CABBI Research Publications: 287 & Counting!

Volk, M.J., Tran, V.G., Tan, S.I., Mishra, S., Fatma, Z., Boob, A., Li, H., Xue, P., Martin, T.A., Zhao, H. Dec. 30, 2022. “Metabolic Engineering: Methodologies and Applications.” Chemical Reviews. DOI: 10.1021/acs.chemrev.2c00403.

Trieu, A., Belaffif, M., Hirannaiah, P., Manjunatha, S., Wood, R., Bathula, Y., Billingsley, R.L., Arpan, A., Sacks, E.J., Clemente, T.E., Moose, S.P., Reichert, N.A., Swaminathan, K. Dec 28, 2022. “Transformation and Gene Editing in the Bioenergy Grass Miscanthus.” Biotechnology for Biofuels and Bioproducts 15 (148). DOI: 10.1186/s13068-022-02241-8.
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Ploessl, D., Zhao, Y., Shao, Z. Dec. 28, 2022. “Engineering of Non-model Eukaryotes for Bioenergy and Biochemical Production.” Current Opinion in Biotechnology 79, 102869. DOI: 10.1016/j.copbio.2022.102869.

Deshavath, N.N., Dien, B.S., Slininger, P.J., Jin, Y.S., Singh, V. Dec. 21, 2022. “A Chemical-Free Pretreatment for Biosynthesis of Bioethanol and Lipids from Lignocellulosic Biomass: An Industrially Relevant 2G Biorefinery Approach.” Fermentation 9(1), 5. DOI: 10.3390/fermentation9010005. 
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Maitra, S., Viswanathan, M.B., Park, K., Kannan, B., Alfanar, S.C., McCoy, S.M., Cahoon, E.B., Altpeter, F., Leakey, A.D.B., Singh, V. Dec. 8, 2022. “Bioprocessing, Recovery, and Mass Balance of Vegetative Lipids from Metabolically Engineered ‘Oilcane’ Demonstrates Its Potential as an Alternative Feedstock for Drop-In Fuel Production.” ACS Sustainable Chemistry and Engineering. DOI: 10.1021/acssuschemeng.2c05327.
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Zhang, N., Sharma, B.P., Khanna, M. Dec. 7, 2022. “Determining Spatially Varying Profit-Maximizing Management Practices for Miscanthus and Switchgrass Production in the Rainfed United States.” GCB Bioenergy. DOI: 10.1111/gcbb.13021.

Banerjee, S., Singh, R., Singh. V. Dec. 5, 2022. “Bioenergy Crops as Alternative Feedstocks for Recovery of Anthocyanins: A Review.” Environmental Technology and Innovation. DOI: 10.1016/j.eti.2022.102977. 

Zhou, Y., Mirts, E.N., Yook, S., Waugh, M., Martini, R., Jin, Y.S., Lu, Y. Nov. 18, 2022. “Reshaping the 2-Pyrone Synthase Active Site for Chemoselective Biosynthesis of Polyketides.” Angewandte Chemie International Edition. DOI: 10.1002/anie.202212440.
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Varela, S., Zheng, X., Njuguna, J.N., Sacks, E.J., Allen, D.P., Ruhter, J., Leakey, A.D.B. Oct. 25, 2022. “Deep Convolutional Neural Networks Exploit High-Spatial- and -Temporal-Resolution Aerial Imagery to Phenotype Key Traits in Miscanthus.” Remote Sensing 2022, 14(21), 5333. DOI: 10.3390/rs14215333.
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Ridgeway, J., Morrissey, E., Brzostek, E. Oct. 23, 2022. “Plant Litter Traits Control Microbial Decomposition and Drive Soil Carbon Stabilization.” Soil Biology and Biochemistry. DOI: 10.1016/j.soilbio.2022.108857.
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Cortés-Peña, Y.R., Kurambhatti, C.V., Eilts, K., Singh, V., Guest, J.S. Oct. 13, 2022. “Economic and Environmental Sustainability of Vegetative Oil Extraction Strategies at Integrated Oilcane and Oil-Sorghum Biorefineries.” ACS Sustainable Chemistry and Engineering. DOI: 10.1021/acssuschemeng.2c04204.
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Cheng, M.H., Maitra, S., Carr Clennon, A.N., Appell, M., Dien. B.S., Singh, V. Oct. 12, 2022. “The Effects of Sequential Hydrothermal-Mechanical Refining Pretreatment on Cellulose Structure Changes and Sugar Recoveries.” Biomass Conversion and Biorefinery. DOI: 10.1007/s13399-022-03359-3.
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Bendorf, J., Heaton, E., Hartman, T., Aslan-Sungur, G., VanLoocke, A. Oct. 10, 2022. “Agroecosystem Model Simulations Reveal Spatial Variability in Relative Productivity in Biomass Sorghum and Maize for Energy in Iowa, USA.” GCB Bioenergy. DOI: 10.1111/gcbb.13004.
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Tejera, M., Boersma, N.N., Archontoulis, S.V., Miguez, F.E., VanLoocke, A., Heaton, E.A. Oct. 4, 2022. “Photosynthetic Decline in Aging Perennial Grass is Not Fully Explained by Leaf Nitrogen.” Journal of Experimental Botany. DOI: 10.1093/jxb/erac382. 
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Maitra, S., Singh, V. Oct. 3, 2022. “A Consolidated Bioprocess Design to Produce Multiple High-Value Platform Chemicals from Lignocellulosic Biomass and Its Technoeconomic Feasibility.” Journal of Cleaner Production 377(2022):134383. DOI: 10.1016/j.jclepro.2022.134383.
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Lee, Y.G., Kim, C., Kuanyshev, N., Kang, N.K., Fatma, Z., Wu, Z.Y., Cheng, M.H., Singh, V., Yoshikuni, Y., Zhao, H., Jin, Y.S. Sept. 19, 2022. “Cas9-Based Metabolic Engineering of Issatchenkia orientalis for Enhanced Utilization of Cellulosic Hydrolysates.” Journal of Agriculture and Food Chemistry. DOI: 10.1021/acs.jafc.2c04251.
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Li, S., Moller, C.A., Mitchell, N.G., Martin, D.G., Sacks, E.J., Saikia, S., Labonte, N.R., Baldwin, B.S., Morrison, J.I., Ferguson, J.N., Leakey, A.D.B., Ainsworth, E.A. Sept. 13, 2022. “The Leaf Economics Spectrum of Triploid and Tetraploid C₄ Grass Miscanthus x giganteus.” Plant, Cell & Environment. DOI: 10.1111/pce.14433.
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Wang, Y., Stutz, S.S., Boyd, R.A., Bernacchi, C.J., Ort, D.R., Long, S.P. Sept. 13, 2022. “Increased Bundle Sheath Leakiness of CO₂ During Photosynthetic Induction Shows a Lack of Coordination between the C₄ and C₃ Cycles.” New Phytologist. DOI: 10.1111/nph.18485.
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Lee, J.W., Bhagwat, S.S., Kuanyshev, N., Cho, Y.B., Sun, L., Lee, Y.G., Cortés-Peña, Y.R., Li, Y., Rao, C.V., Guest, J.S., Jin, Y.S. Aug. 29, 2022. “Rewiring Yeast Metabolism for Producing 2,3-Butanediol and Two Downstream Applications: Techno-Economic Analysis and Life Cycle Assessment of Methyl Ethyl Ketone (MEK) and Agricultural Biostimulant Production.” Chemical Engineering Journal 451(2023):138886. DOI: 10.1016/j.cej.2022.138886.
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Zhong, J., Khanna M. Aug. 23, 2022. “Assessing the Efficiency Implications of Renewable Fuel Policy Design in the United States.” Journal of the Agricultural and Applied Economics Association. DOI: 10.1002/jaa2.23.
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Singh, R., Bhagwat, S.S., Viswanathan, M.B., Cortés-Peña, Y.R., Eilts, K.K., McDonough, G., Cao, M., Guest, J.S., Zhao, H., Singh, V. Aug. 19, 2022. “Adsorptive Separation and Recovery of Triacetic Acid Lactone from Fermentation Broth.” Biofuels, Bioproducts & Biorefining. DOI: 10.1002/bbb.2427.

Xiao, T., Khan, A., Shen, Y., Chen, L., Rabinowitz, J.D. Aug. 15, 2022. “Glucose Feeds the Tricarboxylic Acid Cycle via Excreted Ethanol in Fermenting Yeast.” Nature Chemical Biology 18, 1380-1387. DOI: 10.1038/s41589-022-01091-7.

Banerjee, S., Singh, R., Eilts, K., Sacks, E.J., Singh, V. Aug. 10, 2022. “Valorization of Miscanthus x giganteus for Sustainable Recovery of Anthocyanins and Enhanced Production of Sugars.” Journal of Cleaner Production 369 (2022):133508. DOI: 10.1016/j.jclepro.2022.133508.
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Singh, R., Dien, B., Singh, V. July 31, 2022. “Solvent-Free Enzymatic Esterification of Free Fatty Acids with Glycerol for Biodiesel Application Optimized Using the Taguchi Experimental Method.” Journal of the American Oil Chemists’ Society 99:781-790. DOI: 10.1002/aocs.12633.

Deewan, A., Liu, J.J., Jagtap, S.S., Yun, E.J., Walukiewicz, H., Jin, Y.S., Rao, C.V. July 30, 2022. “System Analysis of Lipomyces starkeyi During Growth on Various Plant-Based Sugars.” Applied Microbiology and Biotechnology. DOI: 10.1007/s00253-022-12084-w.
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Gan, L., Park, K., Chai, J., Updike, E.M., Kim, H., Voshall, A., Behera, S., Yu, X., Cai, Y., Zhang, C., Wilson, M.A., Mower, J.P., Moriyama, E.N., Zhang, C., Kaewsuwan, S., Liu, Q., Shanklin, J., Cahoon, E.B. July 22, 2022. “Divergent Evolution of Extreme Production of Variant Plant Monounsaturated Fatty Acids.” PNAS. DOI: 10.1073/pnas.2201160119.
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Cai, Y., Zhai, Z., Keereetaweep, J., Liu, H., Shi, H., Schwender, J., Xu, C., Shanklin, J. July 18, 2022. “Purple Acid Phosphatase2 Stimulates a Futile Cycle of Lipid Synthesis and Degradation and Mitigates the Negative Growth Effects of Triacylglycerol Accumulation in Vegetative Tissues.” New Phytologist. DOI: 10.1111/nph.18392.
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Yang, P., Cai, X., Hu, X., Zhao, Q., Lee, Y., Khanna, M., Cortes-Peña, Y.R., Guest, J.S., Kent, J., Hudiburg, T.W., Du, E., John, S., Iutzi, F. July 8, 2022. “An Agent-Based Modeling Tool Supporting Bioenergy and Bio-Product Community Communication Regarding Cellulosic Bioeconomy Development.” Renewable and Sustainable Energy Reviews. DOI: 10.1016/j.rser.2022.112745.
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Mou, Q., Xue, X., Ma, Y., Banik, M., Garcia, V., Guo, W., Wang, J., Song, T., Chen, L.Q., Lu, Y. June 29, 2022. “Efficient Delivery of a DNA Aptamer-Based Biosensor into Plant Cells for Glucose Sensing through Thiol-Mediated Uptake.” Science Advances 8:26. DOI: 10.1126/sciadv.abo0902. 
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Scott, S., Cahoon, E.B., Busta, L. June 24, 2022. “Variation on a Theme: The Structures and Biosynthesis of Specialized Fatty Acid Natural Products in Plants.” The Plant Journal. DOI: 10.1111/tpj.15878.

Wu, G., Guan, K., Jiang, C., Kimm, H., Miao, G., Bernacchi, C.J., Moore, C.E., Ainsworth, E.A., Yang, X., Berry, J.A., Frankenberg, C., Chen, M. June 21, 2022. “Attributing Differences of Solar-Induced Chlorophyll Fluorescence (SIF)-Gross Primary Production (GPP) Relationships Between Two C₄ Crops: Corn and Miscanthus.” Agricultural and Forest Meteorology 323:109046. DOI: 10.1016/j.agrformet.2022.109046.

