Select Recent Publications from SHC Faculty

2025

Adams, Hannah M., Peipei Wu, Iris Kübler-Dudgeon, Carl H. Lamborg, Jeff S. Bowman, and Amina T. Schartup. 2025. “Coastal Inorganic Mercury Time Series Reveals Interannual and Seasonal Variability Driven by Regional Climate Factors.” Communications Earth & Environment 6 (1): 1–9.

Barnes, Austin T., Mark A. Merrifield, Kian Bagheri, Morgan C. Levy, and Hassan Davani. 2025. “Flooding Projections due to Groundwater Emergence Caused by Sea Level Variability.” Earth’s Future 13 (7): e2025EF006270.

Beattie, Gwyn A., Anna Edlund, Nwadiuto Esiobu, Jack Gilbert, Mette Haubjerg Nicolaisen, Janet K. Jansson, Paul Jensen, Marco Keiluweit, Jay T. Lennon, Jennifer Martiny, Vanessa Minnis et al. 2025. “Soil Microbiome Interventions for Carbon Sequestration and Climate Mitigation.” mSystems 10 (1): e0112924.

Demmel, Margaret Y., Christopher B. Wall, Cody J. Spiegel, Natalia Erazo, Evelyn M. Diaz, Madeline G. Perreault, Elisabet Perez-Coronel, Sara L. Jackrel, Jeff S. Bowman, and Jonathan B. Shurin. 2025. “Wildfire-Driven Changes in Terrestrial Subsidies Shift Freshwater Microbial and Zooplankton Communities to New Compositional States.” Molecular Ecology, May, e17794.

Faggiani Dias, Daniela, Ryan Hanna, Jeffrey Sachnik, Yangyang Xu, Jack Gilbert, Wolfgang Busch, and David G. Victor. 2025. “Removing Atmospheric CO2 through Mass Scaleup of Crops with Enhanced Root Systems.” Environmental Research Letters 20 (5): 054004.

Gilbert, Jack A., Raquel S. Peixoto, Amber Hartman Scholz, et al. 2025. “Launching the IUCN Microbial Conservation Specialist Group as a Global Safeguard for Microbial Biodiversity.” Nature Microbiology 10 (10): 2359–2360.

Gilbert, Jack A., Amber Hartman Scholz, Maria Gloria Dominguez Bello, … Sarah M. Allard et al. 2025. “Safeguarding Microbial Biodiversity: Microbial Conservation Specialist Group within the Species Survival Commission of the International Union for Conservation of Nature.” Sustainable Microbiology 2 (4): fiaf107.

Kim, Lauren N., Casey Meusel, Rusty Barker, Brian Lockwood, Mark Strudley, Dane Behrens, Mara M. Orescanin, Mark Merrifield, Sarah N. Giddings, and Morgan C. Levy. 2025. “Dynamics of Saltwater Intrusion into Coastal Freshwaters in the California Central Coast.” Water Resources Research 61 (3): e2024WR037141.

Lennon, Jay T., Leonora S. Bittleston, Quanrui Chen, … Jack Gilbert, et al. 2025. Microbes without Borders: Uniting Societies for Climate Action. 101 (10): fiaf084.

Richardson, Miles, Shijie Zhao, Liyuan Lin, … Guillaume Urtecho and Harris H. Wang. 2025. “SAMPL-Seq Reveals Micron-Scale Spatial Hubs in the Human Gut Microbiome.” Nature Microbiology 10 (2): 527–540.

Takahashi, Yohei, Hyunhee Joo, Nattiwong Pankasem, Po-Kai Hsu, and Julian I. Schroeder. 2025. “Stomatal CO2 Sensing in Plants: Control of Gas Exchange and Interactions with Environmental Stimuli.” Plant & Cell Physiology, July, caf074.

