K., Koven, C., Lawrence, P., Pongratz, J., Portela, B. T. T., Rounsevell, M., Ruane, A. C., Schaldach, R., da Silva, S. S., von Randow, C., and Walker, W. S.: The drivers and impacts of Amazon forest degradation, Science, 379, eabp8622, https://doi.org/10.1126/science.abp8622, 2023b.
Laurans, M., Munoz, F., Charles-Dominique, T., Heuret, P., Fortunel, C., Isnard, S., Sabatier, S.-A., Caraglio, Y., and Violle, C.: Why incorporate plant architecture into trait-based ecology?, Trend. Ecol. Evol., 39, 524–536, https://doi.org/10.1016/j.tree.2023.11.011, 2024.
LeBauer, D. S., Wang, D., Richter, K. T., Davidson, C. C., and Dietze, M. C.: Facilitating feedbacks between field measurements and ecosystem models, Ecol. Monogr., 83, 133–154, https://doi.org/10.1890/12-0137.1, 2013.
Ledo, A., Paul, K. I., Burslem, D. F. R. P., Ewel, J. J., Barton, C., Battaglia, M., Brooksbank, K., Carter, J., Eid, T. H., England, J. R., Fitzgerald, A., Jonson, J., Mencuccini, M., Montagu, K. D., Montero, G., Mugasha, W. A., Pinkard, E., Roxburgh, S., Ryan, C. M., Ruiz-Peinado, R., Sochacki, S., Specht, A., Wildy, D., Wirth, C., Zerihun, A., and Chave, J.: Tree size and climatic water deficit control root to shoot ratio in individual trees globally, New Phytol., 217, 8–11, https://doi.org/10.1111/nph.14863, 2018.
Leitold, V., Morton, D. C., Longo, M., dos-Santos, M. N., Keller, M., and Scaranello, M.: El Niño drought increased canopy turnover in Amazon forests, New Phytol., 219, 959–971, https://doi.org/10.1111/nph.15110, 2018.
Lenz, T. I., Wright, I. J., and Westoby, M.: Interrelations among pressure–volume curve traits across species and water availability gradients, Physiol. Plant., 127, 423–433, https://doi.org/10.1111/j.1399-3054.2006.00680.x, 2006.
Leuning, R., Kelliher, F. M., Pury, D. G. G., and Schulze, E. -d: Leaf nitrogen, photosynthesis, conductance and transpiration: scaling from leaves to canopies, Plant Cell Environ., 18, 1183–1200, https://doi.org/10.1111/j.1365-3040.1995.tb00628.x, 1995.
Leuning, R.: A critical appraisal of a combined stomatal-photosynthesis model for C3 plants, Plant Cell Environ., 18, 339–355, https://doi.org/10.1111/j.1365-3040.1995.tb00370.x, 1995.
Liang, J. and Picard, N.: Matrix Model of Forest Dynamics: An Overview and Outlook, Forest Sci., 59, 359–378, https://doi.org/10.5849/forsci.11-123, 2013.
Liang, X., Lettenmaier, D. P., Wood, E. F., and Burges, S. J.: A simple hydrologically based model of land surface water and energy fluxes for general circulation models, J. Geophys. Res., 99, 14415–14428, https://doi.org/10.1029/94JD00483, 1994.
Lin, Y.-S., Medlyn, B. E., Duursma, R. A., Prentice, I. C., Wang, H., Baig, S., Eamus, D., de Dios, V. R., Mitchell, P., Ellsworth, D. S., de Beeck, M. O., Wallin, G., Uddling, J., Tarvainen, L., Linderson, M.-L., Cernusak, L. A., Nippert, J. B., Ocheltree, T. W., Tissue, D. T., Martin-StPaul, N. K., Rogers, A., Warren, J. M., De Angelis, P., Hikosaka, K., Han, Q., Onoda, Y., Gimeno, T. E., Barton, C. V. M., Bennie, J., Bonal, D., Bosc, A., Löw, M., Macinins-Ng, C., Rey, A., Rowland, L., Setterfield, S. A., Tausz-Posch, S., Zaragoza-Castells, J., Broadmeadow, M. S. J., Drake, J. E., Freeman, M., Ghannoum, O., Hutley, L. B., Kelly, J. W., Kikuzawa, K., Kolari, P., Koyama, K., Limousin, J.-M., Meir, P., Lola da Costa, A. C., Mikkelsen, T. N., Salinas, N., Sun, W., and Wingate, L.: Optimal stomatal behaviour around the world, Nat. Clim. Change, 5, 459–464, https://doi.org/10.1038/nclimate2550, 2015.
Liu, Y., Parolari, A. J., Kumar, M., Huang, C.-W., Katul, G. G., and Porporato, A.: Increasing atmospheric humidity and CO2 concentration alleviate forest mortality risk, P. Natl. Acad. Sci. USA, 114, 9918–9923, https://doi.org/10.1073/pnas.1704811114, 2017.
Lloyd, J., Patiño, S., Paiva, R. Q., Nardoto, G. B., Quesada, C. A., Santos, A. J. B., Baker, T. R., Brand, W. A., Hilke, I., Gielmann, H., Raessler, M., Luizão, F. J., Martinelli, L. A., and Mercado, L. M.: Optimisation of photosynthetic carbon gain and within-canopy gradients of associated foliar traits for Amazon forest trees, Biogeosciences, 7, 1833–1859, https://doi.org/10.5194/bg-7-1833-2010, 2010.
Long, S. P., Postl, W. F., and Bolhár-Nordenkampf, H. R.: Quantum yields for uptake of carbon dioxide in C3 vascular plants of contrasting habitats and taxonomic groupings, Planta, 189, 226–234, https://doi.org/10.1007/BF00195081, 1993.
Longo, M., Knox, R. G., Levine, N. M., Alves, L. F., Bonal, D., Camargo, P. B., Fitzjarrald, D. R., Hayek, M. N., Restrepo-Coupe, N., Saleska, S. R., Silva, R. da, Stark, S. C., Tapajós, R. P., Wiedemann, K. T., Zhang, K., Wofsy, S. C., and Moorcroft, P. R.: Ecosystem heterogeneity and diversity mitigate Amazon forest resilience to frequent extreme droughts, New Phytol., 914–931, https://doi.org/10.1111/nph.15185@10.1111/(ISSN)1469-8137.DroughtImpactsonTropicalForests, 2018.
Longo, M., Knox, R. G., Medvigy, D. M., Levine, N. M., Dietze, M. C., Kim, Y., Swann, A. L. S., Zhang, K., Rollinson, C. R., Bras, R. L., Wofsy, S. C., and Moorcroft, P. R.: The biophysics, ecology, and biogeochemistry of functionally diverse, vertically and horizontally heterogeneous ecosystems: the Ecosystem Demography model, version 2.2 – Part 1: Model description, Geosci. Model Dev., 12, 4309–4346, https://doi.org/10.5194/gmd-12-4309-2019, 2019.
Loubry, D.: La phénologie des arbres caducifoliés en forêt guyanaise (5° de latitude nord): illustration d'un déterminisme à composantes endogène et exogène, Can. J. Bot., 72, 1843–1857, https://doi.org/10.1139/b94-226, 1994.
Maclean, I. M. D. and Klinges, D. H.: Microclimc: A mechanistic model of above, below and within-canopy microclimate, Ecol. Model., 451, 109567, https://doi.org/10.1016/j.ecolmodel.2021.109567, 2021.
Mahnken, M., Cailleret, M., Collalti, A., Trotta, C., Biondo, C., D'Andrea, E., Dalmonech, D., Marano, G., Mäkelä, A., Minunno, F., Peltoniemi, M., Trotsiuk, V., Nadal-Sala, D., Sabaté, S., Vallet, P., Aussenac, R., Cameron, D. R., Bohn, F. J., Grote, R., Augustynczik, A. L. D., Yousefpour, R., Huber, N., Bugmann, H., Merganičová, K., Merganic, J., Valent, P., Lasch-Born, P., Hartig, F., Vega del Valle, I. D., Volkholz, J., Gutsch, M., Matteucci, G., Krejza, J., Ibrom, A., Meesenburg, H., Rötzer, T., van der Maaten-Theunissen, M., van der Maaten, E., and Reyer, C. P. O.: Accuracy, realism and general applicability of European forest models, Glob. Change Biol., 28, 6921–6943, https://doi.org/10.1111/gcb.16384, 2022.
Malhi, Y.: The productivity, metabolism and carbon cycle of tropical forest vegetation, J. Ecol., 100, 65–75, https://doi.org/10.1111/j.1365-2745.2011.01916.x, 2012.
Malhi, Y., Doughty, C., and Galbraith, D.: The allocation of ecosystem net primary productivity in tropical forests, Philos. T. Roy. Soc. Lond. B, 366, 3225–3245, https://doi.org/10.1098/rstb.2011.0062, 2011.
Manabe, S.: Climate and the ocean circulation: I. The atmospheric circulation and the hydrology of the earth's surface, Mon. Weather Rev., 97, 739–774, https://doi.org/10.1175/1520-0493(1969)097<0739:CATOC>2.3.CO;2, 1969.
Manoli, G., Ivanov, V. Y., and Fatichi, S.: Dry-Season Greening and Water Stress in Amazonia: The Role of Modeling Leaf Phenology, J. Geophys. Res.-Biogeo., 123, 1909–1926, https://doi.org/10.1029/2017JG004282, 2018.
Manzoni, S.: Integrating plant hydraulics and gas exchange along the drought-response trait spectrum, Tree Physiol., 34, 1031–1034, https://doi.org/10.1093/treephys/tpu088, 2014.
Manzoni, S., Vico, G., Katul, G., Fay, P. A., Polley, W., Palmroth, S., and Porporato, A.: Optimizing stomatal conductance for maximum carbon gain under water stress: a meta-analysis across plant functional types and climates, Funct. Ecol., 25, 456–467, https://doi.org/10.1111/j.1365-2435.2010.01822.x, 2011.
Maréchaux, I. and Chave, J.: An individual-based forest model to jointly simulate carbon and tree diversity in Amazonia: description and applications, Ecol. Monogr., 87, 632–664, https://doi.org/10.1002/ecm.1271, 2017.
Maréchaux, I., Bartlett, M. K., Sack, L., Baraloto, C., Engel, J., Joetzjer, E., and Chave, J.: Drought tolerance as predicted by leaf water potential at turgor loss point varies strongly across species within an Amazonian forest, Funct. Ecol., 29, 1268–1277, https://doi.org/10.1111/1365-2435.12452, 2015.
Maréchaux, I., Bartlett, M. K., Gaucher, P., Sack, L., and Chave, J.: Causes of variation in leaf-level drought tolerance within an Amazonian forest, J. Plant Hydraul., 3, e004, https://doi.org/10.20870/jph.2016.e004, 2016.
Maréchaux, I., Bonal, D., Bartlett, M. K., Burban, B., Coste, S., Courtois, E. A., Dulormne, M., Goret, J.-Y., Mira, E., Mirabel, A., Sack, L., Stahl, C., and Chave, J.: Dry-season decline in tree sapflux is correlated with leaf turgor loss point in a tropical rainforest, Funct. Ecol., 32, 2285–2297, https://doi.org/10.1111/1365-2435.13188, 2018.
