Articles | Volume 15, issue 11
https://doi.org/10.5194/gmd-15-4313-2022
© Author(s) 2022. 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-15-4313-2022
© Author(s) 2022. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Development and technical paper
| 
03 Jun 2022
Development and technical paper |
| 03 Jun 2022
Implementation and evaluation of the unified stomatal optimization approach in the Functionally Assembled Terrestrial Ecosystem Simulator (FATES)
Department of Environmental and Climate Sciences, Brookhaven National Laboratory, Upton, NY, USA
Shawn P. Serbin
Department of Environmental and Climate Sciences, Brookhaven National Laboratory, Upton, NY, USA
Julien Lamour
Department of Environmental and Climate Sciences, Brookhaven National Laboratory, Upton, NY, USA
Kenneth J. Davidson
Department of Environmental and Climate Sciences, Brookhaven National Laboratory, Upton, NY, USA
Department of Ecology and Evolution, Stony Brook University, Stony
Brook, NY, USA
Kim S. Ely
Department of Environmental and Climate Sciences, Brookhaven National Laboratory, Upton, NY, USA
Alistair Rogers
Department of Environmental and Climate Sciences, Brookhaven National Laboratory, Upton, NY, USA
Related authors
Qianyu Li, Xingjie Lu, Yingping Wang, Xin Huang, Peter M. Cox, and Yiqi Luo
Biogeosciences, 15, 6909–6925, https://doi.org/10.5194/bg-15-6909-2018, https://doi.org/10.5194/bg-15-6909-2018, 2018
Short summary
Short summary
Land-surface models have been widely used to predict the responses of terrestrial ecosystems to climate change. A better understanding of model mechanisms that govern terrestrial ecosystem responses to rising atmosphere [CO2] is needed. Our study for the first time shows that the expansion of leaf area under rising [CO2] is the most important response for the stimulation of land carbon accumulation by a land-surface model: CABLE. Processes related to leaf area should be better calibrated.
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
Short summary
Short summary
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.
Alexey N. Shiklomanov, Michael C. Dietze, Istem Fer, Toni Viskari, and Shawn P. Serbin
Geosci. Model Dev., 14, 2603–2633, https://doi.org/10.5194/gmd-14-2603-2021, https://doi.org/10.5194/gmd-14-2603-2021, 2021
Short summary
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.
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
Short summary
Short summary
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.
Qianyu Li, Xingjie Lu, Yingping Wang, Xin Huang, Peter M. Cox, and Yiqi Luo
Biogeosciences, 15, 6909–6925, https://doi.org/10.5194/bg-15-6909-2018, https://doi.org/10.5194/bg-15-6909-2018, 2018
Short summary
Short summary
Land-surface models have been widely used to predict the responses of terrestrial ecosystems to climate change. A better understanding of model mechanisms that govern terrestrial ecosystem responses to rising atmosphere [CO2] is needed. Our study for the first time shows that the expansion of leaf area under rising [CO2] is the most important response for the stimulation of land carbon accumulation by a land-surface model: CABLE. Processes related to leaf area should be better calibrated.
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
Short summary
Short summary
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.
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
Short summary
Short summary
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.
A. A. Ali, C. Xu, A. Rogers, R. A. Fisher, S. D. Wullschleger, E. C. Massoud, J. A. Vrugt, J. D. Muss, N. G. McDowell, J. B. Fisher, P. B. Reich, and C. J. Wilson
Geosci. Model Dev., 9, 587–606, https://doi.org/10.5194/gmd-9-587-2016, https://doi.org/10.5194/gmd-9-587-2016, 2016
Short summary
Short summary
We have developed a mechanistic model of leaf utilization of nitrogen for assimilation (LUNA V1.0) to predict the photosynthetic capacities at the global scale based on the optimization of key leaf-level metabolic processes. LUNA model predicts that future climatic changes would mostly affect plant photosynthetic capabilities in high-latitude regions and that Earth system models using fixed photosynthetic capabilities are likely to substantially overestimate future global photosynthesis.
Related subject area
Biogeosciences
Ocean biogeochemistry in the coupled ocean–sea ice–biogeochemistry model FESOM2.1–REcoM3
Forcing the Global Fire Emissions Database burned-area dataset into the Community Land Model version 5.0: impacts on carbon and water fluxes at high latitudes
Modeling of non-structural carbohydrate dynamics by the spatially explicit individual-based dynamic global vegetation model SEIB-DGVM (SEIB-DGVM-NSC version 1.0)
MEDFATE 2.9.3: a trait-enabled model to simulate Mediterranean forest function and dynamics at regional scales
A high-resolution marine mercury model MITgcm-ECCO2-Hg with online biogeochemistry
Modelling the role of livestock grazing in C and N cycling in grasslands with LPJmL5.0-grazing
Observation-based sowing dates and cultivars significantly affect yield and irrigation for some crops in the Community Land Model (CLM5)
Implementation of trait-based ozone plant sensitivity in the Yale Interactive terrestrial Biosphere model v1.0 to assess global vegetation damage
The Permafrost and Organic LayEr module for Forest Models (POLE-FM) 1.0
CompLaB v1.0: a scalable pore-scale model for flow, biogeochemistry, microbial metabolism, and biofilm dynamics
Validation of a new spatially explicit process-based model (HETEROFOR) to simulate structurally and compositionally complex forest stands in eastern North America
Improving nitrogen cycling in a land surface model (CLM5) to quantify soil N2O, NO and NH3 emissions from enhanced rock weathering with croplands
Quantification of hydraulic trait control on plant hydrodynamics and risk of hydraulic failure within a demographic structured vegetation model in a tropical forest (FATES-HYDRO V1.0)
Global agricultural ammonia emissions simulated with the ORCHIDEE land surface model
ForamEcoGEnIE 2.0: incorporating symbiosis and spine traits into a trait-based global planktic foraminiferal model
FABM-NflexPD 2.0: testing an instantaneous acclimation approach for modeling the implications of phytoplankton eco-physiology for the carbon and nutrient cycles
SedTrace 1.0: a Julia-based framework for generating and running reactive-transport models of marine sediment diagenesis specializing in trace elements and isotopes
Evaluating the vegetation–atmosphere coupling strength of ORCHIDEE land surface model (v7266)
Non-Redfieldian carbon model for the Baltic Sea (ERGOM version 1.2) – implementation and budget estimates
Implementation of a new crop phenology and irrigation scheme in the ISBA land surface model using SURFEX_v8.1
Simulating long-term responses of soil organic matter turnover to substrate stoichiometry by abstracting fast and small-scale microbial processes: the Soil Enzyme Steady Allocation Model (SESAM; v3.0)
Modeling demographic-driven vegetation dynamics and ecosystem biogeochemical cycling in NASA GISS's Earth system model (ModelE-BiomeE v.1.0)
Forest fluxes and mortality response to drought: model description (ORCHIDEE-CAN-NHA r7236) and evaluation at the Caxiuanã drought experiment
Matrix representation of lateral soil movements: scaling and calibrating CE-DYNAM (v2) at a continental level
CANOPS-GRB v1.0: a new Earth system model for simulating the evolution of ocean–atmosphere chemistry over geologic timescales
Low sensitivity of three terrestrial biosphere models to soil texture over the South American tropics
FESDIA (v1.0): exploring temporal variations of sediment biogeochemistry under the influence of flood events using numerical modelling
Impact of changes in climate and CO2 on the carbon storage potential of vegetation under limited water availability using SEIB-DGVM version 3.02
FORCCHN V2.0: an individual-based model for predicting multiscale forest carbon dynamics
Climate and parameter sensitivity and induced uncertainties in carbon stock projections for European forests (using LPJ-GUESS 4.0)
Use of genetic algorithms for ocean model parameter optimisation: a case study using PISCES-v2_RC for North Atlantic particulate organic carbon
SurEau-Ecos v2.0: a trait-based plant hydraulics model for simulations of plant water status and drought-induced mortality at the ecosystem level
Improved representation of plant physiology in the JULES-vn5.6 land surface model: photosynthesis, stomatal conductance and thermal acclimation
Representation of the phosphorus cycle in the Joint UK Land Environment Simulator (vn5.5_JULES-CNP)
CLM5-FruitTree: a new sub-model for deciduous fruit trees in the Community Land Model (CLM5)
The impact of hurricane disturbances on a tropical forest: implementing a palm plant functional type and hurricane disturbance module in ED2-HuDi V1.0
A validation standard for area of habitat maps for terrestrial birds and mammals
Soil Cycles of Elements simulator for Predicting TERrestrial regulation of greenhouse gases: SCEPTER v0.9
Using terrestrial laser scanning to constrain forest ecosystem structure and functions in the Ecosystem Demography model (ED2.2)
A map of global peatland extent created using machine learning (Peat-ML)
ECOSMO II(CHL): a marine biogeochemical model for the North Atlantic and the Arctic
Water Ecosystems Tool (WET) 1.0 – a new generation of flexible aquatic ecosystem model
Development of an open-source regional data assimilation system in PEcAn v. 1.7.2: application to carbon cycle reanalysis across the contiguous US using SIPNET
Predicting global terrestrial biomes with the LeNet convolutional neural network
KGML-ag: a modeling framework of knowledge-guided machine learning to simulate agroecosystems: a case study of estimating N2O emission using data from mesocosm experiments
Assessing methane emissions for northern peatlands in ORCHIDEE-PEAT revision 7020
A dynamic local-scale vegetation model for lycopsids (LYCOm v1.0)
Soil-related developments of the Biome-BGCMuSo v6.2 terrestrial ecosystem model
Global evaluation of the Ecosystem Demography model (ED v3.0)
A new snow module improves predictions of the isotope-enabled MAIDENiso forest growth model
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
Short summary
Short summary
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
Short summary
Short summary
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
Short summary
Short summary
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
Short summary
Short summary
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.
