Publications

Venkataraman, M., Infante, V., Sabat, G., Sanos-Giles, K., Ané, J.-M. & Pfleger, B.F. "A novel membrane-associated protein aids bacterial colonization of maize." ACS Synthetic Biology 14,1, 206–215+ (2025). [DOI: 10.1021/acssynbio.4c00489]

Wang, N., Takada, M., Sakamoto, S., Vanholme, R., Goeminne, G., Kim, H., Nagano, S., Takata, N., Kamimura, N., Uesugi, M., et al. "Effects of feruloyl-CoA 6’-hydroxylase 1 overexpression on lignin and cell wall characteristics in transgenic hybrid aspen." Frontiers in Plant Science 16, 1543168+ (2025). [DOI: 10.3389/fpls.2025.1543168]

Wang, P., Meng, F., Del Azodi, C.B., Abá, K.S., Casler, M.D. & Shiu, S.-H. "Optimizing genomic prediction for complex traits via investigating multiple factors in switchgrass." Plant Physiology 198,3, kiaf188+ (2025). [DOI: 10.1093/plphys/kiaf188]

Yu, K.M.J., Weers, B.D., McKinley, B.A., Glenn, P.D., Kurtz, E., Rooney, W.L. & Mullet, J.E. "Bioenergy sorghum stem density increases threefold following internode elongation due to continued accumulation of lignified cell walls and complex regulation of genes involved in cell wall biosynthesis." Biotechnology for Biofuels and Bioproducts 18,1, 58+ (2025). [DOI: 10.1186/s13068-025-02659-w]

Zhang, J., Kang, L., Shen, W., Collings, C., Gong, H., Meulen, K. vander, Fox, B.G., Gilcher, E., Dumesic, J.A. & Ding, S.-Y. "Lignin removal in subcellular location of poplar cell wall during pretreatment significantly impacts cellulose digestibility." ACS Sustainable Chemistry & Engineering 13,21, 7781–7788+ (2025). [DOI: 10.1021/acssuschemeng.5c00692]

Zhou, S., Garcia-Mancilla, M., Clar, J.F., Runge, T.M., Donohue, T.J., Noguera, D.R. & Karlen, S.D. "Biotransformation of phenolics in spent liquor from aqueous ammonia pretreatment." ChemSusChem DOI:10.1002/cssc.202500881, (2025). [DOI: 10.1002/cssc.202500881]

Zou, H., Chen, J., Li, X., Zhu, J., Liu, X., Tian, Z., Chen, Z., Dai, J., Xue, Z. & Robertson, P. "Contributions of vegetation heterogeneity within tower footprint to CO2 flux estimations through graph neural network modeling." Remote Sensing of Environment 329, 114952+ (2025). [DOI: 10.1016/j.rse.2025.114952]

Bandopadhyay, S., Li, X., Bowsher, A.W., Last, R.L. & Shade, A. "Disentangling plant- and environment-mediated drivers of active rhizosphere bacterial community dynamics during short-term drought." Nature Communications 15,1, 6347+ (2024). [DOI: 10.1038/s41467-024-50463-1]

Banerjee, R., Askenasy, I., Mettert, E.L. & Kiley, P.J. "Iron-sulfur Rrf2 transcription factors: an emerging versatile platform for sensing stress." Current Opinion in Microbiology 82, 102543+ (2024). [DOI: 10.1016/j.mib.2024.102543]

Barros, K.O., Mader, M., Krause, D.J., Pangilinan, J., Andreopoulos, B., Lipzen, A., Mondo, S.J., Grigoriev, I.V., Rosa, C.A., Sato, T.K., et al. "Oxygenation influences xylose fermentation and gene expression in the yeast genera Spathaspora and Scheffersomyces." Biotechnology for Biofuels and Bioproducts 17,1, 20+ (2024). [DOI: 10.1186/s13068-024-02467-8]

Bhandari, D.D. & Brandizzi, F. "Logistics of defense: the contribution of endomembranes to plant innate immunity." Journal of Cell Biology 223,6, e202307066+ (2024). [DOI: 10.1083/jcb.202307066]

Bibik, J.D., Bryson, A.E. & Hamberger, B. "Compartmentalized terpenoid production in plants using Agrobacterium-mediated transient expression." in Synthetic Biology. Methods in Molecular Biology. vols. 2760 21–34+ (Humana, 2024). [DOI: 10.1007/978-1-0716-3658-9_2]