Maréchaux, I., Saint-André, L., Bartlett, M. K., Sack, L., and Chave, J.: Leaf drought tolerance cannot be inferred from classic leaf traits in a tropical rainforest, J. Ecol., 108, 1030–1045, https://doi.org/10.1111/1365-2745.13321, 2020.
Maréchaux, I., Langerwisch, F., Huth, A., Bugmann, H., Morin, X., Reyer, C. P. O., Seidl, R., Collalti, A., Paula, M. D. de, Fischer, R., Gutsch, M., Lexer, M. J., Lischke, H., Rammig, A., Rödig, E., Sakschewski, B., Taubert, F., Thonicke, K., Vacchiano, G., and Bohn, F. J.: Tackling unresolved questions in forest ecology: The past and future role of simulation models, Ecol. Evol., 11, 3746–3770, https://doi.org/10.1002/ece3.7391, 2021.
Maréchaux, I., Fischer, F. J., Schmitt, S., and Chave, J.: TROLL-code/TROLL: GMD preprint (4.0.0-GMD), Zenodo [code], https://doi.org/10.5281/zenodo.14013147, 2024.
Marthews, T. R., Malhi, Y., and Iwata, H.: Calculating downward longwave radiation under clear and cloudy conditions over a tropical lowland forest site: an evaluation of model schemes for hourly data, Theor. Appl. Climatol., 107, 461–477, https://doi.org/10.1007/s00704-011-0486-9, 2012.
Marthews, T. R., Quesada, C. A., Galbraith, D. R., Malhi, Y., Mullins, C. E., Hodnett, M. G., and Dharssi, I.: High-resolution hydraulic parameter maps for surface soils in tropical South America, Geosci. Model Dev., 7, 711–723, https://doi.org/10.5194/gmd-7-711-2014, 2014.
Martínez-Vilalta, J., Sala, A., Asensio, D., Galiano, L., Hoch, G., Palacio, S., Piper, F. I., and Lloret, F.: Dynamics of non-structural carbohydrates in terrestrial plants: a global synthesis, Ecol. Monogr., 86, 495–516, https://doi.org/10.1002/ecm.1231, 2016.
Martin-StPaul, N., Delzon, S., and Cochard, H.: Plant resistance to drought depends on timely stomatal closure, Ecol. Lett., 20, 1437–1447, https://doi.org/10.1111/ele.12851, 2017.
Massman, W. J.: A review of the molecular diffusivities of H2O, CO2, CH4, CO, O3, SO2, NH3, N2O, NO, and NO2 in air, O2 and N2 near STP, Atmos. Environ., 32, 1111–1127, https://doi.org/10.1016/S1352-2310(97)00391-9, 1998.
McDowell, N. G., Sapes, G., Pivovaroff, A., Adams, H. D., Allen, C. D., Anderegg, W. R. L., Arend, M., Breshears, D. D., Brodribb, T., Choat, B., Cochard, H., De Cáceres, M., De Kauwe, M. G., Grossiord, C., Hammond, W. M., Hartmann, H., Hoch, G., Kahmen, A., Klein, T., Mackay, D. S., Mantova, M., Martínez-Vilalta, J., Medlyn, B. E., Mencuccini, M., Nardini, A., Oliveira, R. S., Sala, A., Tissue, D. T., Torres-Ruiz, J. M., Trowbridge, A. M., Trugman, A. T., Wiley, E., and Xu, C.: Mechanisms of woody-plant mortality under rising drought, CO2 and vapour pressure deficit, Nat. Rev. Earth Environ., 3, 294–308, https://doi.org/10.1038/s43017-022-00272-1, 2022.
McMahon, S. M., Harrison, S. P., Armbruster, W. S., Bartlein, P. J., Beale, C. M., Edwards, M. E., Kattge, J., Midgley, G., Morin, X., and Prentice, I. C.: Improving assessment and modelling of climate change impacts on global terrestrial biodiversity, Trend. Ecol. Evol., 26, 249–259, https://doi.org/10.1016/j.tree.2011.02.012, 2011.
Medlyn, B. E., Robinson, A. P., Clement, R., and McMurtrie, R. E.: On the validation of models of forest CO2 exchange using eddy covariance data: some perils and pitfalls, Tree Physiol., 25, 839–857, https://doi.org/10.1093/treephys/25.7.839, 2005.
Medlyn, B. E., Pepper, D. A., O'Grady, A. P., and Keith, H.: Linking leaf and tree water use with an individual-tree model, Tree Physiol., 27, 1687–1699, https://doi.org/10.1093/treephys/27.12.1687, 2007.
Medlyn, B. E., Duursma, R. A., Eamus, D., Ellsworth, D. S., Prentice, I. C., Barton, C. V. M., Crous, K. Y., De Angelis, P., Freeman, M., and Wingate, L.: Reconciling the optimal and empirical approaches to modelling stomatal conductance, Glob. Change Biol., 17, 2134–2144, https://doi.org/10.1111/j.1365-2486.2010.02375.x, 2011.
Medlyn, B. E., Zaehle, S., De Kauwe, M. G., Walker, A. P., Dietze, M. C., Hanson, P. J., Hickler, T., Jain, A. K., Luo, Y., Parton, W., Prentice, I. C., Thornton, P. E., Wang, S., Wang, Y.-P., Weng, E., Iversen, C. M., McCarthy, H. R., Warren, J. M., Oren, R., and Norby, R. J.: Using ecosystem experiments to improve vegetation models, Nat. Clim. Change, 5, 528–534, https://doi.org/10.1038/nclimate2621, 2015.
Medlyn, B. E., De Kauwe, M. G., Zaehle, S., Walker, A. P., Duursma, R. A., Luus, K., Mishurov, M., Pak, B., Smith, B., Wang, Y.-P., Yang, X., Crous, K. Y., Drake, J. E., Gimeno, T. E., Macdonald, C. A., Norby, R. J., Power, S. A., Tjoelker, M. G., and Ellsworth, D. S.: Using models to guide field experiments: a priori predictions for the CO2 response of a nutrient- and water-limited native Eucalypt woodland, Glob. Change Biol., 22, 2834–2851, https://doi.org/10.1111/gcb.13268, 2016.
Medvigy, D., Wofsy, S. C., Munger, J. W., Hollinger, D. Y., and Moorcroft, P. R.: Mechanistic scaling of ecosystem function and dynamics in space and time: Ecosystem Demography model version 2, J. Geophys. Res., 114, G01002, https://doi.org/10.1029/2008JG000812, 2009.
Meinzer, F. C., Andrade, J. L., Goldstein, G., Holbrook, N. M., Cavelier, J., and Jackson, P.: Control of transpiration from the upper canopy of a tropical forest: the role of stomatal, boundary layer and hydraulic architecture components, Plant Cell Environ., 20, 1242–1252, https://doi.org/10.1046/j.1365-3040.1997.d01-26.x, 1997.
Meinzer, F. C., Woodruff, D. R., Marias, D. E., Smith, D. D., McCulloh, K. A., Howard, A. R., and Magedman, A. L.: Mapping “hydroscapes” along the iso- to anisohydric continuum of stomatal regulation of plant water status, Ecol. Lett., 19, 1343–1352, https://doi.org/10.1111/ele.12670, 2016.
Meir, P. and Grace, J.: Scaling relationships for woody tissue respiration in two tropical rain forests, Plant Cell Environ., 25, 963–973, https://doi.org/10.1046/j.1365-3040.2002.00877.x, 2002.
Meir, P., Grace, J., and Miranda, A. C.: Leaf respiration in two tropical rainforests: constraints on physiology by phosphorus, nitrogen and temperature, Funct. Ecol., 15, 378–387, https://doi.org/10.1046/j.1365-2435.2001.00534.x, 2001.
Meir, P., Cox, P., and Grace, J.: The influence of terrestrial ecosystems on climate, Trend. Ecol. Evol., 21, 254–260, https://doi.org/10.1016/j.tree.2006.03.005, 2006.
Mencuccini, M., Martínez-Vilalta, J., Vanderklein, D., Hamid, H. A., Korakaki, E., Lee, S., and Michiels, B.: Size-mediated ageing reduces vigour in trees, Ecol. Lett., 8, 1183–1190, https://doi.org/10.1111/j.1461-0248.2005.00819.x, 2005.
Menezes, J., Garcia, S., Grandis, A., Nascimento, H., Domingues, T. F., Guedes, A. V., Aleixo, I., Camargo, P., Campos, J., Damasceno, A., Dias-Silva, R., Fleischer, K., Kruijt, B., Cordeiro, A. L., Martins, N. P., Meir, P., Norby, R. J., Pereira, I., Portela, B., Rammig, A., Ribeiro, A. G., Lapola, D. M., and Quesada, C. A.: Changes in leaf functional traits with leaf age: when do leaves decrease their photosynthetic capacity in Amazonian trees?, Tree Physiol., 42, 922–938, https://doi.org/10.1093/treephys/tpab042, 2021.
Mercado, L. M., Lloyd, J., Dolman, A. J., Sitch, S., and Patiño, S.: Modelling basin-wide variations in Amazon forest productivity – Part 1: Model calibration, evaluation and upscaling functions for canopy photosynthesis, Biogeosciences, 6, 1247–1272, https://doi.org/10.5194/bg-6-1247-2009, 2009.
Mercado, L. M., Patiño, S., Domingues, T. F., Fyllas, N. M., Weedon, G. P., Sitch, S., Quesada, C. A., Phillips, O. L., Aragão, L. E. O. C., Malhi, Y., Dolman, A. J., Restrepo-Coupe, N., Saleska, S. R., Baker, T. R., Almeida, S., Higuchi, N., and Lloyd, J.: Variations in Amazon forest productivity correlated with foliar nutrients and modelled rates of photosynthetic carbon supply, Phil. Trans. R. Soc. B, 366, 3316–3329, https://doi.org/10.1098/rstb.2011.0045, 2011.
Merganičová, K., Merganič, J., Lehtonen, A., Vacchiano, G., Zorana, M., Ostrogović, S., Augustynczik, A. L. D., Grote, R., Kyselová, I., Mäkelä, A., Yousefpour, R., Krejza, J., Collalti, A., and Reyer, C.: Forest carbon allocation modelling under climate change, Tree Physiol., 39, 1937–1960, https://doi.org/10.1093/treephys/tpz105, 2019.
Merlin, O., Stefan, V. G., Amazirh, A., Chanzy, A., Ceschia, E., Er-Raki, S., Gentine, P., Tallec, T., Ezzahar, J., Bircher, S., Beringer, J., and Khabba, S.: Modeling soil evaporation efficiency in a range of soil and atmospheric conditions using a meta-analysis approach, Water Resour. Res., 52, 3663–3684, https://doi.org/10.1002/2015WR018233, 2016.
Metcalfe, D. B., Meir, P., Aragão, L. E. O. C., Costa, A. C. L. da, Braga, A. P., Gonçalves, P. H. L., Junior, J. de A. S., Almeida, S. S. de, Dawson, L. A., Malhi, Y., and Williams, M.: The effects of water availability on root growth and morphology in an Amazon rainforest, Plant Soil, 311, 189–199, https://doi.org/10.1007/s11104-008-9670-9, 2008.
