Articles | Volume 14, issue 5
https://doi.org/10.5194/gmd-14-2603-2021
© Author(s) 2021. 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-14-2603-2021
© Author(s) 2021. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Methods for assessment of models
| 
12 May 2021
Methods for assessment of models |
| 12 May 2021
| 12 May 2021
Cutting out the middleman: calibrating and validating a dynamic vegetation model (ED2-PROSPECT5) using remotely sensed surface reflectance
Alexey N. Shiklomanov
CORRESPONDING AUTHOR
NASA Goddard Space Flight Center, Greenbelt, MD, USA
Michael C. Dietze
Department of Earth and Environment, Boston University, Boston, MA, USA
Istem Fer
Finnish Meteorological Institute, Helsinki, Finland
Toni Viskari
Finnish Meteorological Institute, Helsinki, Finland
Shawn P. Serbin
Environmental and Climate Sciences Department, Brookhaven National Laboratory, Upton, NY, USA
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Kalyn Dorheim, Skylar Gering, Robert Gieseke, Corinne Hartin, Leeya Pressburger, Alexey N. Shiklomanov, Steven J. Smith, Claudia Tebaldi, Dawn L. Woodard, and Ben Bond-Lamberty
Geosci. Model Dev., 17, 4855–4869, https://doi.org/10.5194/gmd-17-4855-2024, https://doi.org/10.5194/gmd-17-4855-2024, 2024
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Hector is an easy-to-use, global climate–carbon cycle model. With its quick run time, Hector can provide climate information from a run in a fraction of a second. Hector models on a global and annual basis. Here, we present an updated version of the model, Hector V3. In this paper, we document Hector’s new features. Hector V3 is capable of reproducing historical observations, and its future temperature projections are consistent with those of more complex models.
Dawn L. Woodard, Alexey N. Shiklomanov, Ben Kravitz, Corinne Hartin, and Ben Bond-Lamberty
Geosci. Model Dev., 14, 4751–4767, https://doi.org/10.5194/gmd-14-4751-2021, https://doi.org/10.5194/gmd-14-4751-2021, 2021
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We have added a representation of the permafrost carbon feedback to the simple, open-source global carbon–climate model Hector and calibrated the results to be consistent with historical data and Earth system model projections. Our results closely match previous work, estimating around 0.2 °C of warming from permafrost this century. This capability will be useful to explore uncertainties in this feedback and for coupling with integrated assessment models for policy and economic analysis.
Jeff W. Atkins, Elizabeth Agee, Alexandra Barry, Kyla M. Dahlin, Kalyn Dorheim, Maxim S. Grigri, Lisa T. Haber, Laura J. Hickey, Aaron G. Kamoske, Kayla Mathes, Catherine McGuigan, Evan Paris, Stephanie C. Pennington, Carly Rodriguez, Autym Shafer, Alexey Shiklomanov, Jason Tallant, Christopher M. Gough, and Ben Bond-Lamberty
Earth Syst. Sci. Data, 13, 943–952, https://doi.org/10.5194/essd-13-943-2021, https://doi.org/10.5194/essd-13-943-2021, 2021
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The fortedata R package is an open data notebook from the Forest Resilience Threshold Experiment (FoRTE) – a modeling and manipulative field experiment that tests the effects of disturbance severity and disturbance type on carbon cycling dynamics in a temperate forest. The data included help to interpret how carbon cycling processes respond over time to disturbance.
Claudia Guidi, Sia Gosheva-Oney, Markus Didion, Roman Flury, Lorenz Walthert, Stephan Zimmermann, Brian J. Oney, Pascal A. Niklaus, Esther Thürig, Toni Viskari, Jari Liski, and Frank Hagedorn
EGUsphere, https://doi.org/10.5194/egusphere-2024-3788, https://doi.org/10.5194/egusphere-2024-3788, 2024
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Predicting soil organic carbon (SOC) stocks in forests is crucial for assessing C balance, yet drivers of SOC stocks remain uncertain at large scales. Across a broad environmental gradient in Switzerland, we compared measured SOC stocks with those modelled by Yasso20, commonly used for GHG budgets. Our results show that soil mineral properties and climate are main controls of SOC stocks, indicating that better accounting of these processes will advance accuracy of SOC stock predictions.
Kalyn Dorheim, Skylar Gering, Robert Gieseke, Corinne Hartin, Leeya Pressburger, Alexey N. Shiklomanov, Steven J. Smith, Claudia Tebaldi, Dawn L. Woodard, and Ben Bond-Lamberty
Geosci. Model Dev., 17, 4855–4869, https://doi.org/10.5194/gmd-17-4855-2024, https://doi.org/10.5194/gmd-17-4855-2024, 2024
Short summary
Short summary
Hector is an easy-to-use, global climate–carbon cycle model. With its quick run time, Hector can provide climate information from a run in a fraction of a second. Hector models on a global and annual basis. Here, we present an updated version of the model, Hector V3. In this paper, we document Hector’s new features. Hector V3 is capable of reproducing historical observations, and its future temperature projections are consistent with those of more complex models.
Jarmo Mäkelä, Laura Arppe, Hannu Fritze, Jussi Heinonsalo, Kristiina Karhu, Jari Liski, Markku Oinonen, Petra Straková, and Toni Viskari
Biogeosciences, 19, 4305–4313, https://doi.org/10.5194/bg-19-4305-2022, https://doi.org/10.5194/bg-19-4305-2022, 2022
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Soils account for the largest share of carbon found in terrestrial ecosystems, and accurate depiction of soil carbon decomposition is essential in understanding how permanent these carbon storages are. We present a straightforward way to include carbon isotope concentrations into soil decomposition and carbon storages for the Yasso model, which enables the model to use 13C as a natural tracer to track changes in the underlying soil organic matter decomposition.
Qianyu Li, Shawn P. Serbin, Julien Lamour, Kenneth J. Davidson, Kim S. Ely, and Alistair Rogers
Geosci. Model Dev., 15, 4313–4329, https://doi.org/10.5194/gmd-15-4313-2022, https://doi.org/10.5194/gmd-15-4313-2022, 2022
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Stomatal conductance is the rate of water release from leaves’ pores. We implemented an optimal stomatal conductance model in a vegetation model. We then tested and compared it with the existing empirical model in terms of model responses to key environmental variables. We also evaluated the model with measurements at a tropical forest site. Our study suggests that the parameterization of conductance models and current model response to drought are the critical areas for improving models.
Hamze Dokoohaki, Bailey D. Morrison, Ann Raiho, Shawn P. Serbin, Katie Zarada, Luke Dramko, and Michael Dietze
Geosci. Model Dev., 15, 3233–3252, https://doi.org/10.5194/gmd-15-3233-2022, https://doi.org/10.5194/gmd-15-3233-2022, 2022
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We present a new terrestrial carbon cycle data assimilation system, built on the PEcAn model–data eco-informatics system, and its application for the development of a proof-of-concept carbon
reanalysisproduct that harmonizes carbon pools (leaf, wood, soil) and fluxes (GPP, Ra, Rh, NEE) across the contiguous United States from 1986–2019. Here, we build on a decade of work on uncertainty propagation to generate the most complete and robust uncertainty accounting available to date.
Weilin Huang, Peter M. van Bodegom, Toni Viskari, Jari Liski, and Nadejda A. Soudzilovskaia
Biogeosciences, 19, 1469–1490, https://doi.org/10.5194/bg-19-1469-2022, https://doi.org/10.5194/bg-19-1469-2022, 2022
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This work focuses on one of the essential pathways of mycorrhizal impact on C cycles: the mediation of plant litter decomposition. We present a model based on litter chemical quality which precludes a conclusive examination of mycorrhizal impacts on soil C. It improves long-term decomposition predictions and advances our understanding of litter decomposition dynamics. It creates a benchmark in quantitatively examining the impacts of plant–microbe interactions on soil C dynamics.
Toni Viskari, Janne Pusa, Istem Fer, Anna Repo, Julius Vira, and Jari Liski
Geosci. Model Dev., 15, 1735–1752, https://doi.org/10.5194/gmd-15-1735-2022, https://doi.org/10.5194/gmd-15-1735-2022, 2022
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We wanted to examine how the chosen measurement data and calibration process affect soil organic carbon model calibration. In our results we found that there is a benefit in using data from multiple litter-bag decomposition experiments simultaneously, even with the required assumptions. Additionally, due to the amount of noise and uncertainties in the system, more advanced calibration methods should be used to parameterize the models.
Olli Nevalainen, Olli Niemitalo, Istem Fer, Antti Juntunen, Tuomas Mattila, Olli Koskela, Joni Kukkamäki, Layla Höckerstedt, Laura Mäkelä, Pieta Jarva, Laura Heimsch, Henriikka Vekuri, Liisa Kulmala, Åsa Stam, Otto Kuusela, Stephanie Gerin, Toni Viskari, Julius Vira, Jari Hyväluoma, Juha-Pekka Tuovinen, Annalea Lohila, Tuomas Laurila, Jussi Heinonsalo, Tuula Aalto, Iivari Kunttu, and Jari Liski
Geosci. Instrum. Method. Data Syst., 11, 93–109, https://doi.org/10.5194/gi-11-93-2022, https://doi.org/10.5194/gi-11-93-2022, 2022
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Better monitoring of soil carbon sequestration is needed to understand the best carbon farming practices in different soils and climate conditions. We, the Field Observatory Network (FiON), have therefore established a methodology for monitoring and forecasting agricultural carbon sequestration by combining offline and near-real-time field measurements, weather data, satellite imagery, and modeling. To disseminate our work, we built a website called the Field Observatory (fieldobservatory.org).
Dawn L. Woodard, Alexey N. Shiklomanov, Ben Kravitz, Corinne Hartin, and Ben Bond-Lamberty
Geosci. Model Dev., 14, 4751–4767, https://doi.org/10.5194/gmd-14-4751-2021, https://doi.org/10.5194/gmd-14-4751-2021, 2021
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We have added a representation of the permafrost carbon feedback to the simple, open-source global carbon–climate model Hector and calibrated the results to be consistent with historical data and Earth system model projections. Our results closely match previous work, estimating around 0.2 °C of warming from permafrost this century. This capability will be useful to explore uncertainties in this feedback and for coupling with integrated assessment models for policy and economic analysis.
Kathryn I. Wheeler and Michael C. Dietze
Biogeosciences, 18, 1971–1985, https://doi.org/10.5194/bg-18-1971-2021, https://doi.org/10.5194/bg-18-1971-2021, 2021
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Monitoring leaf phenology (i.e., seasonality) allows for tracking the progression of climate change and seasonal variations in a variety of organismal and ecosystem processes. Recent versions of the Geostationary Operational Environmental Satellites allow for the monitoring of a phenological-sensitive index at a high temporal frequency (5–10 min) throughout most of the western hemisphere. Here we show the high potential of these new data to measure the phenology of deciduous forests.