Siyu Zhu, Peipei Wu, Siyi Zhang, Oliver Jahn, and Yanxu Zhang
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2023-89, https://doi.org/10.5194/gmd-2023-89, 2023
Revised manuscript accepted for GMD
Short summary
Short summary
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.
Jens Heinke, Susanne Rolinski, and Christoph Müller
Geosci. Model Dev., 16, 2455–2475, https://doi.org/10.5194/gmd-16-2455-2023, https://doi.org/10.5194/gmd-16-2455-2023, 2023
Short summary
Short summary
We develop a livestock module for the global vegetation model LPJmL5.0 to simulate the impact of grazing dairy cattle on carbon and nitrogen cycles in grasslands. A novelty of the approach is that it accounts for the effect of feed quality on feed uptake and feed utilization by animals. The portioning of dietary nitrogen into milk, feces, and urine shows very good agreement with estimates obtained from animal trials.
Sam S. Rabin, William J. Sacks, Danica L. Lombardozzi, Lili Xia, and Alan Robock
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2023-66, https://doi.org/10.5194/gmd-2023-66, 2023
Revised manuscript accepted for GMD
Short summary
Short summary
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.
Yimian Ma, Xu Yue, Stephen Sitch, Nadine Unger, Johan Uddling, Lina M. Mercado, Cheng Gong, Zhaozhong Feng, Huiyi Yang, Hao Zhou, Chenguang Tian, Yang Cao, Yadong Lei, Alexander W. Cheesman, Yansen Xu, and Maria Carolina Duran Rojas
Geosci. Model Dev., 16, 2261–2276, https://doi.org/10.5194/gmd-16-2261-2023, https://doi.org/10.5194/gmd-16-2261-2023, 2023
Short summary
Short summary
Plants have been found to respond differently to O3, but the variations in the sensitivities have rarely been explained nor fully implemented in large-scale assessment. This study proposes a new O3 damage scheme with leaf mass per area to unify varied sensitivities for all plant species. Our assessment reveals an O3-induced reduction of 4.8 % in global GPP, with the highest reduction of >10 % for cropland, suggesting an emerging risk of crop yield loss under the threat of O3 pollution.
Winslow D. Hansen, Adrianna Foster, Benjamin Gaglioti, Rupert Seidl, and Werner Rammer
Geosci. Model Dev., 16, 2011–2036, https://doi.org/10.5194/gmd-16-2011-2023, https://doi.org/10.5194/gmd-16-2011-2023, 2023
Short summary
Short summary
Permafrost and the thick soil-surface organic layers that insulate permafrost are important controls of boreal forest dynamics and carbon cycling. However, both are rarely included in process-based vegetation models used to simulate future ecosystem trajectories. To address this challenge, we developed a computationally efficient permafrost and soil organic layer module that operates at fine spatial (1 ha) and temporal (daily) resolutions.
Heewon Jung, Hyun-Seob Song, and Christof Meile
Geosci. Model Dev., 16, 1683–1696, https://doi.org/10.5194/gmd-16-1683-2023, https://doi.org/10.5194/gmd-16-1683-2023, 2023
Short summary
Short summary
Microbial activity responsible for many chemical transformations depends on environmental conditions. These can vary locally, e.g., between poorly connected pores in porous media. We present a modeling framework that resolves such small spatial scales explicitly, accounts for feedback between transport and biogeochemical conditions, and can integrate state-of-the-art representations of microbes in a computationally efficient way, making it broadly applicable in science and engineering use cases.
Arthur Guignabert, Quentin Ponette, Frédéric André, Christian Messier, Philippe Nolet, and Mathieu Jonard
Geosci. Model Dev., 16, 1661–1682, https://doi.org/10.5194/gmd-16-1661-2023, https://doi.org/10.5194/gmd-16-1661-2023, 2023
Short summary
Short summary
Spatially explicit and process-based models are useful to test innovative forestry practices under changing and uncertain conditions. However, their larger use is often limited by the restricted range of species and stand structures they can reliably account for. We therefore calibrated and evaluated such a model, HETEROFOR, for 23 species across southern Québec. Our results showed that the model is robust and can predict accurately both individual tree growth and stand dynamics in this region.
Maria Val Martin, Elena Blanc-Betes, Ka Ming Fung, Euripides P. Kantzas, Ilsa B. Kantola, Isabella Chiaravalloti, Lyla T. 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. Discuss., https://doi.org/10.5194/gmd-2023-47, https://doi.org/10.5194/gmd-2023-47, 2023
Revised manuscript accepted for GMD
Short summary
Short summary
Enhanced rock weathering (ERW) is a CO2 removal strategy that involves applying crushed rocks (eg, basalt) to agricultural soils. However, unintended processes within the N cycle due to soil pH changes may affect the climate benefits from C sequestration. ERW could drive changes in the soil emissions of non-CO2 GHGs (N2O), and trace gases (NO & 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.
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
EGUsphere, https://doi.org/10.5194/egusphere-2023-278, https://doi.org/10.5194/egusphere-2023-278, 2023
Short summary
Short summary
This paper introduces a plant hydrodynamic model for the DOE-sponsored dynamic vegetation model, the Functionally Assembled Terrestrial Ecosystem Simulator (FATES). To better understand this new model system and its functionality in tropical forest systems in particular, we conducted a global parameter sensitivity analysis at Barro Colorado Island, Panama. We have identified the key parameters that affect the simulated plant hydrodynamics to guide both modeling and field campaign studies.
Maureen Beaudor, Nicolas Vuichard, Juliette Lathière, Nikolaos Evangeliou, Martin Van Damme, Lieven Clarisse, and Didier Hauglustaine
Geosci. Model Dev., 16, 1053–1081, https://doi.org/10.5194/gmd-16-1053-2023, https://doi.org/10.5194/gmd-16-1053-2023, 2023
Short summary
Short summary
Ammonia mainly comes from the agricultural sector, and its volatilization relies on environmental variables. Our approach aims at benefiting from an Earth system model framework to estimate it. By doing so, we represent a consistent spatial distribution of the emissions' response to environmental changes.
We greatly improved the seasonal cycle of emissions compared with previous work. In addition, our model includes natural soil emissions (that are rarely represented in modeling approaches).
Rui Ying, Fanny M. Monteiro, Jamie D. Wilson, and Daniela N. Schmidt
Geosci. Model Dev., 16, 813–832, https://doi.org/10.5194/gmd-16-813-2023, https://doi.org/10.5194/gmd-16-813-2023, 2023
Short summary
Short summary
Planktic foraminifera are marine-calcifying zooplankton; their shells are widely used to measure past temperature and productivity. We developed ForamEcoGEnIE 2.0 to simulate the four subgroups of this organism. We found that the relative abundance distribution agrees with marine sediment core-top data and that carbon export and biomass are close to sediment trap and plankton net observations respectively. This model provides the opportunity to study foraminiferal ecology in any geological era.
Onur Kerimoglu, Markus Pahlow, Prima Anugerahanti, and Sherwood Lan Smith
Geosci. Model Dev., 16, 95–108, https://doi.org/10.5194/gmd-16-95-2023, https://doi.org/10.5194/gmd-16-95-2023, 2023
Short summary
Short summary
In classical models that track the changes in the elemental composition of phytoplankton, additional state variables are required for each element resolved. In this study, we show how the behavior of such an explicit model can be approximated using an
instantaneous acclimationapproach, in which the elemental composition of the phytoplankton is assumed to adjust to an optimal value instantaneously. Through rigorous tests, we evaluate the consistency of this scheme.