Mokany, K., Ferrier, S., Connolly, S. R., Dunstan, P. K., Fulton, E. A., Harfoot, M. B., Harwood, T. D., Richardson, A. J., Roxburgh, S. H., Scharlemann, J. P. W., Tittensor, D. P., Westcott, D. A., and Wintle, B. A.: Integrating modelling of biodiversity composition and ecosystem function, Oikos, 125, 10–19, https://doi.org/10.1111/oik.02792, 2016.
Moles, A. T. and Westoby, M.: Seed size and plant strategy across the whole life cycle, Oikos, 113, 91–105, https://doi.org/10.1111/j.0030-1299.2006.14194.x, 2006.
Moles, A. T., Falster, D. S., Leishman, M. R., and Westoby, M.: Small-seeded species produce more seeds per square metre of canopy per year, but not per individual per lifetime, J. Ecol., 92, 384–396, https://doi.org/10.1111/j.0022-0477.2004.00880.x, 2004.
Moorcroft, P. R.: Recent advances in ecosystem-atmosphere interactions: an ecological perspective, Proc. Roy. Soc. Lond. B, 270, 1215–1227, https://doi.org/10.1098/rspb.2002.2251, 2003.
Moorcroft, P. R.: How close are we to a predictive science of the biosphere?, Trend. Ecol. Evol., 21, 400–407, https://doi.org/10.1016/j.tree.2006.04.009, 2006.
Moorcroft, P. R., Hurtt, G. C., and Pacala, S. W.: A method for scaling vegetation dynamics: the ecosystem demography model, Ecol. Monogr., 71, 557–586, https://doi.org/10.1890/0012-9615(2001)071[0557:AMFSVD]2.0.CO;2, 2001.
Morin, X. and Lechowicz, M. J.: Contemporary perspectives on the niche that can improve models of species range shifts under climate change, Biol. Lett., 4, 573–576, https://doi.org/10.1098/rsbl.2008.0181, 2008.
Morin, X. and Thuiller, W.: Comparing niche-and process-based models to reduce prediction uncertainty in species range shifts under climate change, Ecology, 90, 1301–1313, 2009.
Mualem, Y.: A new model for predicting the hydraulic conductivity of unsaturated porous media, Water Resour. Res., 12, 513–522, https://doi.org/10.1029/WR012i003p00513, 1976.
Muir, C. D.: Making pore choices: repeated regime shifts in stomatal ratio, Proc. Roy. Soc. B, 282, 20151498, https://doi.org/10.1098/rspb.2015.1498, 2015.
Muller, B., Pantin, F., Génard, M., Turc, O., Freixes, S., Piques, M., and Gibon, Y.: Water deficits uncouple growth from photosynthesis, increase C content, and modify the relationships between C and growth in sink organs, J. Exp. Bot., 62, 1715–1729, https://doi.org/10.1093/jxb/erq438, 2011.
Muller-Landau, H. C., Wright, S. J., Calderón, O., Condit, R., and Hubbell, S. P.: Interspecific variation in primary seed dispersal in a tropical forest, J. Ecol., 96, 653–667, https://doi.org/10.1111/j.1365-2745.2008.01399.x, 2008.
Muñoz-Sabater, J., Dutra, E., Agustí-Panareda, A., Albergel, C., Arduini, G., Balsamo, G., Boussetta, S., Choulga, M., Harrigan, S., Hersbach, H., Martens, B., Miralles, D. G., Piles, M., Rodríguez-Fernández, N. J., Zsoter, E., Buontempo, C., and Thépaut, J.-N.: ERA5-Land: a state-of-the-art global reanalysis dataset for land applications, Earth Syst. Sci. Data, 13, 4349–4383, https://doi.org/10.5194/essd-13-4349-2021, 2021.
Naudts, K., Ryder, J., McGrath, M. J., Otto, J., Chen, Y., Valade, A., Bellasen, V., Berhongaray, G., Bönisch, G., Campioli, M., Ghattas, J., De Groote, T., Haverd, V., Kattge, J., MacBean, N., Maignan, F., Merilä, P., Penuelas, J., Peylin, P., Pinty, B., Pretzsch, H., Schulze, E. D., Solyga, D., Vuichard, N., Yan, Y., and Luyssaert, S.: A vertically discretised canopy description for ORCHIDEE (SVN r2290) and the modifications to the energy, water and carbon fluxes, Geosci. Model Dev., 8, 2035–2065, https://doi.org/10.5194/gmd-8-2035-2015, 2015.
Nemetschek, D., Derroire, G., Marcon, E., Aubry-Kientz, M., Auer, J., Badouard, V., Baraloto, C., Bauman, D., Le Blaye, Q., Boisseaux, M., Bonal, D., Coste, S., Dardevet, E., Heuret, P., Hietz, P., Levionnois, S., Maréchaux, I., McMahon, S. M., Stahl, C., Vleminckx, J., Wanek, W., Ziegler, C., and Fortunel, C.: Climate anomalies and neighbourhood crowding interact in shaping tree growth in old-growth and selectively logged tropical forests, J. Ecol., 112, 590–612, https://doi.org/10.1111/1365-2745.14256, 2024.
Nemetschek, D., Fortunel, C., Marcon, E., Auer, J., Badouard, V., Baraloto, C., Boisseaux, M., Bonal, D., Coste, S., Dardevet, E., Heuret, P., Hietz, P., Levionnois, S., Maréchaux, I., Stahl, C., Vleminckx, J., Wanek, W., Ziegler, C., and Derroire, G.: Love Thy Neighbour? Tropical Tree Growth and Its Response to Climate Anomalies Is Mediated by Neighbourhood Hierarchy and Dissimilarity in Carbon- and Water-Related Traits, Ecol. Lett., 28, e70028, https://doi.org/10.1111/ele.70028, 2025.
Nepstad, D. C., de Carvalho, C. R., Davidson, E. A., Jipp, P. H., Lefebvre, P. A., Negreiros, G. H., da Silva, E. D., Stone, T. A., Trumbore, S. E., and Vieira, S.: The role of deep roots in the hydrological and carbon cycles of Amazonian forests and pastures, Nature, 372, 666–669, https://doi.org/10.1038/372666a0, 1994.
Newman, E. I.: Resistance to Water Flow in Soil and Plant. I. Soil Resistance in Relation to Amounts of Root: Theoretical Estimates, J. Appl. Ecol., 6, 1–12, https://doi.org/10.2307/2401297, 1969.
Nicolini, E., Beauchêne, J., de la Vallée, B. L., Ruelle, J., Mangenet, T., and Heuret, P.: Dating branch growth units in a tropical tree using morphological and anatomical markers: the case of Parkia velutina Benoist (Mimosoïdeae), Ann. Forest Sci., 69, 543–555, https://doi.org/10.1007/s13595-011-0172-1, 2012.
Norby, R. J., De Kauwe, M. G., Domingues, T. F., Duursma, R. A., Ellsworth, D. S., Goll, D. S., Lapola, D. M., Luus, K. A., MacKenzie, A. R., Medlyn, B. E., Pavlick, R., Rammig, A., Smith, B., Thomas, R., Thonicke, K., Walker, A. P., Yang, X., and Zaehle, S.: Model–data synthesis for the next generation of forest free-air CO2 enrichment (FACE) experiments, New Phytol., 209, 17–28, https://doi.org/10.1111/nph.13593, 2016.
Norden, N., Chave, J., Belbenoit, P., Caubère, A., Châtelet, P., Forget, P.-M., and Thébaud, C.: Mast fruiting is a frequent strategy in woody species of eastern South America, PLOS ONE, 2, e1079, https://doi.org/10.1371/journal.pone.0001079, 2007.
Novick, K. A., Ficklin, D. L., Stoy, P. C., Williams, C. A., Bohrer, G., Oishi, A. C., Papuga, S. A., Blanken, P. D., Noormets, A., Sulman, B. N., Scott, R. L., Wang, L., and Phillips, R. P.: The increasing importance of atmospheric demand for ecosystem water and carbon fluxes, Nat. Clim. Change, 6, 1023–1027, https://doi.org/10.1038/nclimate3114, 2016.
Novick, K. A., Ficklin, D. L., Baldocchi, D., Davis, K. J., Ghezzehei, T. A., Konings, A. G., MacBean, N., Raoult, N., Scott, R. L., Shi, Y., Sulman, B. N., and Wood, J. D.: Confronting the water potential information gap, Nat. Geosci., 15, 158–164, https://doi.org/10.1038/s41561-022-00909-2, 2022.
Nunes, M. H., Camargo, J. L. C., Vincent, G., Calders, K., Oliveira, R. S., Huete, A., Mendes de Moura, Y., Nelson, B., Smith, M. N., Stark, S. C., and Maeda, E. E.: Forest fragmentation impacts the seasonality of Amazonian evergreen canopies, Nat. Commun., 13, 917, https://doi.org/10.1038/s41467-022-28490-7, 2022.
Ogée, J., Brunet, Y., Loustau, D., Berbigier, P., and Delzon, S.: MuSICA, a CO2, water and energy multilayer, multileaf pine forest model: evaluation from hourly to yearly time scales and sensitivity analysis, Glob. Change Biol., 9, 697–717, https://doi.org/10.1046/j.1365-2486.2003.00628.x, 2003.
Oleson, K. W., Niu, G.-Y., Yang, Z.-L., Lawrence, D. M., Thornton, P. E., Lawrence, P. J., Stöckli, R., Dickinson, R. E., Bonan, G. B., Levis, S., Dai, A., and Qian, T.: Improvements to the Community Land Model and their impact on the hydrological cycle, J. Geophys. Res., 113, G01021, https://doi.org/10.1029/2007JG000563, 2008.
Oliveira, R. S., Dawson, T. E., Burgess, S. S. O., and Nepstad, D. C.: Hydraulic redistribution in three Amazonian trees, Oecologia, 145, 354–363, https://doi.org/10.1007/s00442-005-0108-2, 2005.
Pacala, S. W. and Rees, M.: Models Suggesting Field Experiments to Test Two Hypotheses Explaining Successional Diversity, Am. Natural., 152, 729–737, https://doi.org/10.1086/286203, 1998.
Paine, C. E. T., Deasey, A., and Duthie, A. B.: Towards the general mechanistic prediction of community dynamics, Funct. Ecol., 32, 1681–1692, https://doi.org/10.1111/1365-2435.13096, 2018.
Pan, Y., Birdsey, R. A., Fang, J., Houghton, R., Kauppi, P. E., Kurz, W. A., Phillips, O. L., Shvidenko, A., Lewis, S. L., Canadell, J. G., Ciais, P., Jackson, R. B., Pacala, S. W., McGuire, A. D., Piao, S., Rautiainen, A., Sitch, S., and Hayes, D.: A Large and Persistent Carbon Sink in the World's Forests, Science, 333, 988–993, https://doi.org/10.1126/science.1201609, 2011.
Pantin, F., Simonneau, T., and Muller, B.: Coming of leaf age: control of growth by hydraulics and metabolics during leaf ontogeny, New Phytol., 196, 349–366, https://doi.org/10.1111/j.1469-8137.2012.04273.x, 2012.
