Carl R. Woese Institute for Genomic Biology

Zhou, Q., Guan, K., Wang, S., Hipple, J., & Chen, Z. (2025). Addressing Crop Dormancy for Phenology-Based Field-Level Detection of Winter Wheat Planting Dates in the United States. IEEE Transactions on Geoscience and Remote Sensing, 63, Article 4423111. https://doi.org/10.1109/TGRS.2025.3631803

Zhang, Z., Li, M., & Zhao, H. (2025). Mechanistic investigation of repurposed photoenzymes with new-to-nature reactivity. Current Opinion in Green and Sustainable Chemistry, 52, Article 101009. https://doi.org/10.1016/j.cogsc.2025.101009

Zhang, J., Guan, K., Sivapalan, M., Jiang, C., Pan, M., Peng, B., Zhou, W., Franz, T. E., Chen, X., Lin, K., & Li, Z. (2025). An upscaling approach for estimating field-level irrigation water use through the Budyko framework. Journal of Hydrology, 661, Article 133785. https://doi.org/10.1016/j.jhydrol.2025.133785

Zhang, Z., Anwar, S., Yafuso, E. J., Zuniga Soto, E. T., Li, C., Luo, G., Moose, S. P., Swaminathan, K., Altpeter, F., & Hudson, M. E. (2025). Synthetic feed-forward loop circuit boosts transgene expression in sugarcane. Plant Cell Reports, 44(8), Article 171. https://doi.org/10.1007/s00299-025-03561-3

Zhang, Z., Li, M., Harrison, W., Lu, J., Zhao, Z., Yuan, Y., & Zhao, H. (2025). Photoenzymatic stereoablative enantioconvergence of γ-chiral oximes via hydrogen atom transfer. Nature Catalysis, 8(6), 548-555. https://doi.org/10.1038/s41929-025-01347-0

Zhang, J., Guan, K., Chen, Z., Hipple, J., Huang, Y., Peng, B., Wang, S., Xu, X., Jin, Z., Zhao, K., & Jong, M. (2025). Aligning satellite-based phenology in a deep learning model for improved crop yield estimates over large regions. Agricultural and Forest Meteorology, 372, Article 110675. https://doi.org/10.1016/j.agrformet.2025.110675

Zhang, J., Guan, K., Sivapalan, M., Jiang, C., Pan, M., Peng, B., Zhou, W., Franz, T. E., Chen, X., Lin, K., & Li, Z. (2025). Corrigendum to “An upscaling approach for estimating field-level irrigation water use through the Budyko framework” [J. Hydrol. 661 (2025) 133785]. Journal of Hydrology, 662, Article 134250. https://doi.org/10.1016/j.jhydrol.2025.134250

Zhang, J., Guan, K., Chen, Z., Huang, Y., Zhao, K., Peng, B., Wang, S., Wu, X., Wang, S., Banerjee, A., Vergopolan, N., Fu, R., Zhao, S., & Colussi, J. (2025). Transfer learning for improved crop yield predictions in a cross-scale pathway: a case study for Brazilian national soybean. International Journal of Applied Earth Observation and Geoinformation, 145, Article 104981. https://doi.org/10.1016/j.jag.2025.104981

Zeng, L., Sacks, E. J., Fang, D. D., & Zhang, J. (2025). Registration of three cotton germplasm lines with extremely high fiber strength derived from crosses between Upland cotton and diploid Gossypium species. Journal of Plant Registrations, 19(1), Article e220422. https://doi.org/10.1002/plr2.20422

Zeng, Q., Sidhu, M., Blume, A., Chan, H. P., Wang, L., & Ji, H. (2025). Scientific Opinion Summarization: Paper Meta-review Generation Dataset, Methods, and Evaluation. In W. Yin, J. J. Ahn, R. Zhang, L. Huang, R. Hadfi, T. Ito, S. Ohnuma, & S. Shiramatsu (Eds.), Artificial Intelligence for Research and Democracy - 1st International Workshop, AI4Research 2024, and 4th International Workshop, DemocrAI 2024, Held in Conjunction with IJCAI 2024, Proceedings (pp. 20-38). (Lecture Notes in Computer Science; Vol. 14917 LNAI). Springer. https://doi.org/10.1007/978-981-97-9536-9_2