Jeff W. Atkins, Elizabeth Agee, Alexandra Barry, Kyla M. Dahlin, Kalyn Dorheim, Maxim S. Grigri, Lisa T. Haber, Laura J. Hickey, Aaron G. Kamoske, Kayla Mathes, Catherine McGuigan, Evan Paris, Stephanie C. Pennington, Carly Rodriguez, Autym Shafer, Alexey Shiklomanov, Jason Tallant, Christopher M. Gough, and Ben Bond-Lamberty
Earth Syst. Sci. Data, 13, 943–952, https://doi.org/10.5194/essd-13-943-2021, https://doi.org/10.5194/essd-13-943-2021, 2021
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The fortedata R package is an open data notebook from the Forest Resilience Threshold Experiment (FoRTE) – a modeling and manipulative field experiment that tests the effects of disturbance severity and disturbance type on carbon cycling dynamics in a temperate forest. The data included help to interpret how carbon cycling processes respond over time to disturbance.
Toni Viskari, Maisa Laine, Liisa Kulmala, Jarmo Mäkelä, Istem Fer, and Jari Liski
Geosci. Model Dev., 13, 5959–5971, https://doi.org/10.5194/gmd-13-5959-2020, https://doi.org/10.5194/gmd-13-5959-2020, 2020
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The research here established whether a Bayesian statistical method called state data assimilation could be used to improve soil organic carbon (SOC) forecasts. Our test case was a fallow experiment where SOC content was measured over several decades from a plot where all vegetation was removed. Our results showed that state data assimilation improved projections and allowed for the detailed model state be updated with coarse total carbon measurements.
Charles D. Koven, Ryan G. Knox, Rosie A. Fisher, Jeffrey Q. Chambers, Bradley O. Christoffersen, Stuart J. Davies, Matteo Detto, Michael C. Dietze, Boris Faybishenko, Jennifer Holm, Maoyi Huang, Marlies Kovenock, Lara M. Kueppers, Gregory Lemieux, Elias Massoud, Nathan G. McDowell, Helene C. Muller-Landau, Jessica F. Needham, Richard J. Norby, Thomas Powell, Alistair Rogers, Shawn P. Serbin, Jacquelyn K. Shuman, Abigail L. S. Swann, Charuleka Varadharajan, Anthony P. Walker, S. Joseph Wright, and Chonggang Xu
Biogeosciences, 17, 3017–3044, https://doi.org/10.5194/bg-17-3017-2020, https://doi.org/10.5194/bg-17-3017-2020, 2020
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Tropical forests play a crucial role in governing climate feedbacks, and are incredibly diverse ecosystems, yet most Earth system models do not take into account the diversity of plant traits in these forests and how this diversity may govern feedbacks. We present an approach to represent diverse competing plant types within Earth system models, test this approach at a tropical forest site, and explore how the representation of disturbance and competition governs traits of the forest community.
Christopher P. O. Reyer, Ramiro Silveyra Gonzalez, Klara Dolos, Florian Hartig, Ylva Hauf, Matthias Noack, Petra Lasch-Born, Thomas Rötzer, Hans Pretzsch, Henning Meesenburg, Stefan Fleck, Markus Wagner, Andreas Bolte, Tanja G. M. Sanders, Pasi Kolari, Annikki Mäkelä, Timo Vesala, Ivan Mammarella, Jukka Pumpanen, Alessio Collalti, Carlo Trotta, Giorgio Matteucci, Ettore D'Andrea, Lenka Foltýnová, Jan Krejza, Andreas Ibrom, Kim Pilegaard, Denis Loustau, Jean-Marc Bonnefond, Paul Berbigier, Delphine Picart, Sébastien Lafont, Michael Dietze, David Cameron, Massimo Vieno, Hanqin Tian, Alicia Palacios-Orueta, Victor Cicuendez, Laura Recuero, Klaus Wiese, Matthias Büchner, Stefan Lange, Jan Volkholz, Hyungjun Kim, Joanna A. Horemans, Friedrich Bohn, Jörg Steinkamp, Alexander Chikalanov, Graham P. Weedon, Justin Sheffield, Flurin Babst, Iliusi Vega del Valle, Felicitas Suckow, Simon Martel, Mats Mahnken, Martin Gutsch, and Katja Frieler
Earth Syst. Sci. Data, 12, 1295–1320, https://doi.org/10.5194/essd-12-1295-2020, https://doi.org/10.5194/essd-12-1295-2020, 2020
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Process-based vegetation models are widely used to predict local and global ecosystem dynamics and climate change impacts. Due to their complexity, they require careful parameterization and evaluation to ensure that projections are accurate and reliable. The PROFOUND Database provides a wide range of empirical data to calibrate and evaluate vegetation models that simulate climate impacts at the forest stand scale to support systematic model intercomparisons and model development in Europe.
Marcos Longo, Ryan G. Knox, David M. Medvigy, Naomi M. Levine, Michael C. Dietze, Yeonjoo Kim, Abigail L. S. Swann, Ke Zhang, Christine R. Rollinson, Rafael L. Bras, Steven C. Wofsy, and Paul R. Moorcroft
Geosci. Model Dev., 12, 4309–4346, https://doi.org/10.5194/gmd-12-4309-2019, https://doi.org/10.5194/gmd-12-4309-2019, 2019
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Our paper describes the Ecosystem Demography model. This computer program calculates how plants and ground exchange heat, water, and carbon with the air, and how plants grow, reproduce and die in different climates. Most models simplify forests to an average big tree. We consider that tall, deep-rooted trees get more light and water than small plants, and that some plants can with shade and drought. This diversity helps us to better explain how plants live and interact with the atmosphere.
Marcos Longo, Ryan G. Knox, Naomi M. Levine, Abigail L. S. Swann, David M. Medvigy, Michael C. Dietze, Yeonjoo Kim, Ke Zhang, Damien Bonal, Benoit Burban, Plínio B. Camargo, Matthew N. Hayek, Scott R. Saleska, Rodrigo da Silva, Rafael L. Bras, Steven C. Wofsy, and Paul R. Moorcroft
Geosci. Model Dev., 12, 4347–4374, https://doi.org/10.5194/gmd-12-4347-2019, https://doi.org/10.5194/gmd-12-4347-2019, 2019
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The Ecosystem Demography model calculates the fluxes of heat, water, and carbon between plants and ground and the air, and the life cycle of plants in different climates. To test if our calculations were reasonable, we compared our results with field and satellite measurements. Our model predicts well the extent of the Amazon forest, how much light forests absorb, and how much water forests release to the air. However, it must improve the tree growth rates and how fast dead plants decompose.
Jarmo Mäkelä, Jürgen Knauer, Mika Aurela, Andrew Black, Martin Heimann, Hideki Kobayashi, Annalea Lohila, Ivan Mammarella, Hank Margolis, Tiina Markkanen, Jouni Susiluoto, Tea Thum, Toni Viskari, Sönke Zaehle, and Tuula Aalto
Geosci. Model Dev., 12, 4075–4098, https://doi.org/10.5194/gmd-12-4075-2019, https://doi.org/10.5194/gmd-12-4075-2019, 2019
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We assess the differences of six stomatal conductance formulations, embedded into a land–vegetation model JSBACH, on 10 boreal coniferous evergreen forest sites. We calibrate the model parameters using all six functions in a multi-year experiment, as well as for a separate drought event at one of the sites, using the adaptive population importance sampler. The analysis reveals weaknesses in the stomatal conductance formulation-dependent model behaviour that we are able to partially amend.
Istem Fer, Ryan Kelly, Paul R. Moorcroft, Andrew D. Richardson, Elizabeth M. Cowdery, and Michael C. Dietze
Biogeosciences, 15, 5801–5830, https://doi.org/10.5194/bg-15-5801-2018, https://doi.org/10.5194/bg-15-5801-2018, 2018
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The computer models we use to understand and forecast the ecosystem changes have multiple components that determine their outcomes. Due to our limited observation capacities, these components bear uncertainties that in return affect our predictions. While there are techniques for reducing these uncertainties, they are not applicable to every model due to computational and statistical barriers. This research presents a method that lowers those barriers and allows us to improve model predictions.
Anthony P. Walker, Ming Ye, Dan Lu, Martin G. De Kauwe, Lianhong Gu, Belinda E. Medlyn, Alistair Rogers, and Shawn P. Serbin
Geosci. Model Dev., 11, 3159–3185, https://doi.org/10.5194/gmd-11-3159-2018, https://doi.org/10.5194/gmd-11-3159-2018, 2018
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Large uncertainty is inherent in model predictions due to imperfect knowledge of how to describe the processes that a model is intended to represent. Yet methods to quantify and evaluate this model hypothesis uncertainty are limited. To address this, the multi-assumption architecture and testbed (MAAT) automates the generation of all possible models by combining multiple representations of multiple processes. MAAT provides a formal framework for quantification of model hypothesis uncertainty.
Jennifer R. Marlon, Neil Pederson, Connor Nolan, Simon Goring, Bryan Shuman, Ann Robertson, Robert Booth, Patrick J. Bartlein, Melissa A. Berke, Michael Clifford, Edward Cook, Ann Dieffenbacher-Krall, Michael C. Dietze, Amy Hessl, J. Bradford Hubeny, Stephen T. Jackson, Jeremiah Marsicek, Jason McLachlan, Cary J. Mock, David J. P. Moore, Jonathan Nichols, Dorothy Peteet, Kevin Schaefer, Valerie Trouet, Charles Umbanhowar, John W. Williams, and Zicheng Yu
Clim. Past, 13, 1355–1379, https://doi.org/10.5194/cp-13-1355-2017, https://doi.org/10.5194/cp-13-1355-2017, 2017
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To improve our understanding of paleoclimate in the northeastern (NE) US, we compiled data from pollen, tree rings, lake levels, testate amoeba from bogs, and other proxies from the last 3000 years. The paleoclimate synthesis supports long-term cooling until the 1800s and reveals an abrupt transition from wet to dry conditions around 550–750 CE. Evidence suggests the region is now becoming warmer and wetter, but more calibrated data are needed, especially to capture multidecadal variability.
Keith F. Lewin, Andrew M. McMahon, Kim S. Ely, Shawn P. Serbin, and Alistair Rogers
Biogeosciences, 14, 4071–4083, https://doi.org/10.5194/bg-14-4071-2017, https://doi.org/10.5194/bg-14-4071-2017, 2017
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Experiments that manipulate the temperature of plants and ecosystems are used to improve understanding of how they will respond to climate change. In logistically challenging locations passive warming using solar energy is the the only viable option for warming experiments. Unfortunately current passive warming approaches can only raise air temperature by about 1.5 °C. We have developed a novel approach that doubles the warming possible using solar energy and requires no power.
