Publications

David, K.T., Harrison, M.-C., Opulente, D.A., LaBella, A.L., Wolters, J.F., Zhou, X., Shen, X.-X., Groenewald, M., Pennell, M., Hittinger, C.T., et al. "Saccharomycotina yeasts defy long-standing macroecological patterns." Proceedings of the National Academy of Sciences of the United States of America 121,10, e2316031121+ (2024). [DOI: 10.1073/pnas.2316031121]

Doron, L., Raval, D. & Kerfeld, C.A. "Towards using bacterial microcompartments as a platform for spatial metabolic engineering in the industrially important and metabolically versatile Zymomonas mobilis." Frontiers in Bioengineering and Biotechnology 12, 1344260+ (2024). [DOI: 10.3389/fbioe.2024.1344260]

Durant, C., Bhasin, A., Juenger, T.E. & Heckman, R.W. "Genetically correlated leaf tensile and morphological traits are driven by growing season length in a widespread perennial grass." American Journal of Botany 111,5, e16349+ (2024). [DOI: 10.1002/ajb2.16349]

Fu, J., McKinley, B., James, B., Chrisler, W., Markillie, L.M., Gaffrey, M.J., Mitchell, H.D., Riaz, M.R., Marcial, B., Orr, G., et al. "Cell-type-specific transcriptomics uncovers spatial regulatory networks in bioenergy sorghum stems." The Plant Journal 118,5, 1668–1688+ (2024). [DOI: 10.1111/tpj.16690]

Geissler, C.H., Ryu, J. & Maravelias, C.T. "The future of biofuels in the United States transportation sector." Renewable and Sustainable Energy Reviews 192, 114276+ (2024). [DOI: 10.1016/j.rser.2023.114276]

Goncalves, C., Harrison, M.-C., Steenwyk, J.L., Opulente, D.A., LaBella, A.L., Wolters, J.F., Zhou, X., Shen, X.-X., Groenewald, M., Hittinger, C.T., et al. "Diverse signatures of convergent evolution in cactus-associated yeasts." PLOS Biology 22,9, e3002832+ (2024). [DOI: 10.1371/journal.pbio.3002832]

Goncalves, C., Hittinger, C.T. & Rokas, A. "Horizontal gene transfer in fungi and its ecological importance." in Fungal Associations. vols. 9 59–81+ (Springer, 2024). [DOI: 10.1007/978-3-031-41648-4_3]

Grady, K.L. & Shade, A. "Bacterial isolate collection from switchgrass rhizosphere." Microbiology Resource Announcements 13,7, e01133–23+ (2024). [DOI: 10.1128/mra.01133-23]

Guber, A. & Kravchenko, A. "2-D soil zymography: accounting for the spatial variation of pH." Rhizosphere 29, 100862+ (2024). [DOI: 10.1016/j.rhisph.2024.100862]

Haan, N.L., Helms, J.A. & Landis, D. "Bioenergy cropping systems shape ant community composition and functional roles." Frontiers in Conservation Science 4, 1283225+ (2024). [DOI: 10.3389/fcosc.2023.1283225]

Hall, A.N., Hall, B.W., Kinney, K.J., Olsen, G.G., Banta, A.B., Noguera, D.R., Donohue, T.J. & Peters, J.M. "Tools for genetic engineering and gene expression control in Novosphingobium aromaticivorans and Rhodobacter sphaeroides." Applied and Environmental Microbiology 90,10, e00348–24+ (2024). [DOI: 10.1128/aem.00348-24]

Hao, Y., Lu, F., Pyo, S.-W., Kim, M.-H., Ko, J.-H., Yan, X., Ralph, J. & Li, Q. "PagMYB128 regulates secondary cell wall formation by direct activation of cell wall biosynthetic genes during wood formation in poplar." Journal of Integrative Plant Biology 66,8, 1658–1674+ (2024). [DOI: 10.1111/jipb.13717]

Harrison, M.-C., Opulente, D.A., Wolters, J.F., Shen, X.-X., Zhou, X., Groenewald, M., Hittinger, C.T., Rokas, A. & LaBella, A.L. "Exploring Saccharomycotina yeast ecology through an ecological ontology framework." Yeast 41,10, 615–628+ (2024). [DOI: 10.1002/yea.3981]