Cao, M., Tran, V., Qin, J., Olson, A., Mishra, S., Schultz, J.C., Huang, C., Xie, D., Zhao, H. June 14, 2022. “Metabolic Engineering of Oleaginous Yeast Rhodotorula toruloides for Overproduction of Triacetic Acid Lactone.” Biotechnology and Bioengineering 2022:1-12. DOI: 10.1002/bit.28159. 
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Yun, D., Zhang, Z., Flaherty, D.W. June 10, 2022. “Catalyst and Reactor Design Considerations for Selective Production of Acids by Oxidative Cleavage of Alkenes with H₂O₂.” Reaction Chemistry and Engineering. DOI: 10.1039/D2RE00160H.
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Tan, L.R., Liu, J.J., Deewan, A., Lee, J.W., Xia, P. F., Rao, C.V., Jin, Y.S., Wang, S.G. May 31, 2022. “Genome-Wide Transcriptional Regulation in Saccharomyces cerevisiae in Response to Carbon Dioxide.” FEMS Yeast Research. DOI: 10.1093/femsyr/foac032.
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Suthers, P.F., Maranas, C.D. May 23, 2022. “Examining Organic Acid Production Potential and Growth-Coupled Strategies in Issatchenkia orientalis Using Constraint-Based Modeling.” Biotechnology Progress. DOI: 10.1002/btpr.3276.

Deter, H., Lu, T. May 21, 2022. “Engineering Microbial Consortia with Rationally Designed Cellular Interactions.” Current Opinion in Biotechnology. DOI: 10.1016/j.copbio.2022.102730.

Enghiad, B., Xue, P., Singh, N., Boob, A.G., Shi, C., Petrov, V.A., Liu, R., Peri, S.S., Lane, S.T., Gaither, E.D., Zhao, H. May 16, 2022. “PlasmidMaker is a Versatile, Automated, and High Throughput End-to-End Platform for Plasmid Construction.” Nature Communications 13, 2697. DOI: 10.1038/s41467-022-30355-y.
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Huang, X., Feng, J., Cui, J., Jiang, G., Harrison, W., Zang, X., Zhou, J., Wang, B., Zhao, H. May 2, 2022. “Photoinduced Chemomimetic Biocatalysis for Enantioselective Intermolecular Radical Conjugate Addition.” Nature Catalysis. DOI: 10.1038/s41929-022-00777-4.
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Maitra, S., Long, S.P., Singh, V. April 27, 2022. “Optimizing Chemical-Free Pretreatment for Maximizing Oil/Lipid Recovery from Transgenic Bioenergy Crops and its Rapid Analysis Using Time Domain-NMR.” Frontiers in Energy Research. DOI: 10.3389/fenrg.2022.840418.
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Jagtap, S.S., Liu, J.J., Walukiewicz, H.E., Pangilinan, J., Lipzen, A., Ahrendt, S., Koriabine, M., Cobaugh, K., Salamov, A., Yoshinaga, Y., Ng, V., Daum, C., Grigoriev, I.V., Slininger, P.J., Dien, B.S., Jin, Y.S., Rao, C.V. April 20, 2022. “Near-Complete Genome Sequence of Zygosaccharomyces rouxii NRRL Y-64007, a Yeast Capable of Growing on Lignocellulosic Hydrolysates.” Microbiology Resource Announcements. DOI: 10.1128/mra.00050-22.
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Moore, C.E., Gibson, C.D., Miao, G., Dracup, E.C., Gomez-Casanovas, N., Masters, M.D., Miller, J., von Haden, A., Meyers, T., DeLucia, E.H., Bernacchi, C.J. April 11, 2022. “Substantial Carbon Loss Respired from a Corn-Soybean Agroecosystem Highlights the Importance of Careful Management as we Adapt to Changing Climate.” Environmental Research Letters. DOI: 10.1088/1748-9326/ac661a.
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Harrison, W., Huang, X., Zhao, H. March 30, 2022. “Photobiocatalysis for Abiological Transformations.” Accounts of Chemical Research. DOI: 10.1021/acs.accounts.1c00719.

Jia, Y., Kumar, D., Winkler-Moser, J.K., Dien, B., Rausch, K., Tumbleson, M.E., Singh. V. March 29, 2022. “Coprocessing Corn Germ Meal for Oil Recovery and Ethanol Production: A Process Model for Lipid-Producing Energy Crops.” Processes 10:661. DOI: 10.3390/pr10040661.
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Yan, Q., Cordell, W.T., Jindra, M.A., Courtney, D.K., Kuckuk, M.K., Chen, X., Pfleger, B.F. March 25, 2022. “Metabolic Engineering Strategies to Produce Medium-Chain Oleochemicals via Acyl-ACP:CoA Transacylase Activity.” Nature Communications 13:1619. DOI: 10.1038/s41467-022-29218-3.
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Kantola, I.B., Masters, M.D., Blanc-Betes, E., Gomez-Casanovas, N., DeLucia, E.H. March 23, 2022. “Long-Term Yields in Annual and Perennial Bioenergy Crops in the Midwestern United States.” GCB Bioenergy. DOI:10.1111/gcbb.12940.
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Namoi, N., Jang, C., Robins, Z., Lin, C.H., Lim, S.H., Voigt, T., Lee, D.K. March 14, 2022. “Aerial Imagery Can Detect Nitrogen Fertilizer Effects on Biomass and Stand Health of Miscanthus x giganteus.” Remote Sensing. DOI: 10.3390/rs14061435.
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Busta, L., Chapman, K.D., Cahoon, E.B. Feb 24, 2022. “Better Together: Protein Partnerships for Lineage-Specific Oil Accumulation.” Current Opinion in Plant Biology. DOI: 10.1016/j.pbi.2022.102191.

Yang, P., Piao, X., Cai, X. Feb. 22, 2022. “Water Availability for Biorefineries in the Contiguous United States and the Implications for Bioenergy Production Distribution.” Environmental Science & Technology. DOI: 10.1021/acs.est.1c07747.
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Schultz, J.C., Mishra, S., Gaither, E., Mejia, A., Dinh, H., Maranas, C., Zhao, H. Feb. 19, 2022. “Metabolic Engineering of Rhodotorula toruloides IFO0880 Improves C16 and C18 Fatty Alcohol Production from Synthetic Media.” Microbial Cell Factories 21:26. DOI: 10.1186/s12934-022-01750-3.
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Clark, T.J., Schwender, J. Feb. 17, 2022. “Elucidation of Triacylglycerol Overproduction in the C₄ Bioenergy Crop Sorghum bicolor by Constraint-Based Analysis.” Frontiers in Plant Science. DOI: 10.3389/fpls.2022.787265.
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Paul, H.M., Istanto, D.D., Heldenbrand, J., Hudson, M.E. Feb. 16, 2022. “CROPSR: An Automated Platform for Complex Genome-Wide CRISPR gRNA Design and Validation.” BMC Bioinformatics 23: 74. DOI: 10.1186/s12859-022-04593-2.
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Yang, J., Lee, J., Choi, J., Ma, L., Heaton, E., Howe, A. Feb. 16, 2022. “Response of Total (DNA) and Metabolically Active (RNA) Microbial Communities in Miscanthus x giganteus Cultivated Soil to Different Nitrogen Fertilization Rates.” Microbiology Spectrum. DOI:10.1128/spectrum.02116-21.
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Sharma, B.P., Zhang, N., Lee, D.K., Heaton, E.A., DeLucia, E.H., Sacks, E.J., Kantola, I.B., Boersma, N.N., Long, S.P., Voigt, T.B., Khanna, M. Feb. 14, 2022. “Responsiveness of Miscanthus and Switchgrass Yields to Stand Age and Nitrogen Fertilization: A Meta-Regression Analysis.” GCB Bioenergy. DOI: 10.1111/gcbb.12929.
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York, L.M., Cumming, J.R., Trusiak, A., Bonito, G., von Haden, A.C., Kalluri, U., Tiemann, L.K., Andeer, P.F., Blanc-Betes, E., Diab, J.H., Favela, A., Germon, A., Gomez-Casanovas, N., Hyde, C.A., Kent, A.D., Ko, D.K., Lamb, A., Missaoui, A.M., Northen, T.R., Pu, Y., Ragauskas, A.J., Raglin, S., Scheller, H.V., Washington, L., Yang, W. Feb. 11, 2022. “Bioenergy Underground: Challenges and Opportunities for Phenotyping Roots and the Microbiome for Sustainable Bioenergy Crop Production.” The Plant Phenome Journal. DOI: 10.1002/ppj2.20028.

Varela, S., Pederson, T., Bernacchi, C.J., Leakey, A.D.B. Feb. 4, 2022. “Implementing Spatio-Temporal 3D-Convolution Neural Networks and UAV Time Series Imagery to Better Predict Lodging Damage in Sorghum.” Remote Sensing 14(3): 733. DOI: 10.3390/rs14030733.
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Li, S., Moller, C.A., Mitchell, N.G., Lee, D.K., Sacks, E.J., Ainsworth, E.A. Jan. 28, 2022. “Testing Unified Theories for Ozone Response in C₄ Species.” Global Change Biology. DOI: 10.1111/gcb.16108.
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Labhishetty, S., Lourentzou, I., Volk, M.J., Mishra, S., Zhao, H., Zhai, C. Jan. 14, 2022. “TriGORank: A Gene Ontology Enriched Learning-to-Rank Framework for Trigenic Fitness Prediction.” 2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). DOI: 10.1109/BIBM52615.2021.9669503.

Juice, S.M., Walter, C.A., Allen, K.A., Berardi, D., Hudiburg, T.W., Sulman, B.N., Brzostek, E.R. Jan. 12, 2022. “A New Bioenergy Model that Simulates the Impacts of Plant-Microbial Interactions, Soil Carbon Protection, and Mechanistic Tillage on Soil Carbon Cycling.” GCB Bioenergy. DOI: 10.1111/gcbb.12914.
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Xu, C., Fan, J. Jan 10, 2022. “Links between Autophagy and Lipid Droplet Dynamics.” Journal of Experimental Botany. DOI: 10.1093/jxb/erac003.

Zhang, Z., Berdugo-Díaz, C.E., Bregante, D.T., Zhang, H., Flaherty, D.W. Jan. 10, 2022. “Aldol Condensation and Esterification over Ti-Substituted *BEA Zeolite: Mechanisms and Effects of Pore Hydrophobicity.” ACS Catalysis 2022, 12: 1481-1496. DOI: 10.1021/acscatal.1c04518.

Burnham, M.B., Simon, S.J., Lee, D.K., Kent, A.D., DeLucia, E.H., Yang, W.H. Jan. 7, 2022. “Intra- and Inter-Annual Variability of Nitrification in the Rhizosphere of Field-Grown Bioenergy Sorghum.” GCB Bioenergy. DOI: 10.1111/gcbb.12917.
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Banerjee, D., Jindra, M.A., Linot, A.J., Pfleger, B.F., Maranas, C.D. Dec. 16, 2021. “EnZymClass: Substrate Specificity Prediction Tool of Plant Acyl-ACP Thioesterases Based on Ensemble Learning.” Current Research in Biotechnology 4: 1-9. DOI: 10.1016/j.crbiot.2021.12.002.
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Schultz, C.J., Cao, M., Mejia, A., Zhao, H. Dec. 13, 2021. “CUT&RUN Identifies Centromeric DNA Regions of Rhodosporidium toruloides IFO0880.” FEMS Yeast Research 8(21). DOI: 10.1093/femsyr/foab066.
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Khanna, M., Miao, R. Dec. 1, 2021. “Inducing the Adoption of Emerging Technologies for Sustainable Intensification of Food and Renewable Energy Production: Insights from Applied Economics.” The Australian Journal of Agricultural and Resource Economics. DOI: 10.1111/1467-8489.12461.