Yusara, A., Kato, T., Ainsworth, E. A., Battisti, R., Kumagai, E., Nakano, S., Wu, Y., Tsutsumi-Morita, Y., Kobayashi, K., & Masutomi, Y. (2025). Developing an eco-physiological process-based model of soybean growth and yield (MATCRO-Soy v.1): model calibration and evaluation. Geoscientific Model Development, 18(22), 8801-8826. https://doi.org/10.5194/gmd-18-8801-2025

Yuan, Y., Huang, C., Singh, N., Xun, G., & Zhao, H. (2025). Self-resistance-gene-guided, high-throughput automated genome mining of bioactive natural products from Streptomyces. Cell Systems, 16(3), Article 101237. https://doi.org/10.1016/j.cels.2025.101237

Yu, S., He, H., Summers, S., Yang, Z., Si, B., Gao, R., Song, A., Heyne, J., Zhang, Y., & Yang, H. (2025). Upgrading biocrude oil into sustainable aviation fuel using zeolite-supported iron-molybdenum carbide nanocatalysts. Science Advances, 11(26), Article eadu5777. https://doi.org/10.1126/sciadv.adu5777

Yu, Y., Yuan, Q., Dai, J., Zhao, H., & Shi, S. (2025). Engineering oleaginous yeast Rhodotorula toruloides for production of alkanes and alkenes. Metabolic Engineering, 91, 242-253. https://doi.org/10.1016/j.ymben.2025.05.003

Yook, S., Deewan, A., Ziolkowski, L., Lane, S., Tohidifar, P., Cheng, M. H., Singh, V., Stasiewicz, M. J., Rao, C. V., & Jin, Y. S. (2025). Engineering and evolution of Yarrowia lipolytica for producing lipids from lignocellulosic hydrolysates. Bioresource Technology, 416, Article 131806. https://doi.org/10.1016/j.biortech.2024.131806

Ye, Q., Fan, C., Jin, X., Wang, W., Smith, B., Jin, Y. S., Freiburg, J. T., Lu, Y., & Wei, N. (2025). Group Separation of Rare Earth Elements by Protein-Functionalized Magnetic Nanoparticles. ACS ES and T Engineering, 5(11), 3153-3161. https://doi.org/10.1021/acsestengg.5c00508

Ye, L., Liu, L., Yang, Y., Li, Z., Zhou, W., Peng, B., Xu, S., Kumar, V., Yang, W., Tang, J., Jin, Z., & Guan, K. (2025). Knowledge-guided machine learning captures key mechanistic pathways for better predicting spatio-temporal patterns of growing season N2O emissions in the U.S. Midwest. Agricultural and Forest Meteorology, 373, Article 110750. https://doi.org/10.1016/j.agrformet.2025.110750

Yasuma, T., Fujimoto, H., D’Alessandro-Gabazza, C. N., Toda, M., Uemura, M., Nishihama, K., Takeshita, A., Fridman D’Alessandro, V., Okano, T., Okano, Y., Tomaru, A., Anoh, T., Inoue, C., Alhawsawi, M. A. B., Abdel-Hamid, A. M., Leistikow, K., King, M. R., Ono, R., Nosaka, T., ... Gabazza, E. C. (2025). Microbiota-derived corisin accelerates kidney fibrosis by promoting cellular aging. Nature communications, 16(1), Article 7591. https://doi.org/10.1038/s41467-025-61847-2

Yang, Y., Guan, K., Peng, B., Feng, X., Xu, X., Pan, M., Sloan, B. P., Zhang, J., Zhou, W., Li, L., Sivapalan, M., Ainsworth, E. A., Novick, K. A., Yang, Z. L., & Wang, S. (2025). A Unified Framework to Reconcile Different Approaches of Modeling Transpiration Response to Water Stress: Plant Hydraulics, Supply Demand Balance, and Empirical Soil Water Stress Function. Journal of Advances in Modeling Earth Systems, 17(4), Article e2023MS003911. https://doi.org/10.1029/2023MS003911