Tec-Campos, Diego, Juan D. Tibocha-Bonilla, Celina Jiang, Anurag Passi, Deepan Thiruppathy, Cristal Zuñiga, Camila Posadas, Alejandro Zepeda, and Karsten Zengler. 2025. “A Genome-Scale Metabolic Model for the Denitrifying Bacterium Thauera Sp. MZ1T Accurately Predicts Degradation of Pollutants and Production of Polymers.” PLoS Computational Biology 21 (1): e1012736.

Zhang, Tao, Amman Klair, Ziyao Tang, Abigail Tripka, Shihong Luo, Andres V. Reyes, Jihyeon Lee, …, Alexandra Jazz Dickinson. 2025. “The Metabolite Itaconate Is a Transcriptional and Posttranslational Modulator of Plant Metabolism, Development, and Stress Response.” Science Advances 11 (23): eadt7463.

Zhang, Yuxiao, Jack A. Gilbert, Xuan Liu, Li Nie, Xiyuan Xu, Guifeng Gao, Lihui Lyu, et al. 2025. “SynCom‐mediated Herbicide Degradation Activates Microbial Carbon Metabolism in Soils.” iMeta, July, e70058.

2024

Aksenov, Alexander A., Alex Blacutt, Nichole Ginnan, Philippe E. Rolshausen, Alexey Melnik V, Ali Lotfi, Emily C Gentry, … Karsten Zengler. 2024. “Spatial Chemistry of Citrus Reveals Molecules Bactericidal to Candidatus Liberibacter Asiaticus.” Scientific Reports 14 (1): 20306.

Bowen, Jennifer C., Alison M. Hoyt, Xiaomei Xu, Muhammad Nuriman, Gusti Z. Anshari, Putri Juliandini Wahyudio, and Lihini I. Aluwihare. 2024. “Aquatic Processing Enhances the Loss of Aged Carbon from Drained and Burned Peatlands.” Global Change Biology 30 (7): e17394.

Bowen, Jennifer C., Putri J. Wahyudio, Gusti Z. Anshari, Lihini I. Aluwihare, and Alison M. Hoyt. 2024. “Canal Networks Regulate Aquatic Losses of Carbon from Degraded Tropical Peatlands.” Nature Geoscience 17 (3): 213–18.

Christensen, Peter, Patrick Baylis, Teevrat Garg, .. Gordon McCord, et al. 2024. “How to Spend One Trillion Dollars: The US Decarbonization Conundrum.” Nature 634 (8036): 1050–1052.

Dixon, Richard A., and Alexandra Jazz Dickinson. 2024. “A Century of Studying Plant Secondary Metabolism-From ‘What?’ To ‘Where, How, and Why?’” Plant Physiology 195 (1): 48–66.

Falk, Jim, Peter H. Gleick, Shinichiro Asayama, Faten Attig-Bahar, Swadin Behera, Joachim von Braun, Rita R. Colwell, … David Victor, Chiho Watanabe, Kevin Wheeler, Tetsuzo Yasunari. 2024. “Critical Hydrologic Impacts from Climate Change: Addressing an Urgent Global Need.” Sustainability Science 19 (1): 241–44.

Franks, Peter J., Nicholas Herold, Gordon B. Bonan, Keith W. Oleson, Jeffrey S. Dukes, Matthew Huber, Julian I. Schroeder, Peter M. Cox, and Simon Jones. 2024. “Land Surface Conductance Linked to Precipitation: Co-Evolution of Vegetation and Climate in Earth System Models.” Global Change Biology 30 (3): e17188.

Hsiao, Valerie, Natalia G. Erazo, Ruth Reef, Catherine Lovelock, and Jeff Bowman. 2024. “Forest Zone and Root Compartments Outweigh Long-Term Nutrient Enrichment in Structuring Arid Mangrove Root Microbiomes.” Frontiers in Forests and Global Change 7 (July):1336037.

Muller, Marc F., Maria Rusca, Leonardo Bertassello, Ellis Adams, Maura Allaire, Violeta Cabello Villarejo, Morgan Levy, Jenia Mukherjee, and Yadu Pokhrel. 2024. “Mapping the Landscape of Water and Society Research: Promising Combinations of Compatible and Complementary Disciplines.” WIREs. Water 11 (2): e1701.