Bhagwat, S.S., Li, Y., Cortes-Peña, Y.R., Brace, E.C., Martin, T.A., Zhao, H., Guest, J.S. Nov. 29, 2021. “Sustainable Production of Acrylic Acid via 3-Hydroxypropionic Acid from Lignocellulosic Biomass.” ACS Sustainable Chemistry and Engineering. DOI:10.1021/acssuschemeng.1c05441.
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Yang, P., Cai, X., Leibensperger, C., Khanna M. Oct. 30, 2021. “Adoption of Perennial Energy Crops in the U.S. Midwest: Causal and Heterogeneous Determinants.” Biomass and Bioenergy 155: 106275. DOI: 10.1016/j.biombioe.2021.106275.
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Chen, L., Lu, W., Wang, L., Xing, X., Teng, X., Zeng, X., Muscarella, A.D., Shen, Y., Cowan, A., McReynolds, M.R., Kennedy, B., Lato, A.M., Campagna, S.R., Singh, M., Rabinowitz, J.D. Oct. 28, 2021. “Metabolite Discovery through Global Annotation of Untargeted Metabolomics Data.” Nature Methods 18: 1377-1385. DOI: 10.1101/2021.01.06.425569.

Dinh, H.V., Sarkar, D., Maranas, C.D. Oct. 27, 2021. “Quantifying the Propagation of Parametric Uncertainty on Flux Balance Analysis.” Metabolic Engineering 69: 26-39. DOI: 10.1016/j.ymben.2021.10.012.

Bendorf, J., Hubbard, S., Kucharik, C.J., VanLoocke, A. Oct. 21, 2021. “Rapid Changes in Agricultural Land Use and Hydrology in the Driftless Region.” Agrosystems, Geosciences, & Environment. DOI: 10.1002/agg2.20214.
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Singh, R., Singh, V. Oct. 15, 2021. “Integrated Biorefinery for Valorization of Engineered Bioenergy Crops — A Review.” Industrial Biotechnology 17(5): 271-282. DOI: 10.1089/ind.2021.0020.

Howe, A.C., Bonito, G., Chou, M.Y., Cregger, M.A., Fedders, A., Field, J.L., Martin, H.G., Labbe, J.L., Mechan, M.E., Northen, T.R., Shade, A., Tschaplinski, T.J., Oct. 5, 2021. “Frontiers and Opportunities in Bioenergy Crop Microbiome Research Networks.” Phytobiomes. DOI:10.1094/PBIOMES-05-21-0033-MR.

Luo, Y., Jiang, G., Yu, T., Liu, Y., Vo, L., Ding, H., Su, Y., Qian, W.W., Zhao, H., Peng, J. Sept. 30, 2021. “ECNet is an Evolutionary Context-Integrated Deep Learning Framework for Protein Engineering.” Nature Communications 12, 5743. DOI: 10.1038/s41467-021-25976-8.
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Jagtap S.S., Bedekar, A.A., Singh V., Jin, Y.S., Rao, C.V. Sept. 25, 2021. “Metabolic Engineering of the Oleaginous Yeast Yarrowia lipolytica PO1f for Production of Erythritol from Glycerol.” Biotechnology for Biofuels 14,188. DOI: 10.1186/s13068-021-02039-0.
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Montes, C.M., Demler, H.J., Li, S., Martin, D.G., Ainsworth, E.A. Sept. 23, 2021. “Approaches to Investigate Crop Responses to Ozone Pollution: From O₃‐FACE to Satellite‐Enabled Modeling.” The Plant Journal. DOI: 10.1111/tpj.15501

Parikh, A., Brant, E.J., Baloglu, M.C., Altpeter, F. Sept. 22, 2021. “CRISPR/Cas-Mediated Genome Editing in Sorghum — Recent progress, Challenges, and Prospects.” In Vitro Plant and Developmental Biology 57, 720-730. DOI: 10.1007/s11627-021-10215-y

Liu, J., Villanueva, P., Choi, J., Gunturu, S., Ouyang, Y., Tiemann, L.K., Cole, J.R., Glanville, K.R., Hall, S.J., McDaniel, M.D., Lee, J., Howe, A., Sept. 21, 2021. “MetaFunPrimer: an Environment-Specific, High-Throughput Primer Design Tool for Improved Quantification of Target Genes.” mSystems. DOI:10.1128/mSystems.00201-21.
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Tran, V., Zhao, H. Sept. 21, 2021. “Engineering Robust Microorganisms for Organic Acid Production.” Journal of Industrial Microbiology and Biotechnology. DOI: 10.1093/jimb/kuab067.

Dibaeinia, P., Sinha, S. Sept. 11, 2021. “Deciphering Enhancer Sequence Using Thermodynamics-Based Models and Convolutional Neural Networks.” Nucleic Acids Research 49(18): 10309-10327. DOI: 10.1093/nar/gkab765.

Jagtap S.S., Deewan A., Liu J.J., Walukiewicz H.E., Yun E.J., Jin Y.S., Rao C.V. Sept. 7, 2021. “Integrating Transcriptomic and Metabolomic Analysis of the Oleaginous Yeast Rhodosporidium toruloides IFO0880 During Growth under Different Carbon Sources.” Applied Microbiology and Biotechnology. DOI: 10.1007/s00253-021-11549-8.
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Singh, R., Liu, H., Shanklin, J., Singh, V. Aug. 21, 2021. “Hydrothermal Pretreatment for Valorization of Genetically Engineered Bioenergy Crop for Lipid and Cellulosic Sugar Recovery.” Bioresource Technology 341, 125817. DOI: 10.1016/j.biortech.2021.125817.
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Kuanyshev, N., Deewan, A., Jagtap, S.S., Liu, J., Selvam, B., Chen, L.Q., Shukla, D., Rao, C.V., Jin, Y.S. Aug. 21, 2021. “Identification and Analysis of Sugar Transporters Capable of Co-Transporting Glucose and Xylose Simultaneously.” Biotechnology Journal 2021, 2100238. DOI: 10.1002/biot.202100238.
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Sun, L., Lee, J.W., Yook, S., Lane, S., Sun, Z., Kim, S.R., Jin, Y.S. Aug. 17, 2021. “Complete and Efficient Conversion of Plant Cell Wall Hemicellulose into High-Value Bioproducts by Engineered Yeast.” Nature Communications 12, 4975. DOI: 10.1038/s41467-021-25241-y.
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Kang, N.K., Lee, J.W., Ort, D.R., Jin, Y.S. Aug. 13, 2021. “L-malic Acid Production from Xylose by Engineered Saccharomyces cerevisiae.” Biotechnology Journal. DOI: 10.1002/biot.202000431.

Lopez, C., Cao, M., Yao, Z., Shao, Z. Aug. 6, 2021. “Revisiting the Unique Structure of Autonomously Replicating Sequences in Yarrowia lipolytica and its Role in Pathway Engineering.” Applied Microbiology and Biotechnology 105(14):5959-5972. DOI: 10.1007/s00253-021-11399-4.

BOOK CHAPTER — Si, T., Xue, P., Choe, K., Zhao, H., Sweedler, J. Aug. 6, 2021. “High-Throughput Mass Spectrometry Complements Protein Engineering.” Protein Engineering: Tools and Applications. (Zhao, H., ed.) 57-79, Wiley-VCH, 2021. ISBN: 9783527344703. DOI: 10.1002/9783527815128.ch3.

BOOK CHAPTER — Harnden, K., Wang, Y., Vo, L., Zhao, H., Lu, Y. Aug. 6, 2021. “Engineering Artificial Metalloenzymes.” Protein Engineering: Tools and Applications. (Zhao, H., ed.) 177-205, Wiley-VCH, 2021. ISBN: 9783527344703. DOI: 10.1002/9783527815128.ch8.

Khanna, M., Chen, L., Basso, B., Cai, X., Field, J.L., Guan, K., Jiang, C., Lark, T.J., Richard, T.L., Spawn-Lee, S.A., Yang, P., Zipp, K.Y. Aug. 3, 2021. “Redefining Marginal Lands for Bioenergy Crop Production.” GCB Bioenergy. DOI: 10.1111/gcbb.12877.
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Brant, E.J., Baloglu, M.C., Parikh, A., Altpeter, F. Aug. 3, 2021. “CRISPR/Cas9 Mediated Targeted Mutagenesis of LIGULELESS-1 in Sorghum Provides a Rapidly Scorable Phenotype by Altering Leaf Inclination Angle.” Biotechnology Journal. DOI: 10.1002/biot.202100237.
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von Haden, A.C., Burnham, M.B., Yang, W.H., DeLucia, E.H. July 31, 2021. “Comparative Establishment and Yield of Bioenergy Sorghum and Maize Following Pre-Emergence Waterlogging.” Agronomy Journal. DOI: 10.1002/agj2.20832.
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Park, K., Sanjaya, S.A., Quach, T., Cahoon, E.B. July 26, 2021. “Toward Sustainable Production of Value-Added Bioenergy and Industrial Oils in Oilseed and Biomass Feedstocks.” GCB Bioenergy 13 (10), 1610-1623. DOI: 10.1111/gcbb.12883

Jiang, C., Guan, K., Khanna, M., Chen, L., Peng, J. July 23, 2021. “Assessing Marginal Land Availability Based on Land Use Change Information in the Contiguous United States.” Environmental Science & Technology. DOI: 10.1021/acs.est.1c02236.
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Wedow, J.M., Ainsworth, E.A., Li, S. July 22, 2021. “Plant Biochemistry Influences Tropospheric Ozone Formation, Destruction, Deposition, and Response.” Trends in Biochemical Sciences. DOI: 10.1016/j.tibs.2021.06.007.

Lee, J.W., Lee, Y.G., Jin, Y.S., Rao, C.V. July 21, 2021. “Metabolic Engineering of Non-Pathogenic Microorganisms for 2,3-Butanediol Production.” Applied Microbiology and Biotechnology. DOI: 10.1007/s00253-021-11436-2.

BOOK CHAPTER — Waugh, M.W., Dwaraknath, S., Lu, Y. July 20, 2021. “Advances in Metalloprotein Design and Engineering: Strategies Employed and Insights Gained.” Comprehensive Coordination Chemistry III Vol. 8, 900–928. ISBN: 9780081026885. DOI: 10.1016/B978-0-08-102688-5.00073-8.

Dong, C., Shi, Z., Huang, L., Zhao, H., Xu, Z., Lian, J. July 17, 2021. “Cloning and Characterization of a Panel of Mitochondrial Targeting Sequences for Compartmentalization Engineering in Saccharomyces cerevisiae.” Biotechnology and Bioengineering 118(11): 4269-4277. DOI: 10.1002/bit.27896.

Edmonds, P., Franz, K.J., Heaton, E.A., Kaleita, A., Soupir, M., VanLoocke, A. July 14, 2021. “Planting Miscanthus Instead of Row Crops May Increase the Productivity and Economic Performance of Farmed Potholes.” GCB Bioenergy. DOI: 10.1111/gcbb.12870.
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Oz, M.T., Altpeter, A., Karan, R., Merotto, A., Altpeter, F. July 8, 2021. “CRISPR/Cas9-Mediated Multi-Allelic Gene Targeting in Sugarcane Confers Herbicide Tolerance.” Frontiers in Genome Editing 3: 67356. DOI: 10.3389/fgeed.2021.673566.
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Studt, J.E., McDaniel, M.D., Tejera, M.D., VanLoocke, A., Howe, A., Heaton, E.A. June 26, 2021. “Soil Net Nitrogen Mineralization and Leaching under Miscanthus x giganteus and Zea mays.” GCB Bioenergy. DOI: 10.1111/gcbb.12875.
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Lyu, M., Kong, L., Yang, Z., Wu, Y., McGhee, C.E., Lu, Y. June 22, 2021. “PNA-Assisted DNAzymes to Cleave Double-Stranded DNA for Genetic Engineering with High Sequence Fidelity.” Journal of the American Chemical Society. DOI: 10.1021/jacs.1c03129.
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Liu, J.J., Woodruff, W., Deewan, A., Jagtap, S.S., Yun, E.J., Walukiewicz, H.E., Jin, Y.S., Rao, C.V. June 21, 2021. “Investigating the Role of Transcriptional Regulator Ure2 on the Metabolism of Saccharomyces cerevisiae: A Multi-Omics Approach.” Applied Microbiology and Biotechnology 105(12):5103–5112. DOI: 10.1007/s00253-021-11394-9.

