Articles | Volume 9, issue 2
https://doi.org/10.5194/gmd-9-587-2016
© Author(s) 2016. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
https://doi.org/10.5194/gmd-9-587-2016
© Author(s) 2016. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Model description paper
| 
12 Feb 2016
Model description paper |
| 12 Feb 2016
A global scale mechanistic model of photosynthetic capacity (LUNA V1.0)
A. A. Ali
Earth and Environmental Sciences Division, Los Alamos National Laboratory,
Los Alamos, New Mexico, USA
Department of Civil and Environmental Engineering, University of California
Irvine, Irvine, California, USA
C. Xu
CORRESPONDING AUTHOR
Earth and Environmental Sciences Division, Los Alamos National Laboratory,
Los Alamos, New Mexico, USA
A. Rogers
Environmental and Climate Sciences Department, Brookhaven
National Laboratory, Upton, New York, USA
R. A. Fisher
Climate and Global Dynamics, National Center for Atmospheric Research,
Boulder, Colorado, USA
S. D. Wullschleger
Climate Change Science Institute, Environmental Sciences Division, Oak Ridge
National Laboratory, Oak Ridge, Tennessee, USA
E. C. Massoud
Department of Civil and Environmental Engineering, University of California
Irvine, Irvine, California, USA
J. A. Vrugt
Department of Civil and Environmental Engineering, University of California
Irvine, Irvine, California, USA
Department of Earth System Science, University of California Irvine, Irvine,
California, USA
J. D. Muss
Earth and Environmental Sciences Division, Los Alamos National Laboratory,
Los Alamos, New Mexico, USA
N. G. McDowell
Earth and Environmental Sciences Division, Los Alamos National Laboratory,
Los Alamos, New Mexico, USA
J. B. Fisher
Jet Propulsion Laboratory, California Institute of Technology, Pasadena,
California, USA
P. B. Reich
Department of Forest Resources, University of Minnesota, St. Paul,
Minnesota, USA
Hawkesbury Institute for the Environment, University of Western Sydney,
Penrith, New South Wales, Australia
C. J. Wilson
Earth and Environmental Sciences Division, Los Alamos National Laboratory,
Los Alamos, New Mexico, USA
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Revised manuscript not accepted
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Applications of data assimilation (DA) arise in many fields of geosciences, perhaps most importantly in weather forecasting and hydrology. We want to investigate the roles of data assimilation methods and land surface models (LSMs) in joint estimation of states and parameters in the assimilation experiments. We find that all DA methods can improve prediction of states, and that differences between DA methods were limited but that the differences between LSMs were much larger.
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.
Bradley O. Christoffersen, Manuel Gloor, Sophie Fauset, Nikolaos M. Fyllas, David R. Galbraith, Timothy R. Baker, Bart Kruijt, Lucy Rowland, Rosie A. Fisher, Oliver J. Binks, Sanna Sevanto, Chonggang Xu, Steven Jansen, Brendan Choat, Maurizio Mencuccini, Nate G. McDowell, and Patrick Meir
Geosci. Model Dev., 9, 4227–4255, https://doi.org/10.5194/gmd-9-4227-2016, https://doi.org/10.5194/gmd-9-4227-2016, 2016
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We developed a plant hydraulics model for tropical forests based on established plant physiological theory, and parameterized it by conducting a pantropical hydraulic trait survey. We show that a substantial amount of trait diversity can be represented in the model by a reduced set of trait dimensions. The fully parameterized model is able capture tree-level variation in water status and improves simulations of total ecosystem transpiration, showing how to incorporate hydraulic traits in models.
Anna B. Harper, Peter M. Cox, Pierre Friedlingstein, Andy J. Wiltshire, Chris D. Jones, Stephen Sitch, Lina M. Mercado, Margriet Groenendijk, Eddy Robertson, Jens Kattge, Gerhard Bönisch, Owen K. Atkin, Michael Bahn, Johannes Cornelissen, Ülo Niinemets, Vladimir Onipchenko, Josep Peñuelas, Lourens Poorter, Peter B. Reich, Nadjeda A. Soudzilovskaia, and Peter van Bodegom
Geosci. Model Dev., 9, 2415–2440, https://doi.org/10.5194/gmd-9-2415-2016, https://doi.org/10.5194/gmd-9-2415-2016, 2016
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Dynamic global vegetation models (DGVMs) are used to predict the response of vegetation to climate change. We improved the representation of carbon uptake by ecosystems in a DGVM by including a wider range of trade-offs between nutrient allocation to photosynthetic capacity and leaf structure, based on observed plant traits from a worldwide data base. The improved model has higher rates of photosynthesis and net C uptake by plants, and more closely matches observations at site and global scales.
Xiaofeng Xu, Fengming Yuan, Paul J. Hanson, Stan D. Wullschleger, Peter E. Thornton, William J. Riley, Xia Song, David E. Graham, Changchun Song, and Hanqin Tian
Biogeosciences, 13, 3735–3755, https://doi.org/10.5194/bg-13-3735-2016, https://doi.org/10.5194/bg-13-3735-2016, 2016
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Accurately projecting future climate change requires a good methane modeling. However, how good the current models are and what are the key improvements needed remain unclear. This paper reviews the 40 published methane models to characterize the strengths and weakness of current methane models and further lay out the roadmap for future model improvements.
D. G. Miralles, C. Jiménez, M. Jung, D. Michel, A. Ershadi, M. F. McCabe, M. Hirschi, B. Martens, A. J. Dolman, J. B. Fisher, Q. Mu, S. I. Seneviratne, E. F. Wood, and D. Fernández-Prieto
Hydrol. Earth Syst. Sci., 20, 823–842, https://doi.org/10.5194/hess-20-823-2016, https://doi.org/10.5194/hess-20-823-2016, 2016
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The WACMOS-ET project aims to advance the development of land evaporation estimates on global and regional scales. Evaluation of current evaporation data sets on the global scale showed that they manifest large dissimilarities during conditions of water stress and drought and deficiencies in the way evaporation is partitioned into several components. Different models perform better under different conditions, highlighting the potential for considering biome- or climate-specific model ensembles.
