the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Spatially varying parameters improve carbon cycle modeling in the Amazon rainforest with ORCHIDEE r8849
Abstract. Uncertainty in the dynamics of Amazon rainforest poses a critical challenge for accurately modeling the global carbon cycle. Current dynamic global vegetation models (DGVMs), which use one or two plant functional types for tropical rainforests, fail to capture observed biomass and mortality gradients in this region, raising concerns about their ability to predict forest responses to global change drivers. Here we assess the importance of spatially varying parameters to resolve ecosystems spatial heterogeneity in the ORCHIDEE (ORganizing Carbon and Hydrology in Dynamic EcosystEms) DGVM. Using satellite observations of gross primary productivity (GPP), tree aboveground biomass (AGB) and biomass mortality rates, we optimized two key parameters: the alpha self-thinning (α), which controls tree mortality induced by light competition, and the nitrogen use efficiency of photosynthesis (η), which regulates GPP. The model incorporating spatially optimized α and η parameters successfully reproduces the spatial variability of AGB (R2=0.82), GPP (R2=0.79), and biomass mortality rates (R2=0.73) when compared to remote sensing observations in intact Amazon rainforests, whereas the model using spatially constant parameters has R2 values lower than 0.04 for all observations. Furthermore, the relationships between the optimized parameters and ecosystem traits, as well as climate variables were evaluated using random forest regression. We found that wood density emerges as the most important determinant of α, which are in line with existing theory, while water deficit conditions significantly impact η. This study presents an efficient and accurate approach to enhancing the simulation of Amazonian carbon pools and fluxes in DGVMs by assimilating existing observational data, offering valuable insights for future model development and parameterization.
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Status: open (until 16 May 2025)
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CEC1: 'Comment on egusphere-2025-397 - No compliance with the policy of the journal', Juan Antonio Añel, 21 Mar 2025
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Dear authors,
Unfortunately, after checking your manuscript, it has come to our attention that it does not comply with our "Code and Data Policy".
https://www.geoscientific-model-development.net/policies/code_and_data_policy.htmlYou have archived the ORCHIDEE code in a site that does not comply with our requirements. Therefore, you must store the code in a repository that complies with our policy, and provide a link and permanent identifier (e.g. DOI or Handle). Please, reply to this comment as soon as possible with the information about it, and modify the Code Availability section of your manuscript accordingly in future versions of your manuscript.
Juan A. Añel
Geosci. Model Dev. Executive Editor
Citation: https://doi.org/10.5194/egusphere-2025-397-CEC1 -
AC1: 'Reply on CEC1', Lei Zhu, 22 Mar 2025
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Dear editor,
We have requested a DOI for the archived model code. The Code Availability section will be modified as follows in future versions of our manuscript:
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Code availability
The ORCHIDEE (r8849) code used in this study is open source and distributed under the CeCILL (CEA CNRS INRIA Logiciel Libre) license. It is deposited at https://forge.ipsl.jussieu.fr/orchidee/wiki/GroupActivities/CodeAvalaibilityPublication/ORCHIDEE-Amazon and archived at https://doi.org/10.14768/d41de18f-b1c4-4a09-8aa5-2eef83f776af, with guidance to install and run the model at https://forge.ipsl.jussieu.fr/orchidee/wiki/Documentation/UserGuide. The source data and code for Figure 2-5 are available via Zenodo at https://doi.org/10.5281/zenodo.15023110.
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Thanks for your comment!
Best regards,
Lei Zhu
On behalf of all the authors.
Citation: https://doi.org/10.5194/egusphere-2025-397-AC1 -
CEC2: 'Reply on AC1', Juan Antonio Añel, 22 Mar 2025
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Dear authors,
We would thank that you read and pay attention to our policy, which I linked in my previous comment, and you should have read and complied with before submitting your manuscript.
Your reply to my previous comment fails to address the requests done, and to comply with our policy.