Cheng, M.H., Dien, B.S., Jin, Y.S., Thompson, S., Shin, J., Watson Slininger, P.J., Qureshi, N., Singh, V. June 14, 2021. “Conversion of High-Solids Hydrothermally Pretreated Bioenergy Sorghum to Lipids and Ethanol Using Yeast Cultures.” ACS Sustainable Chemistry and Engineering. DOI: 10.1021/acssuschemeng.1c01629.
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Singh, R., Dien, B.S., Singh, V. June 9, 2021. “Response Surface Methodology Guided Adsorption and Recovery of Free Fatty Acids from Oil Using Resin.” Biofuels, Bioproducts, and Biorefining 15(5):1485-1495. DOI: 10.1002/bbb.2255.

Wang, Y., Chan, K.X., Long, S. June 4, 2021. “Towards a Dynamic Photosynthesis Model to Guide Yield Improvement in C4 Crops.” The Plant Journal 107(2): 341-342. DOI: 10.1111/tpj.15365.
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Viswanathan, M.B., Cheng, M.H., Clemente, T.E., Dweikat, I., Singh, V. May 25, 2021. “Economic Perspective on Ethanol and Biodiesel Coproduction from Industrial Hemp.” Journal of Cleaner Production (299): 126875. DOI: 10.1016/j.jclepro.2021.126875.
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McClelland, D.J., Wang, B., Cordell, W., Cortes-Peña, Y., Gilcher, E.B., Zhang, L., Guest, J.S., Pfleger, B.F., Huber, G., Dumesic, J.A. May 4, 2021. “Renewable Linear Alpha-Olefins by Base-Catalyzed Dehydration of Biologically-Derived Fatty Alcohols.” Green Chemistry. DOI: 10.1039/D1GC00243K.
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Varela, S., Pederson, T., Bernacchi, C.J., Leakey, A.D.B. May 1, 2021. “Understanding growth Dynamics and Yield Prediction of Sorghum Using High Temporal Resolution UAV Imagery Time Series and Machine Learning.” Remote Sensing 13 (9), 1763. DOI: 10.3390/rs13091763.
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Johnson, A., Stadlmeier, M., Wühr, M. April 30, 2021. “TMTpro Complementary Ion Quantification Increases Plexing and Sensitivity for Accurate Multiplexed Proteomics at the MS2 Level.” Journal of Proteome Research (20) 6: 3043–3052. DOI: 10.1021/acs.jproteome.0c00813.
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Jaikumar, N.S., Stutz, S.S., Fernandes, S.B., Leakey, A.D.B., Bernacchi, C.J., Brown, P.J., Long, S.P. April 29, 2021. “Can Improved Canopy Light Transmission Ameliorate Loss of Photosynthetic Efficiency in the Shade? An Investigation of Natural Variation in Sorghum bicolor.” Journal of Experimental Botany 72.13 (June 2021): 4965-4980. DOI: 10.1093/jxb/erab176.

Eid, A., Mohan, C., Sanchez, S., Wang, D., Altpeter, F. April 29, 2021. “Multiallelic, Targeted Mutagenesis of Magnesium Chelatase with CRISPR-Cas9 Provides a Rapidly Scorable Phenotype in Highly Polyploid Sugarcane.” Frontiers in Genome Editing 3: 654996. DOI: 10.3389/fgeed.2021.654996.
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Podolsky, I., Seppälä, S., Xu, H., Jin, Y.S., O’Malley, M.A. April 19, 2021. “A SWEET Surprise: Anaerobic Fungal Sugar Transporters and Chimeras Enhance Sugar Uptake in Yeast.” Metabolic Engineering 66: 137-147. DOI: 10.1016/j.ymben.2021.04.009.
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Yu, L., Zhao, C., Fan, J., Shanklin, J., Xu, C. April 14, 2021. “Mechanisms and Functions of Membrane Lipid Remodeling in Plants.” The Plant Journal. DOI: 10.1111/tpj.15273.

Choe, K., Xue, P., Zhao, H., Sweedler, J.V. April 6, 2021. “macroMS: Image-Guided Analysis of Random Objects by Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry.” Journal of the American Society of Mass Spectrometry. DOI: 10.1021/jasms.1c00013.
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Kurambhatti, C., Kumar, D., Singh, V. March 31, 2021. “Technical and Economic Feasibility of an Integrated Ethanol and Anthocyanin Coproduction Process Using Purple Corn Stover.” Biofuels, Bioproducts & Biorefining. DOI: 10.1002/bbb.2212.
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Busta, L., Schmitz, E., Kosma, D.K, Schnable, J.C., Cahoon, E.B. March 23, 2021. “A Co-Opted Steroid Synthesis Gene, Maintained in Sorghum but Not Maize, is Associated with a Divergence in Leaf Wax Chemistry.” PNAS 118(12). DOI: 10.1073/pnas.2022982118.
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Ke, J., Wang, B., Yoshikuni, Y. March 21, 2021. “Microbiome Engineering: Synthetic Biology of Plant-Associated Microbiomes in Sustainable Agriculture.” Trends in Biotechnology 39(3): 244-261. DOI: 10.1016/j.tibtech.2020.07.008.

Jayakody, L., Jin, Y.S. March 20, 2021. “In-Depth Understanding of Molecular Mechanisms of Aldehyde Toxicity to Engineer Robust Saccharomyces cerevisiae.” Applied Microbiology and Biotechnology. DOI: 10.1007/s00253-021-11213-1.

Schetter, A., Lin, C.H., Zumpf, C., Jang, C., Hoffman, L., Rooney, W., Lee, D.K. March 17, 2021. “Genotype-Environment-Management Interactions in Biomass Yield and Feedstock Composition of Photoperiod-Sensitive Energy Sorghum.” BioEnergy Research. DOI: 10.1007/s12155-021-10272-6.
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Horton, P., Long, S.P., Smith, P., Banwart, S.A., Beerling, D.J. March 15, 2021. “Technologies to Deliver Food and Climate Security through Agriculture.” Nature Plants 7, 250–255. DOI: 10.1038/s41477-021-00877-2.
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Khanna, M., Rajagopal, D., Zilberman, D., March 11, 2021. “Lessons Learned from U.S. Experience with Biofuels: Comparing the Hype with the Evidence.” Review of Environmental Economics and Policy. DOI: 10.1086/713026.

Zhai, Z., Liu, H., Shanklin, J. March 9, 2021. “Ectopic Expression of OLEOSIN 1 and Inactivation of GBSS1 Have a Synergistic Effect on Oil Accumulation in Plant Leaves.” Plants. DOI: 10.3390/plants10030513.
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Yang, P., Cai, X., Khanna, M. March 6, 2021. “Farmers’ Heterogenous Perceptions of Marginal Land for Biofuel Crops in U.S. Midwestern States Considering Biophysical and Socio-Economic Factors.” GCB Bioenergy. DOI: 10.1111/gcbb.12821.
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Yun, D., Ayla, E.Z., Bregante, D.T., Flaherty, D.W. Feb. 24, 2021. “Reactive Species and Reaction Pathways for the Oxidative Cleavage of 4-Octene and Oleic Acid with H₂O₂ over Tungsten Oxide Catalysts.” ACS Catalysis 2021, 11: 3137–3152. DOI: 10.1021/acscatal.0c05393.
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Moore, C.E., Meacham-Hensold, K., Lemonnier, P., Slattery, R.A., Benjamin, C., Bernacchi, C.J., Lawson, T., Cavanaugh, A.P. Feb. 23, 2021. “The Effect of increasing Temperature on Crop Photosynthesis: from Enzymes to Ecosystems.” Journal of Experimental Botany. erab090. DOI: 10.1093/jxb/erab090.
View a U of I News Bureau news release >>>

Guo, Z. Xu, M., Nagano, H., Clark, L.V., Sacks, E.J., Yamada, T. Feb 19, 2021. “Characterization of the Ghd8 Flowering Time Gene in a Mini-Core Collection of Miscanthus sinensis.” Genes. DOI: 10.3390/genes12020288.
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Chen, L., Debnath, D., Zhong, J., Ferin, K., VanLoocke, A., Khanna, M. Feb. 17, 2021. “The Economic and Environmental Costs and Benefits of the Renewable Fuel Standard.” Environmental Research Letters 16:034021. DOI: 10.1088/1748-9326/abd7af.
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Jiang, C., Guan, K., Wu, G., Peng, B., Wang, S. Feb. 9, 2021. “A Daily, 250M and Real-Time Gross Primary Productivity Product (2000-Present) Covering the Contiguous United States.” Earth System Science Data 13: 281-298. DOI: 10.5194/essd-13-281-2021.
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Singh, R., Arora, A., Singh, V. Jan. 30, 2021. “Biodiesel from Oil Produced in Vegetative Tissues of Biomass — A Review.” Bioresource Technology. DOI: 10.1016/j.biortech.2021.124772.

Yu, X., Cai, Y., Keereetaweep, J., Wei, K., Chai, J., Deng, E., Liu, H., Shanklin, J. Jan. 23, 2021. “Biotin Attachment Domain-Containing Proteins Mediate Hydroxy Fatty Acid-Dependent Inhibition of Acetyl CoA Carboxylase.” Plant Physiology. DOI: 10.1093/plphys/kiaa109.
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Reed, C.J., Lam, Q.N., Mirts, E.N., Lu, Y. Jan. 21, 2021. “Molecular Understanding of Heteronuclear Active Sites in Heme–Copper Oxidases, Nitric Oxide Reductases, and Sulfite Reductases Through Biomimetic Modeling.” Chemical Society Reviews 2021, 50: 2486-2539. DOI: 10.1039/d0cs01297a.

Li, S., Moller, C.A., Mitchell, N.G., Lee, D.K., Ainsworth, E.A. Jan. 21, 2021. “Bioenergy Sorghum Maintains Photosynthetic Capacity in Elevated Ozone Concentrations.” Plant, Cell & Environment 44 (3), 729-746. DOI: 10.1111/pce.13962.
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Parrish, A.S., Lee, M.S., Voigt, T.B., Lee, D.K. Jan. 18, 2021. “Miscanthus x giganteus Responses to Nitrogen Fertilization and Harvest Timing in Illinois, USA.” BioEnergy Research. DOI: 10.1007/s12155-021-10244-w.
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Khanna, M., Chen, X., Wang, W., Oliver, A. Jan. 13, 2021. “Repeal of the Clean Power Plan: Social Cost and Distributional Implications.” American Journal of Agricultural Economics. DOI: 10.1111/ajae.12189.
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Li, Y., Bhagwat, S.S., Cortés-Peña, Y.R., Ki, D., Rao, C.V., Jin, Y.S., Guest, J.S. Jan. 12, 2021. “Sustainable Lactic Acid Production from Lignocellulosic Biomass.” ACS Sustainable Chemical Engineering. DOI: 10.1021/acssuschemeng.0c08055.
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Ferin, K.M., Chen, L., Zhong, J., Acquah, S., Heaton, E.A., Khanna, M., VanLoocke, A. Jan. 12, 2021. “Water Quality Effects of Economically Viable Land Use Change in the Mississippi River Basin under the Renewable Fuel Standard.” Environmental Science & Technology. DOI: 10.1021/acs.est.0c04358.
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Chen, L., Blanc-Betes, E., Hudiburg, T.W., Hellerstein, D., Wallander, S., DeLucia, E.H., Khanna, M. Jan. 7, 2021. “Assessing the Returns to Land and Greenhouse Gas Savings from Producing Energy Crops on Conservation Reserve Program Land.” Environmental Science & Technology. DOI: 10.1021/acs.est.0c06133.
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Dong, H., Clark, L.V., Jin, X., Anzoua, K., Bagmet, L., Chebukin, P., Dzyubenko, E., Dzyubenko, N., Ghimire, B.K., Heo, K., Johnson, D.A., Nagano, H., Sabitov, A., Peng, J., Yamada, T., Yoo, J.H., Yu, C.Y., Zhao., H., Long, S.P., Sacks, E.J. Jan. 7, 2021. “Managing Flowering Time in Miscanthus and Sugarcane to Facilitate Intra- and Intergeneric Crosses.” PLoS One 16(1): e0240390. DOI: 10.1371/journal.pone.0240390.
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Foster, C., Wang, L., Dinh, H.V., Suthers, P.F., Maranas, C.D. Dec. 24, 2020. “Building Kinetic Models for Metabolic Engineering.” Current Opinion in Biotechnology 67: 35-41 (2021). DOI: 10.1016/j.copbio.2020.11.010.

