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2023
ClusterCAD 2.0: an updated computational platform for chimeric type I polyketide synthase and nonribosomal peptide synthetase design
Tao, X. B., LaFrance, S., Xing, Y., Nava, A. A., Martin, H. G., Keasling, J. D. & Backman, T. W. H., 2023, In: Nucleic Acids Research. 51, D1, gkac1075.Research output: Contribution to journal › Journal article › Research › peer-review
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Complete integration of carbene-transfer chemistry into biosynthesis
Huang, J., Quest, A., Cruz-Morales, P., Deng, K., Pereira, J. H., Van Cura, D., Kakumanu, R., Baidoo, E. E. K., Dan, Q., Chen, Y., Petzold, C. J., Northen, T. R., Adams, P. D., Clark, D. S., Balskus, E. P., Hartwig, J. F., Mukhopadhyay, A. & Keasling, J. D., 2023, In: Nature. 617, 7960, p. 403-408 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Discovery of the Azaserine Biosynthetic Pathway Uncovers a Biological Route for α-Diazoester Production
Van Cura, D., Ng, T. L., Huang, J., Hager, H., Hartwig, J. F., Keasling, J. D. & Balskus, E. P., 2023, In: Angewandte Chemie - International Edition. 135, 28, 8 p., e202304646.Research output: Contribution to journal › Journal article › Research › peer-review
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Expanding Extender Substrate Selection for Unnatural Polyketide Biosynthesis by Acyltransferase Domain Exchange within a Modular Polyketide Synthase
Englund, E., Schmidt, M., Nava, A. A., Lechner, A., Deng, K., Jocic, R., Lin, Y., Roberts, J., Benites, V. T., Kakumanu, R., Gin, J. W., Chen, Y., Liu, Y., Petzold, C. J., Baidoo, E. E. K., Northen, T. R., Adams, P. D., Katz, L., Yuzawa, S. & Keasling, J. D., 2023, In: Journal of the American Chemical Society. 145, 16, p. 8822-8832 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Medicinal terpenoid UDP-glycosyltransferases in plants: recent advances and research strategies
Lu, X., Huang, L., Scheller, H. & Keasling, J. D., 2023, In: Journal of Experimental Botany. 74, 5, p. 1343-1357 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Reprogramming methanol utilization pathways to convert Saccharomyces cerevisiae to a synthetic methylotroph
Zhan, C., Li, X., Lan, G., Baidoo, E. E. K., Yang, Y., Liu, Y., Sun, Y., Wang, S., Wang, Y., Wang, G., Nielsen, J., Keasling, J. D., Chen, Y. & Bai, Z., 2023, In: Nature Catalysis. 6, 5, p. 435-450 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
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The pGinger Family of Expression Plasmids
Pearson, A. N., Thompson, M. G., Kirkpatrick, L. D., Ho, C., Vuu, K. M., Waldburger, L. M., Keasling, J. D. & Shih, P. M., 2023, In: Microbiology Spectrum. 11, 3, e0037323.Research output: Contribution to journal › Journal article › Research › peer-review
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Transcriptome architecture of the three main lineages of agrobacteria
Waldburger, L., Thompson, M. G., Weisberg, A. J., Lee, N., Chang, J. H. H., Keasling, J. D. & Shih, P. M. M., 2023, In: mSystems. 8, 4, 18 p., e0033323.Research output: Contribution to journal › Journal article › Research › peer-review
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2022
Acyltransferase domain swap in modular type I polyketide synthase to adjust the molecular gluing strength of rapamycin
Pang, B., Graziani, E. I. & Keasling, J. D., 2022, In: Tetrahedron Letters. 112, 5 p., 154229.Research output: Contribution to journal › Journal article › Research › peer-review
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Advanced one-pot deconstruction and valorization of lignocellulosic biomass into triacetic acid lactone using Rhodosporidium toruloides
Otoupal, P. B., Geiselman, G. M., Oka, A. M., Barcelos, C. A., Choudhary, H., Dinh, D., Zhong, W., Hwang, H. J., Keasling, J. D., Mukhopadhyay, A., Sundstrom, E., Haushalter, R. W., Sun, N., Simmons, B. A. & Gladden, J. M., 2022, In: Microbial Cell Factories. 21, 1, 254.Research output: Contribution to journal › Journal article › Research › peer-review
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A FAIR-compliant parts catalogue for genome engineering and expression control in Saccharomyces cerevisiae