Paschalis, A., Fatichi, S., Zscheischler, J., Ciais, P., Bahn, M., Boysen, L., Chang, J., De Kauwe, M., Estiarte, M., Goll, D., Hanson, P. J., Harper, A. B., Hou, E., Kigel, J., Knapp, A. K., Larsen, K. S., Li, W., Lienert, S., Luo, Y., Meir, P., Nabel, J. E. M. S., Ogaya, R., Parolari, A. J., Peng, C., Peñuelas, J., Pongratz, J., Rambal, S., Schmidt, I. K., Shi, H., Sternberg, M., Tian, H., Tschumi, E., Ukkola, A., Vicca, S., Viovy, N., Wang, Y.-P., Wang, Z., Williams, K., Wu, D., and Zhu, Q.: Rainfall manipulation experiments as simulated by terrestrial biosphere models: Where do we stand?, Glob. Change Biol., 26, 3336–3355, https://doi.org/10.1111/gcb.15024, 2020.
Paschalis, A., De Kauwe, M. G., Sabot, M., and Fatichi, S.: When do plant hydraulics matter in terrestrial biosphere modelling?, Glob. Change Biol., 30, e17022, https://doi.org/10.1111/gcb.17022, 2024.
Pavlick, R., Drewry, D. T., Bohn, K., Reu, B., and Kleidon, A.: The Jena Diversity-Dynamic Global Vegetation Model (JeDi-DGVM): a diverse approach to representing terrestrial biogeography and biogeochemistry based on plant functional trade-offs, Biogeosciences, 10, 4137–4177, https://doi.org/10.5194/bg-10-4137-2013, 2013.
Peñuelas, J., Poulter, B., Sardans, J., Ciais, P., van der Velde, M., Bopp, L., Boucher, O., Godderis, Y., Hinsinger, P., Llusia, J., Nardin, E., Vicca, S., Obersteiner, M., and Janssens, I. A.: Human-induced nitrogen–phosphorus imbalances alter natural and managed ecosystems across the globe, Nat. Commun., 4, 2934, https://doi.org/10.1038/ncomms3934, 2013.
Peters, R. L., Kaewmano, A., Fu, P.-L., Fan, Z.-X., Sterck, F., Steppe, K., and Zuidema, P. A.: High vapour pressure deficit enhances turgor limitation of stem growth in an Asian tropical rainforest tree, Plant Cell Environ., 46, 2747–2762, https://doi.org/10.1111/pce.14661, 2023.
Picard, N. and Franc, A.: Are ecological groups of species optimal for forest dynamics modelling?, Ecol. Model., 163, 175–186, https://doi.org/10.1016/S0304-3800(03)00010-3, 2003.
Picard, N., Köhler, P., Mortier, F., and Gourlet-Fleury, S.: A comparison of five classifications of species into functional groups in tropical forests of French Guiana, Ecol. Complex., 11, 75–83, https://doi.org/10.1016/j.ecocom.2012.03.003, 2012.
Pitman, A. J.: The evolution of, and revolution in, land surface schemes designed for climate models, Int. J. Climatol., 23, 479–510, https://doi.org/10.1002/joc.893, 2003.
Poggio, L., de Sousa, L. M., Batjes, N. H., Heuvelink, G. B. M., Kempen, B., Ribeiro, E., and Rossiter, D.: SoilGrids 2.0: producing soil information for the globe with quantified spatial uncertainty, SOIL, 7, 217–240, https://doi.org/10.5194/soil-7-217-2021, 2021.
Poorter, L., Bongers, L., and Bongers, F.: Architecture of 54 moist-forest tree species: traits, trade-offs, and functional groups, Ecology, 87, 1289–1301, https://doi.org/10.1890/0012-9658(2006)87[1289:AOMTST]2.0.CO;2, 2006.
Poorter, L., Wright, S. J., Paz, H., Ackerly, D. D., Condit, R., Ibarra-Manríquez, G., Harms, K. E., Licona, J. C., Martínez-Ramos, M., Mazer, S. J., Muller-Landau, H. C., Peña-Claros, M., Webb, C. O., and Wright, I. J.: Are functional traits good predictors of demographic rates? Evidence from five Neotropical forests, Ecology, 89, 1908–1920, https://doi.org/10.1890/07-0207.1, 2008.
Poorter, L., Oberbauer, S. F., and Clark, D. B.: Leaf optical properties along a vertical gradient in a tropical rain forest canopy in Costa Rica, Am. J. Bot., 82, 1257–1263, https://doi.org/10.2307/2446248, 1995.
Poorter, L., van der Sande, M. T., Thompson, J., Arets, E. J. M. M., Alarcón, A., Álvarez-Sánchez, J., Ascarrunz, N., Balvanera, P., Barajas-Guzmán, G., Boit, A., Bongers, F., Carvalho, F. A., Casanoves, F., Cornejo-Tenorio, G., Costa, F. R. C., de Castilho, C. V., Duivenvoorden, J. F., Dutrieux, L. P., Enquist, B. J., Fernández-Méndez, F., Finegan, B., Gormley, L. H. L., Healey, J. R., Hoosbeek, M. R., Ibarra-Manríquez, G., Junqueira, A. B., Levis, C., Licona, J. C., Lisboa, L. S., Magnusson, W. E., Martínez-Ramos, M., Martínez-Yrizar, A., Martorano, L. G., Maskell, L. C., Mazzei, L., Meave, J. A., Mora, F., Muñoz, R., Nytch, C., Pansonato, M. P., Parr, T. W., Paz, H., Pérez-García, E. A., Rentería, L. Y., Rodríguez-Velazquez, J., Rozendaal, D. M. A., Ruschel, A. R., Sakschewski, B., Salgado-Negret, B., Schietti, J., Simões, M., Sinclair, F. L., Souza, P. F., Souza, F. C., Stropp, J., ter Steege, H., Swenson, N. G., Thonicke, K., Toledo, M., Uriarte, M., van der Hout, P., Walker, P., Zamora, N., and Peña-Claros, M.: Diversity enhances carbon storage in tropical forests, Global Ecol. Biogeogr., 24, 1314–1328, https://doi.org/10.1111/geb.12364, 2015.
Poorter, L., Amissah, L., Bongers, F., Hordijk, I., Kok, J., Laurance, S. G. W., Lohbeck, M., Martínez-Ramos, M., Matsuo, T., Meave, J. A., Muñoz, R., Peña-Claros, M., and van der Sande, M. T.: Successional theories, Biol. Rev., 98, 2049–2077, https://doi.org/10.1111/brv.12995, 2023.
Porté, A. and Bartelink, H. H.: Modelling mixed forest growth: a review of models for forest management, Ecol. Model., 150, 141–188, https://doi.org/10.1016/S0304-3800(01)00476-8, 2002.
Poulter, B., Ciais, P., Hodson, E., Lischke, H., Maignan, F., Plummer, S., and Zimmermann, N. E.: Plant functional type mapping for earth system models, Geosci. Model Dev., 4, 993–1010, https://doi.org/10.5194/gmd-4-993-2011, 2011.
Powell, T. L., Galbraith, D. R., Christoffersen, B. O., Harper, A., Imbuzeiro, H. M. A., Rowland, L., Almeida, S., Brando, P. M., da Costa, A. C. L., Costa, M. H., Levine, N. M., Malhi, Y., Saleska, S. R., Sotta, E., Williams, M., Meir, P., and Moorcroft, P. R.: Confronting model predictions of carbon fluxes with measurements of Amazon forests subjected to experimental drought, New Phytol., 200, 350–365, https://doi.org/10.1111/nph.12390, 2013.
Powell, T. L., Wheeler, J. K., Oliveira, A. A. R. de, Costa, A. C. L. da, Saleska, S. R., Meir, P., and Moorcroft, P. R.: Differences in xylem and leaf hydraulic traits explain differences in drought tolerance among mature Amazon rainforest trees, Glob. Change Biol., 23, 4280–4293, https://doi.org/10.1111/gcb.13731, 2017.
Powell, T. L., Koven, C. D., Johnson, D. J., Faybishenko, B., Fisher, R. A., Knox, R. G., McDowell, N. G., Condit, R., Hubbell, S. P., Wright, S. J., Chambers, J. Q., and Kueppers, L. M.: Variation in hydroclimate sustains tropical forest biomass and promotes functional diversity, New Phytol., 219, 932–946, https://doi.org/10.1111/nph.15271, 2018.
Prentice, I. C., Bondeau, A., Cramer, W., Harrison, S. P., Hickler, T., Lucht, W., Sitch, S., Smith, B., and Sykes, M. T.: Dynamic Global Vegetation Modeling: Quantifying Terrestrial Ecosystem Responses to Large-Scale Environmental Change, in: Terrestrial ecosystems in a changing world, edited by: Canadell, J. G., Pataki, D. E., and Pitelka, L. F., Springer Berlin Heidelberg, 175–192, https://doi.org/10.1007/978-3-540-32730-1_15, 2007.
Prentice, I. C., Liang, X., Medlyn, B. E., and Wang, Y.-P.: Reliable, robust and realistic: the three R's of next-generation land-surface modelling, Atmos. Chem. Phys., 15, 5987–6005, https://doi.org/10.5194/acp-15-5987-2015, 2015.
Purves, D. and Pacala, S.: Predictive models of forest dynamics, Science, 320, 1452–1453, https://doi.org/10.1126/science.1155359, 2008.
Qie, L., Lewis, S. L., Sullivan, M. J. P., Lopez-Gonzalez, G., Pickavance, G. C., Sunderland, T., Ashton, P., Hubau, W., Salim, K. A., Aiba, S.-I., Banin, L. F., Berry, N., Brearley, F. Q., Burslem, D. F. R. P., Dančák, M., Davies, S. J., Fredriksson, G., Hamer, K. C., Hédl, R., Kho, L. K., Kitayama, K., Krisnawati, H., Lhota, S., Malhi, Y., Maycock, C., Metali, F., Mirmanto, E., Nagy, L., Nilus, R., Ong, R., Pendry, C. A., Poulsen, A. D., Primack, R. B., Rutishauser, E., Samsoedin, I., Saragih, B., Sist, P., Slik, J. W. F., Sukri, R. S., Svátek, M., Tan, S., Tjoa, A., Nieuwstadt, M. van, Vernimmen, R. R. E., Yassir, I., Kidd, P. S., Fitriadi, M., Ideris, N. K. H., Serudin, R. M., Lim, L. S. A., Saparudin, M. S., and Phillips, O. L.: Long-term carbon sink in Borneo's forests halted by drought and vulnerable to edge effects, Nat. Commun., 8, 1966, https://doi.org/10.1038/s41467-017-01997-0, 2017.
Rau, E.-P., Fischer, F., Joetzjer, É., Maréchaux, I., Sun, I. F., and Chave, J.: Transferability of an individual- and trait-based forest dynamics model: A test case across the tropics, Ecol. Model., 463, 109801, https://doi.org/10.1016/j.ecolmodel.2021.109801, 2022a.