P. C. Stoy, M. C. Dietze, A. D. Richardson, R. Vargas, A. G. Barr, R. S. Anderson, M. A. Arain, I. T. Baker, T. A. Black, J. M. Chen, R. B. Cook, C. M. Gough, R. F. Grant, D. Y. Hollinger, R. C. Izaurralde, C. J. Kucharik, P. Lafleur, B. E. Law, S. Liu, E. Lokupitiya, Y. Luo, J. W. Munger, C. Peng, B. Poulter, D. T. Price, D. M. Ricciuto, W. J. Riley, A. K. Sahoo, K. Schaefer, C. R. Schwalm, H. Tian, H. Verbeeck, and E. Weng
Biogeosciences, 10, 6893–6909, https://doi.org/10.5194/bg-10-6893-2013, https://doi.org/10.5194/bg-10-6893-2013, 2013
T. Viskari, E. Asmi, P. Kolmonen, H. Vuollekoski, T. Petäjä, and H. Järvinen
Atmos. Chem. Phys., 12, 11767–11779, https://doi.org/10.5194/acp-12-11767-2012, https://doi.org/10.5194/acp-12-11767-2012, 2012
T. Viskari, E. Asmi, A. Virkkula, P. Kolmonen, T. Petäjä, and H. Järvinen
Atmos. Chem. Phys., 12, 11781–11793, https://doi.org/10.5194/acp-12-11781-2012, https://doi.org/10.5194/acp-12-11781-2012, 2012
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Ling Li, Peipei Wu, Peng Zhang, Shaojian Huang, and Yanxu Zhang
Geosci. Model Dev., 17, 8683–8695, https://doi.org/10.5194/gmd-17-8683-2024, https://doi.org/10.5194/gmd-17-8683-2024, 2024
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In this study, we incorporate sea surfactants and wave-breaking processes into MITgcm-ECCOv4-Hg. The updated model shows increased fluxes in high-wind-speed and high-wave regions and vice versa, enhancing spatial heterogeneity. It shows that elemental mercury (Hg0) transfer velocity is more sensitive to wind speed. These findings may elucidate the discrepancies in previous estimations and offer insights into global Hg cycling.
Jerome Guiet, Daniele Bianchi, Kim J. N. Scherrer, Ryan F. Heneghan, and Eric D. Galbraith
Geosci. Model Dev., 17, 8421–8454, https://doi.org/10.5194/gmd-17-8421-2024, https://doi.org/10.5194/gmd-17-8421-2024, 2024
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The BiOeconomic mArine Trophic Size-spectrum (BOATSv2) model dynamically simulates global commercial fish populations and their coupling with fishing activity, as emerging from environmental and economic drivers. New features, including separate pelagic and demersal populations, iron limitation, and spatial variation of fishing costs and management, improve the accuracy of high seas fisheries. The updated model code is available to simulate both historical and future scenarios.
Jize Jiang, David S. Stevenson, and Mark A. Sutton
Geosci. Model Dev., 17, 8181–8222, https://doi.org/10.5194/gmd-17-8181-2024, https://doi.org/10.5194/gmd-17-8181-2024, 2024
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A special model called AMmonia–CLIMate (AMCLIM) has been developed to understand and calculate NH3 emissions from fertilizer use and also taking into account how the environment influences these NH3 emissions. It is estimated that about 17 % of applied N in fertilizers was lost due to NH3 emissions. Hot and dry conditions and regions with high-pH soils can expect higher NH3 emissions.
Guillaume Marie, Jina Jeong, Hervé Jactel, Gunnar Petter, Maxime Cailleret, Matthew J. McGrath, Vladislav Bastrikov, Josefine Ghattas, Bertrand Guenet, Anne Sofie Lansø, Kim Naudts, Aude Valade, Chao Yue, and Sebastiaan Luyssaert
Geosci. Model Dev., 17, 8023–8047, https://doi.org/10.5194/gmd-17-8023-2024, https://doi.org/10.5194/gmd-17-8023-2024, 2024
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This research looks at how climate change influences forests, and particularly how altered wind and insect activities could make forests emit instead of absorb carbon. We have updated a land surface model called ORCHIDEE to better examine the effect of bark beetles on forest health. Our findings suggest that sudden events, such as insect outbreaks, can dramatically affect carbon storage, offering crucial insights into tackling climate change.
Stephen Björn Wirth, Johanna Braun, Jens Heinke, Sebastian Ostberg, Susanne Rolinski, Sibyll Schaphoff, Fabian Stenzel, Werner von Bloh, Friedhelm Taube, and Christoph Müller
Geosci. Model Dev., 17, 7889–7914, https://doi.org/10.5194/gmd-17-7889-2024, https://doi.org/10.5194/gmd-17-7889-2024, 2024
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We present a new approach to modelling biological nitrogen fixation (BNF) in the Lund–Potsdam–Jena managed Land dynamic global vegetation model. While in the original approach BNF depended on actual evapotranspiration, the new approach considers soil water content and temperature, vertical root distribution, the nitrogen (N) deficit and carbon (C) costs. The new approach improved simulated BNF compared to the scientific literature and the model ability to project future C and N cycle dynamics.
Saeed Harati-Asl, Liliana Perez, and Roberto Molowny-Horas
Geosci. Model Dev., 17, 7423–7443, https://doi.org/10.5194/gmd-17-7423-2024, https://doi.org/10.5194/gmd-17-7423-2024, 2024
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Social–ecological systems are the subject of many sustainability problems. Because of the complexity of these systems, we must be careful when intervening in them; otherwise we may cause irreversible damage. Using computer models, we can gain insight about these complex systems without harming them. In this paper we describe how we connected an ecological model of forest insect infestation with a social model of cooperation and simulated an intervention measure to save a forest from infestation.
Katarína Merganičová, Ján Merganič, Laura Dobor, Roland Hollós, Zoltán Barcza, Dóra Hidy, Zuzana Sitková, Pavel Pavlenda, Hrvoje Marjanovic, Daniel Kurjak, Michal Bošel'a, Doroteja Bitunjac, Maša Zorana Ostrogović Sever, Jiří Novák, Peter Fleischer, and Tomáš Hlásny
Geosci. Model Dev., 17, 7317–7346, https://doi.org/10.5194/gmd-17-7317-2024, https://doi.org/10.5194/gmd-17-7317-2024, 2024
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We developed a multi-objective calibration approach leading to robust parameter values aiming to strike a balance between their local precision and broad applicability. Using the Biome-BGCMuSo model, we tested the calibrated parameter sets for simulating European beech forest dynamics across large environmental gradients. Leveraging data from 87 plots and five European countries, the results demonstrated reasonable local accuracy and plausible large-scale productivity responses.
Guohua Liu, Mirco Migliavacca, Christian Reimers, Basil Kraft, Markus Reichstein, Andrew D. Richardson, Lisa Wingate, Nicolas Delpierre, Hui Yang, and Alexander J. Winkler
Geosci. Model Dev., 17, 6683–6701, https://doi.org/10.5194/gmd-17-6683-2024, https://doi.org/10.5194/gmd-17-6683-2024, 2024
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Our study employs long short-term memory (LSTM) networks to model canopy greenness and phenology, integrating meteorological memory effects. The LSTM model outperforms traditional methods, enhancing accuracy in predicting greenness dynamics and phenological transitions across plant functional types. Highlighting the importance of multi-variate meteorological memory effects, our research pioneers unlock the secrets of vegetation phenology responses to climate change with deep learning techniques.
Thi Lan Anh Dinh, Daniel Goll, Philippe Ciais, and Ronny Lauerwald
Geosci. Model Dev., 17, 6725–6744, https://doi.org/10.5194/gmd-17-6725-2024, https://doi.org/10.5194/gmd-17-6725-2024, 2024
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The study assesses the performance of the dynamic global vegetation model (DGVM) ORCHIDEE in capturing the impact of land-use change on carbon stocks across Europe. Comparisons with observations reveal that the model accurately represents carbon fluxes and stocks. Despite the underestimations in certain land-use conversions, the model describes general trends in soil carbon response to land-use change, aligning with the site observations.
Nathaelle Bouttes, Lester Kwiatkowski, Manon Berger, Victor Brovkin, and Guy Munhoven
Geosci. Model Dev., 17, 6513–6528, https://doi.org/10.5194/gmd-17-6513-2024, https://doi.org/10.5194/gmd-17-6513-2024, 2024
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Coral reefs are crucial for biodiversity, but they also play a role in the carbon cycle on long time scales of a few thousand years. To better simulate the future and past evolution of coral reefs and their effect on the global carbon cycle, hence on atmospheric CO2 concentration, it is necessary to include coral reefs within a climate model. Here we describe the inclusion of coral reef carbonate production in a carbon–climate model and its validation in comparison to existing modern data.
Huajie Zhu, Mousong Wu, Fei Jiang, Michael Vossbeck, Thomas Kaminski, Xiuli Xing, Jun Wang, Weimin Ju, and Jing M. Chen
Geosci. Model Dev., 17, 6337–6363, https://doi.org/10.5194/gmd-17-6337-2024, https://doi.org/10.5194/gmd-17-6337-2024, 2024
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In this work, we developed the Nanjing University Carbon Assimilation System (NUCAS v1.0). Data assimilation experiments were conducted to demonstrate the robustness and investigate the feasibility and applicability of NUCAS. The assimilation of ecosystem carbonyl sulfide (COS) fluxes improved the model performance in gross primary productivity, evapotranspiration, and sensible heat, showing that COS provides constraints on parameters relevant to carbon-, water-, and energy-related processes.
Fang Li, Zhimin Zhou, Samuel Levis, Stephen Sitch, Felicity Hayes, Zhaozhong Feng, Peter B. Reich, Zhiyi Zhao, and Yanqing Zhou
Geosci. Model Dev., 17, 6173–6193, https://doi.org/10.5194/gmd-17-6173-2024, https://doi.org/10.5194/gmd-17-6173-2024, 2024
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A new scheme is developed to model the surface ozone damage to vegetation in regional and global process-based models. Based on 4210 data points from ozone experiments, it accurately reproduces statistically significant linear or nonlinear photosynthetic and stomatal responses to ozone in observations for all vegetation types. It also enables models to implicitly capture the variability in plant ozone tolerance and the shift among species within a vegetation type.
Alexander S. Brunmayr, Frank Hagedorn, Margaux Moreno Duborgel, Luisa I. Minich, and Heather D. Graven
Geosci. Model Dev., 17, 5961–5985, https://doi.org/10.5194/gmd-17-5961-2024, https://doi.org/10.5194/gmd-17-5961-2024, 2024
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A new generation of soil models promises to more accurately predict the carbon cycle in soils under climate change. However, measurements of 14C (the radioactive carbon isotope) in soils reveal that the new soil models face similar problems to the traditional models: they underestimate the residence time of carbon in soils and may therefore overestimate the net uptake of CO2 by the land ecosystem. Proposed solutions include restructuring the models and calibrating model parameters with 14C data.
