Publications

When it comes to interdisciplinary collaboration, the titles of GLBRC publications speak for themselves. Each new year of operation has seen more publications from multiple labs that span our research themes, accelerating the Center's production of the basic research that generates technology to convert cellulosic biomass to advanced biofuels and bioproducts.

Year	Publication	Keywords
2024	Li, J. & Van Lehn, R.C. "Effects of acid dissociation and ionic solutions on the aggregation of 2-pyrone-4,6-dicarboxylic acid." ACS Omega 9,39, 40759–40768+ (2024). [DOI: 10.1021/acsomega.4c05431] DOI Google Scholar
2024	Li, J., Van Lehn, R.C. & Maravelias, C.T. "An explainable classification framework for determining and understanding the suitability of solvent extraction for bioproduct recovery." ACS Sustainable Chemistry & Engineering 12,14, 5436–5446+ (2024). [DOI: 10.1021/acssuschemeng.3c07129] DOI Google Scholar
2024	Li, Z., Kravchenko, A.N., Cupples, A., Guber, A.K., Kuzyakov, Y., Robertson, P. & Blagodatskaya, E. "Composition and metabolism of microbial communities in soil pores." Nature Communications 15,1, 3578+ (2024). [DOI: 10.1038/s41467-024-47755-x] DOI Google Scholar
2024	Lindstrom, J.K., Peterson, C.A., Ciesielski, P.N., Ralph, J., Chen, M., Jakes, J.E., Johnston, P.A., Rollag, S.A. & Brown, R.C. "Structural and chemical changes in hardwood cell walls during early stages of flash pyrolysis." Frontiers in Energy Research 12, 1348464+ (2024). [DOI: 10.3389/fenrg.2024.1348464] DOI Google Scholar
2024	Liu, C., Zhou, X., Li, Y., Hittinger, C.T., Pan, R., Huang, J., Chen, X.-xin, Rokas, A., Chen, Y. & Shen, X.-X. "The influence of the number of tree searches on maximum likelihood inference in phylogenomics." Systematic Biology 73,5, 807–822+ (2024). [DOI: 10.1093/sysbio/syae031] DOI Google Scholar
2024	Mathieu, D., Bryson, A.E., Hamberger, B., Singan, V., Keymanesh, K., Wang, M., Barry, K., Mondo, S., Pangilinan, J., Koriabine, M., et al. "Multilevel analysis between Physcomitrium patens and Mortierellaceae endophytes explores potential long-standing interaction among land plants and fungi." The Plant Journal 118,2, 304-343+ (2024). [DOI: 10.1111/tpj.16605] DOI Google Scholar
2024	McDonald, M.A. & Maravelias, C.T. "Sequential decision-making under uncertainty for long-term energy transition planning." iScience 27,12, 111288+ (2024). [DOI: 10.1016/j.isci.2024.111288] DOI Google Scholar
2024	Metz, F., Myers, K.S., Lu, F., Noguera, D.R. & Donohue, T.J. "Transcriptomic data sets for Novosphingobium aromaticivorans grown with the β-5-linked aromatic dimer dehydrodiconiferyl alcohol and the related G-aromatic monomers vanillin and ferulic acid." Microbiology Resource Announcements 13,11, (2024). [DOI: 10.1128/mra.00845-24] DOI Google Scholar
2024	Metz, F., Olsen, A.M., Lu, F., Myers, K.S., Allemann, M.N., Michener, J.K., Noguera, D.R. & Donohue, T.J. "Catabolism of β-5 linked aromatics by Novosphingobium aromaticivorans." mBio 15,8, (2024). [DOI: 10.1128/mbio.01718-24] DOI Google Scholar
2024	Misra, J., Mettert, E.L. & Kiley, P.J. "Functional analysis of the methylerythritol phosphate pathway terminal enzymes IspG and IspH from Zymomonas mobilis." Microbiology Spectrum 12,7, (2024). [DOI: 10.1128/spectrum.04256-23] DOI Google Scholar
2024	Mosier, S., Kelly, L., Ozlu, E. & Robertson, P. "Switchgrass (Panicum virgatum L.) cultivars have similar impacts on soil carbon and nitrogen stocks and microbial function." Global Change Biology – Bioenergy 16,3, (2024). [DOI: 10.1111/gcbb.13125] DOI Google Scholar
2024	Myers, K.S., Place, M., Gasch, A.P., Noguera, D.R. & Donohue, T.J. "Auto-MuRCiS: a streamlined software package for analysis of multiplex, randomized CRISPR interference sequencing data." Microbiology Resource Announcements 13,9, (2024). [DOI: 10.1128/mra.00356-24] DOI Google Scholar
2024	Nishikawa, K.K., Chen, J., Acheson, J.F., Harbaugh, S.V., Huss, P., Frenkel, M., Novy, N., Sieren, H.R., Lodewyk, E.C., Lee, D.H., et al. "Highly multiplexed design of an allosteric transcription factor to sense new ligands." Nature Communications 15,1, 10001+ (2024). [DOI: 10.1038/s41467-024-54260-8] DOI Google Scholar
2024	O’Neill, E.G., Geissler, C.H. & Maravelias, C.T. "Large-scale spatially explicit analysis of carbon capture at cellulosic biorefineries." Nature Energy 9, 828–838+ (2024). [DOI: 10.1038/s41560-024-01532-8] DOI Google Scholar
2024	Omolabake, S., Holland, C., Dülger, D.N., Yuan, Z., Hegg, E.L., Hodge, D.B. & Stahl, S.S. "Recovery of p-hydroxybenzoic acid from Cu-catalyzed alkaline hydrogen peroxide pretreatment of hybrid poplar." ACS Sustainable Chemistry & Engineering 12,15, 5726–5730+ (2024). [DOI: 10.1021/acssuschemeng.3c08032] DOI Google Scholar
2024	Opulente, D.A., Labella, A.L., Harrison, M.-C., Wolters, J.F., Liu, C., Li, Y., Kominek, J., Steenwyk, J.L., Stoneman, H.R., VanDenAvond, J., et al. "Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts." Science 384,6694, (2024). [DOI: 10.1126/science.adj4503] DOI Google Scholar
2024	Parrell, D., Olson, J., Lemke, R.A., Donohue, T.J. & Wright, E.R. "Quantitative analysis of Rhodobacter sphaeroides storage organelles via cryo-electron tomography and light microscopy." Biomolecules 14,8, 1006+ (2024). [DOI: 10.3390/ biom14081006] DOI Google Scholar
2024	Pastor-Cantizano, N., Angelos, E.R., Ruberti, C., Jiang, T., Weng, X., Reagan, B.C., Haque, T., Juenger, T.E. & Brandizzi, F. "Programmed cell death regulator BAP2 is required for IRE1-mediated unfolded protein response in Arabidopsis." Nature Communications 15,1, 5804+ (2024). [DOI: 10.1038/s41467-024-50105-6] DOI Google Scholar
2024	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] DOI Google Scholar
2024	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] DOI Google Scholar
2024	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] DOI Google Scholar
2024	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] DOI Google Scholar
2024	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] DOI Google Scholar
2024	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] DOI Google Scholar
2024	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] DOI Google Scholar