Publications

de Lima, A.E.P., Coplien, J., Anthony, L.C., Sato, T.K., Zhang, Y., Karlen, S.D., Hittinger, C.T. & Maravelias, C.T. "On the synthesis of biorefineries for high-yield isobutanol production: from biomass-to-alcohol experiments to system level analysis." RSC Sustainability 2,9, 2532–2540+ (2024). [DOI: 10.1039/d4su00283k]

Pontes, A., Paraiso, F., Liu, Y.-C., Limtong, S., Jindamorakot, S., Jespersen, L., Goncalves, C., Rosa, C.A., Tsai, I.J., Rokas, A., et al. "Tracking alternative versions of the galactose gene network in the genus Saccharomyces and their expansion after domestication." iScience 27,2, 108987+ (2024). [DOI: 10.1016/j.isci.2024.108987]

Postma, K., Mane, S., Shen, M., Kussainova, M., Beisenova, R., Nanda, A., Dong, G. & Chen, J. "Water loss through evapotranspiration after precipitation events in bioenergy crops grown in similar climatic conditions." Frontiers in Environmental Science 12, 1463852+ (2024). [DOI: 10.3389/fenvs.2024.1463852]

Qin, S., Omolabake, S., Diaby, A., Li, J., González, L.D., Holland, C.M., Zavala, V.M., Stahl, S.S. & Van Lehn, R.C. "Identifying green solvent mixtures for bioproduct separation using Bayesian experimental design." ACS Sustainable Chemistry & Engineering 12,52, 18634–18647+ (2024). [DOI: 10.1021/acssuschemeng.4c07423]

Rapp, J.T., Bremer, B.J. & Romero, P.A. "Self-driving laboratories to autonomously navigate the protein fitness landscape." Nature Chemical Engineering 1, 97–107+ (2024). [DOI: 10.1038/s44286-023-00002-4]

Renna, L., Stefano, G., Puggioni, M.P., Kim, S.-J., Lavell, A., Froehlich, J.E., Burkart, G., Mancuso, S., Benning, C. & Brandizzi, F. "ER-associated VAP27-1 and VAP27-3 proteins functionally link the lipid-binding ORP2A at the ER-chloroplast contact sites." Nature Communications 15,1, 6008+ (2024). [DOI: 10.1038/s41467-024-50425-7]

Vazquez, J.R., Trujillo, E., Williams, J., She, F., Getahun, F., Callaghan, M.M., Coon, J.J. & Amador-Noguez, D. "Lipid membrane remodeling and metabolic response during isobutanol and ethanol exposure in Zymomonas mobilis." Biotechnology for Biofuels and Bioproducts 17,1, 14+ (2024). [DOI: 10.1186/s13068-023-02450-9]

Rivett, E.D., Ma, W., Ostrom, N.E. & Hegg, E.L. "Position-specific kinetic isotope effects for nitrous oxide: a new expansion of the Rayleigh model." Biogeosciences 21,20, 4549–4567+ (2024). [DOI: 10.5194/bg-21-4549-2024]

Rojas, J., Hose, J., Dutcher, A., Place, M., Wolters, J.F., Hittinger, C.T. & Gasch, A.P. "Comparative modeling reveals the molecular determinants of aneuploidy fitness cost in a wild yeast model." Cell Genomics 4,10, 100656+ (2024). [DOI: 10.1016/j.xgen.2024.100656]

Schlecht, N.J., Lanier, E.R., Andersen, T.B., Brose, J., Holmes, D. & Hamberger, B.R. "CYP76BK1 orthologs catalyze furan and lactone ring formation in clerodane diterpenoids across the mint family." The Plant Journal 120,3, 984–997+ (2024). [DOI: 10.1111/tpj.17031]

Senanayake, M., Lin, C.-Y., Mansfield, S.D., Eudes, A., Davison, B.H., Pingali, S.V. & O’Neill, H. "Ectopic production of 3,4-dihydroxybenzoate in planta affects cellulose structure and organization." Biomacromolecules 25,6, 3542–3553+ (2024). [DOI: 10.1021/acs.biomac.4c00187]

Shiu, S.-H. & Lehti-Shiu, M.D. "Assessing the evolution of research topics in a biological field using plant science as an example." PLOS Biology 22,5, e3002612+ (2024). [DOI: 10.1371/journal.pbio.3002612]