Xu, H., Shi, L., Boob, A. G., Park, W., Tan, S. I., Tran, V. G., Schultz, J. C., & Zhao, H. (2025). Discovery, characterization, and application of chromosomal integration sites for stable heterologous gene expression in Rhodotorula toruloides. Metabolic Engineering, 89, 22-32. https://doi.org/10.1016/j.ymben.2025.02.004

Xie, Z., Jin, Y. S., Klaenhammer, T. R., & Miller, M. J. (2025). The insertion of the inverted repeat of an insertion sequence (IS) element from Lacticaseibacillus rhamnosus changes the host range and stability of pGK12, a shuttle vector for lactic acid bacteria. Applied and environmental microbiology, 91(4). https://doi.org/10.1128/aem.01908-24

Xia, C., Huang, J., Zhou, X., Payyavula, R. S., Lan, H., Chen, L. Q., Turgeon, R., & Zhang, C. (2025). The Crucial Roles of Phloem Companion Cells in Response to Phosphorus Deficiency. Plant, Cell and Environment, 48(6), 4327-4340. Advance online publication. https://doi.org/10.1111/pce.15421

Wu, S., Fung, M., Qian, C., Kim, J., Hakkani-Tur, D., & Ji, H. (2025). Aligning LLMs with Individual Preferences via Interaction. In O. Rambow, L. Wanner, M. Apidianaki, H. Al-Khalifa, B. Di Eugenio, & S. Schockaert (Eds.), Main Conference (pp. 7648-7662). (Proceedings - International Conference on Computational Linguistics, COLING). Association for Computational Linguistics (ACL).

Wu, Y., Kong, W., Van Stappen, J., Kong, L., Huang, Z., Yang, Z., Kuo, Y. A., Chen, Y. I., He, Y., Yeh, H. C., Lu, T., & Lu, Y. (2025). Genetically Encoded Fluorogenic DNA Aptamers for Imaging Metabolite in Living Cells. Journal of the American Chemical Society, 147(2), 1529-1541. https://doi.org/10.1021/jacs.4c09855

Wasonga, D., Jang, C., Lee, J. W., Vittore, K., Arshad, M. U., Namoi, N., Zumpf, C., & Lee, D. (2025). Estimating Switchgrass Biomass Yield and Lignocellulose Composition from UAV-Based Indices. Crops, 5(1), Article 3. https://doi.org/10.3390/crops5010003

Wartha, C. A., Campbell, B. W., Ramasubramanian, V., Nice, L., Brock, A., Cai, G., Eskandari, M. M., Graef, G., Hudson, M. E., Hyten, D., Mahan, A. L., Martin, N. F., McHale, L., Miranda, C., Dominguez, E. M., Nelson, R., Rainey, K., Rajcan, I., Scaboo, A., ... Lorenz, A. J. (2025). Genomic analysis and predictive modeling in the Northern Uniform Soybean Tests. Crop Science, 65(5), Article e70138. https://doi.org/10.1002/csc2.70138

Wang, Y., Han, C., Wu, T., He, X., Zhou, W., Sadeq, N., Chen, X., He, Z., Wang, W., Haffari, G., Ji, H., & McAuley, J. (2025). Towards LifeSpan Cognitive Systems. Transactions on Machine Learning Research, 2025.

Wang, S., Baek, J. M., Lau, A. P., Quebedeaux, J. C., Leakey, A. D. B., & Diao, Y. (2025). Light-Stable, Ultrastretchable Wearable Strain Sensors for Versatile Plant Growth Monitoring. ACS Sensors, 10(5), 3390-3401. Advance online publication. https://doi.org/10.1021/acssensors.4c03104

Wang, J., Zhang, L., Wang, S., Wang, X., Li, S., Gong, P., Bai, M., Paul, A., Tvedt, N., Ren, H., Yang, M., Zhang, Z., Zhou, S., Sun, J., Wu, X., Kuang, H., Du, Z., Dong, Y., Shi, X., ... Guan, Y. (2025). AlphaFold-Guided Bespoke Gene Editing Enhances Field-Grown Soybean Oil Contents. Advanced Science, 12(23), Article 2500290. https://doi.org/10.1002/advs.202500290

Wang, Z., Hsu, J., Wang, X., Huang, K. H., Li, M., Wu, J., & Ji, H. (2025). Visually Descriptive Language Model for Vector Graphics Reasoning. Transactions on Machine Learning Research, 2025.