Rau, E.-P., Gardiner, B. A., Fischer, F. J., Maréchaux, I., Joetzjer, E., Sun, I.-F., and Chave, J.: Wind Speed Controls Forest Structure in a Subtropical Forest Exposed to Cyclones: A Case Study Using an Individual-Based Model, Front. Forests Global Change, 5, https://doi.org/10.3389/ffgc.2022.753100, 2022b.
Raupach, M. R., Finnigan, J. J., and Brunet, Y.: Coherent Eddies and Turbulence in Vegetation Canopies: The Mixing-Layer Analogy, Bound.-Lay. Meteorol., 78, 351–382, https://doi.org/10.1007/978-94-017-0944-6_15, 1996.
Restrepo-Coupe, N., da Rocha, H. R., Hutyra, L. R., da Araujo, A. C., Borma, L. S., Christoffersen, B., Cabral, O. M. R., de Camargo, P. B., Cardoso, F. L., da Costa, A. C. L., Fitzjarrald, D. R., Goulden, M. L., Kruijt, B., Maia, J. M. F., Malhi, Y. S., Manzi, A. O., Miller, S. D., Nobre, A. D., von Randow, C., Sá, L. D. A., Sakai, R. K., Tota, J., Wofsy, S. C., Zanchi, F. B., and Saleska, S. R.: What drives the seasonality of photosynthesis across the Amazon basin? A cross-site analysis of eddy flux tower measurements from the Brasil flux network, Agr. Forest Meteorol., 182–183, 128–144, https://doi.org/10.1016/j.agrformet.2013.04.031, 2013.
Restrepo-Coupe, N., Levine, N. M., Christoffersen, B. O., Albert, L. P., Wu, J., Costa, M. H., Galbraith, D., Imbuzeiro, H., Martins, G., da Araujo, A. C., Malhi, Y. S., Zeng, X., Moorcroft, P., and Saleska, S. R.: Do dynamic global vegetation models capture the seasonality of carbon fluxes in the Amazon basin? A data-model intercomparison, Glob. Change Biol., 23, 191–208, https://doi.org/10.1111/gcb.13442, 2017.
Richards, L. A.: Capillary conduction of liquids through porous mediums, Physics, 1, 318–333, https://doi.org/10.1063/1.1745010, 1931.
Riva, F. and Fahrig, L.: Landscape-scale habitat fragmentation is positively related to biodiversity, despite patch-scale ecosystem decay, Ecol. Lett., 26, 268–277, https://doi.org/10.1111/ele.14145, 2023.
Rödig, E., Cuntz, M., Heinke, J., Rammig, A., and Huth, A.: Spatial heterogeneity of biomass and forest structure of the Amazon rain forest: Linking remote sensing, forest modelling and field inventory, Global Ecol. Biogeogr., 26, 1292–1302, https://doi.org/10.1111/geb.12639, 2017.
Rodriguez-Dominguez, C. M., Buckley, T. N., Egea, G., de Cires, A., Hernandez-Santana, V., Martorell, S., and Diaz-Espejo, A.: Most stomatal closure in woody species under moderate drought can be explained by stomatal responses to leaf turgor, Plant Cell Environ., 39, 2014–2026, https://doi.org/10.1111/pce.12774, 2016.
Rodriguez-Iturbe, I., Porporato, A., Ridolfi, L., Isham, V., and Coxi, D. R.: Probabilistic modelling of water balance at a point: the role of climate, soil and vegetation, P. Roy. Soc. Lond. A, 455, 3789–3805, https://doi.org/10.1098/rspa.1999.0477, 1999.
Rogers, A., Medlyn, B. E., Dukes, J. S., Bonan, G., von Caemmerer, S., Dietze, M. C., Kattge, J., Leakey, A. D. B., Mercado, L. M., Niinemets, Ü., Prentice, I. C., Serbin, S. P., Sitch, S., Way, D. A., and Zaehle, S.: A roadmap for improving the representation of photosynthesis in Earth system models, New Phytol., 213, 22–42, https://doi.org/10.1111/nph.14283, 2017.
Rosas, T., Mencuccini, M., Barba, J., Cochard, H., Saura-Mas, S., and Martínez-Vilalta, J.: Adjustments and coordination of hydraulic, leaf and stem traits along a water availability gradient, New Phytol., 223, 632–646, https://doi.org/10.1111/nph.15684, 2019.
Ross, J.: The radiation regime and architecture of plant stands, The Hague, The Netherlands, 1981.
Rowland, L., Lobo-do-Vale, R. L., Christoffersen, B. O., Melém, E. A., Kruijt, B., Vasconcelos, S. S., Domingues, T., Binks, O. J., Oliveira, A. A. R., Metcalfe, D., da Costa, A. C. L., Mencuccini, M., and Meir, P.: After more than a decade of soil moisture deficit, tropical rainforest trees maintain photosynthetic capacity, despite increased leaf respiration, Glob. Change Biol., 21, 4662–4672, https://doi.org/10.1111/gcb.13035, 2015.
Rowland, L., Costa, A. C. L. da, Oliveira, A. A. R., Oliveira, R. S., Bittencourt, P. L., Costa, P. B., Giles, A. L., Sosa, A. I., Coughlin, I., Godlee, J. L., Vasconcelos, S. S., Junior, J. A. S., Ferreira, L. V., Mencuccini, M., and Meir, P.: Drought stress and tree size determine stem CO2 efflux in a tropical forest, New Phytol., 218, 1393–1405, https://doi.org/10.1111/nph.15024, 2018.
Rowland, L., Ramírez-Valiente, J.-A., Hartley, I. P., and Mencuccini, M.: How woody plants adjust above- and below-ground traits in response to sustained drought, New Phytol., 239, 1173–1189, https://doi.org/10.1111/nph.19000, 2023.
Rutter, A. J. and Morton, A. J.: A Predictive Model of Rainfall Interception in Forests. III. Sensitivity of The Model to Stand Parameters and Meteorological Variables, J. Appl. Ecol., 14, 567–588, https://doi.org/10.2307/2402568, 1977.
Ryan, M. G., Hubbard, R. M., Clark, D. A., and Jr, R. L. S.: Woody-tissue respiration for Simarouba amara and Minquartia guianensis, two tropical wet forest trees with different growth habits, Oecologia, 100, 213–220, https://doi.org/10.1007/BF00316947, 1994.
Ryan, M. G., Binkley, D., and Fownes, J. H.: Age-related decline in forest productivity, Adv. Ecol. Res., 27, 213–262, 1997.
Sabot, M. E. B., Kauwe, M. G. D., Pitman, A. J., Medlyn, B. E., Verhoef, A., Ukkola, A. M., and Abramowitz, G.: Plant profit maximization improves predictions of European forest responses to drought, New Phytol., 226, 1638–1655, https://doi.org/10.1111/nph.16376, 2020.
Sabot, M. E. B., De Kauwe, M. G., Pitman, A. J., Medlyn, B. E., Ellsworth, D. S., Martin-StPaul, N. K., Wu, J., Choat, B., Limousin, J.-M., Mitchell, P. J., Rogers, A., and Serbin, S. P.: One Stomatal Model to Rule Them All? Toward Improved Representation of Carbon and Water Exchange in Global Models, J. Adv. Model. Earth Sy., 14, e2021MS002761, https://doi.org/10.1029/2021MS002761, 2022.
Sakschewski, B., von Bloh, W., Boit, A., Rammig, A., Kattge, J., Poorter, L., Peñuelas, J., and Thonicke, K.: Leaf and stem economics spectra drive diversity of functional plant traits in a dynamic global vegetation model, Glob. Change Biol., 21, 2711–2725, https://doi.org/10.1111/gcb.12870, 2015.
Sakschewski, B., von Bloh, W., Boit, A., Poorter, L., Peña-Claros, M., Heinke, J., Joshi, J., and Thonicke, K.: Resilience of Amazon forests emerges from plant trait diversity, Nat. Clim. Change, 6, 1032–1036, https://doi.org/10.1038/nclimate3109, 2016.
Sakschewski, B., von Bloh, W., Drüke, M., Sörensson, A. A., Ruscica, R., Langerwisch, F., Billing, M., Bereswill, S., Hirota, M., Oliveira, R. S., Heinke, J., and Thonicke, K.: Variable tree rooting strategies are key for modelling the distribution, productivity and evapotranspiration of tropical evergreen forests, Biogeosciences, 18, 4091–4116, https://doi.org/10.5194/bg-18-4091-2021, 2021.
Sander, H.: The porosity of tropical soils and implications for geomorphological and pedogenetic processes and the movement of solutions within the weathering cover, CATENA, 49, 129–137, https://doi.org/10.1016/S0341-8162(02)00021-8, 2002.
Santos, V. A. H. F. dos, Ferreira, M. J., Rodrigues, J. V. F. C., Garcia, M. N., Ceron, J. V. B., Nelson, B. W., and Saleska, S. R.: Causes of reduced leaf-level photosynthesis during strong El Niño drought in a Central Amazon forest, Glob. Change Biol., 24, 4266–4279, https://doi.org/10.1111/gcb.14293, 2018.
Sato, H., Itoh, A., and Kohyama, T.: SEIB-DGVM: a new dynamic global vegetation model using a spatially explicit individual-based approach, Ecol. Model., 200, 279–307, https://doi.org/10.1016/j.ecolmodel.2006.09.006, 2007.
Schaphoff, S., von Bloh, W., Rammig, A., Thonicke, K., Biemans, H., Forkel, M., Gerten, D., Heinke, J., Jägermeyr, J., Knauer, J., Langerwisch, F., Lucht, W., Müller, C., Rolinski, S., and Waha, K.: LPJmL4 – a dynamic global vegetation model with managed land – Part 1: Model description, Geosci. Model Dev., 11, 1343–1375, https://doi.org/10.5194/gmd-11-1343-2018, 2018.
Scheiter, S., Langan, L., and Higgins, S. I.: Next-generation dynamic global vegetation models: learning from community ecology, New Phytol., 198, 957–969, https://doi.org/10.1111/nph.12210, 2013.
Schenk, H. J. and Jackson, R. B.: Rooting depths, lateral root spreads and below-ground/above-ground allometries of plants in water-limited ecosystems, J. Ecol., 90, 480–494, https://doi.org/10.1046/j.1365-2745.2002.00682.x, 2002.
Schimel, D., Pavlick, R., Fisher, J. B., Asner, G. P., Saatchi, S., Townsend, P., Miller, C., Frankenberg, C., Hibbard, K., and Cox, P.: Observing terrestrial ecosystems and the carbon cycle from space, Glob. Change Biol., 21, 1762–1776, https://doi.org/10.1111/gcb.12822, 2015.
Schippers, P., Vlam, M., Zuidema, P. A., and Sterck, F.: Sapwood allocation in tropical trees: a test of hypotheses, Funct. Plant Biol., 42, 697–709, https://doi.org/10.1071/FP14127, 2015.
Schmidhalter, U.: The gradient between pre-dawn rhizoplane and bulk soil matric potentials, and its relation to the pre-dawn root and leaf water potentials of four species, Plant Cell Environ., 20, 953–960, https://doi.org/10.1046/j.1365-3040.1997.d01-136.x, 1997.