Pankasem, Nattiwong, Po-Kai Hsu, Bryn N. K. Lopez, Peter J. Franks, and Julian I. Schroeder. 2024. “Warming Triggers Stomatal Opening by Enhancement of Photosynthesis and Ensuing Guard Cell CO2 Sensing, Whereas Higher Temperatures Induce a Photosynthesis-Uncoupled Response.” The New Phytologist 244 (5): 1847–63.

Peixoto, Raquel, Christian R. Voolstra, Lisa Y. Stein, Philip Hugenholtz, Joana Falcao Salles, Shady A. Amin, Max Häggblom, Ann Gregory, Thulani P. Makhalanyane, Fengping Wang, Nadège Adoukè Agbodjato, Yinzhao Wang, Nianzhi Jiao, Jay T. Lennon, Antonio Ventosa, Patrik M. Bavoil, Virginia Miller, Jack A. Gilbert. 2024. “Microbial Solutions Must Be Deployed against Climate Catastrophe.” Communications Biology 7 (1): 1466.

Sabel, Charles F., and David G. Victor. 2024. Fixing the Climate: Strategies for an Uncertain World. Princeton, NJ: Princeton University Press.

Shao, Zhengyao, Liangqiao Bian, Shyon K. Ahmadi, Tyler J. Daniel, Miguel A. Belmonte, Jackson G. Burns, Prashanth Kotla, …, Steven P. Briggs, and Hong Qiao. 2024. “Nuclear Pyruvate Dehydrogenase Complex Regulates Histone Acetylation and Transcriptional Regulation in the Ethylene Response.” Science Advances 10 (30): eado2825.

Urtecho, Guillaume, Thomas Moody, Yiming Huang, et al. 2024. “Spatiotemporal Dynamics during Niche Remodeling by Super-Colonizing Microbiota in the Mammalian Gut.” Cell Systems 15 (11): 1002–1017.e4.

2023 and earlier

Allard, Sarah M., Matthew T. Costa, Ashley N. Bulseco, Véronique Helfer, Laetitia G. E. Wilkins, Christiane Hassenrück, Karsten Zengler, … , Jack A. Gilbert, Jeff Bowman. 2020. “Introducing the Mangrove Microbiome Initiative: Identifying Microbial Research Priorities and Approaches to Better Understand, Protect, and Rehabilitate Mangrove Ecosystems.” mSystems 5 (5). https://doi.org/10.1128/mSystems.00658-20.

Calder, Ryan S. D., and Amina T. Schartup. 2023. “Geohealth Policy Benefits Are Mediated by Interacting Natural, Engineered, and Social Processes.” GeoHealth 7 (9): e2023GH000858.

Coker, Joanna, Kateryna Zhalnina, Clarisse Marotz, Deepan Thiruppathy, Megan Tjuanta, Gavin D’Elia, Rodas Hailu, Talon Mahosky, Meagan Rowan, Trent R. Northen, Karsten Zengler. 2022. “A Reproducible and Tunable Synthetic Soil Microbial Community Provides New Insights into Microbial Ecology.” mSystems 7 (6): e0095122.

Gilbert, Jack A., Janet K. Jansson, and Rob Knight. 2018. “Earth Microbiome Project and Global Systems Biology.” mSystems 3 (3). https://doi.org/10.1128/mSystems.00217-17.

Goltz, Jan von der, Aaditya Dar, Ram Fishman, Nathaniel D. Mueller, Prabhat Barnwal, and Gordon C. McCord. 2020. “Health Impacts of the Green Revolution: Evidence from 600,000 Births across the Developing World.” Journal of Health Economics 74 (December): 102373.

González-Abraham, Charlotte, Cynthia Flores-Santana, Sonia Rodríguez-Ramírez, … Gordon McCord. 2023. “Long-Term Pathways Analysis to Assess the Feasibility of Sustainable Land-Use and Food Systems in Mexico.” Sustainability Science 18 (1): 469–484.