Jianghui Du
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2022-281, https://doi.org/10.5194/gmd-2022-281, 2023
Revised manuscript accepted for GMD
Short summary
Short summary
Trace elements and isotopes (TEIs) are important tools to study the changes of 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.
Yuan Zhang, Devaraju Narayanappa, Philippe Ciais, Wei Li, Daniel Goll, Nicolas Vuichard, Martin G. De Kauwe, Laurent Li, and Fabienne Maignan
Geosci. Model Dev., 15, 9111–9125, https://doi.org/10.5194/gmd-15-9111-2022, https://doi.org/10.5194/gmd-15-9111-2022, 2022
Short summary
Short summary
There are a few studies to examine if current models correctly represented the complex processes of transpiration. Here, we use a coefficient Ω, which indicates if transpiration is mainly controlled by vegetation processes or by turbulence, to evaluate the ORCHIDEE model. We found a good performance of ORCHIDEE, but due to compensation of biases in different processes, we also identified how different factors control Ω and where the model is wrong. Our method is generic to evaluate other models.
Thomas Neumann, Hagen Radtke, Bronwyn Cahill, Martin Schmidt, and Gregor Rehder
Geosci. Model Dev., 15, 8473–8540, https://doi.org/10.5194/gmd-15-8473-2022, https://doi.org/10.5194/gmd-15-8473-2022, 2022
Short summary
Short summary
Marine ecosystem models are usually constrained by the elements nitrogen and phosphorus and consider carbon in organic matter in a fixed ratio. Recent observations show a substantial deviation from the simulated carbon cycle variables. In this study, we present a marine ecosystem model for the Baltic Sea which allows for a flexible uptake ratio for carbon, nitrogen, and phosphorus. With this extension, the model reflects much more reasonable variables of the marine carbon cycle.
Arsène Druel, Simon Munier, Anthony Mucia, Clément Albergel, and Jean-Christophe Calvet
Geosci. Model Dev., 15, 8453–8471, https://doi.org/10.5194/gmd-15-8453-2022, https://doi.org/10.5194/gmd-15-8453-2022, 2022
Short summary
Short summary
Crop phenology and irrigation is implemented into a land surface model able to work at a global scale. A case study is presented over Nebraska (USA). Simulations with and without the new scheme are compared to different satellite-based observations. The model is able to produce a realistic yearly irrigation water amount. The irrigation scheme improves the simulated leaf area index, gross primary productivity, evapotransipiration, and land surface temperature.
Thomas Wutzler, Lin Yu, Marion Schrumpf, and Sönke Zaehle
Geosci. Model Dev., 15, 8377–8393, https://doi.org/10.5194/gmd-15-8377-2022, https://doi.org/10.5194/gmd-15-8377-2022, 2022
Short summary
Short summary
Soil microbes process soil organic matter and affect carbon storage and plant nutrition at the ecosystem scale. We hypothesized that decadal dynamics is constrained by the ratios of elements in litter inputs, microbes, and matter and that microbial community optimizes growth. This allowed the SESAM model to descibe decadal-term carbon sequestration in soils and other biogeochemical processes explicitly accounting for microbial processes but without its problematic fine-scale parameterization.
Ensheng Weng, Igor Aleinov, Ram Singh, Michael J. Puma, Sonali S. McDermid, Nancy Y. Kiang, Maxwell Kelley, Kevin Wilcox, Ray Dybzinski, Caroline E. Farrior, Stephen W. Pacala, and Benjamin I. Cook
Geosci. Model Dev., 15, 8153–8180, https://doi.org/10.5194/gmd-15-8153-2022, https://doi.org/10.5194/gmd-15-8153-2022, 2022
Short summary
Short summary
We develop a demographic vegetation model to improve the representation of terrestrial vegetation dynamics and ecosystem biogeochemical cycles in the Goddard Institute for Space Studies ModelE. The individual-based competition for light and soil resources makes the modeling of eco-evolutionary optimality possible. This model will enable ModelE to simulate long-term biogeophysical and biogeochemical feedbacks between the climate system and land ecosystems at decadal to centurial temporal scales.
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
Short summary
Short summary
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.
Arthur Nicolaus Fendrich, Philippe Ciais, Emanuele Lugato, Marco Carozzi, Bertrand Guenet, Pasquale Borrelli, Victoria Naipal, Matthew McGrath, Philippe Martin, and Panos Panagos
Geosci. Model Dev., 15, 7835–7857, https://doi.org/10.5194/gmd-15-7835-2022, https://doi.org/10.5194/gmd-15-7835-2022, 2022
Short summary
Short summary
Currently, spatially explicit models for soil carbon stock can simulate the impacts of several changes. However, they do not incorporate the erosion, lateral transport, and deposition (ETD) of soil material. The present work developed ETD formulation, illustrated model calibration and validation for Europe, and presented the results for a depositional site. We expect that our work advances ETD models' description and facilitates their reproduction and incorporation in land surface models.
Kazumi Ozaki, Devon B. Cole, Christopher T. Reinhard, and Eiichi Tajika
Geosci. Model Dev., 15, 7593–7639, https://doi.org/10.5194/gmd-15-7593-2022, https://doi.org/10.5194/gmd-15-7593-2022, 2022
Short summary
Short summary
A new biogeochemical model (CANOPS-GRB v1.0) for assessing the redox stability and dynamics of the ocean–atmosphere system on geologic timescales has been developed. In this paper, we present a full description of the model and its performance. CANOPS-GRB is a useful tool for understanding the factors regulating atmospheric O2 level and has the potential to greatly refine our current understanding of Earth's oxygenation history.
Félicien Meunier, Wim Verbruggen, Hans Verbeeck, and Marc Peaucelle
Geosci. Model Dev., 15, 7573–7591, https://doi.org/10.5194/gmd-15-7573-2022, https://doi.org/10.5194/gmd-15-7573-2022, 2022
Short summary
Short summary
Drought stress occurs in plants when water supply (i.e. root water uptake) is lower than the water demand (i.e. atmospheric demand). It is strongly related to soil properties and expected to increase in intensity and frequency in the tropics due to climate change. In this study, we show that contrary to the expectations, state-of-the-art terrestrial biosphere models are mostly insensitive to soil texture and hence probably inadequate to reproduce in silico the plant water status in drying soils.
Stanley I. Nmor, Eric Viollier, Lucie Pastor, Bruno Lansard, Christophe Rabouille, and Karline Soetaert
Geosci. Model Dev., 15, 7325–7351, https://doi.org/10.5194/gmd-15-7325-2022, https://doi.org/10.5194/gmd-15-7325-2022, 2022
Short summary
Short summary
The coastal marine environment serves as a transition zone in the land–ocean continuum and is susceptible to episodic phenomena such as flash floods, which cause massive organic matter deposition. Here, we present a model of sediment early diagenesis that explicitly describes this type of deposition while also incorporating unique flood deposit characteristics. This model can be used to investigate the temporal evolution of marine sediments following abrupt changes in environmental conditions.
Shanlin Tong, Weiguang Wang, Jie Chen, Chong-Yu Xu, Hisashi Sato, and Guoqing Wang
Geosci. Model Dev., 15, 7075–7098, https://doi.org/10.5194/gmd-15-7075-2022, https://doi.org/10.5194/gmd-15-7075-2022, 2022
Short summary
Short summary
Plant carbon storage potential is central to moderate atmospheric CO2 concentration buildup and mitigation of climate change. There is an ongoing debate about the main driver of carbon storage. To reconcile this discrepancy, we use SEIB-DGVM to investigate the trend and response mechanism of carbon stock fractions among water limitation regions. Results show that the impact of CO2 and temperature on carbon stock depends on water limitation, offering a new perspective on carbon–water coupling.
Jing Fang, Herman H. Shugart, Feng Liu, Xiaodong Yan, Yunkun Song, and Fucheng Lv
Geosci. Model Dev., 15, 6863–6872, https://doi.org/10.5194/gmd-15-6863-2022, https://doi.org/10.5194/gmd-15-6863-2022, 2022
Short summary
Short summary
Our study provided a detailed description and a package of an individual tree-based carbon model, FORCCHN2. This model used non-structural carbohydrate (NSC) pools to couple tree growth and phenology. The model could reproduce daily carbon fluxes across Northern Hemisphere forests. Given the potential importance of the application of this model, there is substantial scope for using FORCCHN2 in fields as diverse as forest ecology, climate change, and carbon estimation.
Johannes Oberpriller, Christine Herschlein, Peter Anthoni, Almut Arneth, Andreas Krause, Anja Rammig, Mats Lindeskog, Stefan Olin, and Florian Hartig
Geosci. Model Dev., 15, 6495–6519, https://doi.org/10.5194/gmd-15-6495-2022, https://doi.org/10.5194/gmd-15-6495-2022, 2022
Short summary
Short summary
Understanding uncertainties of projected ecosystem dynamics under environmental change is of immense value for research and climate change policy. Here, we analyzed these across European forests. We find that uncertainties are dominantly induced by parameters related to water, mortality, and climate, with an increasing importance of climate from north to south. These results highlight that climate not only contributes uncertainty but also modifies uncertainties in other ecosystem processes.