Schmitt, S., Maréchaux, I., Chave, J., Fischer, F. J., Piponiot, C., Traissac, S., and Hérault, B.: Functional diversity improves tropical forest resilience: Insights from a long-term virtual experiment, J. Ecol., 108, 831–843, https://doi.org/10.1111/1365-2745.13320, 2020.
Schmitt, S.: Rôle de la biodiversité dans la résilience des écosystèmes forestiers tropicaux après perturbations, AgroParisTech, Université de Montpellier, Kourou, https://sylvainschmitt.github.io/master-thesis/ (last access: 24 July 2025), 2017.
Schmitt, S., Salzet, G., Fischer, F. J., Maréchaux, I., and Chave, J.: rcontroll: An R interface for the individual-based forest dynamics simulator TROLL, Meth. Ecol. Evol., 14, 2749–2757, https://doi.org/10.1111/2041-210X.14215, 2023.
Schmitt, S., Salzet, G., Fischer, F. J., Maréchaux, I., and Chave, J.: sylvainschmitt/rcontroll: GMD preprint (v0.2.0), Zenodo [code], https://doi.org/10.5281/zenodo.14012116, 2024.
Schmitt, S., Fischer, F., Ball, J. G. C., Barbier, N., Boisseaux, M., Bonal, D., Burban, B., Chen, X., Derroire, G., Lichstein, J. W., Nemetschek, D., Restrepo-Coupe, N., Saleska, S., Sellan, G., Verley, P., Vincent, G., Ziegler, C., Chave, J., and Maréchaux, I.: TROLL 4.0: representing water and carbon fluxes, leaf phenology, and intraspecific trait variation in a mixed-species individual-based forest dynamics model – Part 2: Model evaluation for two Amazonian sites, Geosci. Model Dev., 18, 5205–5243, https://doi.org/10.5194/gmd-18-5205-2025, 2025.
Schnabel, F., Schwarz, J. A., Dănescu, A., Fichtner, A., Nock, C. A., Bauhus, J., and Potvin, C.: Drivers of productivity and its temporal stability in a tropical tree diversity experiment, Glob. Change Biol., 25, 4257–4272, https://doi.org/10.1111/gcb.14792, 2019.
Schnitzer, S. A. and Carson, W. P.: Would Ecology Fail the Repeatability Test?, BioScience, 66, 98–99, https://doi.org/10.1093/biosci/biv176, 2016.
Seidl, R., Rammer, W., and Blennow, K.: Simulating wind disturbance impacts on forest landscapes: Tree-level heterogeneity matters, Environ. Model. Softw., 51, 1–11, https://doi.org/10.1016/j.envsoft.2013.09.018, 2014.
Seidler, T. G. and Plotkin, J. B.: Seed Dispersal and Spatial Pattern in Tropical Trees, PLOS Biology, 4, e344, https://doi.org/10.1371/journal.pbio.0040344, 2006.
Sellers, P. J., Mintz, Y., Sud, Y. C., and Dalcher, A.: A Simple Biosphere Model (SIB) for Use within General Circulation Models, J. Atmos. Sci., 43, 505–531, https://doi.org/10.1175/1520-0469(1986)043<0505:ASBMFU> 2.0.CO;2, 1986.
Sellers, P. J., Heiser, M. D., and Hall, F. G.: Relations between surface conductance and spectral vegetation indices at intermediate (100 m2 to 15 km2) length scales, J. Geophys. Res.-Atmos., 97, 19033–19059, https://doi.org/10.1029/92JD01096, 1992.
Sellers, P. J., Dickinson, R. E., Randall, D. A., Betts, A. K., Hall, F. G., Berry, J. A., Collatz, G. J., Denning, A. S., Mooney, H. A., Nobre, C. A., Sato, N., Field, C. B., and Henderson-Sellers, A.: Modeling the Exchanges of Energy, Water, and Carbon Between Continents and the Atmosphere, Science, 275, 502–509, https://doi.org/10.1126/science.275.5299.502, 1997.
Sergent, A. S., Varela, S. A., Barigah, T. S., Badel, E., Cochard, H., Dalla-Salda, G., Delzon, S., Fernández, M. E., Guillemot, J., Gyenge, J., Lamarque, L. J., Martinez-Meier, A., Rozenberg, P., Torres-Ruiz, J. M., and Martin-StPaul, N. K.: A comparison of five methods to assess embolism resistance in trees, Forest Ecol. Manage., 468, 118175, https://doi.org/10.1016/j.foreco.2020.118175, 2020.
Sevanto, S., Mcdowell, N. G., Dickman, L. T., Pangle, R., and Pockman, W. T.: How do trees die? A test of the hydraulic failure and carbon starvation hypotheses, Plant Cell Environ., 37, 153–161, https://doi.org/10.1111/pce.12141, 2014.
Sheil, D., Burslem, D. F. R. P., and Alder, D.: The interpretation and misinterpretation of mortality rate measures, J. Ecol., 83, 331–333, https://doi.org/10.2307/2261571, 1995.
Shugart, H. H., Asner, G. P., Fischer, R., Huth, A., Knapp, N., Le Toan, T., and Shuman, J. K.: Computer and remote-sensing infrastructure to enhance large-scale testing of individual-based forest models, Front. Ecol. Environ., 13, 503–511, 2015.
Shugart, H. H., Wang, B., Fischer, R., Ma, J., Fang, J., Yan, X., Huth, A., and Armstrong, A. H.: Gap models and their individual-based relatives in the assessment of the consequences of global change, Environ. Res. Lett., 13, 033001, https://doi.org/10.1088/1748-9326/aaaacc, 2018.
Shugart, H. H., Foster, A., Wang, B., Druckenbrod, D., Ma, J., Lerdau, M., Saatchi, S., Yang, X., and Yan, X.: Gap models across micro- to mega-scales of time and space: examples of Tansley's ecosystem concept, For. Ecosyst., 7, 14, https://doi.org/10.1186/s40663-020-00225-4, 2020.
Shuttleworth, W. J.: Daily variations of temperature and humidity within and above Amazonian forest, Weather, 40, 102–108, https://doi.org/10.1002/j.1477-8696.1985.tb07489.x, 1985.
Shuttleworth, W. J., Leuning, R., Black, T. A., Grace, J., Jarvis, P. G., Roberts, J., and Jones, H. G.: Micrometeorology of temperate and tropical forest, Philos. T. Roy. Soc. Lond. B, 324, 299–334, https://doi.org/10.1098/rstb.1989.0050, 1989.
Signori-Müller, C., Oliveira, R. S., Valentim Tavares, J., Carvalho Diniz, F., Gilpin, M., de V. Barros, F., Marca Zevallos, M. J., Salas Yupayccana, C. A., Nina, A., Brum, M., Baker, T. R., Cosio, E. G., Malhi, Y., Monteagudo Mendoza, A., Phillips, O. L., Rowland, L., Salinas, N., Vasquez, R., Mencuccini, M., and Galbraith, D.: Variation of non-structural carbohydrates across the fast–slow continuum in Amazon Forest canopy trees, Funct. Ecol., 36, 341–355, https://doi.org/10.1111/1365-2435.13971, 2022.
Sitch, S., Smith, B., Prentice, I. C., Arneth, A., Bondeau, A., Cramer, W., Kaplan, J. O., Levis, S., Lucht, W., Sykes, M. T., Thonicke, K., and Venevsky, S.: Evaluation of ecosystem dynamics, plant geography and terrestrial carbon cycling in the LPJ dynamic global vegetation model, Glob. Change Biol., 9, 161–185, https://doi.org/10.1046/j.1365-2486.2003.00569.x, 2003.
Slik, J. W. F.: El Niño droughts and their effects on tree species composition and diversity in tropical rain forests, Oecologia, 141, 114–120, https://doi.org/10.1007/s00442-004-1635-y, 2004.
Slot, M., Wright, S. J., and Kitajima, K.: Foliar respiration and its temperature sensitivity in trees and lianas: in situ measurements in the upper canopy of a tropical forest, Tree Physiol., 33, 505–515, https://doi.org/10.1093/treephys/tpt026, 2013.
Slot, M., Nardwattanawong, T., Hernández, G. G., Bueno, A., Riederer, M., and Winter, K.: Large differences in leaf cuticle conductance and its temperature response among 24 tropical tree species from across a rainfall gradient, New Phytol., 232, 1618–1631, https://doi.org/10.1111/nph.17626, 2021.
Smith, B., Prentice, I. C., and Sykes, M. T.: Representation of vegetation dynamics in the modelling of terrestrial ecosystems: comparing two contrasting approaches within European climate space, Global Ecol. Biogeogr., 10, 621–637, https://doi.org/10.1046/j.1466-822X.2001.t01-1-00256.x, 2001.
Smith, N. G. and Dukes, J. S.: Plant respiration and photosynthesis in global-scale models: incorporating acclimation to temperature and CO2, Glob. Change Biol., 19, 45–63, https://doi.org/10.1111/j.1365-2486.2012.02797.x, 2013.
Smith-Martin, C. M., Xu, X., Medvigy, D., Schnitzer, S. A., and Powers, J. S.: Allometric scaling laws linking biomass and rooting depth vary across ontogeny and functional groups in tropical dry forest lianas and trees, New Phytol., 226, 714–726, https://doi.org/10.1111/nph.16275, 2020.
Soberón, J.: Grinnellian and Eltonian niches and geographic distributions of species, Ecol. Lett., 10, 1115–1123, https://doi.org/10.1111/j.1461-0248.2007.01107.x, 2007.
Sobrado, M. A.: Aspects of tissue water relations and seasonal changes of leaf water potential components of evergreen and deciduous species coexisting in tropical dry forests, Oecologia, 68, 413–416, https://doi.org/10.1007/BF01036748, 1986.
Song, X., Wang, D.-Y., Li, F., and Zeng, X.-D.: Evaluating the performance of CMIP6 Earth system models in simulating global vegetation structure and distribution, Adv. Clim. Change Res., 12, 584–595, https://doi.org/10.1016/j.accre.2021.06.008, 2021.
Sperry, J. S., Hacke, U. G., Oren, R., and Comstock, J. P.: Water deficits and hydraulic limits to leaf water supply, Plant Cell Environ., 25, 251–263, 2002.
Sperry, J. S., Venturas, M. D., Anderegg, W. R. L., Mencuccini, M., Mackay, D. S., Wang, Y., and Love, D. M.: Predicting stomatal responses to the environment from the optimization of photosynthetic gain and hydraulic cost, Plant Cell Environ., 40, 816–830, https://doi.org/10.1111/pce.12852, 2017.
Stahl, C., Burban, B., Goret, J.-Y., and Bonal, D.: Seasonal variations in stem CO2 efflux in the Neotropical rainforest of French Guiana, Ann. Forest Sci., 68, 771–782, https://doi.org/10.1007/s13595-011-0074-2, 2011.
Stahl, C., Herault, B., Rossi, V., Burban, B., Brechet, C., and Bonal, D.: Depth of soil water uptake by tropical rainforest trees during dry periods: does tree dimension matter?, Oecologia, 173, 1191–1201, https://doi.org/10.1007/s00442-013-2724-6, 2013a.