D. Michel, C. Jiménez, D. G. Miralles, M. Jung, M. Hirschi, A. Ershadi, B. Martens, M. F. McCabe, J. B. Fisher, Q. Mu, S. I. Seneviratne, E. F. Wood, and D. Fernández-Prieto
Hydrol. Earth Syst. Sci., 20, 803–822, https://doi.org/10.5194/hess-20-803-2016, https://doi.org/10.5194/hess-20-803-2016, 2016
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In this study a common reference input data set from satellite and in situ data is used to run four established evapotranspiration (ET) algorithms using sub-daily and daily input on a tower scale as a testbed for a global ET product. The PT-JPL model and GLEAM provide the best performance for satellite and in situ forcing as well as for the different temporal resolutions. PM-MOD and SEBS perform less well: the PM-MOD model generally underestimates, while SEBS generally overestimates ET.
D. R. Harp, A. L. Atchley, S. L. Painter, E. T. Coon, C. J. Wilson, V. E. Romanovsky, and J. C. Rowland
The Cryosphere, 10, 341–358, https://doi.org/10.5194/tc-10-341-2016, https://doi.org/10.5194/tc-10-341-2016, 2016
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This paper investigates the uncertainty associated with permafrost thaw projections at an intensively monitored site. Permafrost thaw projections are simulated using a thermal hydrology model forced by a worst-case carbon emission scenario. The uncertainties associated with active layer depth, saturation state, thermal regime, and thaw duration are quantified and compared with the effects of climate model uncertainty on permafrost thaw projections.
R. A. Fisher, S. Muszala, M. Verteinstein, P. Lawrence, C. Xu, N. G. McDowell, R. G. Knox, C. Koven, J. Holm, B. M. Rogers, A. Spessa, D. Lawrence, and G. Bonan
Geosci. Model Dev., 8, 3593–3619, https://doi.org/10.5194/gmd-8-3593-2015, https://doi.org/10.5194/gmd-8-3593-2015, 2015
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Predicting the distribution of vegetation under novel climates is important, both to understand how climate change will impact ecosystem services, but also to understand how vegetation changes might affect the carbon, energy and water cycles. Historically, predictions have been heavily dependent upon observations of existing vegetation boundaries. In this paper, we attempt to predict ecosystem boundaries from the ``bottom up'', and illustrate the complexities and promise of this approach.
A. L. Atchley, S. L. Painter, D. R. Harp, E. T. Coon, C. J. Wilson, A. K. Liljedahl, and V. E. Romanovsky
Geosci. Model Dev., 8, 2701–2722, https://doi.org/10.5194/gmd-8-2701-2015, https://doi.org/10.5194/gmd-8-2701-2015, 2015
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Development and calibration of a process-rich model representation of thaw-depth dynamics in Arctic tundra is presented. Improved understanding of polygonal tundra thermal hydrology processes, of thermal conduction, surface and subsurface saturation and snowpack dynamics is gained by using measured field data to calibrate and refine model structure. The refined model is then used identify future data needs and observational studies.
G. B. Bonan, M. Williams, R. A. Fisher, and K. W. Oleson
Geosci. Model Dev., 7, 2193–2222, https://doi.org/10.5194/gmd-7-2193-2014, https://doi.org/10.5194/gmd-7-2193-2014, 2014
F. Deng, D. B. A. Jones, D. K. Henze, N. Bousserez, K. W. Bowman, J. B. Fisher, R. Nassar, C. O'Dell, D. Wunch, P. O. Wennberg, E. A. Kort, S. C. Wofsy, T. Blumenstock, N. M. Deutscher, D. W. T. Griffith, F. Hase, P. Heikkinen, V. Sherlock, K. Strong, R. Sussmann, and T. Warneke
Atmos. Chem. Phys., 14, 3703–3727, https://doi.org/10.5194/acp-14-3703-2014, https://doi.org/10.5194/acp-14-3703-2014, 2014
M. Sadegh and J. A. Vrugt
Hydrol. Earth Syst. Sci., 17, 4831–4850, https://doi.org/10.5194/hess-17-4831-2013, https://doi.org/10.5194/hess-17-4831-2013, 2013
B. Mueller, M. Hirschi, C. Jimenez, P. Ciais, P. A. Dirmeyer, A. J. Dolman, J. B. Fisher, M. Jung, F. Ludwig, F. Maignan, D. G. Miralles, M. F. McCabe, M. Reichstein, J. Sheffield, K. Wang, E. F. Wood, Y. Zhang, and S. I. Seneviratne
Hydrol. Earth Syst. Sci., 17, 3707–3720, https://doi.org/10.5194/hess-17-3707-2013, https://doi.org/10.5194/hess-17-3707-2013, 2013
L. M. Verheijen, V. Brovkin, R. Aerts, G. Bönisch, J. H. C. Cornelissen, J. Kattge, P. B. Reich, I. J. Wright, and P. M. van Bodegom
Biogeosciences, 10, 5497–5515, https://doi.org/10.5194/bg-10-5497-2013, https://doi.org/10.5194/bg-10-5497-2013, 2013
D. I. Kelley, I. C. Prentice, S. P. Harrison, H. Wang, M. Simard, J. B. Fisher, and K. O. Willis
Biogeosciences, 10, 3313–3340, https://doi.org/10.5194/bg-10-3313-2013, https://doi.org/10.5194/bg-10-3313-2013, 2013
Related subject area
Biogeosciences
Modeling boreal forest soil dynamics with the microbially explicit soil model MIMICS+ (v1.0)
Optimal enzyme allocation leads to the constrained enzyme hypothesis: the Soil Enzyme Steady Allocation Model (SESAM; v3.1)
Implementing a dynamic representation of fire and harvest including subgrid-scale heterogeneity in the tile-based land surface model CLASSIC v1.45
Inferring the tree regeneration niche from inventory data using a dynamic forest model
Optimising CH4 simulations from the LPJ-GUESS model v4.1 using an adaptive Markov chain Monte Carlo algorithm
The XSO framework (v0.1) and Phydra library (v0.1) for a flexible, reproducible, and integrated plankton community modeling environment in Python
AgriCarbon-EO v1.0.1: large-scale and high-resolution simulation of carbon fluxes by assimilation of Sentinel-2 and Landsat-8 reflectances using a Bayesian approach
SAMM version 1.0: a numerical model for microbial- mediated soil aggregate formation
A model of the within-population variability of budburst in forest trees
Computationally efficient parameter estimation for high-dimensional ocean biogeochemical models
The community-centered freshwater biogeochemistry model unified RIVE v1.0: a unified version for water column
Observation-based sowing dates and cultivars significantly affect yield and irrigation for some crops in the Community Land Model (CLM5)
