WHONDRS ascribes to the perspective that resources, knowledge, and data belong to the community as a whole and that science advances more rapidly and more robustly through community ownership. The scientific community is encouraged to use WHONDRS data—with no strings attached—in their analyses and to perform secondary reanalysis to pursue additional science questions, evaluate the reproducibility of previous analyses, and deepen understanding with future improvements to data analysis approaches.

Below you will find links to WHONDRS published data sets and select publications that provide information on WHONDRS or use WHONDRS data. If you use published WHONDRS data in your work, please let us know so that we are aware.

Published Data

For the most up-to-date list of published data, see the WHONDRS data portal on ESS-DIVE: https://data.ess-dive.lbl.gov/portals/WHONDRS

Select Publications

Garayburu Caruso V., S. S. Roley, R. E. Danczak, D. Delgado, A. E. Goldman, B. Forbes, M. M. Laan, H. Song, M. M. Tfaily, J. Zheng, and J. C. Stegen. "Moisture content modulates DOM thermodynamic regulation of oxygen consumption in drying streambed sediments." Scientific Reports. In press. 

Cui Y., S. Wen, J. C. Stegen, A. Hu, and J. Wang. 2026. "Unveiling the dark matter of riverine dissolved organic matter and its role in molecular chemodiversity." Water Research 289,(Pt A), 124870. https://doi.org/10.1016/j.watres.2025.124870. 

Veeramani M., S. Kharel, H. C. McCullough, X. Chen, J. Zheng, J. C. Stegen, T. D. Scheibe, and H.-S. Song. 2026. "LambdaPy and LambdaR: Thermodynamics-Based Biogeochemical Reaction Modeling Packages for Integrating High-Resolution Mass Spectrometry Data." Modelling the Microbiome. K. Raman and G. Sambamoorthy. New York, NY, Springer US: 331–352. https://doi.org/10.1007/978-1-0716-5080-6_16. 

Damerow J. E., N. H. Raia, V. Stanley, S. Choe, M. A. Borton, N. Byers, E. R. Cassidy, S. Cholia, R. Edmunds, B. Forbes, K. Forrest, A. E. Goldman, et al. 2025. "Opening doors to physical sample tracking and attribution in Earth and environmental sciences." Scientific Data 12,(1), 1047. https://doi.org/10.1038/s41597-025-05295-z.  

Stach T. L., J. Starke, F. Bouderka, T. L. V. Bornemann, A. R. Soares, M. J. Wilkins, A. E. Goldman, J. C. Stegen, M. A. Borton, A. J. Probst. 2025. "Conserved environmental adaptations of stream microbiomes in the hyporheic zone across North America." Microbiome 13,(1), 253.  https://doi.org/10.1186/s40168-025-02236-1.  

Roebuck, J. A., K. A. Rod, V. A. Garayburu‐Caruso, R. K. Chu, A. E. Goldman, L. Renteria, M. Taylor, J. C. Stegen. 2024. "Linkages between mineral element composition of soils and sediments with hyporheic zone dissolved organic matter chemistry across the contiguous United States." Geophysical Research Letters, 51. DOI: 10.1029/2023gl106220.  

Ryan, K. A., V. A. Garayburu-Caruso, B. C. Crump, T. Bambakidis, P. A. Raymond, S. D. Liu, J. C. Stegen. 2024. "Riverine dissolved organic matter transformations increase with watershed area, water residence time, and Damkohler numbers in nested watersheds." Biogeochemistry 167, 1203-1224, DOI: https://doi.org/10.1007/s10533-024-01169-5.  

Gary S. F., T. D. Scheibe, E. Rexer, A. V. Torreira, V. A. Garayburu-Caruso, A. Goldman, and J. C. Stegen. 2024. “Prediction of distributed river sediment respiration rates using community-generated data and machine learning.” Journal of Geophysical Research: Machine Learning and Computation, 1, e2024JH000199, doi: 10.1029/2024JH000199 (SFA) 

Borton, MA, SM Collins, EB Graham, VA Garayburu-Caruso, AE Goldman, M de Melo, L Renteria, JC Stegen, and WHONDRS Crowdsourced Consortium. 2022. It Takes a Village: Using a Crowdsourced Approach to Investigate Organic Matter Composition in Global Rivers Through the Lens of Ecological Theory. Frontiers in Water.  doi: 10.3389/frwa.2022.870453 (SFA)

Goldman AE, SR Emani, LC Pérez-Angel, JA Rodríguez-Ramos, and JC Stegen. 2022. "Integrated, Coordinated, Open, and Networked (ICON) Science to Advance the Geosciences: Introduction and Synthesis of a Special Collection of Commentary Articles." Earth and Space Science. doi: 10.1029/2021EA002099 (ECA)