Bhatia, S.K., Jagtap, S.S., Bedekar, A.A., Bhatia, R.K., Rajendran, K., Pugazhendhi, A., Rao, C.V., Atabani, A.E., Kumar, G., Yang, Y.H. Dec. 24, 2020. “Renewable Biohydrogen Production from Lignocellulosic Biomass Using Fermentation and Integration of Systems with Other Energy Generation Technologies.” Science of the Total Environment 765: 144429. DOI: 10.1016/j.scitotenv.2020.144429.

Moore, C.E., von Haden, A.C., Burnham, M.B., Kantola, I.B., Gibson, C.D., Blakely, B.J., Dracup, E.C., Masters, M.D., Yang, W.H., DeLucia, E.H., Bernacchi, C.J., Dec. 22, 2020. “Ecosystem-Scale Biogeochemical Fluxes from Three Bioenergy Crop Candidates: How Energy Sorghum Compares to Maize and Miscanthus.” GCB Bioenergy. DOI: 10.1111/gcbb.12788.
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Shi, R., Guest, J.S. Dec. 17, 2020. “BioSTEAM-LCA: An Integrated Modeling Framework for Agile Life Cycle Assessment of Biorefineries Under Uncertainty.” ACS Sustainable Chemistry & Engineering. DOI: 10.1021/acssuschemeng.0c05998.
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Suthers, P.F., Foster, C.J., Sarkara, D., Wang, L., Maranas, C.D. Dec. 10, 2020. “Recent Advances in Constraint and Machine Learning-Based Metabolic Modeling by Leveraging Stoichiometric Balances, Thermodynamic Feasibility, and Kinetic Law Formalisms.” Metabolic Engineering. DOI: 10.1016/j.ymben.2020.11.013.

Cortes-Peña, Y. Dec. 2, 2020. “Thermosteam: BioSTEAM’s Premier Thermodynamic Engine.” Journal of Open Source Software 5:2679. DOI: 10.21105/joss.02679.
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Leibensperger, C., Yang, P., Zhao, Q., Wei, S., Cai, X. Nov. 30 2020. “The Synergy Between Stakeholders for Cellulosic Biofuel Development — Perspectives, Opportunities, and Barriers.” Renewable and Sustainable Energy Reviews 137:110613. DOI: 10.1016/j.rser.2020.110613.

Lee, J.W., Yook, S., Koh, H., Rao, C.V., Jin, Y.S. Nov. 26, 2020. “Engineering Xylose Metabolism in Yeasts to Produce Biofuels and Chemicals.” Current Opinion in Biotechnology Vol. 67, 2021: 15-25. DOI: 10.1016/j.copbio.2020.10.012.

Hartman, M.D., Parton, W.J., Derner, J.D., Schulte, D.K., Smith, W.K., Peck, D.E., Day, K.A., Del Grosso, S.J., Lutz, S., Fuchs, B.A., Chen, M., Gao, W. Nov. 20, 2020. “Seasonal Grassland Productivity Forecast for the U.S. Great Plains Using Grass-Cast.” Ecosphere 11:e03280. DOI: 10.1002/ecs2.3280.
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Jia, Y., Kumar, D., Winkler-Moser, J., Dien, B., Singh, V. Nov. 18, 2020. “Recoveries of Oil and Hydrolyzed Sugars from Corn Germ Meal by Hydrothermal Pretreatment: A Model Feedstock for Lipid-Producing Energy Crops.” Energies 22: 6022. DOI: 10.3390/en13226022.
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BOOK CHAPTER — Jagtap, S.S., Bedekar, A.A., Rao, C.V. Nov. 16, 2020. “Quorum Sensing in Yeast.” ACS Symposium Series Vol. 1374, Ch. 13, ISBN13: 9780841298606, eISBN: 9780841298590. DOI: 10.1021/bk-2020-1374.ch013.

Ma, L., Rocha, F.I., Lee, J., Choi, J., Tejera, M., Sooksa-Nguan T., Boersma, N.N., VanLoocke, A., Heaton, E., Howe, A. Nov. 9, 2020. “The Impact of Stand Age and Fertilization on the Soil Microbiome of Miscanthus x giganteus.” Phytobiomes Journal. DOI: 10.1094/PBIOMES-01-20-0014-FI.
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Sun, L., Jin, Y.S. Nov. 1, 2020. “Xylose Assimilation for the Efficient Production of Biofuels and Chemicals by Engineered Saccharomyces cerevisiae.” Biotechnology Journal. DOI: 10.1002/biot.202000142.

Mitros, T., Session, A.M., James, B.T., Wu, G.A., Belaffif, M.B., Clark, L.V., Shu, S., Dong, H., Barling, A., Holmes, J.R., Mattick, J.E., Bredeson, J.V., Liu, S., Farrar, K., Glowacka, K., Jezowski, S., Barry, K., Chae, W.B., Juvik, J.A., Gifford, J., Oladeinde, A., Yamada, T., Grimwood, J., Putnam, N.H., De Vega, J., Barth, S., Klaas, M., Hodkinson, T., Li, L., Jin, X., Peng, J., Yu, C.Y., Heo, K., Yoo, J.H., Ghimire, B.K., Donnison, I.S., Schmutz, J., Hudson, M.E., Sacks, E.J., Moose, S.P., Swaminathan, K., Rokhsar, D.S. Oct. 28, 2020. “Genome Biology of the Paleotetraploid Perennial Biomass Crop Miscanthus“ Nature Communications 11, 5442 (2020). DOI: 10.1038/s41467-020-18923-6.
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Xu, C., Fan, J., Shanklin, J. Oct 27, 2020. “Metabolic and Functional Connections between Cytoplasmic and Chloroplast Triacylglycerol Storage.” Progress in Lipid Research. DOI: 10.1016/j.plipres.2020.101069.

Lee, J.W., Kwak, S., Liu, J., Yu, S., Yun, E.J., Kim, D.H., Liu, C., Kim, K.H., Jin, Y.S. Oct. 22, 2020. “Enhanced 2′-Fucosyllactose Production by Engineered Saccharomyces cerevisiae Using Xylose as a Co-Substrate.” Metabolic Engineering 62, 322-329. DOI: 10.1016/j.ymben.2020.10.003.
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Kim, S.Y., Slattery, R.A., Ort, D. Oct. 17, 2020. “A Role for Differential Rubisco activase Isoform Expression in C4 Bioenergy Grasses at High Temperature” GCB Bioenergy. DOI: 10.1111/gcbb.12768.
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Kuanyshev N., Rao C.V., Dien B., Jin Y-S. Oct. 8, 2020. “Domesticating a Food Spoilage Yeast into an Organic Acid-Tolerant Metabolic Engineering Host: Lactic Acid Production by Engineered Zygosaccharomyces bailii.” Biotechnology and Bioengineering 2020, 1–11. DOI: 10.1002/bit.27576.
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Arora, A., Singh, V. Oct. 7, 2020. “Biodiesel Production from Engineered Sugarcane Lipids under Uncertain Feedstock Compositions: Process Design and Techno-Economic Analysis.” Applied Energy 280. DOI: 10.1016/j.apenergy.2020.115933.
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Blanc-Betes, E., Kantola, I.B., Gomez-Casanovas, N., Hartman, M.D., Parton, W.J., Lewis, A.L., Beerling, D.J., DeLucia, E.H. Oct. 7, 2020. “In silico Assessment of the Potential of Basalt Amendments to Reduce N₂O Emissions from Bioenergy Crops.” Global Change Biology — Bioenergy 13:224-241. DOI: 10.1111/gcbb.12757.

Gambacorta, F.V., Dietrich, J.J., Yan, Q., Pfleger, B.F. Oct. 5, 2020. “Rewiring Yeast Metabolism to Synthesize Products Beyond Ethanol.” Current Opinion in Chemical Biology 59: 182-192. DOI: 10.1016/j.cbpa.2020.08.005.

Luo, Y., Guan, K., Peng, J., Wang, S., Huang, Y. Oct. 1, 2020. “STAIR 2.0: A Generic and Automatic Algorithm to Fuse Modis, Landsat, and Sentinel-2 to Generate 10m, Daily, and Cloud-/Gap-Free Surface Reflectance Product.” Remote Sensing. DOI: 10.3390/rs12193209.

Moore, C.E., Berardi, D.M., Blanc-Betes, E., Dracup, E.C., Egenreither, S., Gomez-Casanovas, N., Hartman, M.D., Hudiburg, T., Kantola, I., Masters, M.D., Parton, W.J., Van Allen, R., von Haden, A.C., Yang, W.H., DeLucia, E.H., Bernacchi, C.J. Sept. 29, 2020. “The Carbon and Nitrogen Cycle Impacts of Reverting Perennial Bioenergy Switchgrass to an Annual Maize Crop Rotation.” GCB Bioenergy. DOI: 10.1111/gcbb.12743.
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Wang, S., Guan, K., Wang, Z., Ainsworth, E.A., Zheng, T., Townsend, P.A., Li, K., Moller, C., Wu, G., Jiang, C. Sept. 16, 2020. “Unique Contributions of Chlorophyll and Nitrogen to Predict Crop Photosynthetic Capacity from Leaf Spectroscopy.” Journal of Experimental Botany, eraa432. DOI: 10.1093/jxb/eraa432.
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Beuchat, G., Xue, X., Chen, L. Sept. 13, 2020. “Review: The Next Steps in Crop Improvement: Adoption of Emerging Strategies to Identify Bottlenecks in Sugar Flux.” Plant Science. DOI: 10.1016/j.plantsci.2020.110675.

Field, J.L., Richard, T.L., Smithwick, E.A.H, Cai, H., Laser, M.S., LeBauer, D.S., Long, S.P., Paustian, K., Qin, Z., Sheehan, J.J., Smith, P., Wang, M.Q., Lynd, L.R. Sept. 8, 2020. “Robust Paths to Net Greenhouse Gas Mitigation and Negative Emissions via Advanced Biofuels.” Proceedings of the National Academy of Sciences 117 (36): 21968-21977. DOI: 10.1073/pnas.1920877117.

Viswanathan, M.B., Park, K., Cheng, M.H., Cahoon, E.B., Dweikat, I., Clemente, T., Singh, V. Sept. 2, 2020. “Variability in Structural Carbohydrates, Lipid Composition, and Cellulosic Sugar Production from Industrial Hemp Varieties.” Industrial Crops and Products 157, 112906. DOI: 10.1016/j.indcrop.2020.112906.
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Tejera, M.D., Miguez, F.E., Heaton, E.A. Aug. 31, 2020. “The Older Plant Gets the Sun: Age-Related Changes in Miscanthus x giganteus Phenology.” GCB Bioenergy. DOI:10.1111/gcbb.12745.
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Kent, J., Hartman, M.D., Lee, D.K., Hudiburg, T.W. Aug. 28, 2020. “Simulated Biomass Sorghum GHG Reduction Potential is Similar to Maize.” Environmental Science and Technology. DOI: 10.1021/acs.est.0c01676.
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Cheng, M-H., Jawad Kadhum, H., Murthy, G.S., Dien, B.S., Singh, V. Aug. 26, 2020. “High Solids Loading Biorefinery for the Production of Cellulosic Sugars from Bioenergy Sorghum.” Bioresource Technology (2020). DOI: 10.1016/j.biortech.2020.124051.
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Zhao, Q., Cai, X., Mischo, W., Ma, L. Aug. 26, 2020. “How Do the Research and Public Communities View Biofuel Development?” Renewable and Sustainable Energy Reviews 133:110265. DOI: 10.1016/j.rser.2020.110265.
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Cao, M., Tran, V., Zhao, H. July 26, 2020. “Unlocking Nature’s Biosynthetic Potential by Directed Genome Evolution.” Current Opinion in Biotechnology. DOI: 10.1016/j.copbio.2020.06.012.

Wang, Y., Huang, X., Hui, J., Vo, L.T., Zhao, H. July 24, 2020. “Stereoconvergent Reduction of Activated Alkenes by a Nicotinamide Free Synergistic Photobiocatalytic System.” ACS Catalysis. DOI: 10.1021/acscatal.0c02489.
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Berardi, D., Brzostek, E., Blanc-Betes, E., Davison, B., DeLucia, E.H., Hartman, M.D., Kent, J., Parton, W.J., Saha, D., Hudiburg, T.W. July 22, 2020. “21st Century Biogeochemical Modeling: Challenges for Century-Based Models and Where Do We Go from Here?” GCB Bioenergy. DOI: 10.1111/gcbb.12730.