The statistical emulators of GGCMI phase 2: responses of year-to-year variation of crop yield to CO2, temperature, water, and nitrogen perturbations
A novel Eulerian model based on central moments to simulate age and reactivity continua interacting with mixing processes
Dynamic ecosystem assembly and escaping the “fire-trap” in the tropics: Insights from FATES_15.0.0
AdaScape 1.0: a coupled modelling tool to investigate the links between tectonics, climate, and biodiversity
An along-track Biogeochemical Argo modelling framework: a case study of model improvements for the Nordic seas
A global behavioural model of human fire use and management: WHAM! v1.0
Peatland-VU-NUCOM (PVN 1.0): using dynamic plant functional types to model peatland vegetation, CH4, and CO2 emissions
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)
Simple process-led algorithms for simulating habitats (SPLASH v.2.0): calibration-free calculations of water and energy fluxes
biospheremetrics v1.0.1: An R package to calculate two complementary terrestrial biosphere integrity indicators: human colonization of the biosphere (BioCol) and risk of ecosystem destabilization (EcoRisk)
SedTrace 1.0: a Julia-based framework for generating and running reactive-transport models of marine sediment diagenesis specializing in trace elements and isotopes
A high-resolution marine mercury model MITgcm-ECCO2-Hg with online biogeochemistry
Improving nitrogen cycling in a land surface model (CLM5) to quantify soil N2O, NO, and NH3 emissions from enhanced rock weathering with croplands
Ocean biogeochemistry in the coupled ocean–sea ice–biogeochemistry model FESOM2.1–REcoM3
In-silico calculation of soil pH by SCEPTER v1.0
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)
Terrestrial Ecosystem Model in R (TEMIR) version 1.0: Simulating ecophysiological responses of vegetation to atmospheric chemical and meteorological changes
MEDFATE 2.9.3: a trait-enabled model to simulate Mediterranean forest function and dynamics at regional scales
Modelling the role of livestock grazing in C and N cycling in grasslands with LPJmL5.0-grazing
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
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
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
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.
Jacquelyn K. Shuman, Rosie A. Fisher, Charles D. Koven, Ryan G. Knox, Lara M. Kueppers, and Chonggang Xu
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2023-191, https://doi.org/10.5194/gmd-2023-191, 2023
Revised manuscript accepted for GMD
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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.
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.
Oliver Perkins, Matthew Kasoar, Apostolos Voulgarakis, Cathy Smith, Jay Mistry, and James Millington
EGUsphere, https://doi.org/10.5194/egusphere-2023-2162, https://doi.org/10.5194/egusphere-2023-2162, 2023
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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.
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
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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.
David Sandoval, Iain Colin Prentice, and Rodolfo L. B. Nóbrega
EGUsphere, https://doi.org/10.5194/egusphere-2023-1626, https://doi.org/10.5194/egusphere-2023-1626, 2023
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Numerous estimations of water and energy balances heavily depend on empirical equations that necessitate site-specific calibration. This equifinality poses the risk of obtaining 'right answers for wrong reasons.' In this paper, we introduce novel formulations based on first-principles to calculate calibration-free quantities, such as net radiation, evapotranspiration, condensation, soil water content, surface runoff, subsurface lateral flow, and snow-water equivalent.
Fabian Stenzel, Johanna Braun, Jannes Breier, Karlheinz Erb, Dieter Gerten, Jens Heinke, Sarah Matej, Sebastian Ostberg, Sibyll Schaphoff, and Wolfgang Lucht
EGUsphere, https://doi.org/10.5194/egusphere-2023-2503, https://doi.org/10.5194/egusphere-2023-2503, 2023
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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 >25 % of the potential pre-industrial natural biomass production. The ecosystems state metric EcoRisk shows a high risk of ecosystem destabilization in many regions as a result of land, water, and fertilizer use, as well as climate change.
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.
Yoshiki Kanzaki, Isabella Chiaravalloti, Shuang Zhang, Noah J. Planavsky, and Christopher T. Reinhard
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2023-137, https://doi.org/10.5194/gmd-2023-137, 2023
Revised manuscript accepted for GMD
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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 pH and bulk soil pH is thus crucial to accurate evaluation of alkalinity required to counteract soil acidification and resulting capture of anthropogenic carbon dioxide through the Enhanced Rock Weathering technique. This has been enabled by the updated reactive-transport SCEPTER code and newly developed framework to simulate soil pH.
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.
Amos P. K. Tai, David H. Y. Yung, and Timothy Lam
EGUsphere, https://doi.org/10.5194/egusphere-2023-1287, https://doi.org/10.5194/egusphere-2023-1287, 2023
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We have developed the Terrestrial Ecosystem Model in R (TEMIR), which simulates plant carbon and pollutant uptake and predict their response to varying atmospheric conditions. This model is designed to couple with an atmospheric chemistry model so that important questions related to plant-atmosphere interactions can be addressed, such as the effects of rising CO2 and ozone pollution on carbon uptake of the biosphere. The model has been well validated with both ground and satellite observations.