Wang, L., Cheng, C., Liao, Y., Qu, Y., & Liu, G. (2025). TRAINING FREE GUIDED FLOW MATCHING WITH OPTIMAL CONTROL. In 13th International Conference on Learning Representations, ICLR 2025 (pp. 10590-10622). (13th International Conference on Learning Representations, ICLR 2025). International Conference on Learning Representations, ICLR.

Wang, Z., Zhang, H., Li, X., Huang, K. H., Han, C., Ji, S., Kakade, S. M., Peng, H., & Ji, H. (2025). ELIMINATING POSITION BIAS OF LANGUAGE MODELS: A MECHANISTIC APPROACH. In 13th International Conference on Learning Representations, ICLR 2025 (pp. 37090-37117). (13th International Conference on Learning Representations, ICLR 2025). International Conference on Learning Representations, ICLR.

Wang, W., Blanc-Betes, E., Khanna, M., Jiang, C., Guan, K., Guest, J. S., Field, J. L., & DeLucia, E. H. (2025). Land conversion to energy crops for sustainable aviation fuel production reduces greenhouse gas emissions in the United States. Communications Earth and Environment, 6(1), Article 963. https://doi.org/10.1038/s43247-025-02913-x

Varela, S., Zheng, X., Njuguna, J., Sacks, E., Allen, D., Ruhter, J., & Leakey, A. D. B. (2025). Breaking the barrier of human-annotated training data for machine learning-aided plant research using aerial imagery. Plant physiology, 197(4), Article kiaf132. https://doi.org/10.1093/plphys/kiaf132

Upadhyay, V., Li, H., He, J., Ocampo, B. E., Cook, S., Zhao, H., & Maranas, C. D. (2025). Combining Chemical Catalysis with Enzymatic Steps for the Synthesis of the Artemisinin Precursor Dihydroartemisinic Acid. ACS synthetic biology, 14(4), 1112-1120. https://doi.org/10.1021/acssynbio.4c00707

Trinklein, T. J., Rubakhin, S. S., Okyem, S., Croslow, S. W., Asadian, M., Sabitha, K. R., Lazarov, O., Lam, F., & Sweedler, J. V. (2025). Multimodal mass spectrometry imaging for plaque- and region-specific neurolipidomics in Alzheimer’s disease mouse models. Nature communications, 16(1), Article 10969. https://doi.org/10.1038/s41467-025-65956-w

Tran, V. G., Tan, S. I., Xu, H., Weilandt, D. R., Li, X., Bhagwat, S. S., Zhu, Z., Guest, J. S., Rabinowitz, J. D., & Zhao, H. (2025). Decompartmentalization of the yeast mitochondrial metabolism to improve chemical production in Issatchenkia orientalis. Nature communications, 16(1), Article 7110. https://doi.org/10.1038/s41467-025-62304-w

Tosens, T., Alboresi, A., van Amerongen, H., Bassi, R., Busch, F. A., Consoli, G., Ebenhöh, O., Flexas, J., Harbinson, J., Jahns, P., Kamennaya, N., Kramer, D. M., Kromdijk, J., Lawson, T., Murchie, E. H., Niinemets, Ü., Natale, S., Nürnberg, D. J., Persello, A., ... Weber, A. P. M. (2025). New avenues in photosynthesis: from light harvesting to global modeling. Physiologia Plantarum, 177(2), Article e70198. https://doi.org/10.1111/ppl.70198

Tang, M., Wang, J., Kannan, B., Koukoulidis, N. M., Lin, Y. H., Altpeter, F., & Chen, L. Q. (2025). Tonoplast sugar transporters as key drivers of sugar accumulation, a case study in sugarcane. Horticulture Research, 12(2), Article uhae312. https://doi.org/10.1093/hr/uhae312