Smith, R.A. & Ralph, J. "Cycling ferulate in monocot cell walls." Nature Plants 10, 1284–1286+ (2024). [DOI: 10.1038/s41477-024-01787-9]

Stewart, R.D., Myers, K.S., Amstadt, C., Seib, M., McMahon, K.D. & Noguera, D.R. "Refinement of the "Candidatus Accumulibacter" genus based on metagenomic analysis of biological nutrient removal (BNR) pilot-scale plants operated with reduced aeration." mSystems 9,3, e01188–23+ (2024). [DOI: 10.1128/msystems.01188-23]

Su, Y., Mangus, A.M., Cordell, W.T. & Pfleger, B.F. "Overcoming barriers to medium-chain fatty alcohol production." Current Opinion in Biotechnology 85, 103063+ (2024). [DOI: 10.1016/j.copbio.2023.103063]

Sun, L., David, K.T., Wolters, J.F., Karlen, S.D., Goncalves, C., Opulente, D.A., LaBella, A.L., Groenewald, M., Zhou, X., Shen, X.-X., et al. "Functional and evolutionary integration of a fungal gene with a bacterial operon." Molecular Biology and Evolution 41,4, msae045+ (2024). [DOI: 10.1093/molbev/msae045]

Taifan, G.S.P. & Maravelias, C.T. "Multi-technology separation system synthesis." Computers & Chemical Engineering 183, 108616+ (2024). [DOI: 10.1016/j.compchemeng.2024.108616]

Tejera-Nieves, M., Seong, D.Y., Reist, L. & Walker, B.J. "The Dynamic Assimilation Technique measures photosynthetic CO2 response curves with similar fidelity as steady-state approaches in half the time." Journal of Experimental Biology 75,10, 2819–2828+ (2024). [DOI: 10.1093/jxb/erae057]

Thibault, E. & Brandizzi, F. "Post-translational modifications: emerging directors of cell-fate decisions during endoplasmic reticulum stress in Arabidopsis thaliana." Biochemical Society Transactions 52,2, 831–848+ (2024). [DOI: 10.1042/BST20231025]

Tilhou, N.W., Bonnette, J., Boe, A.R., Fay, P.A., Fritschi, F.B., Mitchell, R.B., Rouquette, F.M., Jr., Wu, Y., Jastrow, J.D., Ricketts, M., et al. "Genomic prediction of regional-scale performance in switchgrass (Panicum virgatum) by accounting for genotype-by-environment variation and yield surrogate traits." G3: Genes | Genomes | Genetics 14,10, jkae159+ (2024). [DOI: 10.1093/g3journal/jkae159]

Turumtay, E.A., Turumtay, H., Tian, Y., Lin, C.-Y., Chai, Y.N., Louie, K.B., Chen, Y., Lipzen, A., Harwood, T., Kumar, K.S., et al. "Expression in poplar of dehydroshikimate dehydratase induces transcriptional and metabolic changes in the phenylpropanoid pathway." Journal of Experimental Botany 75,16, 4960–4977+ (2024). [DOI: 10.1093/jxb/erae251]

Aragon, N.U., Xie, Y., Bigelow, D., Lark, T.J. & Eagle, A.J. "The realistic potential of soil carbon sequestration in U.S. croplands for climate mitigation." Earth’s Future 12,6, e2023EF003866+ (2024). [DOI: 10.1029/2023EF003866]

Unda, F., de Vries, L., Karlen, S.D., Rainbow, J., Zhang, C., Bartley, L.E., Kim, H., Ralph, J. & Mansfield, S.D. "Enhancing monolignol ferulate conjugate levels in poplar lignin via OsFMT1." Biotechnology for Biofuels and Bioproducts 17,1, 97+ (2024). [DOI: 10.1186/s13068-024-02544-y]

Vilbert, A.C., Kontur, W.S., Gille, D., Noguera, D.R. & Donohue, T.J. "Engineering Novosphingobium aromaticivorans to produce cis,cis-muconic acid from biomass aromatics." Applied and Environmental Microbiology 90,1, e01660–23+ (2024). [DOI: 10.1128/aem.01660-23]

Vizza, C., Belanger, M.A., Jones, J., Murphy, S.J., Buckley, D.H., Robertson, P. & Roley, S.S. "Rainfall events stimulate episodic associative nitrogen fixation in switchgrass." Biogeochemistry 167, 1409–1424+ (2024). [DOI: 10.1007/s10533-024-01180-w]