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.
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
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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.
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
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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
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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
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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
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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.
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
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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
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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
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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.
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
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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
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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
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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
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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
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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
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To facilitate more mechanistic modeling of drought effects on forest dynamics, our study implements a hydraulic module to simulate the vertical water flow, change in water storage and percentage loss of stem conductance (PLC). With the relationship between PLC and tree mortality, our model can successfully reproduce the large biomass drop observed under throughfall exclusion. Our hydraulic module provides promising avenues benefiting the prediction for mortality under future drought events.
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
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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
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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
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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
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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
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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.
Cited articles
Ainsworth, E. A. and Rogers, A.: The response of photosynthesis and
stomatal conductance to rising (CO2): mechanisms and environmental
interactions, Plant Cell Environ., 30, 258–270, 2007.
Ali, A. A., Xu, C., Rogers, A., McDowell, N. G., Medlyn, B. E., Fisher, R.
A., Wullschleger, S. D., Reich, P. B., Vrugt, J. A., Bauerle, W. L.,
Santiago, L. S., and Wilson, C. J.: Global scale environmental control of
plant photosynthetic capacity, Ecol. Appl., 25, 2349–2365, https://doi.org/10.1890/14-2111.1, 2015,
2015.
Ball, J. T., Woodrow, I. E., and Berry, J. A.: A model predicting stomatal
conductance and its contribution to the control of photosynthesis under
different environmental conditions, Dordrecht, The Netherlands,
221–224, 1987.
Bauerle, W. L., Oren, R., Way, D. A., Qian, S. S., Stoy, P. C., Thornton, P.
E., Bowden, J. D., Hoffman, F. M., and Reynolds, R. F.: Photoperiodic
regulation of the seasonal pattern of photosynthetic capacity and the
implications for carbon cycling, Proc. Natl. Acad. Sci. USA, 109, 8612–8617, 2012.
Bernacchi, C. J., Singsaas, E. L., Pimentel, C., Portis Jr., A. R., and Long,
S. P.: Improved temperature response functions for models of Rubisco-limited
photosynthesis, Plant Cell Environ., 24, 253–259, 2001.
Bernacchi, C. J., Pimentel, C., and Long, S. P.: In vivo temperature response
functions of parameters required to model RuBP-limited photosynthesis,
Plant Cell Environ., 26, 1419–1430, 2003.
Block, K. and Mauritsen, T.: Forcing and feedback in the MPI-ESM-LR coupled
model under abruptly quadrupled CO2, J. Adv. Model.
Earth Syst., 5, 676–691, 2013.
Bonan, G. B., Levis, S., Sitch, S., Vertenstein, M., and Oelson, K. W.: A
dynamic global vegetation model for use with climate models: concepts and
description of simulated vegetation dynamics, Glob. Change Biol., 9,
1543–1566, 2003.
Bonan, G. B., 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., 116, 1–22, 2011.
Breshears, D. D., Myers, O. B., Meyer, C. W., Barnes, F. J., Zou, C. B.,
Allen, C. D., McDowell, N. G., and Pockman, W. T.: Tree die-off in response
to global change-type drought: mortality insights from a decade of plant
water potential measurements, Front. Ecol. Environ., 7,
185–189, 2008.
Canadell, J. G., Le Quéré, C., Raupach, M. R., Field, C. B.,
Buitenhuis, E. T., Ciais, P., Conway, T. J., Gillett, N. P., Houghton, R.
A., and Marland, G.: Contributions to accelerating atmospheric CO2 growth
from economic activity, carbon intensity, and efficiency of natural sinks,
Proc. Natl. Acad. Sci. USA, 104, 18866–18870, 2007.
Cernusak, L. A., Winter, K., and Turner, B. L.: Leaf nitrogen to phosphorus
ratios of tropical trees: experimental assessment of physiological and
environmental controls, New Phytol., 185, 770–779, 2010.
Collatz, G. J., Ball, J. T., Grivet, C., and Berry, J. A.: Physiological and
environmental regualtion of stomatal conductance, photosynthesis, and
transpiration: A model that includes a laminar boundary layer, Agr.
Forest Meteorol., 54, 107–136, 1991.
Comstock, J. and Ehleringer, J. R.: Photoperiod and photosynthetic capacity
in Lotus scoparius, Plant Cell Environ., 9, 609–612, 1986.
Cowan, I. and Farquhar, G.: Stomatal function in relation to leaf metabolism
and environment, 471–505, 1977.
Crafts-Brandner, S. J. and Law, R. D.: Effect of heat stress on the
inhibition and recovery of ribulose-1,5-bisphosphate carboxylase/oxygenase
activation state, Planta, 212, 67–74, 2000.
Crafts-Brandner, S. J. and Salvucci, M. E.: Rubisco activase constrains the
photosynthetic potential of leaves at high temperature and CO2, Proc. Natl. Acad. Sci. USA,
97, 13430–13435, 2000.
Dewar, R. C.: Maximum entropy production and plant optimization theories,
Philos. T. Roy. Soc. B, 365, 1429–1435, 2010.
Dubois, J.-J. B., Fiscus, E. L., Booker, F. L., Flowers, M. D., and Reid, C.
D.: Optimizing the statistical estimation of the parameters of the
Farquhar–von Caemmerer–Berry model of photosynthesis, New Phytol.,
176, 402–414, 2007.
Evans, J. R. and Poorter, H.: Photosynthetic acclimation of plants to growth
irradiance: the relative importance of specific leaf area and nitrogen
partitioning in maximizing carbon gain, Plant Cell Environ., 24,
755–767, 2001.