Bibik, J.D. & Hamberger, B. "Plant engineering to enable platforms for sustainable bioproduction of terpenoids." in Synthetic Biology. Methods in Molecular Biology. vols. 2760 3–20+ (Humana, 2024). [DOI: 10.1007/978-1-0716-3658-9_1]

Bibik, J.D., Sahu, A., Kim, B., Unda, F., Andersen, T.B., Mansfield, S.D., Maravelias, C.T., Sharkey, T.D. & Hamberger, B.R. "Engineered poplar for bioproduction of the triterpene squalene." Plant Biotechnology Journal 22,8, 2301–2311+ (2024). [DOI: 10.1111/pbi.14345]

Bourmaud, C.L., Bertella, S., Rico, A.B., Karlen, S.D., Ralph, J. & Luterbacher, J. "Quantification of native lignin structural features with gel-phase 2D-HSQC0 reveals lignin structural changes during extraction." Angewandte Chemie International Edition 63,31, e202404442+ (2024). [DOI: 10.1002/anie.202404442]

Bujanovic, B.M., Hirth, K., Ralph, S., Reiner, R.S., Dongre, P., Mickles, C., Karlen, S.D., Baez, C. & Clemons, C. "Use of renewable alcohols in autocatalytic production of aspen organosolv lignins." ACS Omega 9,36, 38227–38247+ (2024). [DOI: 10.1021/acsomega.4c05981]

Chandrasekar, M., Collins, J.L., Habibi, S. & Ong, R.G. "Microfluidic reactor designed for time-lapsed imaging of pretreatment and enzymatic hydrolysis of lignocellulosic biomass." Bioresource Technology 393, 129989+ (2024). [DOI: 10.1016/j.biortech.2023.129989]

Chavez, C.M., Groenewald, M., Hulfachor, A.B., Kpurubu, G., Huerta, R., Hittinger, C.T. & Rokas, A. "The cell morphological diversity of Saccharomycotina yeasts." FEMS Yeast Research 24, foad055+ (2024). [DOI: 10.1093/femsyr/foad055]

Chen, J., Lei, C., Chu, H., Li, X., Torn, M., Wang, Y.-P., Sciusco, P. & Robertson, P. "Overlooked cooling effects of albedo in terrestrial ecosystems." Environmental Research Letters 19,9, 093001+ (2024). [DOI: 10.1088/1748-9326/ad661d]

Chen, J., U, K.T.P., North, M. & Franklin, J.F. "The contributions of microclimatic information in advancing ecosystem science." Agricultural and Forest Meteorology 355, 110105+ (2024). [DOI: 10.1016/j.agrformet.2024.110105]

Chipkar, S., Kahmark, K., Bohm, S., Hussain, M.Z., Joshi, L., Krieg, K.M., Aguado, J., Cassidy, J., Lozano, P., Garland, K., et al. "High temperatures and low soil moisture synergistically reduce switchgrass yields from marginal field sites and inhibit fermentation." Global Change Biology – Bioenergy 16,2, e13119+ (2024). [DOI: 10.1111/gcbb.13119]

Conley, E., Wadler, C.S., Bell, B.A., Lucier, I., Haynie, C., Eldred, S., Nguyen, V., Bugni, T.S. & Thomas, M.G. "Directed evolution of an adenylation domain alters substrate specificity and generates a new catechol siderophore in Escherichia coli." Biochemistry 63,23, 3126–3135+ (2024). [DOI: 10.1021/acs.biochem.4c00499]

Crandall, J.G., Zhou, X., Rokas, A. & Hittinger, C.T. "Specialization restricts the evolutionary paths available to yeast sugar transporters." Molecular Biology and Evolution 41,11, msae228+ (2024). [DOI: 10.1093/molbev/msae228]

Crowther, T.W., Rappuoli, R., Corinaldesi, C., Danovaro, R., Donohue, T.J., Huisman, J., Stein, L.Y., Timmis, J.K., Timmis, K., Anderson, M.Z., et al. "Scientists’ call to action: microbes, planetary health, and the sustainable development goals." Cell 187,19, 5195–5216+ (2024). [DOI: 10.1016/j.cell.2024.07.051]

Cui, Y., Weeda, E.P., Omolabake, S., Karlen, S.D., Holland, C.M. & Stahl, S.S. "Oxidative catalytic fractionation of lignocellulosic biomass using a Co-N-P-C catalyst and one-step isolation of aromatic monomers via centrifugal partition chromatography." ACS Sustainable Chemistry & Engineering 12,26, 9795–9804+ (2024). [DOI: 10.1021/acssuschemeng.4c02120]