Sun, L., Atkinson, C.A., Lee, Y.G., Jin, Y.S. July 17,2020. “High-Level β-Carotene Production from Xylose by Engineered Saccharomyces cerevisiae without Overexpression of a Truncated HMG1 (tHMG1).” Biotechnology and Bioengineering. DOI: 10.1002/bit.27508.
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Zeri, M., Yang, W.H., Cunha-Zeri, G., Gibson, C.D., Bernacchi, C.J. July 11, 2020. “Nitrous Oxide Fluxes over Establishing Biofuel Crops: Characterization of Temporal Variability Using the Cross-Wavelet Analysis.” GCB Bioenergy. DOI: 10.1111/gcbb.12728.
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Wu, Y., Yang, Z., Lu, Y. July 8, 2020. “Photocaged Functional Nucleic Acids for Spatiotemporal Imaging in Biology.” Current Opinion in Chemical Biology. 57:95-104. DOI: 10.1016/j.cbpa.2020.05.003.

Lu, W., Xing, X., Wang, L., Chen, L., Zhang, S., McReynolds, M.R., Rabinowitz, J.D. July 2, 2020. “Improved Annotation of Untargeted Metabolomics Data through Buffer Modifications that Shift Adduct Mass and Intensity.” Analytical Chemistry 92: 11573-11581. DOI: 10.1021/acs.analchem.0c00985.

Kim, S.Y., Stessman, D.J., Wright, D.A., Spalding, M.H., Huber, S.C., Ort, D.R. June 27, 2020. “Arabidopsis Plants Expressing Only the Redox-Regulated Rca-α Isoform Have Constrained Photosynthesis and Plant Growth.” Plant Journal. DOI: 10.1111/tpj.14897.
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Yang, P., Zhao, Q., Cai, X. June 20, 2020. “Machine Learning-Based Estimation of Land Productivity in the Contiguous U.S. Using Biophysical Predictors.” Environmental Research Letters. DOI: 10.1088/1748-9326/ab865f.
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Khanna, M., Wang, W., Wang, M. June 14, 2020. “Assessing the Additional Carbon Savings with Biofuel.” BioEnergy Research. DOI: 10.1007/s12155-020-10149-0.
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Huang, X., Wang, B., Wang, Y., Jiang, G., Feng, J., Zhao, H. June 8, 2020. “Photoenzymatic Enantioselective Intermolecular Radical Hydroalkylation.” Nature (2020). DOI: 10.1038/s41586-020-2406-6.
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Yu, X.H., Shanklin, J. June 8, 2020. “Solving a Furan Fatty Acid Biosynthesis Puzzle.” Journal of Biological Chemistry 295(29), 9802-9803. DOI: 10.1074/jbc.H120.014701

Volk, M., Lourentzou, I., Mishra, S., Vo, L., Zhai, C., Zhao, H. June 2, 2020. “Biosystems Design by Machine Learning.” ACS Synthetic Biology. DOI: 10.1021/acssynbio.0c00129.

Yan, Q., Simmons, T.R., Cordell, W.T., Hernandez Lozada, N.J., Breckner, C.J., Chen, X., Jindra, M.A., Pfleger, B.F. May 29, 2020. “Metabolic Engineering of β-Oxidation to Leverage Thioesterases for Production of 2-Heptanone, 2-Nonanone, and 2-Undecanone.” Metabolic Engineering. DOI: 10.1016/j.ymben.2020.05.008.
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Zhu, P., Yu, X., Wang, C., Zhang, Q., Liu, W., McSweeney, S., Shanklin, J., Lam, E., Liu, Q. May 7, 2020. “Structural Basis for Ca2+-Dependent Activation of a Plant Metacaspase.” Nature Communications 11:2249. DOI: 10.1038/s41467-020-15830-8.
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Fatma, Z., Schultz, C., Zhao, H. April 23, 2020. “Recent Advances in Domesticating Non-Model Microorganisms.” Biotechnology Progress. DOI: 10.1002/btpr.3008.

von Haden, A.C., Yang, W.H., DeLucia, E.H. April 20, 2020. “Soils’ Dirty Little Secret: Depth‐Based Comparisons can be Inadequate for Quantifying Changes in Soil Organic Carbon and Other Mineral Soil Properties.” Global Change Biology. DOI: 10.1111/gcb.15124.
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Cahoon, E.B., Li-Beisson, Y. April 15, 2020. “Plant Unusual Fatty Acids: Learning from the Less Common.” Current Opinion in Plant Biology 55, 66-73. DOI: 10.1016/j.pbi.2020.03.007.

Fisher, J.B., Lee, B., Purdy, A.J., Halverson, G.H., Dohlen, M.B., Cawse-Nicholson, K., Wang, A., Anderson, R.G., Aragon, B., Arain, M.A., Baldocchi, D.D., Baker, J.M., Barral, H., Bernacchi, C.J., Bernhover, C., Biraud, S.C., Bohrer, G., Brunsell, N., Cappelaere, B., Castro-Contreras, S., Chun, J., Conrad, B.J., Cremonense, E., Demarty, J., Desai, A.R., DeLigne, A., Foltynova, L., Goulden, M.L., Griffis, T.J., Grunwald, T., Johnson, M.S., Kang, M., Kelbe, D., Kowalska, N., Lim, J.H., Mainassara, I., McCabe, M.F., Missik, J.E.C., Mohanty, B.P, Moore, C.E., Morallis, L., Morrison, R., Munger, J.W., Posse, G., Richardson, A.D., Russell, E.S., Ryu, Y., Sanchez-Azofeifa, A., Schmidt, M., Schwartz, E., Sharp, I., Sigut, L, Tang, Y., Hully, G., Anderson, M., Hain, C., French, A., Wood, E., Hook, S. April 6, 2020. “ECOSTRESS: NASA’s Next Generation Mission to Measure Evapotranspiration From the International Space Station.” Water Resources Research 56:e2019WR026058. DOI: 10.1029/2019WR026058.

Cheng, M.H., Sun, L., Jin, Y.S., Dien, B., Singh, V. March 31, 2020. “Production of Xylose-Enriched Hydrolysate from Bioenergy Sorghum and its Conversion to β-Carotene Using an Engineered Saccharomyces cerevisiae.” Bioresource Technology 308:123275. DOI: 10.1016/j.biortech.2020.123275.
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Xue, P., Si, T., Mishra, S., Zhang, L., Choe, K., Sweedler, J.V., Zhao, H. March 26, 2020. “A Mass Spectrometry-Based High-Throughput Screening Method for Engineering Fatty Acid Synthases with Improved Production of Medium Chain Fatty Acids.” Biotechnology and Bioengineering. DOI: 10.1002/bit.27343.
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Parajuli, S., Kannan, B., Karan, R., Liu, H., Garcia-Ruiz, E., Kumar, D., Singh, V., Zhao, H., Long, S.P., Shanklin, J., Altpeter, F. March 21, 2020. “Towards Oilcane: Engineering Hyperaccumulation of Triacylglycerol into Sugarcane Stems.” GCB Bioenergy. DOI: 10.1111/gcbb.12684.
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Jiang, C., Guan, K., Pan, M., Ryu, Y., Peng, B., Wang, S. March 20, 2020. “BESS-STAIR: A Framework to Estimate Daily, 30-Meter, and All-Weather Crop Evapotranspiration Using Multi-Source Satellite Data for the U.S. Corn Belt.” Hydrology and Earth System Sciences 24, 1251-1273, 2020. DOI: 10.5194/hess-24-1251-2020.
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Huang, X., Cao, M., Zhao, H. March 13, 2020. “Integrating Biocatalysis with Chemocatalysis for Selective Transformations.” Current Opinion in Chemical Biology 55:161-170. DOI: 10.1016/j.cbpa.2020.02.004.

Clark, T., Guo, L., Morgan, J., Schwender, J. Feb. 4, 2020. “Modeling Plant Metabolism: From Network Reconstruction to Mechanistic Models.” Annual Review of Plant Biology 2020 71: 3.1–3.24. DOI: 10.1146/annurev-arplant-050718-10221.

Wang, B., Zhao, H. Feb. 1, 2020. “Unleashing the Power of Energy Storage: Engineering β-Oxidation Pathways for Polyketide Production.” Synthetic and Systems Biotechnology 5(1):21-22. DOI: 10.1016/j.synbio.2020.01.002.

Cao, M., Fatma, Z., Song, X., Hsieh, P.H., Tran, V., Lyon W., Sayadi, M., Shao, Z., Yoshikuni, Y., Zhao, H. Jan. 31. 2020. “A Genetic Toolbox for Metabolic Engineering of Issatchenkia orientalis.” Metabolic Engineering 59:87-97. DOI: 10.1016/j.ymben.2020.01.005.
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Cortes-Peña, Y., Kumar, D., Singh, V., Guest, J.S. Jan. 30, 2020. “BioSTEAM: A Fast and Flexible Platform for the Design, Simulation, and Techno-Economic Analysis of Biorefineries under Uncertainty.” ACS Sustainable Chemistry and Engineering.  DOI: 10.1021/acssuschemeng.9b07040.
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Oh, E.J., Jin, Y.S. Jan. 9, 2020. “Engineering of Saccharomyces cerevisiae for Efficient Fermentation of Cellulose.” FEMS Yeast Research. DOI: 10.1093/femsyr/foz089.

Dien, B.S., Anderson, W.F., Cheng, M.H., Knoll, J.E., Lamb, M., O’Bryan, P.J., Singh, V., Sorensen, R.B., Strickland, T.C., Slininger, P.J. Jan. 8, 2020. “Field Productivities of Napier Grass for Production of Sugars and Ethanol.” ACS Sustainable Chemistry and Engineering 8:2052-2060. DOI: 10.1021/acssuschemeng.9b06637
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Bhatia, S.K., Jagtap, S.S., Bedekar, A.A., Bhatia, R.K., Patel, A.K., Pant, D., Banu, J.R., Rao, C.V., Kim, Y.G., Yang Y.H. Jan. 2, 2020. “Recent Developments in Pretreatment Technologies on Lignocellulosic Biomass: Effect of Key Parameters, Technological Improvements, and Challenges.” Bioresource Technology. DOI: 10.1016/j.biortech.2019.122724.

Wu, G., Guan, K., Jiang, C., Peng, B., Kimm, H., Chen, M., Yang, X., Wang, S., Suyker, A.E., Bernacchi, C.J., Moore, C.E., Zeng, Y., Berry, J.A., Cendrero-Mateo, M.P. Dec. 27, 2019. “Radiance-Based NIRv as a Proxy for GPP of Corn and Soybean.” Environmental Research Letters. DOI: 10.1088/1748-9326/ab65cc.
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Ren, H., Shi, C., Zhao, H. Dec. 27, 2019. “Computational Tools for Discovering and Engineering Natural Product Biosynthetic Pathways.” iScience. DOI: 10.1016/j.isci.2019.100795.

Johansson, R., Meyer, S., Whistance, J., Thompson, W., Debnath, D. Dec. 9, 2019. “Greenhouse Gas Emission Reduction and Cost from the United States Biofuel Mandate.” Renewable and Sustainable Energy Reviews 119:109513. DOI: 10.1016/j.rser.2019.109513.
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Debnath, D., Khanna, M., Rajagopal, D., Zilberman, D. Dec. 4, 2019. “The Future of Biofuels in an Electrifying Global Transportation Sector: Imperative, Prospects and Challenges.” Applied Economic Perspectives and Policy 41:563-582. DOI: 10.1093/aepp/ppz023. 