Farquhar, G. D. and von Caemmerer, S. (Eds.): Modelling of photosynthetic
response to environmental conditions, Heidelberg-Berlin-New York,
Springer-Verlag, 1982.
Farquhar, G. D., Von Caemmerer, S., and Berry, J.: A biochemical model of
photosynthetic CO2 assimilation in leaves of C3 species, Planta,
149, 78–90, 1980.
Franklin, O., Johansson, J., Dewar, R. C., Dieckmann, U., McMurtrie, R. E.,
Brännström, Å., and Dybzinski, R.: Modeling carbon allocation in
trees: a search for principles, Tree Physiol., 32, 648–666, 2012.
Friedlingstein, P., Meinshausen, M., Arora, V. K., Jones, C. D., Anav, A.,
Liddicoat, S. K., and Knutti, R.: Uncertainties in CMIP5 climate projections
due to carbon cycle feedbacks, J. Climate, 27, 511–526, 2014.
Friend, A.: Use of a model of photosynthesis and leaf microenvironment to
predict optimal stomatal conductance and leaf nitrogen partitioning, Plant
Cell Environ., 14, 895–905, 1991.
Gent, P. R., Danabasoglu, G., Donner, L. J., Holland, M. M., Hunke, E. C.,
Jayne, S. R., Lawrence, D. M., Neale, R. B., Rasch, P. J., and Vertenstein,
M.: The community climate system model version 4, J. Climate, 24,
4973–4991, 2011.
Goll, D. S., Brovkin, V., Parida, B. R., Reick, C. H., Kattge, J., Reich, P.
B., van Bodegom, P. M., and Niinemets, Ü.: Nutrient limitation reduces land
carbon uptake in simulations with a model of combined carbon, nitrogen and
phosphorus cycling, Biogeosciences, 9, 3547–3569,
https://doi.org/10.5194/bg-9-3547-2012, 2012.
Hanson, P. J., Amthor, J. S., Wullschleger, S. D., Wilson, K. B., Grant, R.
F., Hartley, A., Hui, D., Hunt, J. E. R., Johnson, D. W., Kimball, J. S.,
King, A. W., Luo, Y., McNulty, S. G., Sun, G., Thornton, P. E., Wang, S.,
Williams, M., Baldocchi, D. D., and Cushman, R. M.: Oak forest carbon and
water simulations: model intercomparisons and evaluations against independent
data, Ecol. Monogr., 74, 443–489, 2004.
Harley, P. C. and Baldocchi, D. D.: Scaling carbon dioxide and water vapour
exchange from leaf to canopy in a decisuous forest. I. Leaf model
parametrization, Plant Cell Environ., 18, 1146–1156, 1995.
Harley, P. C., Thomas, R. B., Reynolds, J. F., and Strain, B. R.: Modelling
photosynthesis of cotton grown in elevated CO2, Plant Cell Environ., 15,
271–282, 1992.
Haxeltine, A. and Prentice, I. C.: A general model for the light-use
efficiency of primary production, Funct. Eocol., 10, 551–561, 1996.
Houlton, B. Z., Marklein, A. R., and Bai, E.: Representation of nitrogen in
climate change forecasts, Nature Clim. Change, 5, 398–401, 2015.
Hurrell, J. W., Holland, M. M., Gent, P. R., Ghan, S., Kay, J. E., Kushner,
P. J., Lamarque, J. F., Large, W. G., Lawrence, D., Lindsay, K., Lipscomb, W.
H., Long, M. C., Mahowald, N., Marsh, D. R., Neale, R. B., Rasch, P., Vavrus,
S., Vertenstein, M., Bader, D., Collins, W. D., Hack, J. J., Kiehl, J., and
Marshall, S.: The Community Earth System Model: A Framework for Collaborative
Research, B. Am. Meteorol. Soc., 94, 1339–1360, 2013.
Jarvis, P. G.: Coupling of carbon and water interactions in forest stands,
Tree Physiol., 2, 347–368, 1986.
Jordan, D. B. and Ogren, W. L.: The CO2/O2 specificity of ribulose
1,5-biphosphate carboxylase/oxygenase. Dependence on ribulose-biphosphate
concentration, pH and temperature, Planta, 161, 308–313, 1984.
Kattge, J. and Knorr, W.: Temperature acclimation in a biochemical model of
photosynthesis: a reanalysis of data from 36 species, Plant Cell Environ.,
30, 1176–1190, 2007.
Kattge, J., Knorr, W., Raddatz, T., and Wirth, C.: Quantifying
photosynthetic capacity and its relationship to leaf nitrogen content for
global-scale terrestrial biosphere models, Glob. Change Biol., 15, 976–991,
2009.
Knorr, W. and Kattge, J.: Inversion of terrestrial ecosystem model parameter
values against eddy covariance measurements by Monte Carlo sampling, Glob.
Change Biol., 11, 1333–1351, 2005.
Laloy, E. and Vrugt, J. A.: High-dimensional posterior exploration of
hydroligic models using multiple-try DREAM(zs) and high-performance
computing, Water Resour. Res., 48, W01526, https://doi.org/01510.01029/02011WR010608, 2012.
Law, R. D. and Crafts-Brandner, S. J.: Inhibition and acclimation of
photosynthesis to heat stress is closely correlated with activation of
ribulose-1,5-bisphosphate carboxylase/ oxygenase, Plant Physiol., 120,
173–181, 1999.
Leuning, R.: Modeling stomatal behavior and photosynthesis of Eucalyptus grandis,
Austr.
J. Plant Physiol., 17, 159–175, 1990.
Leuning, R.: Scaling to a common temperature improves the correlation
between photosynthesis parameters Jmax and Vcmax, J. Exp.
Bot., 307, 345–347, 1997.
Leuning, R.: Temperature dependence of two parameters in a photosynthesis
model, Plant Cell Environ., 25, 1205–1210, 2002.
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,
2010.