Marcus Falls, Raffaele Bernardello, Miguel Castrillo, Mario Acosta, Joan Llort, and Martí Galí
Geosci. Model Dev., 15, 5713–5737, https://doi.org/10.5194/gmd-15-5713-2022, https://doi.org/10.5194/gmd-15-5713-2022, 2022
Short summary
Short summary
This paper describes and tests a method which uses a genetic algorithm (GA), a type of optimisation algorithm, on an ocean biogeochemical model. The aim is to produce a set of numerical parameters that best reflect the observed data of particulate organic carbon in a specific region of the ocean. We show that the GA can provide optimised model parameters in a robust and efficient manner and can also help detect model limitations, ultimately leading to a reduction in the model uncertainties.
Julien Ruffault, François Pimont, Hervé Cochard, Jean-Luc Dupuy, and Nicolas Martin-StPaul
Geosci. Model Dev., 15, 5593–5626, https://doi.org/10.5194/gmd-15-5593-2022, https://doi.org/10.5194/gmd-15-5593-2022, 2022
Short summary
Short summary
A widespread increase in tree mortality has been observed around the globe, and this trend is likely to continue because of ongoing climate change. Here we present SurEau-Ecos, a trait-based plant hydraulic model to predict tree desiccation and mortality. SurEau-Ecos can help determine the areas and ecosystems that are most vulnerable to drying conditions.
Rebecca J. Oliver, Lina M. Mercado, Doug B. Clark, Chris Huntingford, Christopher M. Taylor, Pier Luigi Vidale, Patrick C. McGuire, Markus Todt, Sonja Folwell, Valiyaveetil Shamsudheen Semeena, and Belinda E. Medlyn
Geosci. Model Dev., 15, 5567–5592, https://doi.org/10.5194/gmd-15-5567-2022, https://doi.org/10.5194/gmd-15-5567-2022, 2022
Short summary
Short summary
We introduce new representations of plant physiological processes into a land surface model. Including new biological understanding improves modelled carbon and water fluxes for the present in tropical and northern-latitude forests. Future climate simulations demonstrate the sensitivity of photosynthesis to temperature is important for modelling carbon cycle dynamics in a warming world. Accurate representation of these processes in models is necessary for robust predictions of climate change.
Mahdi André Nakhavali, Lina M. Mercado, Iain P. Hartley, Stephen Sitch, Fernanda V. Cunha, Raffaello di Ponzio, Laynara F. Lugli, Carlos A. Quesada, Kelly M. Andersen, Sarah E. Chadburn, Andy J. Wiltshire, Douglas B. Clark, Gyovanni Ribeiro, Lara Siebert, Anna C. M. Moraes, Jéssica Schmeisk Rosa, Rafael Assis, and José L. Camargo
Geosci. Model Dev., 15, 5241–5269, https://doi.org/10.5194/gmd-15-5241-2022, https://doi.org/10.5194/gmd-15-5241-2022, 2022
Short summary
Short summary
In tropical ecosystems, the availability of rock-derived elements such as P can be very low. Thus, without a representation of P cycling, tropical forest responses to rising atmospheric CO2 conditions in areas such as Amazonia remain highly uncertain. We introduced P dynamics and its interactions with the N and P cycles into the JULES model. Our results highlight the potential for high P limitation and therefore lower CO2 fertilization capacity in the Amazon forest with low-fertility soils.
Olga Dombrowski, Cosimo Brogi, Harrie-Jan Hendricks Franssen, Damiano Zanotelli, and Heye Bogena
Geosci. Model Dev., 15, 5167–5193, https://doi.org/10.5194/gmd-15-5167-2022, https://doi.org/10.5194/gmd-15-5167-2022, 2022
Short summary
Short summary
Soil carbon storage and food production of fruit orchards will be influenced by climate change. However, they lack representation in models that study such processes. We developed and tested a new sub-model, CLM5-FruitTree, that describes growth, biomass distribution, and management practices in orchards. The model satisfactorily predicted yield and exchange of carbon, energy, and water in an apple orchard and can be used to study land surface processes in fruit orchards at different scales.
Jiaying Zhang, Rafael L. Bras, Marcos Longo, and Tamara Heartsill Scalley
Geosci. Model Dev., 15, 5107–5126, https://doi.org/10.5194/gmd-15-5107-2022, https://doi.org/10.5194/gmd-15-5107-2022, 2022
Short summary
Short summary
We implemented hurricane disturbance in a vegetation dynamics model and calibrated the model with observations of a tropical forest. We used the model to study forest recovery from hurricane disturbance and found that a single hurricane disturbance enhances AGB and BA in the long term compared with a no-hurricane situation. The model developed and results presented in this study can be utilized to understand the impact of hurricane disturbances on forest recovery under the changing climate.
Prabhat Raj Dahal, Maria Lumbierres, Stuart H. M. Butchart, Paul F. Donald, and Carlo Rondinini
Geosci. Model Dev., 15, 5093–5105, https://doi.org/10.5194/gmd-15-5093-2022, https://doi.org/10.5194/gmd-15-5093-2022, 2022
Short summary
Short summary
This paper describes the validation of area of habitat (AOH) maps produced for terrestrial birds and mammals. The main objective was to assess the accuracy of the maps based on independent data. We used open access data from repositories, such as ebird and gbif to check if our maps were a better reflection of species' distribution than random. When points were not available we used logistic models to validate the AOH maps. The majority of AOH maps were found to have a high accuracy.
Yoshiki Kanzaki, Shuang Zhang, Noah J. Planavsky, and Christopher T. Reinhard
Geosci. Model Dev., 15, 4959–4990, https://doi.org/10.5194/gmd-15-4959-2022, https://doi.org/10.5194/gmd-15-4959-2022, 2022
Short summary
Short summary
Increasing carbon dioxide in the atmosphere is an urgent issue in the coming century. Enhanced rock weathering in soils can be one of the most efficient C capture strategies. On the basis as a weathering simulator, the newly developed SCEPTER model implements bio-mixing by fauna/humans and enables organic matter and crushed rocks/minerals at the soil surface with an option to track their particle size distributions. Those features can be useful for evaluating the carbon capture efficiency.
Félicien Meunier, Sruthi M. Krishna Moorthy, Marc Peaucelle, Kim Calders, Louise Terryn, Wim Verbruggen, Chang Liu, Ninni Saarinen, Niall Origo, Joanne Nightingale, Mathias Disney, Yadvinder Malhi, and Hans Verbeeck
Geosci. Model Dev., 15, 4783–4803, https://doi.org/10.5194/gmd-15-4783-2022, https://doi.org/10.5194/gmd-15-4783-2022, 2022
Short summary
Short summary
We integrated state-of-the-art observations of the structure of the vegetation in a temperate forest to constrain a vegetation model that aims to reproduce such an ecosystem in silico. We showed that the use of this information helps to constrain the model structure, its critical parameters, as well as its initial state. This research confirms the critical importance of the representation of the vegetation structure in vegetation models and proposes a method to overcome this challenge.
Joe R. Melton, Ed Chan, Koreen Millard, Matthew Fortier, R. Scott Winton, Javier M. Martín-López, Hinsby Cadillo-Quiroz, Darren Kidd, and Louis V. Verchot
Geosci. Model Dev., 15, 4709–4738, https://doi.org/10.5194/gmd-15-4709-2022, https://doi.org/10.5194/gmd-15-4709-2022, 2022
Short summary
Short summary
Peat-ML is a high-resolution global peatland extent map generated using machine learning techniques. Peatlands are important in the global carbon and water cycles, but their extent is poorly known. We generated Peat-ML using drivers of peatland formation including climate, soil, geomorphology, and vegetation data, and we train the model with regional peatland maps. Our accuracy estimation approaches suggest Peat-ML is of similar or higher quality than other available peatland mapping products.
Veli Çağlar Yumruktepe, Annette Samuelsen, and Ute Daewel
Geosci. Model Dev., 15, 3901–3921, https://doi.org/10.5194/gmd-15-3901-2022, https://doi.org/10.5194/gmd-15-3901-2022, 2022
Short summary
Short summary
We describe the coupled bio-physical model ECOSMO II(CHL), which is used for regional configurations for the North Atlantic and the Arctic hind-casting and operational purposes. The model is consistent with the large-scale climatological nutrient settings and is capable of representing regional and seasonal changes, and model primary production agrees with previous measurements. For the users of this model, this paper provides the underlying science, model evaluation and its development.