Stahl, C., Burban, B., Wagner, F., Goret, J.-Y., Bompy, F., and Bonal, D.: Influence of seasonal variations in soil water availability on gas exchange of tropical canopy trees, Biotropica, 45, 155–164, https://doi.org/10.1111/j.1744-7429.2012.00902.x, 2013b.
Stephenson, N. L., Das, A. J., Condit, R., Russo, S. E., Baker, P. J., Beckman, N. G., Coomes, D. A., Lines, E. R., Morris, W. K., Rüger, N., Álvarez, E., Blundo, C., Bunyavejchewin, S., Chuyong, G., Davies, S. J., Duque, Á., Ewango, C. N., Flores, O., Franklin, J. F., Grau, H. R., Hao, Z., Harmon, M. E., Hubbell, S. P., Kenfack, D., Lin, Y., Makana, J.-R., Malizia, A., Malizia, L. R., Pabst, R. J., Pongpattananurak, N., Su, S.-H., Sun, I.-F., Tan, S., Thomas, D., van Mantgem, P. J., Wang, X., Wiser, S. K., and Zavala, M. A.: Rate of tree carbon accumulation increases continuously with tree size, Nature, 507, 90–93, https://doi.org/10.1038/nature12914, 2014.
Strigul, N., Pristinski, D., Purves, D., Dushoff, J., and Pacala, S.: Scaling from trees to forests: tractable macroscopic equations for forest dynamics, Ecol. Monogr., 78, 523–545, https://doi.org/10.1890/08-0082.1, 2008.
Sun, S., Jung, E.-Y., Gaviria, J., and Engelbrecht, B. M. J.: Drought survival is positively associated with high turgor loss points in temperate perennial grassland species, Funct. Ecol., 34, 788–798, https://doi.org/10.1111/1365-2435.13522, 2020.
Swaine, M. D. and Whitmore, T. C.: On the definition of ecological species groups in tropical rain forests, Vegetatio, 75, 81–86, https://doi.org/10.1007/BF00044629, 1988.
Tamme, R., Götzenberger, L., Zobel, M., Bullock, J. M., Hooftman, D. A. P., Kaasik, A., and Pärtel, M.: Predicting species' maximum dispersal distances from simple plant traits, Ecology, 95, 505–513, https://doi.org/10.1890/13-1000.1, 2014.
Thornley, J. H. M. and Cannell, M. G. R.: Modelling the components of plant respiration: representation and realism, Ann. Bot., 85, 55–67, https://doi.org/10.1006/anbo.1999.0997, 2000.
Thuiller, W., Albert, C., Araújo, M. B., Berry, P. M., Cabeza, M., Guisan, A., Hickler, T., Midgley, G. F., Paterson, J., Schurr, F. M., Sykes, M. T., and Zimmermann, N. E.: Predicting global change impacts on plant species' distributions: Future challenges, Perspect. Plant Ecol. Evol. Sys., 9, 137–152, https://doi.org/10.1016/j.ppees.2007.09.004, 2008.
Tomasella, J. and Hodnett, M. G.: Estimating soil water retention characteristics from limited data in Brazilian Amazonia, Soil Sci., 163, 190–202, 1998.
Trueba, S., Pan, R., Scoffoni, C., John, G. P., Davis, S. D., and Sack, L.: Thresholds for leaf damage due to dehydration: declines of hydraulic function, stomatal conductance and cellular integrity precede those for photochemistry, New Phytol., 223, 134–149, https://doi.org/10.1111/nph.15779, 2019.
Trugman, A. T., Medvigy, D., Mankin, J. S., and Anderegg, W. R. L.: Soil Moisture Stress as a Major Driver of Carbon Cycle Uncertainty, Geophys. Res. Lett., 45, 6495–6503, https://doi.org/10.1029/2018GL078131, 2018.
Turner, B. L., Brenes-Arguedas, T., and Condit, R.: Pervasive phosphorus limitation of tree species but not communities in tropical forests, Nature, 555, 367–370, https://doi.org/10.1038/nature25789, 2018.
Tuzet, A., Perrier, A., and Leuning, R.: A coupled model of stomatal conductance, photosynthesis and transpiration, Plant Cell Environ., 26, 1097–1116, https://doi.org/10.1046/j.1365-3040.2003.01035.x, 2003.
Tymen, B., Vincent, G., Courtois, E. A., Heurtebize, J., Dauzat, J., Marechaux, I., and Chave, J.: Quantifying micro-environmental variation in tropical rainforest understory at landscape scale by combining airborne LiDAR scanning and a sensor network, Ann. Forest Sci., 74, 32, https://doi.org/10.1007/s13595-017-0628-z, 2017.
Urbina, I., Grau, O., Sardans, J., Margalef, O., Peguero, G., Asensio, D., LLusià, J., Ogaya, R., Gargallo-Garriga, A., Van Langenhove, L., Verryckt, L. T., Courtois, E. A., Stahl, C., Soong, J. L., Chave, J., Hérault, B., Janssens, I. A., Sayer, E., and Peñuelas, J.: High foliar K and P resorption efficiencies in old-growth tropical forests growing on nutrient-poor soils, Ecol. Evol., 11, 8969–8982, https://doi.org/10.1002/ece3.7734, 2021.
Vacchiano, G., Ascoli, D., Berzaghi, F., Lucas-Borja, M. E., Caignard, T., Collalti, A., Mairota, P., Palaghianu, C., Reyer, C. P. O., Sanders, T. G. M., Schermer, E., Wohlgemuth, T., and Hacket-Pain, A.: Reproducing reproduction: How to simulate mast seeding in forest models, Ecol. Model., 376, 40–53, https://doi.org/10.1016/j.ecolmodel.2018.03.004, 2018.
Van Bodegom, P. M., Douma, J. C., and Verheijen, L. M.: A fully traits-based approach to modeling global vegetation distribution, P. Natl. Acad. Sci. USA, 111, 13733–13738, https://doi.org/10.1073/pnas.1304551110, 2014.
Van Nes, E. H. and Scheffer, M.: A strategy to improve the contribution of complex simulation models to ecological theory, Ecol. Model., 185, 153–164, https://doi.org/10.1016/j.ecolmodel.2004.12.001, 2005.
Vanclay, J. K.: Aggregating tree species to develop diameter increment equations for tropical rainforests, Forest Ecol. Manage., 42, 143–168, https://doi.org/10.1016/0378-1127(91)90022-N, 1991.
Vanclay, J. K.: Modelling forest growth and yield: applications to mixed tropical forests, CAB INternational, Wallingford, 312 pp., ISBN 0-85198-913-6, 1994.
van der Meer, P. J. and Bongers, F.: Patterns of tree-fall and branch-fall in a tropical rain forest in French Guiana, J. Ecol., 84, 19–29, https://doi.org/10.2307/2261696, 1996.
van Genuchten, M. Th.: A Closed-form Equation for Predicting the Hydraulic Conductivity of Unsaturated Soils1, Soil Sci. Soc. Am. J., 44, 892–898, https://doi.org/10.2136/sssaj1980.03615995004400050002x, 1980.
Vargas Godoy, M. R., Markonis, Y., Hanel, M., Kyselý, J., and Papalexiou, S. M.: The Global Water Cycle Budget: A Chronological Review, Surv. Geophys., 42, 1075–1107, https://doi.org/10.1007/s10712-021-09652-6, 2021.
Verbeeck, H., Peylin, P., Bacour, C., Bonal, D., Steppe, K., and Ciais, P.: Seasonal patterns of CO2 fluxes in Amazon forests: Fusion of eddy covariance data and the ORCHIDEE model, J. Geophys. Res.-Biogeo., 116, https://doi.org/10.1029/2010JG001544, 2011.
Verheijen, L. M., Aerts, R., Brovkin, V., Cavender-Bares, J., Cornelissen, J. H. C., Kattge, J., and van Bodegom, P. M.: Inclusion of ecologically based trait variation in plant functional types reduces the projected land carbon sink in an earth system model, Glob. Change Biol., 21, 3074–3086, https://doi.org/10.1111/gcb.12871, 2015.
Verhoef, A. and Egea, G.: Modeling plant transpiration under limited soil water: Comparison of different plant and soil hydraulic parameterizations and preliminary implications for their use in land surface models, Agr. Forest Meteorol., 191, 22–32, https://doi.org/10.1016/j.agrformet.2014.02.009, 2014.
Vezy, R., Christina, M., Roupsard, O., Nouvellon, Y., Duursma, R., Medlyn, B., Soma, M., Charbonnier, F., Blitz-Frayret, C., Stape, J.-L., Laclau, J.-P., de Melo Virginio Filho, E., Bonnefond, J.-M., Rapidel, B., Do, F. C., Rocheteau, A., Picart, D., Borgonovo, C., Loustau, D., and le Maire, G.: Measuring and modelling energy partitioning in canopies of varying complexity using MAESPA model, Agr. Forest Meteorol., 253–254, 203–217, https://doi.org/10.1016/j.agrformet.2018.02.005, 2018.
Vico, G., Manzoni, S., Palmroth, S., Weih, M., and Katul, G.: A perspective on optimal leaf stomatal conductance under CO2 and light co-limitations, Agr. Forest Meteorol., 182–183, 191–199, https://doi.org/10.1016/j.agrformet.2013.07.005, 2013.
Villar, R., Held, A. A., and Merino, J.: Dark Leaf Respiration in Light and Darkness of an Evergreen and a Deciduous Plant Species, Plant Physiol., 107, 421–427, https://doi.org/10.1104/pp.107.2.421, 1995.
Visser, M. D., Bruijning, M., Wright, S. J., Muller-Landau, H. C., Jongejans, E., Comita, L. S., and de Kroon, H.: Functional traits as predictors of vital rates across the life cycle of tropical trees, Funct. Ecol., 30, 168–180, https://doi.org/10.1111/1365-2435.12621, 2016.
Vleminckx, J., Fortunel, C., Valverde-Barrantes, O., Timothy Paine, C. E., Engel, J., Petronelli, P., Dourdain, A. K., Guevara, J., Béroujon, S., and Baraloto, C.: Resolving whole-plant economics from leaf, stem and root traits of 1467 Amazonian tree species, Oikos, 130, 1193–1208, https://doi.org/10.1111/oik.08284, 2021.
von Caemmerer, S.: Biochemical models of leaf photosynthesis, Csiro Publishing, 184 pp., https://doi.org/10.1071/9780643103405, 2000.
von Humboldt, A.: Aspects of nature, in different lands and different climates; with scientific elucidations, Lea and Blanchard, 512 pp., https://doi.org/10.5962/bhl.title.45601, 1849.
Walker, A. P., Beckerman, A. P., Gu, L., Kattge, J., Cernusak, L. A., Domingues, T. F., Scales, J. C., Wohlfahrt, G., Wullschleger, S. D., and Woodward, F. I.: The relationship of leaf photosynthetic traits – Vcmax and Jmax – to leaf nitrogen, leaf phosphorus, and specific leaf area: a meta-analysis and modeling study, Ecol. Evol., 4, 3218–3235, https://doi.org/10.1002/ece3.1173, 2014.