Hatcher, Abigail M., Sabrina Page, Lele Aletta van Eck, Isabelle Pearson, Rebecca Fielding-Miller, Celine Mazars, and Heidi Stöckl. 2022. “Systematic Review of Food Insecurity and Violence against Women and Girls: Mixed Methods Findings from Low- and Middle-Income Settings.” PLOS Global Public Health 2 (9): e0000479.

Mosnier, Aline, Valeria Javalera-Rincon, Sarah K. Jones, …Gordon McCord et al. 2023. “A Decentralized Approach to Model National and Global Food and Land Use Systems.” Environmental Research Letters 18 (4): 045001.

Mosnier, Aline, Guido Schmidt-Traub, Michael Obersteiner, …Gordon McCord et al. 2023. “How Can Diverse National Food and Land-Use Priorities Be Reconciled with Global Sustainability Targets? Lessons from the FABLE Initiative.” Sustainability Science 18 (1): 335–345.

Mudgett, Michael, Zhouxin Shen, Xinhua Dai, Steven P. Briggs, and Yunde Zhao. 2023. “Suppression of Pinoid Mutant Phenotypes by Mutations in PIN-FORMED 1 and PIN1-GFP Fusion.” Proceedings of the National Academy of Sciences of the United States of America 120 (48): e2312918120.

Sonke, Jeroen E., Hélène Angot, Yanxu Zhang, Alexandre Poulain, Erik Björn, and Amina Schartup. 2023. “Global Change Effects on Biogeochemical Mercury Cycling.” Ambio 52 (5): 853–76.

Thompson, Luke R., Jon G. Sanders, Daniel McDonald, Amnon Amir, Joshua Ladau, Kenneth J. Locey, Robert J. Prill, …, Janet K. Jansson, Jack A. Gilbert, Rob Knight, and The Earth Microbiome Project Consortium 2017. “A Communal Catalogue Reveals Earth’s Multiscale Microbial Diversity.” Nature 551 (7681): 457–63.

Victor, David G., and Emily K. Carlton. 2023. “Technology to Solve Global Problems: An Emerging Consensus for Green Industrial Policy?” Environmental Research Letters 18 (9): 091006.

Victor, David G., Marcel Lumkowsky, and Astrid Dannenberg. 2022. “Determining the Credibility of Commitments in International Climate Policy.” Nature Climate Change 12 (9): 793–800.

Wilson, Jesse M., Emelia J. Chamberlain, Natalia Erazo, Melissa L. Carter, and Jeff S. Bowman. 2021. “Recurrent Microbial Community Types Driven by Nearshore and Seasonal Processes in Coastal Southern California.” Environmental Microbiology 23 (6): 3225–39.

Wu, Grace C., Justin S. Baker, Christopher M. Wade, Gordon C. McCord, Joseph E. Fargione, and Petr Havlik. 2023. “Contributions of Healthier Diets and Agricultural Productivity toward Sustainability and Climate Goals in the United States.” Sustainability Science 18 (1): 539–556.

Zaramela, Livia S., Megan Tjuanta, Oriane Moyne, Maxwell Neal, and Karsten Zengler. 2022. “SynDNA-a Synthetic DNA Spike-in Method for Absolute Quantification of Shotgun Metagenomic Sequencing.” mSystems 7 (6): e0044722.

Zengler, Karsten, Kirsten Hofmockel, Nitin S. Baliga, Scott W. Behie, Hans C. Bernstein, James B. Brown, José R. Dinneny, et al. 2019. “EcoFABs: Advancing Microbiome Science through Standardized Fabricated Ecosystems.” Nature Methods 16 (7): 567–71.

Zhalnina, Kateryna, Karsten Zengler, Dianne Newman, and Trent R. Northen. 2018. “Need for Laboratory Ecosystems To Unravel the Structures and Functions of Soil Microbial Communities Mediated by Chemistry.” mBio 9 (4). https://doi.org/10.1128/mBio.01175-18.