Hong, S., Zhang, X., Lake, R.J., Pawel, G.T., Guo, Z., Pei, R., Lu, Y. Nov. 26, 2019. “A Photo-Regulated Aptamer Sensor for Spatiotemporally Controlled Monitoring of ATP in the Mitochondria of Living Cells.” Chemical Science. DOI: 10.1039/c9sc04773e.
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HamediRad, M., Chao, R., Weisberg, S., Lian, J., Sinha, S., Zhao, H. Nov. 13, 2019. “Towards a Fully Automated Algorithm-Driven Platform for Biosystems Design.” Nature Communications 10:5150. DOI: 10.1038/s41467-019-13189-z.
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Lane, S., Zhang, Y., Yun, E.J., Ziolkowski, L., Zhang, G., Jin, Y.S., Avalos, J.L. Oct. 21, 2019. “Xylose Assimilation Enhances Production of Isobutanol in Engineered Saccharomyces cerevisiae.” Biotechnology and Bioengineering. DOI: 10.1002/bit.27202.
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Jagtap, S.S., Bedekar A.A., Liu J.J., Jin, Y.S., Rao, C.V. Oct. 18, 2019. “Production of Galactitol from Galactose by the Oleaginous Yeast Rhodosporidium toruloides IFO0880.” Biotechnology for Biofuels. 12:250. DOI: 10.1186/s13068-019-1586-5.
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Yang, P., Ng, T.L., Cai, X. Oct. 16, 2019. “Reward-Based Participant Management for Crowd-Sourcing Rainfall Monitoring: An Agent-Based Model Simulation.” Water Resources Research. DOI: 10.1029/2018WR024447.
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Chen, M., Parton, W.J., Hartman, M.D., Del Grosso, S.J., Smith, W.K., Knapp, A., Lutz, S., Derner, J.D., Tucker, C.J., Ojima, D.S., Volesky, J.D., Stephenson, M.B., Schacht, W.H., Gao, W. Oct. 8, 2019. “Assessing Precipitation, Evapotranspiration, and NDVI as Controls of U.S. Great Plains Plant Production.” Ecosphere 10: e02889. DOI: 10.1002/ecs2.2889.
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BOOK CHAPTER — Bhagi-Damodaran, A., Lu, Y. Oct. 5, 2019. “The Periodic Table’s Impact on Bioinorganic Chemistry and Biology’s Selective Use of Metal Ions. The Periodic Table II. Structure and Bonding, Vol 182. Springer, Cham.; Mingos D. (eds). DOI: 10.1007/430_2019_45.

Park, J.O., Tanner, L.B., Wei, M.H., Khana, D.B., Jacobson, T.B., Zhang, Z., Rubin, S.A., Li, S.H.J., Higgins, M.B., Stevenson, D.M., Amador-Noguez, D., Rabinowitz, J.D. Sept. 23, 2019. “Near-Equilibrium Glycolysis Supports Metabolic Homeostasis and Energy Yield.” Nature Chemical Biology 15:1001-1008. DOI: 10.1038/s41589-019-0364-9.
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Cheng, M.H., Wang, Z., Dien, B.S., Slininger, P.J.W., Singh, V. Sept. 20, 2019. “Economic Analysis of Cellulosic Ethanol Production from Sugarcane Bagasse Using a Sequential Deacetylation, Hot Water and Disk Refining Pretreatment Processes.” Processes 7:642. DOI: 10.3390/pr7100642.
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Zhang, Y., Lane, S., Chen, J.M., Hammer, S.K., Luttinger, J., Yang, L., Jin, Y.S., Avalos, J.L. Sept. 20, 2019. “Xylose Utilization Stimulates Mitochondrial Production of Isobutanol and 2-methyl-1-butanol in Saccharomyces cerevisiae.” Biotechnology for Biofuels 12:223. DOI: 10.1186/s13068-019-1560-2.
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Kurambhatti, C., Kumar, D., Singh, V. Sept. 1, 2019. “Impact of Fractionation Process on the Technical and Economic Viability of the Corn Dry Grind Ethanol Process.” Processes 7:578. DOI: 10.3390/pr7090578.
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Kwak, S., Yun, E.J., Lane, S., Oh, E.J., Kim, K.H., Jin, Y.S. Aug. 29, 2019. “Redirection of the Glycolytic Flux Enhances Isoprenoid Production in Saccharomyces cerevisiae.” Biotechnology Journal. DOI: 10.1002/biot.201900173.
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von Haden, A.C., Marín-Spiotta, E., Jackson, R.D., Kucharik, C.J. Aug. 23, 2019. “Soil Microclimates Influence Annual Carbon Loss via Heterotrophic Soil Respiration in Maize and Switchgrass Bioenergy Cropping Systems.” Agricultural and Forest Meteorology Volume 279. DOI:10.1016/j.agrformet.2019.107731.
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De bruyn, M., Sener, C., Petrolini, D.D., McClelland, D.J., He, J., Ball, M.R., Liu, Y., Martins, L., Dumesic, J.A., Huber, G.W., and Weckhuysen, B.M. Aug. 20, 2019. “Catalytic Hydrogenation of Dihydrolevoglucosenone to Levoglucosanol with a Hydrotalcite/Mixed Oxide Copper Catalyst.” Green Chemistry. DOI: 10.1039/C9GC00564A.
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Saifuddin, M., Bhatnagar, J.M., Segrè, D., Finzi, A.C. Aug. 8, 2019. “Microbial Carbon Use Efficiency Predicted from Genome-Scale Metabolic Models.” Nature Communications 10, Article 3568. DOI: 10.1038/s41467019-11488-z.
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Sun. Y., Kwak, S., Jin, Y.S. Aug. 2, 2019. “Vitamin A Production by Engineered Saccharomyces cerevisiae from Xylose Via Two-Phase in situ Extraction.” ACS Synthetic Biology. DOI: 10.1021/acssynbio.9b00217.
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Fan, J., Zhou, C., Yu, L., Li, P., Shanklin, J., Xu, C. July 17, 2019. “Diversion of Carbon Flux from Sugars to Lipids Improves the Growth of an Arabidopsis Starchless Mutant.” Plants. 8(7): 229. DOI: 10.3390/plants8070229.
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Peshkin, L., Gupta, M., Ryazanova, L., Wühr, M. July 16, 2019. “Bayesian Confidence Intervals for Multiplexed Proteomics Integrate Ion-Statistics with Peptide Quantification Concordance.” Molecular and Cellular Proteomics. 18:2-14. DOI:10.1074/mcp.TIR119.001317.
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Wang, Y., Yu, X., Zhao, H. July 5, 2019. “Biosystems Design by Directed Evolution.” AIChE Journal e16716. DOI: 10.1002/aic.16716.

Tran, V.G., Cao, M., Fatma, Z., Song, X., Zhao, H. June 26, 2019. “Development of a CRISPR/Cas9-Based Tool for Gene Deletion in Issatchenkia orientalis.” mSphere 4:e00345-19. DOI: 10.1128/mSphere.00345-19.
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DeLucia, E.H., Chen, S., Guan, K., Peng B., Li, Y., Gomez-Casanovas, N., Kantola, I.B., Bernacchi, C.J., Huang, Y., Long, S.P., Ort, D.R. June 18, 2019. “Are We Approaching a Water Ceiling to Maize Yields in the United States?” Ecosphere 10(6):e02773. DOI: 10.1002/ecs2.2773.
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Cheng, M., Dien, B.S., Lee, D.K., Singh, V. June 18, 2019. “Sugar Production from Bioenergy Sorghum by Using Pilot-Scale Continuous Hydrothermal Pretreatment Combined with Disk Refining.” Bioresource Technology 289:121663. DOI: 10.1016/j.biortech.2019.121663.
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Anand, M., Miao, R., Khanna, M. May 23, 2019. “Adopting Bioenergy Crops: Does Farmers’ Attitude Toward Loss Matter?“ Agricultural Economics 50 (4), 435-450. DOI: 10.1111/agec.12501.
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Tejera, M., Boersma N., VanLoocke, A., Archontoulis S., Dixon, P., Miguez, F., Heaton, E. May 22, 2019. “Multi-year and Multi-site Establishment of the Perennial Biomass Crop Miscanthus × giganteus Using a Staggered Start Design to Elucidate N Response.” BioEnergy Research. DOI: 10.1007/s12155-019-09985-6.
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Yu, X., Cai, Y., Chai, J., Schwender, J., Shanklin, J. May 13, 2019. “Expression of a Lychee PHOSPHATIDYLCHOLINE:DIACYLGLYCEROL CHOLINEPHOSPHOTRANSFERASE with an Escherichia coli CYCLOPROPANE SYNTHASE Enhances Cyclopropane Fatty Acid Accumulation in Camelina Seed.” Plant Physiology 180: 1351-1361. DOI: 10.1104/pp.19.00396.
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Schultz, J.C., Cao, M., Zhao H. April 30, 2019. “Development of a CRISPR/Cas9 System for High-Efficiency Multiplexed Gene Deletion in Rhodosporidium toruloides.” Biotechnology and Bioengineering. DOI: 10.1002/bit.27001.
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Li, Y., Guan, K., Schnitkey, G.D., DeLucia, E., Peng, B. April 29, 2019. “Excessive Rainfall Leads to Maize Yield Loss of a Comparable Magnitude to Extreme Drought in the United States.” Global Change Biology 2019. DOI: 10.1111/gcb.14628.
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von Haden, A.C., Kucharik, C.J., Jackson, R.D., Marín-Spiotta, E. April 27, 2019. “Litter Quantity, Litter Chemistry, and Soil Texture Control Changes in Soil Organic Carbon Fractions under Bioenergy Cropping Systems of the North Central U.S.” Biogeochemistry. DOI: 10.1007/s10533-019-00564-7.
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HamediRad, M., Weisberg, S., Chao, R., Lian, J., Zhao, H. April 23, 2019. “Highly Efficient Single-Pot Scarless Golden Gate Assembly.” ACS Synthetic Biology. DOI: 10.1021/acssynbio.8b00480.
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Yan, Q., Pfleger, B.F. April 22, 2019. “Revisiting Metabolic Engineering Strategies for Microbial Synthesis of Oleochemicals.” Metabolic Engineering. DOI: 10.1016/j.ymben.2019.04.009.

Clark, L.V., Dwiyanti, M.S., Anzoua, K.G., Brummer, J.E., Ghimire, B.K., Głowacka, K., Hall, M., Heo, K., Jin, X., Lipka, A.E., Peng, J., Yamada, T., Yoo, J.H., Yu, C.Y., Zhao, H., Long, S.P., Sacks, E.J. April 10, 2019. “Genome‐Wide Association and Genomic Prediction for Biomass Yield in a Genetically Diverse Miscanthus sinensis Germplasm Panel Phenotyped at Five Locations in Asia and North America.” GCB Bioenergy. DOI: 10.1111/gcbb.12620.
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Li, S., Courbet, G., Ourry, A., Ainsworth, E.A. April 2, 2019. “Elevated Ozone Concentration Reduces Photosynthetic Carbon Gain but Does Not Alter Leaf Structural Traits, Nutrient Composition or Biomass in Switchgrass.” Plants 2019, 8(4), 85. DOI: 10.3390/plants8040085.
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Zhao, Y., Kim, J.Y., Karan, R., Jung, J.H., Pathak, B., Williamson, B., Kannan, B., Wang, D., Fan, C., Yu, W., Dong, S., Srivastava, V., Altpeter, F. March 27, 2019. “Generation of a Selectable Marker Free, Highly Expressed Single Copy Locus as Landing Pad for Transgene Stacking in Sugarcane.” Plant Molecular Biology 99-509:1-17. DOI: 10.1007/s11103-019-00856-4.
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Mirts, E.N., Bhagi-Damodaran, A., Lu, Y. March 26, 2019. “Understanding and Modulating Metalloenzymes with Unnatural Amino Acids, Non-Native Metal Ions, and Non-Native Metallocofactors.” Accounts of Chemical Research 52:935-944. DOI: 10.1021/acs.accounts.9b00011.

Dong, H., Clark, L.V., Lipka, A.E., Brummer, J.E., Głowacka, K., Hall, M.C., Heo, K., Jin, X., Peng, J., Yamada, T., Ghimire, B.K., Yoo, J.H., Yu, C.Y., Zhao, H., Long, S.P., Sacks, E.J. March 22, 2019. “Winter Hardiness of Miscanthus (III): Genome‐Wide Association and Genomic Prediction for Overwintering Ability in Miscanthus sinensis.” GCB Bioenergy. DOI: 10.1111/gcbb.12615.