Tan, S. I., Ng, I. S., & Zhao, H. (2025). Metabolic Engineering of Nonmodel Yeast Issatchenkia orientalis SD108 for 5-Aminolevulinic Acid Production. Biotechnology and bioengineering, 122(2), 415-423. https://doi.org/10.1002/bit.28877

Tan, S. I., Liu, Z., Tran, V. G., Martin, T. A., & Zhao, H. (2025). Issatchenkia orientalis as a platform organism for cost-effective production of organic acids. Metabolic Engineering, 89, 12-21. https://doi.org/10.1016/j.ymben.2025.02.003

Tan, Y., Kao, W. C., Boppart, M., & Sweedler, J. V. (2025). Plasma-Derived Extracellular Vesicle Proteomics. Journal of Proteome Research, 24(9), 4309-4321. https://doi.org/10.1021/acs.jproteome.5c00316

Sweedler, J. (2025). Welcome to 2025. Analytical Chemistry, 97(3), 1467. https://doi.org/10.1021/acs.analchem.4c07065

Sweedler, J. V. (2025). Announcing Our Expanded Editorial Team, Along with Some Advice for Authors. Analytical Chemistry, 97(51), 28109-28110. https://doi.org/10.1021/acs.analchem.5c07633

Suresh, T., Reddy, R. G., Xu, Y., Nussbaum, Z., Mulyar, A., Duderstadt, B., & Ji, H. (2025). CORNSTACK: HIGH-QUALITY CONTRASTIVE DATA FOR BETTER CODE RETRIEVAL AND RERANKING. In 13th International Conference on Learning Representations, ICLR 2025 (pp. 47145-47162). (13th International Conference on Learning Representations, ICLR 2025). International Conference on Learning Representations, ICLR.

Sun, C., Yang, K., Reddy, R. G., Fung, Y. R., Chan, H. P., Small, K., Zhai, C. X., & Ji, H. (2025). Persona-DB: Efficient Large Language Model Personalization for Response Prediction with Collaborative Data Refinement. In O. Rambow, L. Wanner, M. Apidianaki, H. Al-Khalifa, B. Di Eugenio, & S. Schockaert (Eds.), Main Conference (pp. 281-296). (Proceedings - International Conference on Computational Linguistics, COLING). Association for Computational Linguistics (ACL).

Sun, H., Schmidt, N., Lawson, T., Hagemann, M., & Timm, S. (2025). Guard cell-specific glycine decarboxylase manipulation affects Arabidopsis photosynthesis, growth and stomatal behavior. New Phytologist, 246(5), 2102-2117. Advance online publication. https://doi.org/10.1111/nph.70124

Subramanian, C., McNamara, K., Croslow, S. W., Tan, Y., Hess, D., Kiseljak-Vassiliades, K., Wierman, M. E., Sweedler, J. V., & Cohen, M. S. (2025). Novel repurposing of sulfasalazine for the treatment of adrenocortical carcinomas, probably through the SLC7A11/xCT-hsa-miR-92a-3p-OIP5-AS1 network pathway. Surgery (United States), 177, Article 108832. https://doi.org/10.1016/j.surg.2024.07.075

Su, P., Hollas, M. A. R., Pla, I., Rubakhin, S., Butun, F. A., Greer, J. B., Early, B. P., Fellers, R. T., Caldwell, M. A., Sweedler, J. V., Kafader, J. O., & Kelleher, N. L. (2025). Proteoform profiling of endogenous single cells from rat hippocampus at scale. Nature Biotechnology, Article 3341. Advance online publication. https://doi.org/10.1038/s41587-025-02669-x

Stuchiner, E. R., Xu, J., Eddy, W. C., DeLucia, E. H., & Yang, W. H. (2025). Hot or Not? An Evaluation of Methods for Identifying Hot Moments of Nitrous Oxide Emissions From Soils. Journal of Geophysical Research: Biogeosciences, 130(1), Article e2024JG008138. https://doi.org/10.1029/2024JG008138