Lombardozzi, D. L., Bonan, G. B., Smith, N. G., Dukes, J. S., and Fisher, R.
A.: Temperature acclimation of photosynthesis and respiration: A key
uncertainty in the carbon cycle-climate feedback, Geophys. Res. Lett., 42,
8624–8631, 2015.
Long, S. P., Ainsworth, E. A., Rogers, A., and Ort, D. R.: Rising
atmospheric carbon dioxide: plants FACE the future, Ann. Rev. Plant. Biol,
55, 591–628, 2004.
Maire, V., Martre, P., Kattge, J., Gastal, F., Esser, G., Fontaine, S., and
Soussana, F.: The coordination of leaf photosynthesis links C and N fluxes in
C3 plant species, PLos ONE, 7, e38245, https://doi.org/38310.31371/journal.pone.0038345,
2012.
Maire, V., Wright, I. J., Prentice, I. C., Batjes, N. H., Bhaskar, R., van
Bodegom, P. M., Cornwell, W. K., Ellsworth, D., Niinemets, Ü., Ordonez,
A., Reich, P. B., and Santiago, L. S.: Global effects of soil and climate on
leaf photosynthetic traits and rates, Global Ecol. Biogeogr., 24, 706–717,
2015.
Makino, A. and Osmond, B.: Effects of nitrogen nutrition on nitrogen
partitioning between chloroplasts and mitochondria in pea and wheat, Plant
Physiol., 96, 355–362, 1991.
Maroco, J. P., Breia, E., Faria, T., Pereira, J. S., and Chaves, M. M.:
Effects of long-term exposure to elevated CO2 and N fertilization on the
development of photosynthetic capacity and biomass accumulation in
Quercus suber L., Plant Cell Environ., 25, 105–113, 2002.
Martin, B., Martensson, O., and Öquist, G.: Seasonal effects on
photosynthetic electron transport and fluorescence properties in isolated
chloroplasts of Pinus sylvestris, Physiol. Plantarum, 44, 102–109,
1978.
Mayer, D. G. and Butler, D. G.: Statistical validation, Ecol.
Model., 68, 21–32, 1993.
McDowell, N.: Mechanisms linking drought, hydraulics, carbon metabolism, and
vegetation mortality, Plant Physiol., 155, 1051–1059, 2011.
McMurtrie, R. E., Iversen, C. M., Dewar, R. C., Medlyn, B. E., Näsholm,
T., Pepper, D. A., and Norby, R. J.: Plant root distributions and nitrogen
uptake predicted by a hypothesis of optimal root foraging, Ecology and
Evolution, 2, 1235–1250, 2012.
Medlyn, B. E., Badeck, F.-W., De Pury, D. G. G., Barton, C. V. M.,
Broadmeadow, M., Ceulemans, R., De Angelis, P., Forstreuter, M., Jach, M. E.,
Kellomäki, S., Laitat, E., Marek, M., Philippot, S., Rey, A.,
Strassemeyer, J., Laitinen, K., Liozon, R., Portier, B., Proberntz, P., Wang,
K., and Jarvis, P. G.: Effects of elevated [CO2] on photosynthesis in
European forest species: a meta-analysis of model parameters, Plant Cell
Environ., 22, 1475–1495, 1999.
Medlyn, B. E., Dreyer, E., Ellsworth, D., Forstreuter, M., Harley, P. C.,
Kirschbaum, M. U. F., Le Roux, X., Montpied, P., Strassemeyer, J., Walcroft,
A., Wang, K., and Loustau, D.: Temperature response of parameters of a
biochemically based model of photosynthesis. II. A review of experimental
data, Plant Cell Environ., 25, 1167–1179, 2002a.
Medlyn, B. E., Loustau, D., and Delzon, S.: Temperature response of
parameters of a biochemically based model of photosynthesis. I. Seasonal
changes in mature maritime pine (Pinus pinaster Ait.), Plant Cell
Environ., 25, 1155–1165, 2002b.
Medlyn, B. E., Robinson, B. A., Clement, R., and McMurtrie, R. E.: On the
validation of models of forest CO2 exchange using eddy covariance data:
some perils and pitfalls, Tree Physiol., 25, 839–857, 2005.
Medlyn, B. E., Duursma, R. A., Eamus, D., Ellsworth, D. A., 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., 10, 1365–2486, 2011.
Meehl, G. A., Boer, G. J., Covey, C., Latif, M., and Stouffer, R. J.: The
Coupled Model Intercomparison Project (CMIP), B. Am. Meteorol. Soc., 81,
313–318, 2000.
Miao, Z., Xu, M., Lathrop, R. G., and Wang, Y.: Comparison of the A–Cc
curve fitting methods in determining maximum ribulose 1⚫
5-bisphosphate carboxylase/oxygenase carboxylation rate, potential light
saturated electron transport rate and leaf dark respiration, Plant Cell &
Environ., 32, 109–122, 2009.
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, 2001.
Moran, E. V., Hartig, F., and Bell, D. M.: Intraspecific trait variation
across scales: implications for understanding global change responses, Glob.
Change Biol., 22, 137–150, https://doi.org/10.1111/gcb.13000, 2016.
Niinemets, Ü. and Tenhunen, J. D.: A model separating leaf structural
and biphysiological effects on carbon gain along light gradients for the
shade-tolerant species Acer saccharum, Plant Cell Environ., 20,
845–866, 1997.
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. E., Bozbiyik, A., Fisher, R., Kluzek, E., Lamarque, J.-F.,
Lawrence, P. J., Leung, L. R., Lipscomb, W., 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), NCAR Technical Note
NCAR/TN-503+STR, National Center for Atmospheric Research, Boulder, CO,
2013.
Öquist, G., Brunes, L., Hällgren, J.-E., Gezelius, K., Hallén,
M., and Malmberg, G.: Effects of artificial frost hardening and winter stress
on net photosynthesis, photosynthetic electron transport and RuBP carboxylase
activity in seedlings of Pinus sylvestris, Physiol. Plantarum, 48,
526–531, 1980.