Nicolas Azaña Schnedler-Meyer, Tobias Kuhlmann Andersen, Fenjuan Rose Schmidt Hu, Karsten Bolding, Anders Nielsen, and Dennis Trolle
Geosci. Model Dev., 15, 3861–3878, https://doi.org/10.5194/gmd-15-3861-2022, https://doi.org/10.5194/gmd-15-3861-2022, 2022
Short summary
Short summary
We present the Water Ecosystems Tool (WET) – a new modular aquatic ecosystem model configurable to a wide array of physical setups, ecosystems and research questions based on the popular FABM–PCLake model. We aim for the model to become a community staple, thus helping to consolidate the state of the art under a few flexible models, with the aim of improving comparability across studies and preventing the
re-inventions of the wheelthat are common to our scientific modeling community.
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
Short summary
Short summary
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.
Hisashi Sato and Takeshi Ise
Geosci. Model Dev., 15, 3121–3132, https://doi.org/10.5194/gmd-15-3121-2022, https://doi.org/10.5194/gmd-15-3121-2022, 2022
Short summary
Short summary
Accurately predicting global coverage of terrestrial biome is one of the earliest ecological concerns, and many empirical schemes have been proposed to characterize their relationship. Here, we demonstrate an accurate and practical method to construct empirical models for operational biome mapping via a convolutional neural network (CNN) approach.
Licheng Liu, Shaoming Xu, Jinyun Tang, Kaiyu Guan, Timothy J. Griffis, Matthew D. Erickson, Alexander L. Frie, Xiaowei Jia, Taegon Kim, Lee T. Miller, Bin Peng, Shaowei Wu, Yufeng Yang, Wang Zhou, Vipin Kumar, and Zhenong Jin
Geosci. Model Dev., 15, 2839–2858, https://doi.org/10.5194/gmd-15-2839-2022, https://doi.org/10.5194/gmd-15-2839-2022, 2022
Short summary
Short summary
By incorporating the domain knowledge into a machine learning model, KGML-ag overcomes the well-known limitations of process-based models due to insufficient representations and constraints, and unlocks the “black box” of machine learning models. Therefore, KGML-ag can outperform existing approaches on capturing the hot moment and complex dynamics of N2O flux. This study will be a critical reference for the new generation of modeling paradigm for biogeochemistry and other geoscience processes.
Elodie Salmon, Fabrice Jégou, Bertrand Guenet, Line Jourdain, Chunjing Qiu, Vladislav Bastrikov, Christophe Guimbaud, Dan Zhu, Philippe Ciais, Philippe Peylin, Sébastien Gogo, Fatima Laggoun-Défarge, Mika Aurela, M. Syndonia Bret-Harte, Jiquan Chen, Bogdan H. Chojnicki, Housen Chu, Colin W. Edgar, Eugenie S. Euskirchen, Lawrence B. Flanagan, Krzysztof Fortuniak, David Holl, Janina Klatt, Olaf Kolle, Natalia Kowalska, Lars Kutzbach, Annalea Lohila, Lutz Merbold, Włodzimierz Pawlak, Torsten Sachs, and Klaudia Ziemblińska
Geosci. Model Dev., 15, 2813–2838, https://doi.org/10.5194/gmd-15-2813-2022, https://doi.org/10.5194/gmd-15-2813-2022, 2022
Short summary
Short summary
A methane model that features methane production and transport by plants, the ebullition process and diffusion in soil, oxidation to CO2, and CH4 fluxes to the atmosphere has been embedded in the ORCHIDEE-PEAT land surface model, which includes an explicit representation of northern peatlands. This model, ORCHIDEE-PCH4, was calibrated and evaluated on 14 peatland sites. Results show that the model is sensitive to temperature and substrate availability over the top 75 cm of soil depth.
Suman Halder, Susanne K. M. Arens, Kai Jensen, Tais W. Dahl, and Philipp Porada
Geosci. Model Dev., 15, 2325–2343, https://doi.org/10.5194/gmd-15-2325-2022, https://doi.org/10.5194/gmd-15-2325-2022, 2022
Short summary
Short summary
A dynamic vegetation model, designed to estimate potential impacts of early vascular vegetation, namely, lycopsids, on the biogeochemical cycle at a local scale. Lycopsid Model (LYCOm) estimates the productivity and physiological properties of lycopsids across a broad climatic range along with natural selection, which is then utilized to adjudge their weathering potential. It lays the foundation for estimation of their impacts during their long evolutionary history starting from the Ordovician.
Dóra Hidy, Zoltán Barcza, Roland Hollós, Laura Dobor, Tamás Ács, Dóra Zacháry, Tibor Filep, László Pásztor, Dóra Incze, Márton Dencső, Eszter Tóth, Katarína Merganičová, Peter Thornton, Steven Running, and Nándor Fodor
Geosci. Model Dev., 15, 2157–2181, https://doi.org/10.5194/gmd-15-2157-2022, https://doi.org/10.5194/gmd-15-2157-2022, 2022
Short summary
Short summary
Biogeochemical models used by the scientific community can support society in the quantification of the expected environmental impacts caused by global climate change. The Biome-BGCMuSo v6.2 biogeochemical model has been created by implementing a lot of developments related to soil hydrology as well as the soil carbon and nitrogen cycle and by integrating crop model components. Detailed descriptions of developments with case studies are presented in this paper.
Lei Ma, George Hurtt, Lesley Ott, Ritvik Sahajpal, Justin Fisk, Rachel Lamb, Hao Tang, Steve Flanagan, Louise Chini, Abhishek Chatterjee, and Joseph Sullivan
Geosci. Model Dev., 15, 1971–1994, https://doi.org/10.5194/gmd-15-1971-2022, https://doi.org/10.5194/gmd-15-1971-2022, 2022
Short summary
Short summary
We present a global version of the Ecosystem Demography (ED) model which can track vegetation 3-D structure and scale up ecological processes from individual vegetation to ecosystem scale. Model evaluation against multiple benchmarking datasets demonstrated the model’s capability to simulate global vegetation dynamics across a range of temporal and spatial scales. With this version, ED has the potential to be linked with remote sensing observations to address key scientific questions.
Ignacio Hermoso de Mendoza, Etienne Boucher, Fabio Gennaretti, Aliénor Lavergne, Robert Field, and Laia Andreu-Hayles
Geosci. Model Dev., 15, 1931–1952, https://doi.org/10.5194/gmd-15-1931-2022, https://doi.org/10.5194/gmd-15-1931-2022, 2022
Short summary
Short summary
We modify the numerical model of forest growth MAIDENiso by explicitly simulating snow. This allows us to use the model in boreal environments, where snow is dominant. We tested the performance of the model before and after adding snow, using it at two Canadian sites to simulate tree-ring isotopes and comparing with local observations. We found that modelling snow improves significantly the simulation of the hydrological cycle, the plausibility of the model and the simulated isotopes.
Cited articles
Aranda, I., Rodríguez-Calcerrada, J., Robson, T. M., Cano, F. J.,
Alté, L., and Sánchez-Gómez, D.: Stomatal and non-stomatal
limitations on leaf carbon assimilation in beech (Fagus sylvatica L.)
seedlings under natural conditions, For. Syst., 21, 405–417,
https://doi.org/10.5424/fs/2012213-02348, 2012.
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:
Volume 4 Proceedings of the VIIth International Congress on Photosynthesis
Providence, Rhode Island, USA, 10–15 August 1986, edited by: Biggins, J.,
Springer Netherlands, Dordrecht, 221–224,
https://doi.org/10.1007/978-94-017-0519-6_48, 1987.
Barnard, D. M. and Bauerle, W. L.: The implications of minimum stomatal
conductance on modeling water flux in forest canopies, J. Geophys. Res.-Biogeo., 118, 1322–1333, https://doi.org/10.1002/jgrg.20112, 2013.
Berry, J. A., Beerling, D. J., and Franks, P. J.: Stomata: key players in
the earth system, past and present, Curr. Opin. Plant Biol., 13, 232–239,
https://doi.org/10.1016/j.pbi.2010.04.013, 2010.
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.
Blatt, M. R.: Cellular Signaling and Volume Control in Stomatal Movements in
Plants, Annu. Rev. Cell Dev. Biol., 16, 221–241,
https://doi.org/10.1146/annurev.cellbio.16.1.221, 2000.
Bonan, G. B., Lawrence, P. J., Oleson, K. W., Levis, S., Jung, M., Reichstein, M., Lawrence, D. M., Swenson, S. C., Bonan, C. :, Lawrence, P. J., Oleson, K. W., Levis, S., Jung, M., Reichstein, M., Lawrence, D. M., and Swenson, S. C.: Improving canopy processes in the Community Land Model version 4 (CLM4) using global flux fields empirically inferred from FLUXNET data, J. Geophys. Res.-Biogeo., 116, G02014, https://doi.org/10.1029/2010JG001593, 2011.