Liu, J.J., Zhang, G.C., Kwak, S., Oh, E.J., Yun, E.J., Chomvong, K., Cate, J.G.D., Jin, Y.S. March 22, 2019. “Overcoming the Thermodynamic Equilibrium of an Isomerization Reaction Through Oxidoreductive Reactions for Biotransformation.” Nature Communications 10:1356. DOI:10.1038/s41467-019-09288-6.

Chen, L., Zhang, Z., Hoshino, A., Zheng, H.D., Morley, M., Arany, Z., Rabinowitz, J.D. March 11, 2019. “NADPH Production by the Oxidative Pentose-Phosphate Pathway Supports Folate Metabolism.” Nature Metabolism 1:404-415. DOI: 10.1038/s42255-019-0043-x.

Shen, F., Sun, R., Yao, J., Li, J., Liu, Q., Price, N.D., Liu, C., Wang Z. March 8, 2019. “OptRAM: In-silico Strain Design via Integrative Regulatory-Metabolic Network Modeling.” PLOS Computational Biology. e1006835. DOI: 10.1371/journal.pcbi.1006835.
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Tye, B.W., Commins, N., Ryazanova, L.V., Wühr, M., Springer, M., Pincus, D., Churchman, L.S. March 7, 2019. “Proteotoxicity from Aberrant Ribosome Biogenesis Compromises Cell Fitness.” eLife. 8:e43002. DOI: 10.7554/eLife.43002.
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Wang, Z., Dien, B.S., Rausch, K.D., Tumbleson, M.E., Singh, V. March 1, 2019. “Improving Ethanol Yields with Deacetylated and Two-Stage Pretreated Corn Stover and Sugarcane Bagasse by Blending Commercial Xylose-Fermenting and Wild Type Saccharomyces Yeast.” Bioresource Technology. 282:103-109. DOI: 10.1016/j.biortech.2019.02.123.
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Kwak S., Jo J.H., Yun E.U., Jin Y.S., Seo J.H., March 2019. “Production of Biofuels and Chemicals from Xylose Using Native and Engineered Yeast Strains.” Biotechnology Advances 37:271-283. DOI: 10.1016/j.biotechadv.2018.12.003.

Dunivin, T.K., Choi, J., Howe, A., Shade A. Feb. 26 2019. “RefSoil+: A Reference Database for Genes and Traits of Soil Plasmids.” mSystems 4:e00349-18. DOI: 10.1128/mSystems.00349-18.
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Bradley, P.H., Gibney, P.A., Botstein, D., Troyanskaya, O.G., Rabinowitz, J.D. Feb. 26, 2019. “Minor Isozymes Tailor Yeast Metabolism to Carbon Availability.” mSystems 4:1-19. DOI: 10.1128/mSystems.00170-18
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Wang, J., Li, Y., Zhu, F., Ming, R., Chen, L. Feb. 21, 2019. “Genome-Wide Analysis of Nitrate Transporter (NRT/NPF) Family in Sugarcane Saccharum spontaneum L.” Tropical Plant Biology. DOI: 10.1007/s12042-019-09220-8.
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Oh E.J., Wei N., Kwak S., Kim H., Jin Y.S. Feb. 20, 2019. “Overexpression of RCK1 Improves Acetic Acid Tolerance in Saccharomyces cerevisiae.” Journal of Biotechnology 292:1-4. DOI: 10.1016/j.jbiotec.2018.12.013.
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Cheng M.H., Huang H., Dien B.S., Singh V. Feb. 16, 2019. “The Costs of Sugar Production from Different Feedstocks and Processing Technologies.” Biofuels, Bioproducts, and Biorefining. DOI:10.1002/bbb.1976.

Zhang, S., Jagtap, S.S.,Deewan, A., Rao, C.V. Jan. 20, 2019. “pH Selectively Regulates Citric Acid and Lipid Production in Yarrowia lipolytica W29 During Nitrogen-limited Growth on Glucose.” Journal of Biotechnology 290: 10-15. DOI: 10.1016/j.jbiotec.2018.10.012.
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Yu, L., Fan, J., Xu, C. Jan. 8, 2019. “Peroxisomal fatty acid β-oxidation negatively impacts plant survival under salt stress.” Plant Signaling & Behavior 14. DOI: 10.1080/15592324.2018.1561121
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Pappireddi, N., Martin, L., Wühr, M. Jan. 4, 2019. “A Review on Quantitative Multiplexed Proteomics.” ChemBioChem. DOI:10.1002/cbic.201800650.

Wang L., Xing X., Chen L., Yang L., Su X., Rabitz H., Lu W., Rabinowitz J.D. Dec. 26, 2018. “Peak Annotation and Verification Engine for Untargeted LC-MS Metabolomics.” Analytical Chemistry. 91:1838-1846. DOI: 10.1021/acs.analchem.8b03132.
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Dien, B.S., Mitchell, R.B., Bowman, M.J., Jin, V.L., Quarterman, J., Schmer, M.R., Singh, V., Slininger, P.J. Dec. 4, 2018. “Bioconversion of Pelletized Big Bluestem, Switchgrass, and Low-Diversity Grass Mixtures into Sugars and Bioethanol.” Frontiers in Energy Research 6: 1-15. DOI: 10.3389/fenrg.2018.00129.
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Kim, S.M., Lee, D.K., Thapa, S., Dien, B.S., Tumbleson, M.E., Rausch, K.D., Singh V. December 2018. “Cellulosic ethanol potential of feedstocks grown on marginal land.” Transactions of the ASABE 61(6): 1775-1782. DOI: 10.13031/trans.12945.
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Kurambhatti, C.V., Kumar, D., Rausch, K.D., Tumbleson, M.E., Singh, V. Oct. 23 2018. “Ethanol Production from Corn Fiber Separated after Liquefaction in the Dry Grind Process.” Energies 2018, 11 (11), 2921. DOI: 10.3390/en11112921.
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Zhang, J., Zhang, X., Tang, H., Zhang, Q., Hudson, M., Chen, L., Chifumi, N., Ming, R. Oct. 8, 2018. “Allele-defined Genome of the Autopolyploid Sugarcane Saccharum spontaneum L.” Nature Genetics Vol. 50, Issue 11, pp.1565-1573, DOI: 10.1038/s41588-018-0237-2.
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Teter, J., Yeh, S., Khanna, M., Berndes, G. Sept. 28, 2018. “Water Impacts of U.S. biofuels: Insights from an Assessment Combining Economic and Biophysical Models.” PLOS (Public Library of Science) ONE 13(9): e0204298, DOI: 10.1371/journal.pone.0204298.
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Xu Y.F., Lu W., Chen J.C., Johnson S.A., Gibney P.A., Thomas D.G., Grown G., May A.L., Campagna S.R., Yakunin A.F., Botstein D., Rabinowitz J.D. Sept. 21, 2018. “Discovery and Functional Characterization of a Yeast Sugar Alcohol Phosphatase.” ACS Chemical Biology, 13:3011-3020. DOI: 10.1021/acschembio.8b00804.
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Clifton‐Brown, J., Harfouche, A., Smart, L.B., Awty‐Carroll, D., Clark, L.V., Huang, L., McCalmont, J.P., Robson, P., Sacks, E.J., Swaminathan, K., Taylor, G. Sept. 19, 2018. “Breeding Progress and Preparedness for Mass‐scale Deployment of Perennial Lignocellulosic Biomass Crops Switchgrass, Miscanthus, Willow, and Poplar.” GCB Bioenergy, DOI: 10.1111/gcbb.12566.

Mirts, E.N., Petrik, I.D., Hosseinzadeh, P., Nilges, M.J., Lu, Y. Sept. 14, 2018. “A Designed Heme-[4Fe-4S] Metalloenzyme Catalyzes Sulfite Reduction Like the Native Enzyme.” Science Vol. 361, Issue 6407, pp. 1098-1101, DOI: 10.1126/science.aat8474.
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Kurambhatti, C.V., Kumar, D., Rausch, K.D., Tumbleson, M.E., Singh, V. Sept. 11, 2018. “Increasing Ethanol Yield through Fiber Conversion in Corn Dry Grind Process.” Bioresource Technology, Volume 270, Pages 742-745,  DOI: 10.1016/j.biortech.2018.09.120.
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Si, T., Tian, Q., Min, Y., Zhang, L., Sweedler, J.V., van der Donk, W.A., Zhao, H. Sept. 5, 2018. “Rapid Screening of Lanthipeptide Analogs via In-Colony Removal of Leader Peptides in Escherichia coli.” Journal of the American Chemical Society 2018, 140, 11884-11888. DOI: 10.1021/jacs.8b05544.
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Jagtap S.S., Rao C.V. Aug. 24, 2018. “Microbial Conversion of Xylose into Useful Bioproducts.” Applied Microbiology and Biotechnology, 102:9015-9036. DOI: 10.1007/s00253-018-9294-9.

Bansal, S., Kim, H.J., Na, G., Hamilton, M.E., Cahoon, E.B., Lu, C., Durrett, T.P. Aug. 14, 2018. “Towards the Synthetic Design of Camelina Oil Enriched in Tailored Acetyl-triacylglycerols with Medium-chain Fatty Acids.” Journal of Experimental Botany 69,: 4395-4402. DOI: 10.1093/jxb/ery225.
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Asao, S., Parton, W.J., Chen, M., Gao. W. Aug. 13, 2018. “Photodegradation Accelerates Ecosystem N Cycling in a Simulated California Grassland.” Ecosphere 9(8):e02370. DOI: 10.1002/ecs2.2370.
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Litman Z.C., Wang Y., Zhao H., Hartwig J.F. Aug. 13, 2018. “Cooperative Asymmetric Reactions Combining Photocatalysis and Enzymatic Catalysis.” Nature 560, 335-359 (2018). DOI: 10.1038/s41586-018-0413-7.
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Lane S., Dong J., Jin Y.S. July 2018. “Value-added Biotransformation of Cellulosic Sugars by Engineered Saccharomyces cerevisiae.” Bioresource Technology, 260: 380-394. DOI: 10.1016/j.biortech.2018.04.013.

Li, A., Jia, S., Yobi, A., Ge, Z., Sato, S.J., Zhang, C., Angelovici, R., Clemente, T.E., Holding, D.R. June 20, 2018. “Editing of an Alpha-kafirin Gene Family Increases Digestibility and Protein Quality in Sorghum.” Plant Physiology, 00200.2018. DOI: 10.1104/pp.18.00200.
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Jang, C., Chen, L., Rabinowitz, J.D. May 3, 2018. “Metabolomics and Isotope Tracing.” Cell,173:822-837. DOI: 10.1016/j.cell.2018.03.055

Lian, J., Mishra, S., Zhao, H. April 25, 2018. “Recent Advances in Metabolic Engineering of Saccharomyces cerevisiae: New Tools and Their Applications.” Metabolic Engineering. DOI: 10.1016/j.ymben.2018.04.011.

Zhu, X., Liang, C., Masters, M.D., Kantola, I.B., DeLucia, E.H. April 23, 2018. “The Impacts of Four Potential Bioenergy Crops on Soil Carbon Dynamics as Shown by Biomarker Analyses and DRIFT Spectroscopy.” GCB Bioenergy, 10, 489-500. DOI: 10.1111.gcbb.12520.
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Lian, J., HamediRad, M., Zhao, H. April 18, 2018. “Advancing Metabolic Engineering of Saccharomyces cerevisiae Using the CRISPR/Cas System.” Biotechnology Journal. DOI: 10.1002/biot.201700601.

Sonnett M., Young, E., Wühr, M. March 9, 2018. “Accurate, Sensitive, and Precise Multiplexed Proteomics Using the Complement Reporter Ion Cluster.” Analytical Chemistry. DOI: 10.1021/acs.analchem.7b04713.
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Lian, J., Bao, Z., Hu, S., Zhao, H. Feb. 20, 2018. “Engineered CRISPR/Cas9 System for Multiplex Genome Engineering of Polyploid Industrial Yeast Strains.” Biotechnology and Bioengineering. DOI: 10.1002/bit.26569.
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HamediRad, M., Lian, J., Li, H., Zhao, H. Feb. 20, 2018. “RNAi-assisted Genome Evolution Unveils Yeast Mutants with Improved Xylose Utilization.” Biotechnology and Bioengineering,115:1552-1560. DOI: 10.1002/bit.26570.
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