Nina Raoult, Simon Beylat, James M. Salter, Frédéric Hourdin, Vladislav Bastrikov, Catherine Ottlé, and Philippe Peylin
Geosci. Model Dev., 17, 5779–5801, https://doi.org/10.5194/gmd-17-5779-2024, https://doi.org/10.5194/gmd-17-5779-2024, 2024
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We use computer models to predict how the land surface will respond to climate change. However, these complex models do not always simulate what we observe in real life, limiting their effectiveness. To improve their accuracy, we use sophisticated statistical and computational techniques. We test a technique called history matching against more common approaches. This method adapts well to these models, helping us better understand how they work and therefore how to make them more realistic.
Jorn Bruggeman, Karsten Bolding, Lars Nerger, Anna Teruzzi, Simone Spada, Jozef Skákala, and Stefano Ciavatta
Geosci. Model Dev., 17, 5619–5639, https://doi.org/10.5194/gmd-17-5619-2024, https://doi.org/10.5194/gmd-17-5619-2024, 2024
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To understand and predict the ocean’s capacity for carbon sequestration, its ability to supply food, and its response to climate change, we need the best possible estimate of its physical and biogeochemical properties. This is obtained through data assimilation which blends numerical models and observations. We present the Ensemble and Assimilation Tool (EAT), a flexible and efficient test bed that allows any scientist to explore and further develop the state of the art in data assimilation.
Dongyu Zheng, Andrew S. Merdith, Yves Goddéris, Yannick Donnadieu, Khushboo Gurung, and Benjamin J. W. Mills
Geosci. Model Dev., 17, 5413–5429, https://doi.org/10.5194/gmd-17-5413-2024, https://doi.org/10.5194/gmd-17-5413-2024, 2024
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This study uses a deep learning method to upscale the time resolution of paleoclimate simulations to 1 million years. This improved resolution allows a climate-biogeochemical model to more accurately predict climate shifts. The method may be critical in developing new fully continuous methods that are able to be applied over a moving continental surface in deep time with high resolution at reasonable computational expense.
Boris Ťupek, Aleksi Lehtonen, Alla Yurova, Rose Abramoff, Bertrand Guenet, Elisa Bruni, Samuli Launiainen, Mikko Peltoniemi, Shoji Hashimoto, Xianglin Tian, Juha Heikkinen, Kari Minkkinen, and Raisa Mäkipää
Geosci. Model Dev., 17, 5349–5367, https://doi.org/10.5194/gmd-17-5349-2024, https://doi.org/10.5194/gmd-17-5349-2024, 2024
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Updating the Yasso07 soil C model's dependency on decomposition with a hump-shaped Ricker moisture function improved modelled soil organic C (SOC) stocks in a catena of mineral and organic soils in boreal forest. The Ricker function, set to peak at a rate of 1 and calibrated against SOC and CO2 data using a Bayesian approach, showed a maximum in well-drained soils. Using SOC and CO2 data together with the moisture only from the topsoil humus was crucial for accurate model estimates.
Jacquelyn K. Shuman, Rosie A. Fisher, Charles Koven, Ryan Knox, Lara Kueppers, and Chonggang Xu
Geosci. Model Dev., 17, 4643–4671, https://doi.org/10.5194/gmd-17-4643-2024, https://doi.org/10.5194/gmd-17-4643-2024, 2024
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We adapt a fire behavior and effects module for use in a size-structured vegetation demographic model to test how climate, fire regime, and fire-tolerance plant traits interact to determine the distribution of tropical forests and grasslands. Our model captures the connection between fire disturbance and plant fire-tolerance strategies in determining plant distribution and provides a useful tool for understanding the vulnerability of these areas under changing conditions across the tropics.
Yoshiki Kanzaki, Isabella Chiaravalloti, Shuang Zhang, Noah J. Planavsky, and Christopher T. Reinhard
Geosci. Model Dev., 17, 4515–4532, https://doi.org/10.5194/gmd-17-4515-2024, https://doi.org/10.5194/gmd-17-4515-2024, 2024
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Soil pH is one of the most commonly measured agronomical and biogeochemical indices, mostly reflecting exchangeable acidity. Explicit simulation of both porewater and bulk soil pH is thus crucial to the accurate evaluation of alkalinity required to counteract soil acidification and the resulting capture of anthropogenic carbon dioxide through the enhanced weathering technique. This has been enabled by the updated reactive–transport SCEPTER code and newly developed framework to simulate soil pH.
David Sandoval, Iain Colin Prentice, and Rodolfo L. B. Nóbrega
Geosci. Model Dev., 17, 4229–4309, https://doi.org/10.5194/gmd-17-4229-2024, https://doi.org/10.5194/gmd-17-4229-2024, 2024
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Numerous estimates of water and energy balances depend on empirical equations requiring site-specific calibration, posing risks of "the right answers for the wrong reasons". We introduce novel first-principles formulations to calculate key quantities without requiring local calibration, matching predictions from complex land surface models.
Oliver Perkins, Matthew Kasoar, Apostolos Voulgarakis, Cathy Smith, Jay Mistry, and James D. A. Millington
Geosci. Model Dev., 17, 3993–4016, https://doi.org/10.5194/gmd-17-3993-2024, https://doi.org/10.5194/gmd-17-3993-2024, 2024
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Wildfire is often presented in the media as a danger to human life. Yet globally, millions of people’s livelihoods depend on using fire as a tool. So, patterns of fire emerge from interactions between humans, land use, and climate. This complexity means scientists cannot yet reliably say how fire will be impacted by climate change. So, we developed a new model that represents globally how people use and manage fire. The model reveals the extent and diversity of how humans live with and use fire.
Amos P. K. Tai, David H. Y. Yung, and Timothy Lam
Geosci. Model Dev., 17, 3733–3764, https://doi.org/10.5194/gmd-17-3733-2024, https://doi.org/10.5194/gmd-17-3733-2024, 2024
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We have developed the Terrestrial Ecosystem Model in R (TEMIR), which simulates plant carbon and pollutant uptake and predicts their response to varying atmospheric conditions. This model is designed to couple with an atmospheric chemistry model so that questions related to plant–atmosphere interactions, such as the effects of climate change, rising CO2, and ozone pollution on forest carbon uptake, can be addressed. The model has been well validated with both ground and satellite observations.
Christian Poppe Terán, Bibi S. Naz, Harry Vereecken, Roland Baatz, Rosie Fisher, and Harrie-Jan Hendricks Franssen
EGUsphere, https://doi.org/10.5194/egusphere-2024-978, https://doi.org/10.5194/egusphere-2024-978, 2024
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Carbon and water exchanges between the atmosphere and the land surface contribute to water resource availability and climate change mitigation. Land Surface Models, like the Community Land Model version 5 (CLM5), simulate these. This study finds that CLM5 and other data sets underestimate the magnitudes and variability of carbon and water exchanges for the most abundant plant functional types compared to observations. It provides essential insights for further research on these processes.
Katherine A. Muller, Peishi Jiang, Glenn Hammond, Tasneem Ahmadullah, Hyun-Seob Song, Ravi Kukkadapu, Nicholas Ward, Madison Bowe, Rosalie K. Chu, Qian Zhao, Vanessa A. Garayburu-Caruso, Alan Roebuck, and Xingyuan Chen
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2024-34, https://doi.org/10.5194/gmd-2024-34, 2024
Revised manuscript accepted for GMD
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The newly developed Lambda-PFLOTRAN workflow incorporates organic matter chemistry into reaction networks to simulate respiration and the resulting biogeochemistry. Lambda-PFLOTRAN is a python-based workflow via a Jupyter Notebook interface, that digests raw organic matter chemistry data via FTICR-MS, develops the representative reaction network, and completes a biogeochemical simulation with the open source, parallel reactive flow and transport code PFLOTRAN.
Fabian Stenzel, Johanna Braun, Jannes Breier, Karlheinz Erb, Dieter Gerten, Jens Heinke, Sarah Matej, Sebastian Ostberg, Sibyll Schaphoff, and Wolfgang Lucht
Geosci. Model Dev., 17, 3235–3258, https://doi.org/10.5194/gmd-17-3235-2024, https://doi.org/10.5194/gmd-17-3235-2024, 2024
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We provide an R package to compute two biosphere integrity metrics that can be applied to simulations of vegetation growth from the dynamic global vegetation model LPJmL. The pressure metric BioCol indicates that we humans modify and extract > 20 % of the potential preindustrial natural biomass production. The ecosystems state metric EcoRisk shows a high risk of ecosystem destabilization in many regions as a result of climate change and land, water, and fertilizer use.
Elin Ristorp Aas, Heleen A. de Wit, and Terje K. Berntsen
Geosci. Model Dev., 17, 2929–2959, https://doi.org/10.5194/gmd-17-2929-2024, https://doi.org/10.5194/gmd-17-2929-2024, 2024
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By including microbial processes in soil models, we learn how the soil system interacts with its environment and responds to climate change. We present a soil process model, MIMICS+, which is able to reproduce carbon stocks found in boreal forest soils better than a conventional land model. With the model we also find that when adding nitrogen, the relationship between soil microbes changes notably. Coupling the model to a vegetation model will allow for further study of these mechanisms.
Thomas Wutzler, Christian Reimers, Bernhard Ahrens, and Marion Schrumpf
Geosci. Model Dev., 17, 2705–2725, https://doi.org/10.5194/gmd-17-2705-2024, https://doi.org/10.5194/gmd-17-2705-2024, 2024
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Soil microbes provide a strong link for elemental fluxes in the earth system. The SESAM model applies an optimality assumption to model those linkages and their adaptation. We found that a previous heuristic description was a special case of a newly developed more rigorous description. The finding of new behaviour at low microbial biomass led us to formulate the constrained enzyme hypothesis. We now can better describe how microbially mediated linkages of elemental fluxes adapt across decades.
Salvatore R. Curasi, Joe R. Melton, Elyn R. Humphreys, Txomin Hermosilla, and Michael A. Wulder
Geosci. Model Dev., 17, 2683–2704, https://doi.org/10.5194/gmd-17-2683-2024, https://doi.org/10.5194/gmd-17-2683-2024, 2024
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Canadian forests are responding to fire, harvest, and climate change. Models need to quantify these processes and their carbon and energy cycling impacts. We develop a scheme that, based on satellite records, represents fire, harvest, and the sparsely vegetated areas that these processes generate. We evaluate model performance and demonstrate the impacts of disturbance on carbon and energy cycling. This work has implications for land surface modeling and assessing Canada’s terrestrial C cycle.