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.
Bota, J., Medrano, H., and Flexas, J.: Is photosynthesis limited by
decreased Rubisco activity and RuBP content under progressive water stress?,
New Phytol., 162, 671–681,
https://doi.org/10.1111/j.1469-8137.2004.01056.x, 2004.
Buckley, T. N. and Mott, K. A.: Modelling stomatal conductance in response
to environmental factors, Plant Cell Environ., 36, 1691–1699,
https://doi.org/10.1111/pce.12140, 2013.
Cano, F. J., Sánchez-Gómez, D., Rodríguez-Calcerrada, J.,
Warren, C. R., Gil, L., and Aranda, I.: Effects of drought on mesophyll
conductance and photosynthetic limitations at different tree canopy layers,
Plant Cell Environ., 36, 1961–1980, https://doi.org/10.1111/pce.12103,
2013.
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.
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, Agric. For.
Meteorol., 54, 107–136, https://doi.org/10.1016/0168-1923(91)90002-8, 1991.
Comins, H. N. and McMurtrie, R. E.: Long-Term Response of Nutrient-Limited
Forests to CO”2 Enrichment; Equilibrium Behavior of Plant-Soil Models, Ecol.
Appl. Publ. Ecol. Soc. Am., 3, 666–681, https://doi.org/10.2307/1942099,
1993.
Condit, R., Perez, R., Aguilar, S., and Lao, S.: Sherman 6-ha Forest Census Plot Data, ForestGEO [data set], https://forestgeo.si.edu/sites/neotropics/san-lorenzo/san-lorenzo-sherman-plot-data, (last access: 1 June 2020),
2009.
Cowan, I. R. and Farquhar, G. D.: Stomatal function in relation to leaf
metabolism and environment, Symp. Soc. Exp. Biol., 31, 471–505, 1977.
CTSM Development Team: ESCOMP/CTSM: Update documentation for release-clm5.0
branch, and fix issues with no-anthro surface dataset creation, Zenodo [code],
https://doi.org/10.5281/zenodo.3779821, 2020.
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.
Davidson, K. J., Lamour, J., Rogers, A., and Serbin, S. P.: Late-day
measurement of excised branches results in uncertainty in the estimation of
two stomatal parameters derived from response curves in Populus deltoides
Bartr. × Populus nigra L., Tree Physiol., tpac006,
https://doi.org/10.1093/treephys/tpac006, in press, 2022.
Davies, W. J., Wilkinson, S., and Loveys, B.: Stomatal control by chemical
signalling and the exploitation of this mechanism to increase water use
efficiency in agriculture, New Phytol., 153, 449–460,
https://doi.org/10.1046/j.0028-646X.2001.00345.x, 2002.
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, 2015.
De La Motte, L. G., Beauclaire, Q., Heinesch, B., Cuntz, M., Foltýnová, L., Šigut, L., Kowalska, N., Manca, G., Ballarin, I. G., Vincke, C., Roland, M., Ibrom, A., Lousteau, D., Siebicke, L., Neiryink, J., and Longdoz, B.: Non-stomatal processes reduce gross primary productivity in temperate forest ecosystems during severe edaphic drought: Edaphic drought in forest ecosystems, Philos. Trans. R. Soc. B Biol. Sci., 375, 20190527, https://doi.org/10.1098/rstb.2019.0527, 2020.
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.
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.
Egea, G., Verhoef, A., and Vidale, P. L.: Towards an improved and more
flexible representation of water stress in coupled photosynthesis–stomatal
conductance models, Agric. For. Meteorol., 151, 1370–1384,
https://doi.org/10.1016/j.agrformet.2011.05.019, 2011.
Farquhar, G. D., von Caemmerer, S., and Berry, J. A.: A biochemical model of
photosynthetic CO2 assimilation in leaves of C3 species, Planta, 149,
78–90, https://doi.org/10.1007/BF00386231, 1980.
FATES Development Team: The Functionally Assembled Terrestrial Ecosystem
Simulator (commit 9a4627a), Zenodo [code], https://doi.org/10.5281/zenodo.5851984,
2020a.
FATES Development Team: The Functionally Assembled Terrestrial Ecosystem
Simulator (FATES) (Version sci.1.35.5_api.11.0.0), Zenodo [code],
https://doi.org/10.5281/zenodo.3825474, 2020b.
Faybishenko, B., Paton, S., Knox, R., Varadharajan, C., Agarwal, D., and Powell, T.: San Lorenzo meteorological drivers, Next-Generation Ecosystem Experiments Tropics; STRI; Lawrence Berkeley National Lab, (LBNL), Berkeley, CA (United States) [data set], https://doi.org/10.15486/ngt/1507769, 2019.
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.
Ficklin, D. L. and Novick, K. A.: Historic and projected changes in vapor
pressure deficit suggest a continental-scale drying of the United States
atmosphere, J. Geophys. Res., 122, 2061–2079,
https://doi.org/10.1002/2016JD025855, 2017.
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.
Franks, P. J., Berry, J. A., Lombardozzi, D. L., and Bonan, G. B.: Stomatal
function across temporal and spatial scales: Deep-time trends,
land-atmosphere coupling and global models, Plant Physiol., 174, 583–602,
https://doi.org/10.1104/pp.17.00287, 2017.
Galbraith, D., Levy, P. E., Sitch, S., Huntingford, C., Cox, P., Williams,
M., and Meir, P.: Multiple mechanisms of Amazonian forest biomass losses in
three dynamic global vegetation models under climate change, New Phytol.,
187, 647–665, https://doi.org/10.1111/j.1469-8137.2010.03350.x, 2010.
Galmés, J., Medrano, H., and Flexas, J.: Photosynthetic limitations in
response to water stress and recovery in Mediterranean plants with different
growth forms, New Phytol., 175, 81–93,
https://doi.org/10.1111/j.1469-8137.2007.02087.x, 2007.
Gatti, L. V., Basso, L. S., Miller, J. B., Gloor, M., Gatti Domingues, L.,
Cassol, H. L. G., Tejada, G., Aragão, L. E. O. C., Nobre, C., Peters,
W., Marani, L., Arai, E., Sanches, A. H., Corrêa, S. M., Anderson, L.,
Von Randow, C., Correia, C. S. C., Crispim, S. P., and Neves, R. A. L.:
Amazonia as a carbon source linked to deforestation and climate change,
Nature, 595, 388–393, https://doi.org/10.1038/s41586-021-03629-6, 2021.
Gimeno, T. E., Crous, K. Y., Cooke, J., O'Grady, A. P., Ósvaldsson, A.,
Medlyn, B. E., and Ellsworth, D. S.: Conserved stomatal behaviour under
elevated CO2 and varying water availability in a mature woodland, Funct.
Ecol., 30, 700–709, https://doi.org/10.1111/1365-2435.12532, 2016.
Grassi, G. and Magnani, F.: Stomatal, mesophyll conductance and biochemical
limitations to photosynthesis as affected by drought and leaf ontogeny in
ash and oak trees, Plant Cell Environ., 28, 834–849,
https://doi.org/10.1111/j.1365-3040.2005.01333.x, 2005.
Guimberteau, M., Zhu, D., Maignan, F., Huang, Y., Yue, C., Dantec-Nédélec, S., Ottlé, C., Jornet-Puig, A., Bastos, A., Laurent, P., Goll, D., Bowring, S., Chang, J., Guenet, B., Tifafi, M., Peng, S., Krinner, G., Ducharne, A., Wang, F., Wang, T., Wang, X., Wang, Y., Yin, Z., Lauerwald, R., Joetzjer, E., Qiu, C., Kim, H., and Ciais, P.: ORCHIDEE-MICT (v8.4.1), a land surface model for the high latitudes: model description and validation, Geosci. Model Dev., 11, 121–163, https://doi.org/10.5194/gmd-11-121-2018, 2018.
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.
Hersbach, H., de Rosnay, P., Bell, B., Schepers, D., Simmons, A., Soci, C., Abdalla, S., Alonso-Balmaseda, M., Balsamo, G., Bechtold, P., Berrisford, P., Bidlot, J.-R., de Boisséson, E., Bonavita, M., Browne, P., Buizza, R., Dahlgren, P., Dee, D., Dragani, R., Diamantakis, M., Flemming, J., Forbes, R., Geer, A., Haiden, T., Hólm, E., Haimberger, L., Hogan, R., Horányi, A., Janiskova, M., Laloyaux, P., Lopez, P., Munoz-Sabater, J., Peubey, C., Radu, R., Richardson, D., Thépaut, J.-N., Vitart, F., Yang, X., Zsótér, E., and Zuo, H.: Operational global reanalysis: progress, future directions and synergies with NWP, ECMWF ERA Report Series, N27, https://www.ecmwf.int/en/elibrary/18765-operational-globalreanalysis-progress-future-directions-and-synergies-nwp (last access: April 2022), 2018.