Prentice, I. C., Dong, N., Gleason, S. M., Maire, V., and Wright, I. J.:
Balancing the costs of carbon gain and water transport: testing a new
theoretical framework for plant functional ecology, Ecol. Lett., 17, 82–91,
2014.
Raddatz, T., Reick, C., Knorr, W., Kattge, J., Roeckner, E., Schnur, R.,
Schnitzler, K. G., Wetzel, R. G., and Jungclaus, J.: Will the tropical land
biosphere dominate the climate-carbon cycle feedback during the twenty-first
century?, Clim. Dynam., 29, 565–574, 2007.
Reich, P. B. and Oleksyn, J.: Global patterns of plant leaf N and P in
relation to temperature and latitude, Proc. Natl. Acad. Sci., 101,
11001–11006, 2004.
Reich, P. B., Kloeppel, B. D., Ellsworth, D., and Walters, M. B.: Different
photosynthesis nitorgen relations in decidious hardwood and evergreen
coniferous tree species, Oecologia, 104, 24–30, 1995.
Reich, P. B., Walters, M. B., Tjoelker, M. G., Vanderklein, D., and
Buschena, C.: Photosynthesis and respiration rates depend on leaf and root
morphology and nitrogen concentration in nine boreal tree species differing
in relative growth rate, Funct. Ecol., 12, 395–405, 1998.
Riebeek, H.: The Carbon Cycle, NASA Earth Observatory, available at: http://earthobservatory.nasa.gov/Features/CarbonCycle/ (last access: 6 August 2015),
2011.
Ripullone, F., Grassi, G., Lauteri, M., and Borghetti, M.:
Photosynthesis-nitrogen relationships: interpretation of different patterns
between Pseudotsuga menziesii and Populus x
euroamericana in a mini-stand experiment, Tree Physiol., 23,
137–144, 2003.
Rogers, A.: The use and misuse of Vc, max in earth system models,
Photosynt. Res., 119, 1–15, 2014.
Ryan, M. G.: Foliar maintenance respiration of subalpine and boral trees and
shrubs in relation to nitrogen concentration, Plant Cell Environ., 18,
765–772, 1995.
Schaefer, K., Schwalm, C. R., Williams, C., Arain, M. A., Barr, A., Chen, J.
M., Davis, K. J., Dimitrov, D., Hilton, T. W., Hollinger, D. Y., Humphreys,
E., Poulter, B., Raczka, B. M., Richardson, A. D., Sahoo, A., Thornton, P.,
Vargas, R., Verbeeck, H., Anderson, R., Baker, I., Black, T. A., Bolstad, P.,
Chen, J., Curtis, P. S., Desai, A. R., Dietze, M., Dragoni, D., Gough, C.,
Grant, R. F., Gu, L., Jain, A., Kucharik, C., Law, B., Liu, S., Lokipitiya,
E., Margolis, H. A., Matamala, R., McCaughey, J. H., Monson, R., Munger, J.
W., Oechel, W., Peng, C., Price, D. T., Ricciuto, D., Riley, W. J., Roulet,
N., Tian, H., Tonitto, C., Torn, M., Weng, E., and Zhou, X.: A model-data
comparison of gross primary productivity: Results from the North American
Carbon Program site synthesis, J. Geophys. Res.-Biogeosci., 117, G03010, https://doi.org/03010.01029/02012JG001960,
2012.
Schymanski, S. J., Sivapalan, M., Roderick, M. L., Hutley, L. B., and
Beringer, J.: An optimality-based model of the dynamic feedbacks between
natural vegetation and the water balance, Water Resour. Res., 45, W01412, https://doi.org/01410.01029/02008WR006841,
2009.
Sellers, P. J., Dickinson, R., Randall, D. A., Betts, A. K., Hall, F. G.,
Berry, J. A., Collatz, G. J., Denning, A. S., Mooney, H. A., Nobre, A. D.,
Sato, N., Field, C. B., and HendersonSellers, A.: Modeling the exchanges of
energy, water, and carbon between continents and the atmosphere, Science,
275, 502–509, 1997.
Sitch, S., Smith, B., Prentice, I. C., Arneth, A., Bondeau, A., Cramer, W.,
Kaplan, J. O., Levis, S., Lucht, W., Sykes, M. T., Thonicke, K., and
Venevsky, S.: Evaluation of ecosystem dynamics, plant geography and
terrestrail carbon cycling in the LPJ dynamic global vegetation model, Glob.
Change Biol., 9, 161–185, 2003.
Smith, B., Prentice, I. C., and Sykes, M. T.: Representation of vegetation
dynamics in the modelling of terrestrial ecosystems: comparing two
contrasting approaches within European climate space, Global Ecol. Biogeogr.,
10, 621–637, 2001.
Smith, E.: The influence of light and carbon dioxide on photosynthesis,
General Physiology, 20, 807–830, 1937.
Song, Y. H., Ito, S., and Imaizumi, T.: Flowering time regulation:
photoperiod- and temperature-sensing in leaves, Trends Plant Sci., 18,
575–583, 2013.
Spreitzer, R. J. and Salvucci, M. E.: Rubisco: structure, regulatory
interactions, and possibilities for a better enzyme, Ann. Rev. Plant Bio.,
53, 449–475, 2002.
Strand, M. and Öquist, G.: Effects of frost hardening, dehardening and
freezing trees on in vivo fluorescence of seedlings of Scots pine
(Pinus sylvestris L.), Plant Cell Environ., 11, 231–238, 1988.
Taylor, K. E., Stouffer, R. J., and Meehl, G. A.: An overview of CMIP5 and
the experiment design, B. Am. Meteorol. Soc., 93, 485–498, 2013.
