Articles | Volume 19, issue 14
https://doi.org/10.5194/gmd-19-6777-2026
© Author(s) 2026. 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-19-6777-2026
© Author(s) 2026. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Biogeochemistry-Informed Neural Network (BINN v1.0) for improving accuracy of model prediction and scientific understanding of soil organic carbon storage
Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, USA
Joshua Fan
Department of Computer Science, Cornell University, Ithaca, New York, USA
Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, New York, USA
currently at: The Asian School of the Environment, Nanyang Technological University, Singapore
Lifen Jiang
Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, USA
Fengqi You
College of Engineering, Cornell University, Ithaca, New York, USA
Benjamin Houlton
Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, New York, USA
Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, USA
Carla P. Gomes
CORRESPONDING AUTHOR
Department of Computer Science, Cornell University, Ithaca, New York, USA
Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, New York, USA
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Jiaming Wen, Giulia Tagliabue, Micol Rossini, Francesco Pietro Fava, Cinzia Panigada, Lutz Merbold, Sonja Leitner, and Ying Sun
Biogeosciences, 22, 2049–2067, https://doi.org/10.5194/bg-22-2049-2025, https://doi.org/10.5194/bg-22-2049-2025, 2025
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Solar-induced chlorophyll fluorescence (SIF), a tiny optical signal emitted from the core photosynthetic machinery, has emerged as a promising tool to evaluate vegetation growth from satellites. We find satellite SIF can capture intra-seasonal (i.e., from days to weeks) vegetation dynamics of dryland ecosystems, while greenness-based vegetation indices cannot. This study generates novel insights for developing effective real-time vegetation monitoring systems to inform climate risk management.
Gerardo E. Soto, Steven W. Wilcox, Patrick E. Clark, Francesco P. Fava, Nathaniel D. Jensen, Njoki Kahiu, Chuan Liao, Benjamin Porter, Ying Sun, and Christopher B. Barrett
Earth Syst. Sci. Data, 16, 5375–5404, https://doi.org/10.5194/essd-16-5375-2024, https://doi.org/10.5194/essd-16-5375-2024, 2024
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This paper uses machine learning and linear unmixing to produce rangeland health indicators: Landsat time series of land cover classes and vegetation fractional cover of photosynthetic vegetation, non-photosynthetic vegetation, and bare ground in arid and semi-arid Kenya, Ethiopia, and Somalia. This represents the first multi-decadal Landsat-resolution dataset specifically designed for mapping and monitoring rangeland health in the arid and semi-arid rangelands of this portion of eastern Africa.
Kamal Nyaupane, Umakant Mishra, Feng Tao, Kyongmin Yeo, William J. Riley, Forrest M. Hoffman, and Sagar Gautam
Biogeosciences, 21, 5173–5183, https://doi.org/10.5194/bg-21-5173-2024, https://doi.org/10.5194/bg-21-5173-2024, 2024
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Representing soil organic carbon (SOC) dynamics in Earth system models (ESMs) is a key source of uncertainty in predicting carbon–climate feedbacks. Using machine learning, we develop and compare predictive relationships in observations (Obs) and ESMs. We find different relationships between environmental factors and SOC stocks in Obs and ESMs. SOC prediction in ESMs may be improved by representing the functional relationships of environmental controllers in a way consistent with observations.
Kevin R. Wilcox, Scott L. Collins, Alan K. Knapp, William Pockman, Zheng Shi, Melinda D. Smith, and Yiqi Luo
Biogeosciences, 20, 2707–2725, https://doi.org/10.5194/bg-20-2707-2023, https://doi.org/10.5194/bg-20-2707-2023, 2023
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The capacity for carbon storage (C capacity) is an attribute that determines how ecosystems store carbon in the future. Here, we employ novel data–model integration techniques to identify the carbon capacity of six grassland sites spanning the US Great Plains. Hot and dry sites had low C capacity due to less plant growth and high turnover of soil C, so they may be a C source in the future. Alternately, cooler and wetter ecosystems had high C capacity, so these systems may be a future C sink.