Yannek Käber, Florian Hartig, and Harald Bugmann
Geosci. Model Dev., 17, 2727–2753, https://doi.org/10.5194/gmd-17-2727-2024, https://doi.org/10.5194/gmd-17-2727-2024, 2024
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Many forest models include detailed mechanisms of forest growth and mortality, but regeneration is often simplified. Testing and improving forest regeneration models is challenging. We address this issue by exploring how forest inventories from unmanaged European forests can be used to improve such models. We find that competition for light among trees is captured by the model, unknown model components can be informed by forest inventory data, and climatic effects are challenging to capture.
Jalisha T. Kallingal, Johan Lindström, Paul A. Miller, Janne Rinne, Maarit Raivonen, and Marko Scholze
Geosci. Model Dev., 17, 2299–2324, https://doi.org/10.5194/gmd-17-2299-2024, https://doi.org/10.5194/gmd-17-2299-2024, 2024
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By unlocking the mysteries of CH4 emissions from wetlands, our work improved the accuracy of the LPJ-GUESS vegetation model using Bayesian statistics. Via assimilation of long-term real data from a wetland, we significantly enhanced CH4 emission predictions. This advancement helps us better understand wetland contributions to atmospheric CH4, which are crucial for addressing climate change. Our method offers a promising tool for refining global climate models and guiding conservation efforts
Benjamin Post, Esteban Acevedo-Trejos, Andrew D. Barton, and Agostino Merico
Geosci. Model Dev., 17, 1175–1195, https://doi.org/10.5194/gmd-17-1175-2024, https://doi.org/10.5194/gmd-17-1175-2024, 2024
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Creating computational models of how phytoplankton grows in the ocean is a technical challenge. We developed a new tool set (Xarray-simlab-ODE) for building such models using the programming language Python. We demonstrate the tool set in a library of plankton models (Phydra). Our goal was to allow scientists to develop models quickly, while also allowing the model structures to be changed easily. This allows us to test many different structures of our models to find the most appropriate one.
Taeken Wijmer, Ahmad Al Bitar, Ludovic Arnaud, Remy Fieuzal, and Eric Ceschia
Geosci. Model Dev., 17, 997–1021, https://doi.org/10.5194/gmd-17-997-2024, https://doi.org/10.5194/gmd-17-997-2024, 2024
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Quantification of carbon fluxes of crops is an essential building block for the construction of a monitoring, reporting, and verification approach. We developed an end-to-end platform (AgriCarbon-EO) that assimilates, through a Bayesian approach, high-resolution (10 m) optical remote sensing data into radiative transfer and crop modelling at regional scale (100 x 100 km). Large-scale estimates of carbon flux are validated against in situ flux towers and yield maps and analysed at regional scale.
Moritz Laub, Sergey Blagodatsky, Marijn Van de Broek, Samuel Schlichenmaier, Benjapon Kunlanit, Johan Six, Patma Vityakon, and Georg Cadisch
Geosci. Model Dev., 17, 931–956, https://doi.org/10.5194/gmd-17-931-2024, https://doi.org/10.5194/gmd-17-931-2024, 2024
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To manage soil organic matter (SOM) sustainably, we need a better understanding of the role that soil microbes play in aggregate protection. Here, we propose the SAMM model, which connects soil aggregate formation to microbial growth. We tested it against data from a tropical long-term experiment and show that SAMM effectively represents the microbial growth, SOM, and aggregate dynamics and that it can be used to explore the importance of aggregate formation in SOM stabilization.
Jianhong Lin, Daniel Berveiller, Christophe François, Heikki Hänninen, Alexandre Morfin, Gaëlle Vincent, Rui Zhang, Cyrille Rathgeber, and Nicolas Delpierre
Geosci. Model Dev., 17, 865–879, https://doi.org/10.5194/gmd-17-865-2024, https://doi.org/10.5194/gmd-17-865-2024, 2024
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Currently, the high variability of budburst between individual trees is overlooked. The consequences of this neglect when projecting the dynamics and functioning of tree communities are unknown. Here we develop the first process-oriented model to describe the difference in budburst dates between individual trees in plant populations. Beyond budburst, the model framework provides a basis for studying the dynamics of phenological traits under climate change, from the individual to the community.
Skyler Kern, Mary E. McGuinn, Katherine M. Smith, Nadia Pinardi, Kyle E. Niemeyer, Nicole S. Lovenduski, and Peter E. Hamlington
Geosci. Model Dev., 17, 621–649, https://doi.org/10.5194/gmd-17-621-2024, https://doi.org/10.5194/gmd-17-621-2024, 2024
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Computational models are used to simulate the behavior of marine ecosystems. The models often have unknown parameters that need to be calibrated to accurately represent observational data. Here, we propose a novel approach to simultaneously determine a large set of parameters for a one-dimensional model of a marine ecosystem in the surface ocean at two contrasting sites. By utilizing global and local optimization techniques, we estimate many parameters in a computationally efficient manner.
Shuaitao Wang, Vincent Thieu, Gilles Billen, Josette Garnier, Marie Silvestre, Audrey Marescaux, Xingcheng Yan, and Nicolas Flipo
Geosci. Model Dev., 17, 449–476, https://doi.org/10.5194/gmd-17-449-2024, https://doi.org/10.5194/gmd-17-449-2024, 2024
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This paper presents unified RIVE v1.0, a unified version of the freshwater biogeochemistry model RIVE. It harmonizes different RIVE implementations, providing the referenced formalisms for microorganism activities to describe full biogeochemical cycles in the water column (e.g., carbon, nutrients, oxygen). Implemented as open-source projects in Python 3 (pyRIVE 1.0) and ANSI C (C-RIVE 0.32), unified RIVE v1.0 promotes and enhances collaboration among research teams and public services.
Sam S. Rabin, William J. Sacks, Danica L. Lombardozzi, Lili Xia, and Alan Robock
Geosci. Model Dev., 16, 7253–7273, https://doi.org/10.5194/gmd-16-7253-2023, https://doi.org/10.5194/gmd-16-7253-2023, 2023
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Climate models can help us simulate how the agricultural system will be affected by and respond to environmental change, but to be trustworthy they must realistically reproduce historical patterns. When farmers plant their crops and what varieties they choose will be important aspects of future adaptation. Here, we improve the crop component of a global model to better simulate observed growing seasons and examine the impacts on simulated crop yields and irrigation demand.
Weihang Liu, Tao Ye, Christoph Müller, Jonas Jägermeyr, James A. Franke, Haynes Stephens, and Shuo Chen
Geosci. Model Dev., 16, 7203–7221, https://doi.org/10.5194/gmd-16-7203-2023, https://doi.org/10.5194/gmd-16-7203-2023, 2023
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We develop a machine-learning-based crop model emulator with the inputs and outputs of multiple global gridded crop model ensemble simulations to capture the year-to-year variation of crop yield under future climate change. The emulator can reproduce the year-to-year variation of simulated yield given by the crop models under CO2, temperature, water, and nitrogen perturbations. Developing this emulator can provide a tool to project future climate change impact in a simple way.
Jurjen Rooze, Heewon Jung, and Hagen Radtke
Geosci. Model Dev., 16, 7107–7121, https://doi.org/10.5194/gmd-16-7107-2023, https://doi.org/10.5194/gmd-16-7107-2023, 2023
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Chemical particles in nature have properties such as age or reactivity. Distributions can describe the properties of chemical concentrations. In nature, they are affected by mixing processes, such as chemical diffusion, burrowing animals, and bottom trawling. We derive equations for simulating the effect of mixing on central moments that describe the distributions. We then demonstrate applications in which these equations are used to model continua in disturbed natural environments.
Esteban Acevedo-Trejos, Jean Braun, Katherine Kravitz, N. Alexia Raharinirina, and Benoît Bovy
Geosci. Model Dev., 16, 6921–6941, https://doi.org/10.5194/gmd-16-6921-2023, https://doi.org/10.5194/gmd-16-6921-2023, 2023
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The interplay of tectonics and climate influences the evolution of life and the patterns of biodiversity we observe on earth's surface. Here we present an adaptive speciation component coupled with a landscape evolution model that captures the essential earth-surface, ecological, and evolutionary processes that lead to the diversification of taxa. We can illustrate with our tool how life and landforms co-evolve to produce distinct biodiversity patterns on geological timescales.
Veli Çağlar Yumruktepe, Erik Askov Mousing, Jerry Tjiputra, and Annette Samuelsen
Geosci. Model Dev., 16, 6875–6897, https://doi.org/10.5194/gmd-16-6875-2023, https://doi.org/10.5194/gmd-16-6875-2023, 2023
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We present an along BGC-Argo track 1D modelling framework. The model physics is constrained by the BGC-Argo temperature and salinity profiles to reduce the uncertainties related to mixed layer dynamics, allowing the evaluation of the biogeochemical formulation and parameterization. We objectively analyse the model with BGC-Argo and satellite data and improve the model biogeochemical dynamics. We present the framework, example cases and routines for model improvement and implementations.
Tanya J. R. Lippmann, Ype van der Velde, Monique M. P. D. Heijmans, Han Dolman, Dimmie M. D. Hendriks, and Ko van Huissteden
Geosci. Model Dev., 16, 6773–6804, https://doi.org/10.5194/gmd-16-6773-2023, https://doi.org/10.5194/gmd-16-6773-2023, 2023
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Vegetation is a critical component of carbon storage in peatlands but an often-overlooked concept in many peatland models. We developed a new model capable of simulating the response of vegetation to changing environments and management regimes. We evaluated the model against observed chamber data collected at two peatland sites. We found that daily air temperature, water level, harvest frequency and height, and vegetation composition drive methane and carbon dioxide emissions.
Chonggang Xu, Bradley Christoffersen, Zachary Robbins, Ryan Knox, Rosie A. Fisher, Rutuja Chitra-Tarak, Martijn Slot, Kurt Solander, Lara Kueppers, Charles Koven, and Nate McDowell
Geosci. Model Dev., 16, 6267–6283, https://doi.org/10.5194/gmd-16-6267-2023, https://doi.org/10.5194/gmd-16-6267-2023, 2023
Short summary
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We introduce a plant hydrodynamic model for the U.S. Department of Energy (DOE)-sponsored model, the Functionally Assembled Terrestrial Ecosystem Simulator (FATES). To better understand this new model system and its functionality in tropical forest ecosystems, we conducted a global parameter sensitivity analysis at Barro Colorado Island, Panama. We identified the key parameters that affect the simulated plant hydrodynamics to guide both modeling and field campaign studies.
Jianghui Du
Geosci. Model Dev., 16, 5865–5894, https://doi.org/10.5194/gmd-16-5865-2023, https://doi.org/10.5194/gmd-16-5865-2023, 2023
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Trace elements and isotopes (TEIs) are important tools to study the changes in the ocean environment both today and in the past. However, the behaviors of TEIs in marine sediments are poorly known, limiting our ability to use them in oceanography. Here we present a modeling framework that can be used to generate and run models of the sedimentary cycling of TEIs assisted with advanced numerical tools in the Julia language, lowering the coding barrier for the general user to study marine TEIs.