Hetherington, A. M. and Woodward, F. I.: The role of stomata in sensing and
driving environmental change, Nature, 424, 901–908,
https://doi.org/10.1038/nature01843, 2003.
Holm, J. A., Knox, R. G., Zhu, Q., Fisher, R. A., Koven, C. D., Lima, A. J.
N., Riley, W. J., Longo, M., Negrón-Juárez, R. I., de Araujo, A. C.,
Kueppers, L. M., Moorcroft, P. R., Higuchi, N., and Chambers, J. Q.: The
Central Amazon Biomass Sink Under Current and Future Atmospheric CO2:
Predictions From Big-Leaf and Demographic Vegetation Models, J. Geophys.
Res.-Biogeo., 125, e2019JG005500,
https://doi.org/10.1029/2019JG005500, 2020.
Kala, J., De Kauwe, M. G., Pitman, A. J., Medlyn, B. E., Wang, Y. P., Lorenz, R., and Perkins-Kirkpatrick, S. E.: Impact of the representation of stomatal conductance on model projections of heatwave intensity, Sci. Rep., 6, 23418, https://doi.org/10.1038/srep23418, 2016.
Keenan, T., Sabate, S., and Gracia, C.: The importance of mesophyll
conductance in regulating forest ecosystem productivity during drought
periods, Glob. Change Biol., 16, 1019–1034,
https://doi.org/10.1111/j.1365-2486.2009.02017.x, 2010.
Kennedy, D., Swenson, S., Oleson, K. W., Lawrence, D. M., Fisher, R., Lola
da Costa, A. C., 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.
Knauer, J., Werner, C., and Zaehle, S.: Evaluating stomatal models and their
atmospheric drought response in a land surface scheme: A multibiome
analysis, J. Geophys. Res.-Biogeo., 120, 1894–1911,
https://doi.org/10.1002/2015JG003114, 2015.
Kolby Smith, W., Reed, S. C., Cleveland, C. C., Ballantyne, A. P., Anderegg,
W. R. L., Wieder, W. R., Liu, Y. Y., and Running, S. W.: Large divergence of
satellite and Earth system model estimates of global terrestrial CO2
fertilization, Nat. Clim. Change, 6, 306–310,
https://doi.org/10.1038/nclimate2879, 2016.
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.
Kumarathunge, D. P., Medlyn, B. E., Drake, J. E., Tjoelker, M. G.,
Aspinwall, M. J., Battaglia, M., Cano, F. J., Carter, K. R., Cavaleri, M.
A., Cernusak, L. A., Chambers, J. Q., Crous, K. Y., De Kauwe, M. G.,
Dillaway, D. N., Dreyer, E., Ellsworth, D. S., Ghannoum, O., Han, Q.,
Hikosaka, K., Jensen, A. M., Kelly, J. W. G., Kruger, E. L., Mercado, L. M.,
Onoda, Y., Reich, P. B., Rogers, A., Slot, M., Smith, N. G., Tarvainen, L.,
Tissue, D. T., Togashi, H. F., Tribuzy, E. S., Uddling, J., Vårhammar, A., Wallin, G., Warren, J. M., and Way, D. A.: Acclimation and
adaptation components of the temperature dependence of plant photosynthesis
at the global scale, New Phytol., 222, 768–784,
https://doi.org/10.1111/nph.15668, 2019.
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.
Lawrence, D. M., Fisher, R. A., Koven, C. D., Oleson, K. W., Swenson, S. C., Bonan, G., Collier, N., Ghimire, B., van Kampenhout, L., Kennedy, D., Kluzek, E., Lawrence, P. J., Li, F., Li, H., Lombardozzi, D., Riley, W. J., Sacks, W. J., Shi, M., Vertenstein, M., Wieder, W. R., Xu, C., Ali, A. A., Badger, A. M., Bisht, G., van den Broeke, M., Brunke, M. A., Burns, S. P., Buzan, J., Clark, M., Craig, A., Dahlin, K., Drewniak, B., Fisher, J. B., Flanner, M., Fox, A. M., Gentine, P., Hoffman, F., Keppel-Aleks, G., Knox, R., Kumar, S., Lenaerts, J., Leung, L. R., Lipscomb, W. H., Lu, Y., Pandey, A., Pelletier, J. D., Perket, J., Randerson, J. T., Ricciuto, D. M., Sanderson, B. M., Slater, A., Subin, Z. M., Tang, J., Thomas, R. Q., Val Martin, M., and Zeng, X.: The Community Land Model Version 5: Description of New Features, Benchmarking, and Impact of Forcing Uncertainty, J. Adv. Model. Earth Syst., 11, 4245–4287, https://doi.org/10.1029/2018MS001583, 2019.
Lawson, T., Simkin, A. J., Kelly, G., and Granot, D.: Mesophyll
photosynthesis and guard cell metabolism impacts on stomatal behaviour, New
Phytol., 203, 1064–1081, https://doi.org/10.1111/nph.12945, 2014.
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.
Leuning, R.: Temperature dependence of two parameters in a photosynthesis
model, Plant Cell Environ., 25, 1205–1210,
https://doi.org/10.1046/j.1365-3040.2002.00898.x, 2002.
Li, Q.: Model outputs and observation data for “Implementation and evaluation of the unified stomatal optimization approach in the Functionally Assembled Terrestrial Ecosystem Simulator (FATES)”, Zenodo [data set], https://doi.org/10.5281/zenodo.6595277, 2022.
Li, Q. and Serbin, S.: Scripts for running, analyzing, and plotting results
for FATES with Medlyn stomatal conductance model, Zenodo [code],
https://doi.org/10.5281/zenodo.5854740, 2022.
Limousin, J. M., Misson, L., Lavoir, A. V., Martin, N. K., and Rambal, S.:
Do photosynthetic limitations of evergreen Quercus ilex leaves change with
long-term increased drought severity?, Plant Cell Environ., 33, 863–875,
https://doi.org/10.1111/j.1365-3040.2009.02112.x, 2010.
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., Da Costa, A. C. L., 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.
Lombardozzi, D. L., Zeppel, M. J. B., Fisher, R. A., and Tawfik, A.: Representing nighttime and minimum conductance in CLM4.5: global hydrology and carbon sensitivity analysis using observational constraints, Geosci. Model Dev., 10, 321–331, https://doi.org/10.5194/gmd-10-321-2017, 2017.
Marchin, R. M., Broadhead, A. A., Bostic, L. E., Dunn, R. R., and Hoffmann,
W. A.: Stomatal acclimation to vapour pressure deficit doubles transpiration
of small tree seedlings with warming: Stomatal acclimation increases
transpiration, Plant Cell Environ., 39, 2221–2234,
https://doi.org/10.1111/pce.12790, 2016.
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.
Miner, G. L. and Bauerle, W. L.: Seasonal variability of the parameters of
the Ball–Berry model of stomatal conductance in maize (Zea mays L.) and
sunflower (Helianthus annuus L.) under well-watered and water-stressed
conditions, Plant Cell Environ., 40, 1874–1886,
https://doi.org/10.1111/pce.12990, 2017.
Misson, L., Panek, J. A., and Goldstein, A. H.: A comparison of three
approaches to modeling leaf gas exchange in annually drought-stressed
ponderosa pine forests, Tree Physiol., 24, 529–541,
https://doi.org/10.1093/treephys/24.5.529, 2004.
Misson, L., Limousin, J. M., Rodriguez, R., and Letts, M. G.: Leaf
physiological responses to extreme droughts in Mediterranean Quercus ilex
forest, Plant Cell Environ., 33, 1898–1910,
https://doi.org/10.1111/j.1365-3040.2010.02193.x, 2010.
Morales, P., Sykes, M. T., Prentice, I. C., Smith, P., Smith, B., Bugmann,
H., Zierl, B., Friedlingstein, P., Viovy, N., Sabaté, S., Sánchez,
A., Pla, E., Gracia, C. A., Sitch, S., Arneth, A., and Ogee, J.: Comparing
and evaluating process-based ecosystem model predictions of carbon and water
fluxes in major European forest biomes, Glob. Change Biol., 11, 2211–2233,
https://doi.org/10.1111/j.1365-2486.2005.01036.x, 2005.