Jennifer A. Holm, David M. Medvigy, Benjamin Smith, Jeffrey S. Dukes, Claus Beier, Mikhail Mishurov, Xiangtao Xu, Jeremy W. Lichstein, Craig D. Allen, Klaus S. Larsen, Yiqi Luo, Cari Ficken, William T. Pockman, William R. L. Anderegg, and Anja Rammig
Biogeosciences, 20, 2117–2142, https://doi.org/10.5194/bg-20-2117-2023, https://doi.org/10.5194/bg-20-2117-2023, 2023
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Unprecedented climate extremes (UCEs) are expected to have dramatic impacts on ecosystems. We present a road map of how dynamic vegetation models can explore extreme drought and climate change and assess ecological processes to measure and reduce model uncertainties. The models predict strong nonlinear responses to UCEs. Due to different model representations, the models differ in magnitude and trajectory of forest loss. Therefore, we explore specific plant responses that reflect knowledge gaps.
Shuang Ma, Lifen Jiang, Rachel M. Wilson, Jeff P. Chanton, Scott Bridgham, Shuli Niu, Colleen M. Iversen, Avni Malhotra, Jiang Jiang, Xingjie Lu, Yuanyuan Huang, Jason Keller, Xiaofeng Xu, Daniel M. Ricciuto, Paul J. Hanson, and Yiqi Luo
Biogeosciences, 19, 2245–2262, https://doi.org/10.5194/bg-19-2245-2022, https://doi.org/10.5194/bg-19-2245-2022, 2022
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The relative ratio of wetland methane (CH4) emission pathways determines how much CH4 is oxidized before leaving the soil. We found an ebullition modeling approach that has a better performance in deep layer pore water CH4 concentration. We suggest using this approach in land surface models to accurately represent CH4 emission dynamics and response to climate change. Our results also highlight that both CH4 flux and belowground concentration data are important to constrain model parameters.
Russell Doughty, Thomas P. Kurosu, Nicholas Parazoo, Philipp Köhler, Yujie Wang, Ying Sun, and Christian Frankenberg
Earth Syst. Sci. Data, 14, 1513–1529, https://doi.org/10.5194/essd-14-1513-2022, https://doi.org/10.5194/essd-14-1513-2022, 2022
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We describe and compare solar-induced chlorophyll fluorescence data produced by NASA from the Greenhouse Gases Observing Satellite (GOSAT) and the Orbiting Carbon Observatory-2 (OCO-2) and OCO-3 platforms.
Xin Huang, Dan Lu, Daniel M. Ricciuto, Paul J. Hanson, Andrew D. Richardson, Xuehe Lu, Ensheng Weng, Sheng Nie, Lifen Jiang, Enqing Hou, Igor F. Steinmacher, and Yiqi Luo
Geosci. Model Dev., 14, 5217–5238, https://doi.org/10.5194/gmd-14-5217-2021, https://doi.org/10.5194/gmd-14-5217-2021, 2021
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In the data-rich era, data assimilation is widely used to integrate abundant observations into models to reduce uncertainty in ecological forecasting. However, applications of data assimilation are restricted by highly technical requirements. To alleviate this technical burden, we developed a model-independent data assimilation (MIDA) module which is friendly to ecologists with limited programming skills. MIDA also supports a flexible switch of different models or observations in DA analysis.
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Short summary
We developed the Biogeochemistry-Informed Neural Network (BINN) which embeds a process-based model inside an AI framework so the model’s parameters can be learned from empirical data. BINN could recover prescribed parameters in synthetic tests and retrieve key processes controlling the modeled soil organic carbon when applied to ~25 000 soil profiles in US. It operates more than 50 times faster than the traditional Bayesian approach for data-model integration.
We developed the Biogeochemistry-Informed Neural Network (BINN) which embeds a process-based...