Siyu Zhu, Peipei Wu, Siyi Zhang, Oliver Jahn, Shu Li, and Yanxu Zhang
Geosci. Model Dev., 16, 5915–5929, https://doi.org/10.5194/gmd-16-5915-2023, https://doi.org/10.5194/gmd-16-5915-2023, 2023
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In this study, we estimate the global biogeochemical cycling of Hg in a state-of-the-art physical-ecosystem ocean model (high-resolution-MITgcm/Hg), providing a more accurate portrayal of surface Hg concentrations in estuarine and coastal areas, strong western boundary flow and upwelling areas, and concentration diffusion as vortex shapes. The high-resolution model can help us better predict the transport and fate of Hg in the ocean and its impact on the global Hg cycle.
Maria Val Martin, Elena Blanc-Betes, Ka Ming Fung, Euripides P. Kantzas, Ilsa B. Kantola, Isabella Chiaravalloti, Lyla L. Taylor, Louisa K. Emmons, William R. Wieder, Noah J. Planavsky, Michael D. Masters, Evan H. DeLucia, Amos P. K. Tai, and David J. Beerling
Geosci. Model Dev., 16, 5783–5801, https://doi.org/10.5194/gmd-16-5783-2023, https://doi.org/10.5194/gmd-16-5783-2023, 2023
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Enhanced rock weathering (ERW) is a CO2 removal strategy that involves applying crushed rocks (e.g., basalt) to agricultural soils. However, unintended processes within the N cycle due to soil pH changes may affect the climate benefits of C sequestration. ERW could drive changes in soil emissions of non-CO2 GHGs (N2O) and trace gases (NO and NH3) that may affect air quality. We present a new improved N cycling scheme for the land model (CLM5) to evaluate ERW effects on soil gas N emissions.
Özgür Gürses, Laurent Oziel, Onur Karakuş, Dmitry Sidorenko, Christoph Völker, Ying Ye, Moritz Zeising, Martin Butzin, and Judith Hauck
Geosci. Model Dev., 16, 4883–4936, https://doi.org/10.5194/gmd-16-4883-2023, https://doi.org/10.5194/gmd-16-4883-2023, 2023
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This paper assesses the biogeochemical model REcoM3 coupled to the ocean–sea ice model FESOM2.1. The model can be used to simulate the carbon uptake or release of the ocean on timescales of several hundred years. A detailed analysis of the nutrients, ocean productivity, and ecosystem is followed by the carbon cycle. The main conclusion is that the model performs well when simulating the observed mean biogeochemical state and variability and is comparable to other ocean–biogeochemical models.
Hocheol Seo and Yeonjoo Kim
Geosci. Model Dev., 16, 4699–4713, https://doi.org/10.5194/gmd-16-4699-2023, https://doi.org/10.5194/gmd-16-4699-2023, 2023
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Wildfire is a crucial factor in carbon and water fluxes on the Earth system. About 2.1 Pg of carbon is released into the atmosphere by wildfires annually. Because the fire processes are still limitedly represented in land surface models, we forced the daily GFED4 burned area into the land surface model over Alaska and Siberia. The results with the GFED4 burned area significantly improved the simulated carbon emissions and net ecosystem exchange compared to the default simulation.
Hideki Ninomiya, Tomomichi Kato, Lea Végh, and Lan Wu
Geosci. Model Dev., 16, 4155–4170, https://doi.org/10.5194/gmd-16-4155-2023, https://doi.org/10.5194/gmd-16-4155-2023, 2023
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Non-structural carbohydrates (NSCs) play a crucial role in plants to counteract the effects of climate change. We added a new NSC module into the SEIB-DGVM, an individual-based ecosystem model. The simulated NSC levels and their seasonal patterns show a strong agreement with observed NSC data at both point and global scales. The model can be used to simulate the biotic effects resulting from insufficient NSCs, which are otherwise difficult to measure in terrestrial ecosystems globally.
Miquel De Cáceres, Roberto Molowny-Horas, Antoine Cabon, Jordi Martínez-Vilalta, Maurizio Mencuccini, Raúl García-Valdés, Daniel Nadal-Sala, Santiago Sabaté, Nicolas Martin-StPaul, Xavier Morin, Francesco D'Adamo, Enric Batllori, and Aitor Améztegui
Geosci. Model Dev., 16, 3165–3201, https://doi.org/10.5194/gmd-16-3165-2023, https://doi.org/10.5194/gmd-16-3165-2023, 2023
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Regional-level applications of dynamic vegetation models are challenging because they need to accommodate the variation in plant functional diversity. This can be done by estimating parameters from available plant trait databases while adopting alternative solutions for missing data. Here we present the design, parameterization and evaluation of MEDFATE (version 2.9.3), a novel model of forest dynamics for its application over a region in the western Mediterranean Basin.
Cited articles
Asner, G. P.: Biophysical and Biochemical Sources of Variability in
Canopy Reflectance, Remote Sens. Environ., 64, 234–253,
https://doi.org/10.1016/S0034-4257(98)00014-5, 1998. a
Baker, I. T., Prihodko, L., Denning, A. S., Goulden, M., Miller, S., and
da Rocha, H. R.: Seasonal Drought Stress in the Amazon: Reconciling
Models and Observations, J. Geophys. Res.-Biogeo.,
113, G00B01, https://doi.org/10.1029/2007JG000644, 2008. a
Best, M. J., Pryor, M., Clark, D. B., Rooney, G. G., Essery, R. L. H., Ménard, C. B., Edwards, J. M., Hendry, M. A., Porson, A., Gedney, N., Mercado, L. M., Sitch, S., Blyth, E., Boucher, O., Cox, P. M., Grimmond, C. S. B., and Harding, R. J.: The Joint UK Land Environment Simulator (JULES), model description – Part 1: Energy and water fluxes, Geosci. Model Dev., 4, 677–699, https://doi.org/10.5194/gmd-4-677-2011, 2011. a
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. a, b
Combal, B., Baret, F., Weiss, M., Trubuil, A., Macé, D., Pragnère, A.,
Myneni, R., Knyazikhin, Y., and Wang, L.: Retrieval of Canopy Biophysical
Variables from Bidirectional Reflectance: Using Prior Information to
Solve the Ill-Posed Inverse Problem, Remote Sens. Environ., 84,
1–15, https://doi.org/10.1016/S0034-4257(02)00035-4, 2003. a, b
Dickinson, R. E.: Land Surface Processes and
Climate–Surface Albedos and Energy Balance, in:
Advances in Geophysics, edited by: Saltzman, B., vol. 25 of Theory of
Climate Proceedings of a Symposium Commemorating the
Two-Hundredth Anniversary of the Academy of Sciences of
Lisbon, Elsevier, 305–353, 1983. a, b, c
Dietze, M. C., Wolosin, M. S., and Clark, J. S.: Capturing Diversity and
Interspecific Variability in Allometries: A Hierarchical Approach, Forest
Ecol. Manage., 256, 1939–1948, https://doi.org/10.1016/j.foreco.2008.07.034,
2008. a
Dietze, M. C., Serbin, S. P., Davidson, C., Desai, A. R., Feng, X., Kelly, R.,
Kooper, R., LeBauer, D., Mantooth, J., McHenry, K., and Wang, D.: A
Quantitative Assessment of a Terrestrial Biosphere Model's Data Needs across
North American Biomes, J. Geophys. Res.-Biogeo.,
119, 2013JG002392, https://doi.org/10.1002/2013JG002392, 2014. a
Dolezal, J., Jandova, V., Macek, M., and Liancourt, P.: Contrasting Biomass
Allocation Responses across Ontogeny and Stress Gradients Reveal Plant
Adaptations to Drought and Cold, Funct. Ecol., 35, 32–42,
https://doi.org/10.1111/1365-2435.13687, 2021. a
Fang, H., Wei, S., and Liang, S.: Validation of MODIS and CYCLOPES LAI
Products Using Global Field Measurement Data, Remote Sens. Environ.,
119, 43–54, https://doi.org/10.1016/j.rse.2011.12.006, 2012. a
Fensholt, R., Sandholt, I., and Rasmussen, M. S.: Evaluation of MODIS LAI,
fAPAR and the Relation between fAPAR and NDVI in a Semi-Arid
Environment Using in Situ Measurements, Remote Sens. Environ., 91,
490–507, https://doi.org/10.1016/j.rse.2004.04.009, 2004. a
Feret, J.-B., François, C., Asner, G. P., Gitelson, A. A., Martin, R. E.,
Bidel, L. P. R., Ustin, S. L., le Maire, G., and Jacquemoud, S.:
PROSPECT-4 and 5: Advances in the Leaf Optical Properties Model
Separating Photosynthetic Pigments, Remote Sens. Environ., 112,
3030–3043, https://doi.org/10.1016/j.rse.2008.02.012, 2008. a, b
Ferraz, A., Saatchi, S., Longo, M., and Clark, D. B.: Tropical Tree
Size–Frequency Distributions from Airborne Lidar, Ecol. Appl., 30, e02154,
https://doi.org/10.1002/eap.2154, 2020. a
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. a, b
Forrester, D. I., Tachauer, I. H. H., Annighoefer, P., Barbeito, I., Pretzsch,
H., Ruiz-Peinado, R., Stark, H., Vacchiano, G., Zlatanov, T., Chakraborty,
T., Saha, S., and Sileshi, G. W.: Generalized Biomass and Leaf Area
Allometric Equations for European Tree Species Incorporating Stand
Structure, Tree Age and Climate, Forest Ecol. Manage., 396,
160–175, https://doi.org/10.1016/j.foreco.2017.04.011, 2017. a, b
Gelaro, R., McCarty, W., Suárez, M. J., Todling, R., Molod, A., Takacs, L., Randles, C. A., Darmenov, A., Bosilovich, M. G., Reichle, R., Wargan, K., Coy, L., Cullather, R., Draper, C., Akella, S., Buchard, V., Conaty, A., da Silva, A. M., Gu, W., Kim, G.-K., Koster, R., Lucchesi, R., Merkova, D., Nielsen, J. E., Partyka, G., Pawson, S., Putman, W., Rienecker, M., Schubert, S. D., Sienkiewicz, M., and Zhao, B.: The Modern-Era Retrospective Analysis for Research and Applications, Version 2 (MERRA-2), J. Climate, 30, 5419–5454, https://doi.org/10.1175/JCLI-D-16-0758.1, 2017. a
Gelman, A. and Rubin, D. B.: Inference from Iterative Simulation Using Multiple
Sequences, Stat. Sci., 7, 457–472, 1992. a
Goudriaan, J.: Crop Micrometeorology: A Simulation Study, PhD thesis,
Wageningen University, 1977. a
Hartig, F., Minunno, F., and Paul, S.: BayesianTools: General-Purpose
MCMC and SMC Samplers and Tools for Bayesian Statistics, R package version 0.1.7,
available at: https://CRAN.R-project.org/package=BayesianTools (last access: 10 May 2021), 2019. a
Heinze, C., Eyring, V., Friedlingstein, P., Jones, C., Balkanski, Y., Collins, W., Fichefet, T., Gao, S., Hall, A., Ivanova, D., Knorr, W., Knutti, R., Löw, A., Ponater, M., Schultz, M. G., Schulz, M., Siebesma, P., Teixeira, J., Tselioudis, G., and Vancoppenolle, M.: ESD Reviews: Climate feedbacks in the Earth system and prospects for their evaluation, Earth Syst. Dynam., 10, 379–452, https://doi.org/10.5194/esd-10-379-2019, 2019. a
Hikosaka, K. and Terashima, I.: A Model of the Acclimation of Photosynthesis in
the Leaves of C3 Plants to Sun and Shade with Respect to Nitrogen Use,
Plant Cell Environ., 18, 605–618,
https://doi.org/10.1111/j.1365-3040.1995.tb00562.x, 1995. a
Hogan, R. J., Quaife, T., and Braghiere, R.: Fast matrix treatment of 3-D radiative transfer in vegetation canopies: SPARTACUS-Vegetation 1.1, Geosci. Model Dev., 11, 339–350, https://doi.org/10.5194/gmd-11-339-2018, 2018. a, b, c
Huntingford, C., Fisher, R. A., Mercado, L., Booth, B. B., Sitch, S., Harris,
P. P., Cox, P. M., Jones, C. D., Betts, R. A., Malhi, Y., Harris, G. R.,
Collins, M., and Moorcroft, P.: Towards Quantifying Uncertainty in
Predictions of Amazon “Dieback”, Philos. T. Roy.