It is not an issue of having a DOI for the code, but that jussieu.fr is not a repository that complies with our policy. You must store a permanent copy of the ORCHIDEE code and documentation in one of the trusted repositories that we list in our policy, provide the link and DOI for it in reply to this comment, and to avoid confusion delete the reference to jussieu.fr.
I hope this is more clear now, and you take the necessary action to address this issue, and solve it correctly.
Juan A. Añel
Geosci. Model Dev. Executive Editor
Citation: https://doi.org/10.5194/egusphere-2025-397-CEC2 -
AC2: 'Reply on CEC2', Lei Zhu, 25 Mar 2025
reply
Dear editor,
We have uploaded the model code to Zenodo. The Code Availability section will be modified as follows in future versions of our manuscript:
"
Code availability
The ORCHIDEE (r8849) code used in this study is open source and distributed under the CeCILL (CEA CNRS INRIA Logiciel Libre) license. It is deposited at https://zenodo.org/records/15080562, with guidance to install and run the model at https://forge.ipsl.jussieu.fr/orchidee/wiki/Documentation/UserGuide. The source data and code for Figure 2-5 are available via Zenodo at https://doi.org/10.5281/zenodo.15023110.
"
Thanks for your comment!
Best regards,
Lei Zhu
On behalf of all the authors.
Citation: https://doi.org/10.5194/egusphere-2025-397-AC2
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AC2: 'Reply on CEC2', Lei Zhu, 25 Mar 2025
reply
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CEC2: 'Reply on AC1', Juan Antonio Añel, 22 Mar 2025
reply
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AC1: 'Reply on CEC1', Lei Zhu, 22 Mar 2025
reply
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RC1: 'Comment on egusphere-2025-397', Anonymous Referee #1, 19 Apr 2025
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This study presents a spatially varying parameter optimization for a process-based model to better capture the spatial variation in observation-driven GPP, aboveground biomass and mortality rates over Amazon basin. The authors first identified the two most sensitive parameters (Coefficient of the self-thinning relationship, α, and Nitrogen use efficiency of Vcmax, η) affecting the simulated GPP, AGB and mortality rate. They then optimized the two parameters for each grid cell by using a set of parameter samples generated from the Latin hypercube sampling (LHS) method to drive the model, interpolating the simulated the results, and obtaining the optimized parameters with minimized the quadratic losses. The results showed a large improvement in model simulation of GPP, AGB and mortality rate using spatially optimized parameters against observations. This study further identified the potential driving factors of the optimized spatial pattern of the parameters using random forest regression and SHAP values, and discussed the underline mechanisms. The study is well designed and provides useful implication in future parameter optimization for similar model developments. The manuscript is well written with justified results and details supporting the conclusion. I have a few minor comments as follows:
- Section 2.5, L259-260: it is not clear how the spatially constant parameters were derived. Was it done using regional total GPP, AGB and mean mortality rate from simulations and observation to derive the two parameters? Specification is needed.
- Figure 2: the caption seems to be different from the text in the figure. E.g., a-c are observations.
- Section 3.3, L337-338: the purpose for running the using parameters predicted by random forest is not clear. As the influencing factors can capture only 45% and 48% of the variation in α and η, it is expected the reduced accuracy.
- Section 4.1, L351: it seems that “our model”means the simulating using optimized spatially varying parameters, but to be specified to avoid confusion.
- Section 4.4: though an improved simulated spatial patterns of the multi-year mean GPP, AGB and mortality rate are the purpose for the optimization, how such parameterization might affect the interannual variation and long-term trends of the variables could be briefly discussed here.
Citation: https://doi.org/10.5194/egusphere-2025-397-RC1
Data sets
Source code and data for 'Spatially varying parameters improve carbon cycle modeling in the Amazon rainforest with ORCHIDEE r8849' Lei Zhu https://doi.org/10.5281/zenodo.15023110
Model code and software
ORCHIDEE-Amazon Lei Zhu https://forge.ipsl.jussieu.fr/orchidee/wiki/GroupActivities/CodeAvalaibilityPublication/ORCHIDEE-Amazon
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