Publications

Lakey, B., Alberge, F. & Donohue, T.J. "Insights into Alphaproteobacterial regulators of cell envelope remodeling." Current Opinion in Microbiology 81, 102538+ (2024). [DOI: 10.1016/j.mib.2024.102538]

Lam, L.P.Y., Tobimatsu, Y., Suzuki, S., Tanaka, T., Yamamoto, S., Takeda-Kimura, Y., Osakabe, Y., Osakabe, K., Ralph, J., Bartley, L.E., et al. "Disruption of p-coumaroyl-CoA:monolignol transferases in rice drastically alters lignin composition." Plant Physiology 194,2, 832–848+ (2024). [DOI: 10.1093/plphys/kiad549]

Lamb, A., Kurtz, E., Glenn, P., McKinley, B.A. & Mullet, J. "Bioenergy sorghum nodal root bud development: morphometric, transcriptomic and gene regulatory network analysis." Frontiers in Plant Science 15, 1456627+ (2024). [DOI: 10.3389/fpls.2024.1456627]

Lancaster, N.M., Sinitcyn, P., Forny, P., Peters-Clarke, T.M., Fecher, C., Smith, A.J., Shishkova, E., Arrey, T.N., Pashkova, A., Robinson, M.L., et al. "Fast and deep phosphoproteome analysis with the Orbitrap Astral mass spectrometer." Nature Communications 15,1, 7016+ (2024). [DOI: 10.1038/s41467-024-51274-0]

Lee, J.H., Geers-Lucas, M., Guber, A.K. & Kravchenko, A.N. "Pore structures in detritusphere of soils under switchgrass and restored prairie vegetation community." Land Degradation & Development 35,18, 5817–5829+ (2024). [DOI: 10.1002/ldr.5333]

Lee, J.H., Ulbrich, T.C., Geers-Lucas, M., Robertson, P., Guber, A.K. & Kravchenko, A.N. "Very fine roots differ among switchgrass (Panicum virgatum L.) cultivars and differentially affect soil pores and carbon processes." Soil Biology and Biochemistry 199, 109610+ (2024). [DOI: 10.1016/j.soilbio.2024.109610]

Lei, C., Chen, J., Ibáñez, I., Sciusco, P., Shirkey, G., Lei, M., Reich, P. & Robertson, P. "Albedo of crops as a nature-based climate solution to global warming." Environmental Research Letters 19,8, 084032+ (2024). [DOI: 10.1088/1748-9326/ad5fa2]

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]

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]

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]

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]

Liu, C., Zhou, X., Li, Y., Hittinger, C.T., Pan, R., Huang, J., Chen, X.-X., 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]

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]

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]

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, e00845–24+ (2024). [DOI: 10.1128/mra.00845-24]

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, e01718–24+ (2024). [DOI: 10.1128/mbio.01718-24]

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, e04256–23+ (2024). [DOI: 10.1128/spectrum.04256-23]

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, e13125+ (2024). [DOI: 10.1111/gcbb.13125]

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, e00356–24+ (2024). [DOI: 10.1128/mra.00356-24]

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]

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]

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]

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, eadj4503+ (2024). [DOI: 10.1126/science.adj4503]

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]

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]