Soc. B, 363, 1857–1864,
https://doi.org/10.1098/rstb.2007.0028, 2008. a
Iio, A., Hikosaka, K., Anten, N. P. R., Nakagawa, Y., and Ito, A.: Global
Dependence of Field-Observed Leaf Area Index in Woody Species on Climate: A
Systematic Review, Global Ecol. Biogeogr., 23, 274–285,
https://doi.org/10.1111/geb.12133, 2014. a
Ivanov, V. Y., Bras, R. L., and Vivoni, E. R.: Vegetation-Hydrology Dynamics in
Complex Terrain of Semiarid Areas: 1. A Mechanistic Approach to Modeling
Dynamic Feedbacks, Water Resour. Res., 44, W03429, https://doi.org/10.1029/2006WR005588,
2008.
a
Jacquemoud, S., Verhoef, W., Baret, F., Bacour, C., Zarco-Tejada, P. J.,
Asner, G. P., François, C., and Ustin, S. L.: PROSPECT + SAIL
Models: A Review of Use for Vegetation Characterization, Remote Sens.
Environ., 113, Supplement 1, S56–S66, https://doi.org/10.1016/j.rse.2008.01.026,
2009. a
Jenkins, J. C., Chojnacky, D. C., Heath, L. S., and Birdsey, R. A.:
Comprehensive Database of Diameter-Based Biomass Regressions for North
American Tree Species, Tech. Rep. NE-GTR-319, U.S. Department of
Agriculture, Forest Service, Northeastern Research Station, Newtown Square,
PA, https://doi.org/10.2737/NE-GTR-319, 2004. a, b
Jetz, W., Cavender-Bares, J., Pavlick, R., Schimel, D., Davis, F. W., Asner,
G. P., Guralnick, R., Kattge, J., Latimer, A. M., Moorcroft, P., Schaepman,
M. E., Schildhauer, M. P., Schneider, F. D., Schrodt, F., Stahl, U., and
Ustin, S. L.: Monitoring Plant Functional Diversity from Space, Nature
Plants, 2, 16024, https://doi.org/10.1038/nplants.2016.24, 2016. a
Keenan, T. F. and Niinemets, Ü.: Global Leaf Trait Estimates Biased Due to
Plasticity in the Shade, Nature Plants, 3, p. 16201,
https://doi.org/10.1038/nplants.2016.201, 2016. a
Kennedy, R. E., Andréfouët, S., Cohen, W. B., Gómez, C., Griffiths,
P., Hais, M., Healey, S. P., Helmer, E. H., Hostert, P., Lyons, M. B., Meigs,
G. W., Pflugmacher, D., Phinn, S. R., Powell, S. L., Scarth, P., Sen, S.,
Schroeder, T. A., Schneider, A., Sonnenschein, R., Vogelmann, J. E., Wulder,
M. A., and Zhu, Z.: Bringing an Ecological View of Change to
Landsat-Based Remote Sensing, Front. Ecol. Environ.,
12, 339–346, https://doi.org/10.1890/130066, 2014. a
Knorr, W. and Lakshmi, V.: Assimilation of FAPAR and Surface
Temperature into a Land Surface and Vegetation Model, in: Land
Surface Hydrology, Meteorology, and Climate: Observations and
Modeling, American Geophysical Union (AGU), 177–200,
2001. a
Knorr, W., Kaminski, T., Scholze, M., Gobron, N., Pinty, B., Giering, R., and
Mathieu, P.-P.: Carbon Cycle Data Assimilation with a Generic Phenology
Model, J. Geophys. Res.-Biogeo., 115, G04017,
https://doi.org/10.1029/2009JG001119, 2010. a
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. a
Lewis, P. and Disney, M.: Spectral Invariants and Scattering across Multiple
Scales from Within-Leaf to Canopy, Remote Sens. Environ., 109,
196–206, https://doi.org/10.1016/j.rse.2006.12.015, 2007. a, b, c, d
Liu, Y., Xiao, J., Ju, W., Zhu, G., Wu, X., Fan, W., Li, D., and Zhou, Y.:
Satellite-Derived LAI Products Exhibit Large Discrepancies and Can Lead
to Substantial Uncertainty in Simulated Carbon and Water Fluxes, Remote
Sens. Environ., 206, 174–188, https://doi.org/10.1016/j.rse.2017.12.024, 2018. a
Loew, A., van Bodegom, P. M., Widlowski, J.-L., Otto, J., Quaife, T., Pinty, B., and Raddatz, T.: Do we (need to) care about canopy radiation schemes in DGVMs? Caveats and potential impacts, Biogeosciences, 11, 1873–1897, https://doi.org/10.5194/bg-11-1873-2014, 2014. a
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. a, b, c, d
Lucht, W., Schaaf, C. B., and Strahler, A. H.: An Algorithm for the Retrieval
of Albedo from Space Using Semiempirical BRDF Models, IEEE T.
Geosci. Remote, 38, 977–998, https://doi.org/10.1109/36.841980,
2000. a, b
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, Trends Ecol. Evol., 26, 249–259,
https://doi.org/10.1016/j.tree.2011.02.012, 2011. a
Meador, W. E. and Weaver, W. R.: Two-Stream Approximations to Radiative
Transfer in Planetary Atmospheres: A Unified Description of
Existing Methods and a New Improvement, J. Atmos.
Sci., 37, 630–643,
https://doi.org/10.1175/1520-0469(1980)037<0630:TSATRT>2.0.CO;2, 1980. a
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.-Biogeo., 114, G01002, https://doi.org/10.1029/2008JG000812, 2009. a, b
Moorcroft, P. R., Hurtt, G. C., and Pacala, S. W.: A Method for Scaling
Vegetation Dynamics: The Ecosystem Demography Model (ED), Ecol.
Monogr., 71, 557–586,
https://doi.org/10.1890/0012-9615(2001)071[0557:amfsvd]2.0.co;2, 2001. a
Myneni, R. and Williams, D.: On the Relationship between FAPAR and
NDVI, Remote Sens. Environ., 49, 200–211,
https://doi.org/10.1016/0034-4257(94)90016-7, 1994. a
Niinemets, Ü.: Within-Canopy Variations in Functional Leaf Traits:
Structural, Chemical and Ecological Controls and Diversity of
Responses, in: Canopy Photosynthesis: From Basics to
Applications, edited by: Hikosaka, K., Niinemets, Ü., and Anten, N.
P. R., no. 42 in Advances in Photosynthesis and Respiration,
101–141, https://doi.org/10.1007/978-94-017-7291-4_4, 2016. a
Niu, G.-Y., Yang, Z.-L., Mitchell, K. E., Chen, F., Ek, M. B., Barlage, M.,
Kumar, A., Manning, K., Niyogi, D., Rosero, E., Tewari, M., and Xia, Y.: The
Community Noah Land Surface Model with Multiparameterization Options
(Noah-MP): 1. Model Description and Evaluation with Local-Scale
Measurements, J. Geophys. Res.-Atmos., 116, D12109,
https://doi.org/10.1029/2010JD015139, 2011. a
Nouvellon, Y., Moran, M. S., Seen, D. L., Bryant, R., Rambal, S., Ni, W.,
Bégué, A., Chehbouni, A., Emmerich, W. E., Heilman, P., and Qi, J.:
Coupling a Grassland Ecosystem Model with Landsat Imagery for a 10-Year
Simulation of Carbon and Water Budgets, Remote Sens. Environ., 78,
131–149, https://doi.org/10.1016/S0034-4257(01)00255-3, 2001. a
Oleson, K. W., Lawrence, D. M., Bonan, G. B., Drewniak, B., Huang, M., Koven,
C. D., Levis, S., Li, F., Riley, W. J., Subin, Z. M., Swenson, S. C.,
Thornton, P., Bozbiyik, A., Fisher, R., Heald, C. L., Kluzek, E., Lamarque,
J.-F., Lawrence, P. J., Leung, R., Lipscom, W., Muszala, S., Ricciuto, D. M.,
Sacks, W., Sun, Y., Tang, J., and Zong-Liang, Y.: Technical Description of
Version 4.5 of the Community Land Model (CLM), Tech. Rep.
NCAR/TN-503+STR, NCAR Earth System Laboratory Climate and Global Dynamics
Division, 2013. a, b, c
Pacala, S. W. and Deutschman, D. H.: Details That Matter: The Spatial
Distribution of Individual Trees Maintains Forest Ecosystem Function, Oikos,
74, 357–365, https://doi.org/10.2307/3545980, 1995. a
Pasquarella, V. J., Holden, C. E., Kaufman, L., and Woodcock, C. E.: From
Imagery to Ecology: Leveraging Time Series of All Available Landsat
Observations to Map and Monitor Ecosystem State and Dynamics, Remote Sensing
in Ecology and Conservation, 2, 152–170, https://doi.org/10.1002/rse2.24, 2016. a
Peylin, P., Bacour, C., MacBean, N., Leonard, S., Rayner, P., Kuppel, S., Koffi, E., Kane, A., Maignan, F., Chevallier, F., Ciais, P., and Prunet, P.: A new stepwise carbon cycle data assimilation system using multiple data streams to constrain the simulated land surface carbon cycle, Geosci. Model Dev., 9, 3321–3346, https://doi.org/10.5194/gmd-9-3321-2016, 2016. a
Pinty, B., Gobron, N., Widlowski, J.-L., Lavergne, T., and Verstraete, M. M.:
Synergy between 1-D and 3-D Radiation Transfer Models to Retrieve
Vegetation Canopy Properties from Remote Sensing Data, J. Geophys.