Danczak RE, AE Goldman, RK Chu, JG Toyoda, VA Garayburu-Caruso, N Tolic, EB Graham, JW Morad, L Renteria, JR Wells, SP Herzog, AS Ward, and JC Stegen. 2021. Ecological theory applied to environmental metabolomes reveals compositional divergence despite conserved molecular properties. Science of the Total Environment. doi: 10.1016/j.scitotenv.2021.147409 (SFA)

Damerow et al. 2021. Sample identifiers and metadata to support data management and reuse in multidisciplinary ecosystem sciences. Data Science. doi: 10.5334/dsj-2021-011 (SFA)

Mueller BM, H Schulz, RE Danczak, A Putschew, and J Lewandowski. 2021. Simultaneous attenuation of trace organic compounds and organic matter in streams: Comparison of surface water and the hyporheic zone. Scientific Reports 11:4179. doi: 10.1038/s41598-021-83750-8 (SFA)

Goldman AE, SR Emani, LC Pérez-Angel, JA Rodríguez-Ramos, JC Stegen, and P Fox. 2021. Special Collection on Open Collaboration Across Geosciences. Eos 102. doi:10.1029/2021EO153180 (ECA)

Song H-S, JC Stegen, EB Graham, J-Y Lee, VA Garayburu-Caruso, WC Nelson, X Chen, JD Moulton, and TD Scheibe. 2020. Representing Organic Matter Thermodynamics in Biogeochemical Reactions via Substrate-Explicit Modeling. Frontiers in Microbiology 11:2625. doi: 10.3389/fmicb.2020.531756 (SFA)

Garayburu-Caruso VA, RE Danczak, JC Stegen, L Renteria, M Mccall, AE Goldman, RK Chu, J Toyoda, CT Resch, JM Torgeson, J Wells, S Fansler, S Kumar, and EB Graham. 2020. Using Community Science to Reveal the Global Chemogeography of River Metabolomes. Metabolites 10:518. doi: 10.3390/metabo10120518 (SFA)

Lin X, H Ren, AE Goldman, JC Stegen, and TD Scheibe. 2020. WHONDRS-GUI: A Web Application for Global Survey of Surface Water Metabolites. PeerJ 8:e9277. doi: 10.7717/peerj.9277 (SFA)

Stegen JC and AE Goldman. 2018. WHONDRS: a community resource for studying dynamic river corridors. mSystems 3:e00151-18. doi: 10.1128/mSystems.00151-18 (SFA)

DOE/SC-0200 2019. Open Watershed Science by Design: Leveraging Distributed Research Networks to Understand Watershed Systems Workshop Report. Prepared for the U.S. Department of Energy, Office of Science. doesbr.org/openwatersheds/index.shtml (SFA)

Projects tagged as SFA are part of the River Corridor Hydrobiogeochemistry Science Focus Area (SFA) project funded by the U.S. Department of Energy (DOE) Biological and Environmental Research (BER) Earth Systems Science (ESS) Program.

Projects tagged as ECA are part of the Perturbation Response Traits project funded by the U.S. Department of Energy's Early Career Research Program.

Acknowledgements

If you use WHONDRS data from a dataset tagged as “SFA,” please use the following text in your acknowledgements:

"This study used data from the Worldwide Hydrobiogeochemistry Observation Network for Dynamic River Systems (WHONDRS) under the River Corridor Science Focus Area (SFA) at the Pacific Northwest National Laboratory (PNNL). This research was supported by the U.S. Department of Energy (DOE), Office of Biological and Environmental Research (BER), Environmental System Science (ESS) Program. A portion of this work was performed at the U.S. Department of Energy Environmental Molecular Science Laboratory User Facility. PNNL is operated by Battelle Memorial Institute for the U.S. Department of Energy under Contract No. DE-AC05-76RL01830.”

If you use WHONDRS data from a dataset tagged as “ECA,” please use the following text:

“This study used data from the Worldwide Hydrobiogeochemistry Observation Network for Dynamic River Systems (WHONDRS) under the Perturbation Response Traits project at the Pacific Northwest National Laboratory (PNNL). This research was supported by the U.S. Department of Energy (DOE) Early Career Research Program. A portion of this work was performed at the U.S. Department of Energy Environmental Molecular Science Laboratory User Facility. PNNL is operated by Battelle Memorial Institute for the U.S. Department of Energy under Contract No. DE-AC05-76RL01830."