Stewart, D. W., Guo, W., Li, Y., Fan, X., Coppess, J. W., Khanna, M., & Guest, J. S. (2025). Greenhouse Gas Accounting Procedures in Low Carbon Fuel Policies Overlook the Spatial Variability of Miscanthus-Derived Sustainable Aviation Fuel. ACS Sustainable Resource Management, 2(7), 1185-1194. https://doi.org/10.1021/acssusresmgt.4c00486

Sparrow Muñoz, I., & Burgess, S. J. (2025). A Golden Gate compatible system for continuous directed evolution in E. coli. Synthetic Biology, 10(1), Article ysaf014. https://doi.org/10.1093/synbio/ysaf014

Song, I., Zhang, X., Ganapathiraju, A., Rai, S., Novak, P. J., Guest, J. S., Arnold, W. A., & Wright, N. C. (2025). Modeling the Impacts of Hydrogen Extraction on Anaerobic Fermentation Systems Using a Modified ADM1 Model. ACS ES and T Engineering, 5(10), 2450-2460. https://doi.org/10.1021/acsestengg.5c00099

Sobecks, B. L., Chen, J., Dean, T. J., & Shukla, D. (2025). Mechanistic basis for enhanced strigolactone sensitivity in KAI2 triple mutant. Biophysical journal, 124(12), 1908-1917. https://doi.org/10.1016/j.bpj.2025.04.021

Singh, N., Lane, S., Yu, T., Lu, J., Ramos, A., Cui, H., & Zhao, H. (2025). A generalized platform for artificial intelligence-powered autonomous enzyme engineering. Nature communications, 16(1), Article 5648. https://doi.org/10.1038/s41467-025-61209-y

Shin, J., Lee, G., Chi, W. J., Park, S., Jin, Y. S., & Kim, S. R. (2025). Engineering Saccharomyces boulardii for cell surface display of heterologous protein. Journal of Biotechnology, 397, 44-50. https://doi.org/10.1016/j.jbiotec.2024.11.013

Seyfried, G. S., Edwards, J. D., Dalling, J. W., Kent, A. D., & Yang, W. H. (2025). Nitrogen addition alters interactions between ectomycorrhizal host trees and fungal communities in a mixed mycorrhizal tropical rainforest. Plant and Soil, 513(2), 2379-2394. Advance online publication. https://doi.org/10.1007/s11104-025-07327-4

Selvam, B., Paul, A., Yu, Y. C., Chen, L. Q., & Shukla, D. (2025). SWEET Family Transporters Act as Water-Conducting Carrier Proteins in Plants. Journal of Chemical Information and Modeling, 65(7), 3697-3705. https://doi.org/10.1021/acs.jcim.5c00110

Schumer, N. G., Ahmed, M. W., Rausch, K., Singh, V., & Kamruzzaman, M. (2025). Chemometric-based approach for economically motivated fraud detection in organic spices via NIR spectroscopy. Journal of Food Composition and Analysis, 142, Article 107538. https://doi.org/10.1016/j.jfca.2025.107538

Salesse-Smith, C. E., Wang, Y., & Long, S. P. (2025). Increasing Rubisco as a simple means to enhance photosynthesis and productivity now without lowering nitrogen use efficiency. New Phytologist, 245(3), 951-965. https://doi.org/10.1111/nph.20298

Salesse-Smith, C. E., Adar, N., Kannan, B., Nguyen, T., Wei, W., Guo, M., Ge, Z., Altpeter, F., Clemente, T. E., & Long, S. P. (2025). Adapting C4 photosynthesis to atmospheric change and increasing productivity by elevating Rubisco content in sorghum and sugarcane. Proceedings of the National Academy of Sciences of the United States of America, 122(8), Article e2419943122. https://doi.org/10.1073/pnas.2419943122

Rosado-Rosa, J. M., & Sweedler, J. V. (2025). Bacterial biofilm sample preparation for spatial metabolomics. Analyst, 150(15), 3257-3268. Advance online publication. https://doi.org/10.1039/d5an00466g