Harrison, M.-C., Ubbelohde, E.J., LaBella, A.L., Opulente, D.A., Wolters, J.F., Zhou, X., Shen, X.-X., Groenewald, M., Hittinger, C.T. & Rokas, A. "Machine learning enables identification of an alternative yeast galactose utilization pathway." Proceedings of the National Academy of Sciences of the United States of America 121,18, e2315314121+ (2024). [DOI: 10.1073/pnas.2315314121]

Hoang, D.Q., Wilson, L.R., Scheftgen, A.J., Suen, G. & Currie, C.R. "Disturbance-diversity relationships of microbial communities change based on growth substrate." mSystems 9,2, e00887–23+ (2024). [DOI: 10.1128/msystems.00887-23]

Hurt, A., Bibik, J.D., Martinez-Gomez, N.C. & Hamberger, B. "Engineering terpene production pathways in Methylobacterium extorquens AM1." Microorganisms 12,3, 500+ (2024). [DOI: 10.3390/microorganisms12030500]

Jamieson, Z., Clar, J.F. & Runge, T. "Cellulose nanofibers as rheological modifiers to improve biomass slurry processing and fermentation." Fermentation 10, 626+ (2024). [DOI: 10.3390/ fermentation10120626]

Jiao, Y., Nigam, D., Barry, K., Daum, C., Yoshinaga, Y., Lipzen, A., Khan, A., Parasa, S.-P., Wei, S., Lu, Z., et al. "A large sequenced mutant library – valuable reverse genetic resource that covers 98% of sorghum genes." The Plant Journal 117,5, 1543–1557+ (2024). [DOI: 10.1111/tpj.16582]

Karimzadegan, V., Koirala, M., Sobhanverdi, S., Merindol, N., Majhi, B.B., Gelinas, S.-E., Timokhin, V.I., Ralph, J., Dastmalchi, M. & Desgagne-Penix, I. "Characterization of cinnamate 4-hydroxylase (CYP73A) and p-coumaroyl 3’-hydroxylase (CYP98A) from Leucojum aestivum, a source of Amaryllidaceae alkaloids." Plant Physiology and Biochemistry 210, 108612+ (2024). [DOI: 10.1016/j.plaphy.2024.108612]

Karlen, S.D., Timokhin, V.I., Sener, C., Mobley, J.K., Runge, T. & Ralph, J. "Production of biomass-derived p-hydroxybenzamide: synthesis of p-aminophenol and paracetamol." ChemSusChem 17,8, e202400234+ (2024). [DOI: 10.1002/cssc.202400234]

Kfoury, B., Rodrigues, W.F.C., Kim, S.-J., Brandizzi, F. & Del-Bem, L.-E. "Multiple horizontal gene transfer events have shaped plant glycosyl hydrolase diversity and function." New Phytologist 242,2, 809–824+ (2024). [DOI: 10.1111/nph.19595]

Kim, B., Perez, J.M., Karlen, S.D., Coplien, J., Donohue, T.J. & Noguera, D.R. "Achieving high productivity of 2-pyrone-4,6-dicarboxylic acid from aqueous aromatic streams with Novosphingobium aromaticivorans." Green Chemistry 26,13, 7997–8009+ (2024). [DOI: 10.1039/D4GC01975J]

Kim, K., Juyal, A. & Kravchenko, A. "Soil pore characteristics and the fate of new switchgrass‐derived carbon in switchgrass and prairie bioenergy cropping systems." Scientific Reports 14, 7824+ (2024). [DOI: 10.1038/s41598-024-58444-6]

Kim, S., Dale, B.E. & Basso, B. "Uncertainties in greenhouse gas emission factors: a comprehensive analysis of switchgrass-based biofuel production." Global Change Biology – Bioenergy 16,8, e13179+ (2024). [DOI: 10.1111/gcbb.13179]

Ko, D.K. & Brandizzi, F. "Dynamics of ER stress-induced gene regulation in plants." Nature Reviews Genetics 25, 513–525+ (2024). [DOI: 10.1038/s41576-024-00710-4]