Thomas, R. Q. and Williams, M.: A model using marginal efficiency of
investment to analyze carbon and nitrogen interactions in terrestrial
ecosystems (ACONITE Version 1), Geosci. Model Dev., 7, 2015–2037,
https://doi.org/10.5194/gmd-7-2015-2014, 2014.
Valladares, F., Wright, S. J., Lasso, E., Kitajima, K., and Pearcy, R. W.:
Plastic phenotypic response to light of 16 congeneric shrubs from a
Panamanian rainforest, Ecology, 81, 1925–1936, 2000.
Van Oijen, M., Schapendonk, A., and Hoglind, M.: On the relative magnitudes
of photosynthesis, respiration, growth and carbon storage in vegetation, Ann.
Bot.-London, 105, 793–797, 2010.
Verheijen, L. M., Brovkin, V., Aerts, R., Bönisch, G., Cornelissen, J. H. C.,
Kattge, J., Reich, P. B., Wright, I. J., and van Bodegom, P. M.: Impacts of
trait variation through observed trait–climate relationships on performance
of an Earth system model: a conceptual analysis, Biogeosciences, 10,
5497–5515, https://doi.org/10.5194/bg-10-5497-2013, 2013.
Verheijen, L. M., Aerts, R., Brovkin, V., Cavender-Bares, J., Cornelissen,
J. H. C., Kattge, J., and van Bodegom, P. M.: Inclusion of ecologically based
trait variation in plant functional types reduces the projected land carbon
sink in an earth system model, Glob. Change Biol., 21, 3074–3086, 2015.
Vrugt, J. A., ter Braak, C. J. F., Clark, M. P., Hyman, J. M., and Robinson,
B. A.: Treatment of input uncertainty in hydrologic modeling: Doing hydrology
backward with Markov chain Monte Carlo simulation, Water Resour. Res., 44, W00B09, https://doi.org/10.1029/2007WR006720,
2008.
Vrugt, J. A., ter Braak, C. J. F., Diks, C. G. H., Robinson, B. A., Hyman,
J. M., and Higdon, D.: Accelerating Markov Chain Monte Carlo Simulation by
Differential Evolution with Self-Adaptive Randomized Subspace Sampling, Int.
J. Nonlin. Sci. Num., 10, 273–290, 2009.
Walker, A. P., Beckerman, A. P., Gu, L., Kattge, J., Cernusak, L. A.,
Domingues, T. F., Scales, J. C., Wohlfahrt, G., Wullschleger, S. D., and
Woodward, F. I.: The relationship of leaf photosynthetic traits – Vcmax and
Jmax – to leaf nitrogen, leaf phosphorus, and specific leaf area: a
meta-analysis and modeling study, Ecology and Evolution, 4, 3218–3235, 2014.
Wang, Y. P., Law, R. M., and Pak, B.: A global model of carbon, nitrogen and
phosphorus cycles for the terrestrial biosphere, Biogeosciences, 7,
2261–2282, https://doi.org/10.5194/bg-7-2261-2010, 2010.
White, M. A., Thornton, P. E., Running, S. W., and Nemani, R. R.:
Parameterization and sensitivity analysis of the BIOME-BCG terrestrial
ecosystem model: net primary production controls, Earth Interact., 4, 1–85,
2000.
Whitley, R. J., Catriona, M. O., Macinnis-Ng, C., Hutley, L. B., Beringer,
J., Zeppel, M., Williams, M., Taylor, D., and Eamus, D.: Is productivity of
mesic savannas light limited or water limited? Results of a simulation study,
Glob. Change Biol., 17, 3130–3149, 2011.
Wieder, W. R., Cleveland, C. C., Lawrence, D. M., and Bonan, G. B.: Effects
of model structural uncertainty on carbon cycle projections: biological
nitrogen fixation as a case study, Environ. Res. Lett., 10, 044016,
https://doi.org/10.1088/1748-9326/1010/1084/0440,
2015.
Wilson, K. B., Baldocchi, D. D., and Hanson, P. J.: Leaf age affects the
seasonal pattern of photosynthetic capacity and net ecosystem exchange of
carbon in a deciduous forest, Plant Cell Environ., 24, 571–583, 2001.
Wright, I. J., Reich, P. B., Westoby, M., Ackerly, D. D., Baruch, Z.,
Bongers, F., Cavender-Bares, J., Chapin, T., Cornelissen, J. H. C., Diemer,
M., Flexas, J., Garnier, E., Groom, P. K., Gulias, J., Hikosaka, K., Lamont,
B. B., Lee, T. D., Lee, W., Lusk, C. H., Midgley, J. J., Navas, M.-L.,
Niinemets, Ü., Olesksyn, J., Osada, N., Poorter, H., Poot, P., Prior, L.,
Pyankov, V. I., Roumet, C., Thomas, S. C., Tjoelker, M. G., Veneklaas, E. J.,
and Villar, R.: The worldwide leaf economics spectrum, Nature, 428, 821–827,
2004.
Wullschleger, S. D.: Biochemical limitations to carbon assimilation in
C3 plants: a retrospective analysis of A∕Ci curves from 109
species, J. Exp. Bot. 44, 907–920, 1993.
Xu, C., Fisher, R., Wullschleger, S. D., Wilson, C. J., Cai, M., and
McDowell, N.: Toward a mechanistic modeling of nitrogen limitation on
vegetation dynamics, PLos ONE, 7, e37914, https://doi.org/10.1371/journal.pone.0037914,
2012.
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,
2003.
Yamori, W., Suzuki, K., Noguchi, K. O., Nakai, M., and Terashima, I.:
Effects of Rubisco kinetics and Rubisco activation state on the temperature
dependence of the photosynthetic rate in spinach leaves from contrasting
growth temperatures, Plant Cell Environ., 29, 1659–1670, 2006.
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.
We have developed a mechanistic model of leaf utilization of nitrogen for assimilation (LUNA...