Rosado-Rosa, J. M., Parmar, D., Rubakhin, S. S., Shrout, J. D., & Sweedler, J. V. (2025). D-Amino acids affect Pseudomonas aeruginosa biofilm and quorum sensing molecules in lung infection models developed under a cystic fibrosis environment. Scientific reports, 15(1), Article 25328. https://doi.org/10.1038/s41598-025-10519-8

Rosado-Rosa, J. M., Parmar, D., Shrout, J. D., & Sweedler, J. V. (2025). Insights on the spatial distribution of the Pseudomonas aeruginosa secondary metabolites under swarming motility inducing conditions using mass spectrometry imaging. Microbiology Spectrum, 13(12). https://doi.org/10.1128/spectrum.01368-25

Román Santiago, A., Dutta, A., Wu, J. C., Yin, S., Lee, Y. W., Hou, C. H., Shukla, D., & Su, X. (2025). Investigating the Structure–Function Relationships of Fluorinated Interfaces for PFAS Capture and Electrochemically-Mediated Release. Advanced Functional Materials, 35(36), Article 2502317. https://doi.org/10.1002/adfm.202502317

Riaz, M. R., Marquez, I. S., Lindgren, H., Levin, G., Doyle, R., Romero, M. C., Paoli, J. C., Drnevich, J., Fields, C. J., Geddes, B. A., Marshall-Colón, A., & Heath, K. D. (2025). Mobile gene clusters and coexpressed plant–rhizobium pathways drive partner quality variation in symbiosis. Proceedings of the National Academy of Sciences of the United States of America, 122(31), Article e2411831122. https://doi.org/10.1073/pnas.2411831122

Reed, D. E., Chu, H., Peter, B. G., Chen, J., Abraha, M., Amiro, B., Anderson, R. G., Arain, M. A., Arruda, P., Barron-Gafford, G. A., Bernacchi, C., Beverly, D. P., Biraud, S. C., Black, T. A., Blanken, P. D., Bohrer, G., Bowler, R., Bowling, D. R., Bret-Harte, M. S., ... Zona, D. (2025). Network of networks: Time series clustering of AmeriFlux sites. Agricultural and Forest Meteorology, 372, Article 110686. https://doi.org/10.1016/j.agrformet.2025.110686

Raj, T., & Singh, V. (2025). Integrated Green Biorefinery for the Production of Anthocyanins, Fermentable Sugars, and High Pure Lignin from Miscanthus × giganteus. Advanced Energy and Sustainability Research, 6(9), Article 2500034. https://doi.org/10.1002/aesr.202500034

Qin, R., Guan, K., Peng, B., Zhang, F., Zhou, W., Tang, J., Hu, T., Grant, R., Runkle, B. R. K., Reba, M., & Wu, X. (2025). A model-data fusion approach for quantifying the carbon budget in cotton agroecosystems across the United States. Agricultural and Forest Meteorology, 363, Article 110407. https://doi.org/10.1016/j.agrformet.2025.110407

Qian, C., Han, P., Luo, Q., He, B., Chen, X., Zhang, Y., Du, H., Yao, J., Yang, X., Zhang, D., Li, Y., & Ji, H. (2025). EscapeBench: Towards Advancing Creative Intelligence of Language Model Agents. In W. Che, J. Nabende, E. Shutova, & M. T. Pilehvar (Eds.), Long Papers (pp. 798-820). (Proceedings of the Annual Meeting of the Association for Computational Linguistics; Vol. 1). Association for Computational Linguistics (ACL).

Potash, E., Bradford, M. A., Oldfield, E. E., & Guan, K. (2025). Measure-and-remeasure as an economically feasible approach to crediting soil organic carbon at scale. Environmental Research Letters, 20(2), Article 024025. https://doi.org/10.1088/1748-9326/ada16c

Petersen, B., Emran, S. A., Miguez, F., Heaton, E., & VanLoocke, A. (2025). Approximately 15% of Miscanthus yield is lost at current commercial cutting heights in Iowa. Agrosystems, Geosciences and Environment, 8(1), Article e70039. https://doi.org/10.1002/agg2.70039

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