Oleson, K. W., Lawrence, D. M., Bonan, G. B., Drewniak, B., Huang, M., Levis, S., Li, F., Riley, W. J., Swenson, S. C., Thornton, P. E., Bozbiyik, A., Fisher, R., Heald, C. L., Kluzek, E., Lamarque, F., Lawrence, P. J., Leung, L. R., Muszala, S., Ricciuto, D. M., Sacks, W., Sun, Y., Tang, J., and Yang, Z.-L.: Technical Description of version 4.5 of the Community Land Model (CLM) (No. NCAR/TN-503+STR), https://doi.org/10.5065/D6RR1W7M, 2013.
Pachauri, R. K., Allen, M. R., Barros, V. R., Broome, J., Cramer, W., Christ, R., Church, J. A., Clarke, L., Dahe, Q., Dasgupta, P., Dubash, N. K., Edenhofer, O., Elgizouli, I., Field, C. B., Forster, P., Friedlingstein, P., Fuglestvedt, J., Gomez-Echeverri, L., Hallegatte, S., Hegerl, G., Howden, M., Jiang, K., Jimenez Cisneroz, B., Kattsov, V., Lee, H., Mach, K. J., Marotzke, J., Mastrandrea, M. D., Meyer, L., Minx, J., Mulugetta, Y., O’Brien, K., Oppenheimer, M., Pereira, J. J., Pichs-Madruga, R., Plattner, G.-K., Pörtner, H.-O., Power, S. B., Preston, B., Ravindranath, N. H., Reisinger, A., Riahi, K., Rusticucci, M., Scholes, R., Seyboth, K., Sokona, Y., Stavins, R., Stocker, T. F., Tschakert, P., van Vuuren, D., and van Ypserle, J.-P.: Climate Change 2014: Synthesis Report. Contribution of Working Groups I, II and III to the Fifth Assessment Report of the Intergovernmental Panel on Climate Change, edited by: Pachauri, R. K. and Meyer, L., IPCC, Geneva, Switzerland, 151 pp., http://www.mendeley.com/research/climate-change-2014-synthesis-report-contribution-working-groups-i-ii-iii-fifth-assessment-report-in-20 (last access: 1 January 2021), 2014.
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.
Reichstein, M., Bahn, M., Ciais, P., Frank, D., Mahecha, M. D., Seneviratne,
S. I., Zscheischler, J., Beer, C., Buchmann, N., Frank, D. C., Papale, D.,
Rammig, A., Smith, P., Thonicke, K., van der Velde, M., Vicca, S., Walz, A.,
and Wattenbach, M.: Climate extremes and the carbon cycle, Nature, 500,
287–295, https://doi.org/10.1038/nature12350, 2013.
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., and Niinemets,
Ü.: A roadmap for improving the representation of photosynthesis in
Earth system models, New Phytol., 213, 22–42, 2017a.
Rogers, A., Serbin, S., Ely, K., Wu, J., Wolfe, B., Dickman, T., Collins,
A., Detto, M., Grossiord, C., McDowell, N., and Michaletz, S.: CO2 response
(ACi) gas exchange, calculated Vcmax & Jmax parameters, Feb2016–May2016,
PA-SLZ, PA-PNM: Panama, Next-Generation Ecosystem Experiments Tropics;
Brookhaven National Lab. (BNL), Upton, NY (United States); Los Alamos
National Lab. (LANL), Los Alamos, NM (United States), STRI, NGEE–Tropics [data set],
https://doi.org/10.15486/ngt/1411867, 2017b.
Rogers, A., Serbin, S., Ely, K., Wu, J., Wolfe, B., Dickman, T., Collins,
A., Detto, M., Grossiord, C., McDowell, N., and Michaletz, S.: Diurnal leaf
gas exchange survey, Feb2016–May2016, PA-SLZ, PA-PNM: Panama, NGEE–Tropics [data set],
https://doi.org/10.15486/NGT/1411972, 2017c.
Rowland, L., Harper, A., Christoffersen, B. O., Galbraith, D. R., Imbuzeiro, H. M. A., Powell, T. L., Doughty, C., Levine, N. M., Malhi, Y., Saleska, S. R., Moorcroft, P. R., Meir, P., and Williams, M.: Modelling climate change responses in tropical forests: similar productivity estimates across five models, but different mechanisms and responses, Geosci. Model Dev., 8, 1097–1110, https://doi.org/10.5194/gmd-8-1097-2015, 2015.
Schaefer, K., Collatz, G. J., Tans, P., Denning, A. S., Baker, I., Berry, J., Prihodko, L., Suits, N., and Philpott, A.: Combined Simple Biosphere/Carnegie-Ames-Stanford Approach terrestrial carbon cycle model, J. Geophys. Res.-Biogeo., 113, G03034, https://doi.org/10.1029/2007JG000603, 2008.
Sellers, P. J., Randall, D. A., Collatz, G. J., Berry, J. A., Field, C. B.,
Dazlich, D. A., Zhang, C., Collelo, G. D., and Bounoua, L.: A revised land
surface parameterization (SiB2) for atmospheric GCMs. Part I: Model
formulation, J. Climate, 9, 676–705, 1996.
Smith, M. N., Taylor, T. C., van Haren, J., Rosolem, R., Restrepo-Coupe, N.,
Adams, J., Wu, J., de Oliveira, R. C., da Silva, R., de Araujo, A. C., de
Camargo, P. B., Huxman, T. E., and Saleska, S. R.: Empirical evidence for
resilience of tropical forest photosynthesis in a warmer world, Nat. Plants,
6, 1225–1230, https://doi.org/10.1038/s41477-020-00780-2, 2020.
Sperry, J. S. and Love, D. M.: What plant hydraulics can tell us about
responses to climate-change droughts, New Phytol., 207, 14–27,
https://doi.org/10.1111/nph.13354, 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, Agric.
For. Meteorol., 191, 22–32,
https://doi.org/10.1016/j.agrformet.2014.02.009, 2014.
Vidale, P. L., Egea, G., McGuire, P. C., Todt, M., Peters, W., Müller, O., Balan-Sarojini, B., and Verhoef, A.: On the Treatment of Soil Water Stress in GCM Simulations of Vegetation Physiology, Front. Environ. Sci., 9, 689301, https://doi.org/10.3389/fenvs.2021.689301, 2021.
Wang, S., Yang, Y., Trishchenko, A. P., Barr, A. G., Black, T. A., and
Mccaughey, H.: Modeling the response of canopy stomatal conductance to
humidity, J. Hydrometeorol., 10, 521–532,
https://doi.org/10.1175/2008JHM1050.1, 2009.
Wilson, K. B., Baldocchi, D. D., and Hanson, P. J.: Quantifying stomatal and
non-stomatal limitations to carbon assimilation resulting from leaf aging
and drought in mature deciduous tree species, Tree Physiol., 20, 787–797,
https://doi.org/10.1093/treephys/20.12.787, 2000.
Wright, S. J., Horlyck, V., Basset, Y., Barrios, H., Bethancourt, A., Bohlman, S. A., Gilbert, G. S., Goldstein, G., Graham, E. A., and Kitajima, K.: Tropical canopy biology program, Republic of Panama, in: Studying forest canopies from above: The international canopy crane network, Smithsonian Tropical Research Institute and United Nations Environmental Programme, 137–139, ISBN 978-9962-614-05-0, 2003.
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, L. and Baldocchi, D. D.: Seasonal trends in photosynthetic parameters
and stomatal conductance of blue oak (Quercus douglasii) under prolonged
summer drought and high temperature, Tree Physiol., 23, 865–877,
https://doi.org/10.1093/treephys/23.13.865, 2003.
Yuan, W., Zheng, Y., Piao, S., Ciais, P., Lombardozzi, D., Wang, Y., Ryu, Y., Chen, G., Dong, W., Hu, Z., Jain, A. K., Jiang, C., Kato, E., Li, S., Lienert, S., Liu, S., Nabel, J. E. M. S., Qin, Z., Quine, T., Sitch, S., Smith, W. K., Wang, F., Wu, C., Xiao, Z., and Yang, S.: Increased atmospheric vapor pressure deficit reduces global vegetation growth, Sci. Adv., 5, eaax139, https://doi.org/10.1126/sciadv.aax1396, 2019.
Zaehle, S. and Friend, A. D.: Carbon and nitrogen cycle dynamics in the O-CN land surface model: 1. Model description, site-scale evaluation, and sensitivity to parameter estimates, Global Biogeochem. Cy., 24, GB1005, https://doi.org/10.1029/2009GB003521, 2010.
Zait, Y. and Schwartz, A.: Climate-Related Limitations on Photosynthesis and Drought-Resistance Strategies of Ziziphus spina-christi, Front. For. Glob. Change, 1, 3, https://doi.org/10.3389/ffgc.2018.00003, 2018.
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, Agric. For. Meteorol., 182–183,
204–214, https://doi.org/10.1016/j.agrformet.2013.05.009, 2013.
Short summary
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.
Stomatal conductance is the rate of water release from leaves’ pores. We implemented an...