Res.-Atmos., 109, D21205, https://doi.org/10.1029/2004JD005214, 2004. a
Quaife, T., Lewis, P., De Kauwe, M., Williams, M., Law, B. E., Disney, M., and
Bowyer, P.: Assimilating Canopy Reflectance Data into an Ecosystem Model with
an Ensemble Kalman Filter, Remote Sens. Environ., 112,
1347–1364, https://doi.org/10.1016/j.rse.2007.05.020, 2008. a
Raczka, B., Dietze, M. C., Serbin, S. P., and Davis, K. J.: What Limits
Predictive Certainty of Long-term Carbon Uptake?, J. Geophys.
Res.-Biogeo., 123, 3570–3588, https://doi.org/10.1029/2018jg004504, 2018. a
Robakowski, P., Wyka, T., Samardakiewicz, S., and Kierzkowski, D.: Growth,
Photosynthesis, and Needle Structure of Silver Fir (Abies Alba Mill.)
Seedlings under Different Canopies, Forest Ecol. Manage., 201,
211–227, https://doi.org/10.1016/j.foreco.2004.06.029, 2004. a
Running, S. W., Nemani, R. R., Heinsch, F. A., Zhao, M., Reeves, M., and
Hashimoto, H.: A Continuous Satellite-Derived Measure of Global
Terrestrial Primary Production, BioScience, 54, 547–560,
https://doi.org/10.1641/0006-3568(2004)054[0547:ACSMOG]2.0.CO;2, 2004. a
Schaaf, C. and Wang, Z.: MCD43A1 MODIS/Terra+Aqua BRDF/Albedo
Model Parameters Daily L3 Global – 500m V006, United States Geological Survey (USGS) Land Processes Distributed Active Archive Center (LP DAAC),
https://doi.org/10.5067/MODIS/MCD43A1.006, 2015. a
Schaepman-Strub, G., Schaepman, M. E., Painter, T. H., Dangel, S., and
Martonchik, J. V.: Reflectance Quantities in Optical Remote
Sensing – Definitions and Case Studies, Remote Sens.
Environ., 103, 27–42, https://doi.org/10.1016/j.rse.2006.03.002, 2006.
a, b, c
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. a
Schürmann, G. J., Kaminski, T., Köstler, C., Carvalhais, N., Voßbeck, M., Kattge, J., Giering, R., Rödenbeck, C., Heimann, M., and Zaehle, S.: Constraining a land-surface model with multiple observations by application of the MPI-Carbon Cycle Data Assimilation System V1.0, Geosci. Model Dev., 9, 2999–3026, https://doi.org/10.5194/gmd-9-2999-2016, 2016. a
Serbin, S. P., Dillaway, D. N., Kruger, E. L., and Townsend, P. A.: Leaf
Optical Properties Reflect Variation in Photosynthetic Metabolism and Its
Sensitivity to Temperature, J. Exp. Bot., 63, 489–502,
https://doi.org/10.1093/jxb/err294, 2012. a
Shiklomanov, A. N.: Cutting out the middle man: Calibrating and validating a dynamic vegetation model using remotely sensed surface reflectance, Open Science Framework (OSF), https://doi.org/10.17605/OSF.IO/B6UMF, 2021. a
Shiklomanov, A. N., Dietze, M. C., Viskari, T., Townsend, P. A., and Serbin,
S. P.: Quantifying the Influences of Spectral Resolution on Uncertainty in
Leaf Trait Estimates through a Bayesian Approach to RTM Inversion,
Remote Sens. Environ., 183, 226–238,
https://doi.org/10.1016/j.rse.2016.05.023, 2016. a, b, c, d
Shiklomanov, A. N., Bond-Lamberty, B., Atkins, J. W., and Gough, C. M.:
Structure and Parameter Uncertainty in Centennial Projections of Forest
Community Structure and Carbon Cycling, Glob. Change Biol., 26,
6080–6096, https://doi.org/10.1111/gcb.15164, 2020a. a
Shiklomanov, A. N., Cowdery, E. M., Bahn, M., Byun, C., Jansen, S., Kramer, K.,
Minden, V., Niinemets, Ü., Onoda, Y., Soudzilovskaia, N. A., and Dietze,
M. C.: Does the Leaf Economic Spectrum Hold within Plant Functional Types?
A Bayesian Multivariate Trait Meta-analysis, Ecol. Appl., 30, 02064,
https://doi.org/10.1002/eap.2064, 2020b. a
Singh, A., Serbin, S. P., McNeil, B. E., Kingdon, C. C., and Townsend, P. A.:
Imaging Spectroscopy Algorithms for Mapping Canopy Foliar Chemical and
Morphological Traits and Their Uncertainties, Ecol. Appl., 25,
2180–2197, https://doi.org/10.1890/14-2098.1, 2015. a, b
ter Braak, C. J. F. and Vrugt, J. A.: Differential Evolution Markov Chain
with Snooker Updater and Fewer Chains, Stat. Comput., 18,
435–446, https://doi.org/10.1007/s11222-008-9104-9, 2008. a
Verhoef, W.: Light Scattering by Leaf Layers with Application to Canopy
Reflectance Modeling: The SAIL Model, Remote Sens. Environ., 16,
125–141, https://doi.org/10.1016/0034-4257(84)90057-9, 1984. a, b, c
Viskari, T., Hardiman, B., Desai, A. R., and Dietze, M. C.: Model-Data
Assimilation of Multiple Phenological Observations to Constrain and Predict
Leaf Area Index, Ecol. Appl., 25, 546–558,
https://doi.org/10.1890/14-0497.1, 2015. a
Viskari, T., Shiklomanov, A., Dietze, M. C., and Serbin, S. P.: The Influence
of Canopy Radiation Parameter Uncertainty on Model Projections of Terrestrial
Carbon and Energy Cycling, PLOS ONE, 14, e0216512,
https://doi.org/10.1371/journal.pone.0216512, 2019. a, b, c, d
Wang, Z., Zeng, X., Barlage, M., Dickinson, R. E., Gao, F., and Schaaf, C. B.:
Using MODIS BRDF and Albedo Data to Evaluate Global Model Land
Surface Albedo, J. Hydrometeorol., 5, 3–14,
https://doi.org/10.1175/1525-7541(2004)005<0003:UMBAAD>2.0.CO;2, 2004. a
Widlowski, J.-L., Taberner, M., Pinty, B., Bruniquel-Pinel, V., Disney, M.,
Fernandes, R., Gastellu-Etchegorry, J.-P., Gobron, N., Kuusk, A., Lavergne,
T., Leblanc, S., Lewis, P. E., Martin, E., Mõttus, M., North, P. R. J.,
Qin, W., Robustelli, M., Rochdi, N., Ruiloba, R., Soler, C., Thompson, R.,
Verhoef, W., Verstraete, M. M., and Xie, D.: Third Radiation Transfer Model
Intercomparison (RAMI) Exercise: Documenting Progress in Canopy
Reflectance Models, J. Geophys. Res.-Atmos., 112,
D09111, https://doi.org/10.1029/2006JD007821, 2007. a, b
Widlowski, J.-L., Mio, C., Disney, M., Adams, J., Andredakis, I., Atzberger,
C., Brennan, J., Busetto, L., Chelle, M., Ceccherini, G., Colombo, R.,
Côté, J.-F., Eenmäe, A., Essery, R., Gastellu-Etchegorry,
J.-P., Gobron, N., Grau, E., Haverd, V., Homolová, L., Huang, H., Hunt,
L., Kobayashi, H., Koetz, B., Kuusk, A., Kuusk, J., Lang, M., Lewis, P. E.,
Lovell, J. L., Malenovský, Z., Meroni, M., Morsdorf, F., Mõttus, M.,
Ni-Meister, W., Pinty, B., Rautiainen, M., Schlerf, M., Somers, B.,
Stuckens, J., Verstraete, M. M., Yang, W., Zhao, F., and Zenone, T.: The
Fourth Phase of the Radiative Transfer Model Intercomparison (RAMI)
Exercise: Actual Canopy Scenarios and Conformity Testing, Remote Sens.
Environ., 169, 418–437, https://doi.org/10.1016/j.rse.2015.08.016, 2015. a
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.,
https://doi.org/10.1111/nph.17254, online first, 2021. a
Yan, K., Park, T., Yan, G., Liu, Z., Yang, B., Chen, C., Nemani, R. R.,
Knyazikhin, Y., and Myneni, R. B.: Evaluation of MODIS LAI/FPAR Product
Collection 6. Part 2: Validation and Intercomparison, Remote
Sensing, 8, 460, https://doi.org/10.3390/rs8060460, 2016. a
Yuan, H., Dai, Y., Dickinson, R. E., Pinty, B., Shangguan, W., Zhang, S., Wang,
L., and Zhu, S.: Reexamination and Further Development of Two-Stream Canopy
Radiative Transfer Models for Global Land Modeling, J. Adv.
Model. Earth Sy., 9, 113–129, https://doi.org/10.1002/2016MS000773, 2017. a, b, c, d, e
Zeide, B.: Comparison of Self-Thinning Models: An Exercise in Reasoning, Trees,
24, 1117–1126, https://doi.org/10.1007/s00468-010-0484-z, 2010. a
Zhang, Q., Yao, T., Huemmrich, K. F., Middleton, E. M., Lyapustin, A., and
Wang, Y.: Evaluating Impacts of Snow, Surface Water, Soil and Vegetation on
Empirical Vegetation and Snow Indices for the Utqiaġvik Tundra
Ecosystem in Alaska with the LVS3 Model, Remote Sens.
Environ., 240, 111677, https://doi.org/10.1016/j.rse.2020.111677, 2020. a
Zobitz, J., Moore, D. J., Quaife, T., Braswell, B. H., Bergeson, A., Anthony,
J. A., and Monson, R. K.: Joint Data Assimilation of Satellite Reflectance
and Net Ecosystem Exchange Data Constrains Ecosystem Carbon Fluxes at a
High-Elevation Subalpine Forest, Agr. Forest Meteorol.,
195–196, 73–88, https://doi.org/10.1016/j.agrformet.2014.04.011, 2014. a
Short summary
Airborne and satellite images are a great resource for calibrating and evaluating computer models of ecosystems. Typically, researchers derive ecosystem properties from these images and then compare models against these derived properties. Here, we present an alternative approach where we modify a model to predict what the satellite would see more directly. We then show how this approach can be used to calibrate model parameters using airborne data from forest sites in the northeastern US.
Airborne and satellite images are a great resource for calibrating and evaluating computer...