Wang, Y. P. and Jarvis, P. G.: Description and validation of an array model – MAESTRO, Agr. Forest Meteorol., 51, 257–280, https://doi.org/10.1016/0168-1923(90)90112-J, 1990.
Wang, Y.-P. and Leuning, R.: A two-leaf model for canopy conductance, photosynthesis and partitioning of available energy I, Agr. Forest Meteorol., 91, 89–111, https://doi.org/10.1016/S0168-1923(98)00061-6, 1998.
Wang, Y. P., Kowalczyk, E., Leuning, R., Abramowitz, G., Raupach, M. R., Pak, B., Gorsel, E. van, and Luhar, A.: Diagnosing errors in a land surface model (CABLE) in the time and frequency domains, J. Geophys. Res.-Biogeo., 116, G01034, https://doi.org/10.1029/2010JG001385, 2011.
Warneke, C. R., Caughlin, T. T., Damschen, E. I., Haddad, N. M., Levey, D. J., and Brudvig, L. A.: Habitat fragmentation alters the distance of abiotic seed dispersal through edge effects and direction of dispersal, Ecology, 103, e03586, https://doi.org/10.1002/ecy.3586, 2022.
Watt, A. S.: Pattern and Process in the Plant Community, J. Ecol., 35, 1–22, https://doi.org/10.2307/2256497, 1947.
Weemstra, M., Mommer, L., Visser, E. J. W., van Ruijven, J., Kuyper, T. W., Mohren, G. M. J., and Sterck, F. J.: Towards a multidimensional root trait framework: a tree root review, New Phytol., 211, 1159–1169, https://doi.org/10.1111/nph.14003, 2016.
Weerasinghe, L. K., Creek, D., Crous, K. Y., Xiang, S., Liddell, M. J., Turnbull, M. H., and Atkin, O. K.: Canopy position affects the relationships between leaf respiration and associated traits in a tropical rainforest in Far North Queensland, Tree Physiol., 34, 564–584, https://doi.org/10.1093/treephys/tpu016, 2014.
Williams, M., Rastetter, E. B., Fernandes, D. N., Goulden, M. L., Wofsy, S. C., Shaver, G. R., Melillo, J. M., Munger, J. W., Fan, S.-M., and Nadelhoffer, K. J.: Modelling the soil-plant-atmosphere continuum in a Quercus–Acer stand at Harvard Forest: the regulation of stomatal conductance by light, nitrogen and soil/plant hydraulic properties, Plant Cell Environ., 19, 911–927, https://doi.org/10.1111/j.1365-3040.1996.tb00456.x, 1996.
Williams, M., Law, B. E., Anthoni, P. M., and Unsworth, M. H.: Use of a simulation model and ecosystem flux data to examine carbon–water interactions in ponderosa pine, Tree Physiol., 21, 287–298, https://doi.org/10.1093/treephys/21.5.287, 2001.
Wilson, J. B., Peet, R. K., Dengler, J., and Pärtel, M.: Plant species richness: the world records, J. Veg. Sci., 23, 796–802, https://doi.org/10.1111/j.1654-1103.2012.01400.x, 2012.
Wolf, A., Anderegg, W. R. L., and Pacala, S. W.: Optimal stomatal behavior with competition for water and risk of hydraulic impairment, P. Natl. Acad. Sci. USA, 113, E7222–E7230, https://doi.org/10.1073/pnas.1615144113, 2016.
Wolz, K. J., Wertin, T. M., Abordo, M., Wang, D., and Leakey, A. D. B.: Diversity in stomatal function is integral to modelling plant carbon and water fluxes, Nat. Ecol. Evol., 1, 1292–1298, https://doi.org/10.1038/s41559-017-0238-z, 2017.
Woodruff, D. R. and Meinzer, F. C.: Water stress, shoot growth and storage of non-structural carbohydrates along a tree height gradient in a tall conifer, Plant Cell Environ., 34, 1920–1930, https://doi.org/10.1111/j.1365-3040.2011.02388.x, 2011.
Wright, S. J., Kitajima, K., Kraft, N. J. B., Reich, P. B., Wright, I. J., Bunker, D. E., Condit, R., Dalling, J. W., Davies, S. J., Díaz, S., Engelbrecht, B. M. J., Harms, K. E., Hubbell, S. P., Marks, C. O., Ruiz-Jaen, M. C., Salvador, C. M., and Zanne, A. E.: Functional traits and the growth–mortality trade-off in tropical trees, Ecology, 91, 3664–3674, https://doi.org/10.1890/09-2335.1, 2010.
Wu, J., Albert, L. P., Lopes, A. P., Restrepo-Coupe, N., Hayek, M., Wiedemann, K. T., Guan, K., Stark, S. C., Christoffersen, B., Prohaska, N., Tavares, J. V., Marostica, S., Kobayashi, H., Ferreira, M. L., Campos, K. S., Silva, R. da, Brando, P. M., Dye, D. G., Huxman, T. E., Huete, A. R., Nelson, B. W., and Saleska, S. R.: Leaf development and demography explain photosynthetic seasonality in Amazon evergreen forests, Science, 351, 972–976, https://doi.org/10.1126/science.aad5068, 2016.
Wu, J., Serbin, S. P., Xu, X., Albert, L. P., Chen, M., Meng, R., Saleska, S. R., and Rogers, A.: The phenology of leaf quality and its within-canopy variation is essential for accurate modeling of photosynthesis in tropical evergreen forests, Glob. Change Biol., 23, 4814–4827, https://doi.org/10.1111/gcb.13725, 2017.
Wu, J., Serbin, S. P., Ely, K. S., Wolfe, B. T., Dickman, L. T., Grossiord, C., Michaletz, S. T., Collins, A. D., Detto, M., McDowell, N. G., Wright, S. J., and Rogers, A.: The response of stomatal conductance to seasonal drought in tropical forests, Glob. Change Biol., 26, 823–839, https://doi.org/10.1111/gcb.14820, 2020.
Xu, X., Medvigy, D., Powers, J. S., Becknell, J. M., and Guan, K.: Diversity in plant hydraulic traits explains seasonal and inter-annual variations of vegetation dynamics in seasonally dry tropical forests, New Phytol., 212, 80–95, https://doi.org/10.1111/nph.14009, 2016.
Xu, X. and Trugman, A. T.: Trait-Based Modeling of Terrestrial Ecosystems: Advances and Challenges Under Global Change, Curr. Clim. Change Rep., 7, 1–13, https://doi.org/10.1007/s40641-020-00168-6, 2021.
Xu, X., Konings, A. G., Longo, M., Feldman, A., Xu, L., Saatchi, S., Wu, D., Wu, J., and Moorcroft, P.: Leaf surface water, not plant water stress, drives diurnal variation in tropical forest canopy water content, New Phytol., 231, 122–136, https://doi.org/10.1111/nph.17254, 2021.
Yang, X., Wu, J., Chen, X., Ciais, P., Maignan, F., Yuan, W., Piao, S., Yang, S., Gong, F., Su, Y., Dai, Y., Liu, L., Zhang, H., Bonal, D., Liu, H., Chen, G., Lu, H., Wu, S., Fan, L., Gentine, P., and Wright, S. J.: A comprehensive framework for seasonal controls of leaf abscission and productivity in evergreen broadleaved tropical and subtropical forests, The Innovation, 2, 100154, https://doi.org/10.1016/j.xinn.2021.100154, 2021.
Yao, Y., Joetzjer, E., Ciais, P., Viovy, N., Cresto Aleina, F., Chave, J., Sack, L., Bartlett, M., Meir, P., Fisher, R., and Luyssaert, S.: Forest fluxes and mortality response to drought: model description (ORCHIDEE-CAN-NHA r7236) and evaluation at the Caxiuanã drought experiment, Geosci. Model Dev., 15, 7809–7833, https://doi.org/10.5194/gmd-15-7809-2022, 2022.
Yao, Y., Ciais, P., Viovy, N., Joetzjer, E., and Chave, J.: How drought events during the last century have impacted biomass carbon in Amazonian rainforests, Glob. Change Biol., 29, 747–762, https://doi.org/10.1111/gcb.16504, 2023.
Yao, Y., Ciais, P., Joetzjer, E., Li, W., Zhu, L., Wang, Y., Frankenberg, C., and Viovy, N.: The impacts of elevated CO2 on forest growth, mortality, and recovery in the Amazon rainforest, Earth Syst. Dynam., 15, 763–778, https://doi.org/10.5194/esd-15-763-2024, 2024.
Yoda, K., Shinozaki, K., Ogawa, H., Hozumi, K., and Kira, T.: Estimation of the total amount of respiration in woody organs of trees and forest communities., J. Biol. Osaka City Univ., 16, 15–26, 1965.
Yu, W., Albert, G., Rosenbaum, B., Schnabel, F., Bruelheide, H., Connolly, J., Härdtle, W., von Oheimb, G., Trogisch, S., Rüger, N., and Brose, U.: Systematic distributions of interaction strengths across tree interaction networks yield positive diversity–productivity relationships, Ecol. Lett., 27, e14338, https://doi.org/10.1111/ele.14338, 2024.
Zaehle, S., Sitch, S., Smith, B., and Hatterman, F.: Effects of parameter uncertainties on the modeling of terrestrial biosphere dynamics, Global Biogeochem. Cy., 19, GB3020, https://doi.org/10.1029/2004GB002395, 2005.
Zellweger, F., Frenne, P. D., Lenoir, J., Rocchini, D., and Coomes, D.: Advances in Microclimate Ecology Arising from Remote Sensing, Trend. Ecol. Evol., 34, 327–341, https://doi.org/10.1016/j.tree.2018.12.012, 2019.
Zhou, S., Duursma, R. A., Medlyn, B. E., Kelly, J. W. G., and Prentice, I. C.: How should we model plant responses to drought? An analysis of stomatal and non-stomatal responses to water stress, Agr. Forest Meteorol., 182, 204–214, https://doi.org/10.1016/j.agrformet.2013.05.009, 2013.
Zhou, S., Medlyn, B., Sabaté, S., Sperlich, D., Prentice, I. C., and others: Short-term water stress impacts on stomatal, mesophyll and biochemical limitations to photosynthesis differ consistently among tree species from contrasting climates, Tree Physio.y, 34, 1035–46, 2014.
Ziegler, C., Coste, S., Stahl, C., Delzon, S., Levionnois, S., Cazal, J., Cochard, H., Esquivel-Muelbert, A., Goret, J.-Y., Heuret, P., Jaouen, G., Santiago, L. S., and Bonal, D.: Large hydraulic safety margins protect Neotropical canopy rainforest tree species against hydraulic failure during drought, Ann. Forest Sci., 76, 115, https://doi.org/10.1007/s13595-019-0905-0, 2019.
Short summary
We describe TROLL 4.0, a simulator of forest dynamics that represents trees in a virtual space at 1 m resolution. Tree birth, growth, and death and the underlying physiological processes such as carbon assimilation, water transpiration, and leaf phenology depend on plant traits that are measured in the field for many individuals and species. The model is thus capable of jointly simulating forest structure, diversity, and ecosystem functioning, a major challenge in modelling vegetation dynamics.
We describe TROLL 4.0, a simulator of forest dynamics that represents trees in a virtual space...