D'Ambrosio, V., Hansen, L. G., Zhang, J., Jensen, E. D., Arsovska, D., Laloux, M., Jakočiūnas, T., Hjort, P., De Lucrezia, D., Marletta, S., Keasling, J. D. & Jensen, M. K., 2022, In: Synthetic and Systems Biotechnology. 7, 2, p. 657-663Research output: Contribution to journal › Journal article › Research › peer-review
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A microbial supply chain for production of the anti-cancer drug vinblastine
Zhang, J., Hansen, L. G., Gudich, O., Viehrig, K., Lassen, L. M. M., Schrübbers, L., Adhikari, K. B., Rubaszka, P., Carrasquer-Alvarez, E., Chen, L., D’Ambrosio, V., Lehka, B., Haidar, A. K., Nallapareddy, S., Giannakou, K., Laloux, M., Arsovska, D., Jørgensen, M. A. K., Chan, L. J. G., Kristensen, M., & 10 others, 2022, In: Nature. 609, 7926, p. 341-347 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Assembly and Evolution of Artificial Metalloenzymes within E. coli Nissle 1917 for Enantioselective and Site-Selective Functionalization of C-H and C=C Bonds
Liu, Z., Huang, J., Gu, Y., Clark, D. S., Mukhopadhyay, A., Keasling, J. D. & Hartwig, J. F., 2022, In: Journal of the American Chemical Society. 144, 2, p. 883-890 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Biosynthesis of polycyclopropanated high energy biofuels
Cruz-Morales, P., Yin, K., Landera, A., Cort, J. R., Young, R. P., Kyle, J. E., Bertrand, R., Iavarone, A. T., Acharya, S., Cowan, A., Chen, Y., Gin, J. W., Scown, C. D., Petzold, C. J., Araujo-Barcelos, C., Sundstrom, E., George, A., Liu, Y., Klass, S., Nava, A. A., & 1 others, 2022, In: Joule. 6, 7, p. 1590-1605 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Circularity in mixed-plastic chemical recycling enabled by variable rates of polydiketoenamine hydrolysis
Demarteau, J., Epstein, A. R., Christensen, P. R., Abubekerov, M., Wang, H., Teat, S. J., Seguin, T. J., Chan, C. W., Scown, C. D., Russell, T. P., Keasling, J. D., Persson, K. A. & Helms, B. A., 2022, In: Science Advances. 8, 29, eabp8823.Research output: Contribution to journal › Journal article › Research › peer-review
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Engineering Pseudomonas putida KT2440 for chain length tailored free fatty acid and oleochemical production
Valencia, L. E., Incha, M. R., Schmidt, M., Pearson, A. N., Thompson, M. G., Roberts, J. B., Mehling, M., Yin, K., Sun, N., Oka, A., Shih, P. M., Blank, L. M., Gladden, J. & Keasling, J. D., 2022, In: Communications Biology. 5, 1, 12 p., 1363.Research output: Contribution to journal › Journal article › Research › peer-review
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In silico COSMO-RS predictive screening of ionic liquids for the dissolution of plastic
Mohan, M., Keasling, J. D., Simmons, B. A. & Singh, S., 2022, In: Green Chemistry. 24, 10, p. 4140-4152Research output: Contribution to journal › Journal article › Research › peer-review
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Lower-Cost, Lower-Carbon Production of Circular Polydiketoenamine Plastics
Demarteau, J., Vora, N., Keasling, J. D., Helms, B. A. & Scown, C. D., 2022, In: ACS Sustainable Chemistry and Engineering. 10, 8, p. 2740-2749 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Nitrogen Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing
Schmidt, M., Pearson, A. N., Incha, M. R., Thompson, M. G., Baidoo, E. E. K., Kakumanu, R., Mukhopadhyay, A., Shih, P. M., Deutschbauer, A. M., Blank, L. M. & Keasling, J. D., 2022, In: Applied and Environmental Microbiology. 88, 7, 30 p., e02430-21.Research output: Contribution to journal › Journal article › Research › peer-review
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Supplying plant natural products by yeast cell factories
Romero-Suarez, D., Keasling, J. D. & Jensen, M. K., 2022, In: Current Opinion in Green and Sustainable Chemistry. 33, 10 p., 100567.Research output: Contribution to journal › Journal article › Research › peer-review
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2021
A Reporter System for Cytosolic Protein Aggregates in Yeast
Romero-Suarez, D., Wulff, T., Rong, Y., Jakočiū Nas, T., Yuzawa, S., Keasling, J. D. & Jensen, M. K., 2021, In: ACS Synthetic Biology. 10, 3, p. 466-477 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
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A synthetic promoter system for well-controlled protein expression with different carbon sources in Saccharomyces cerevisiae
Deng, J., Wu, Y., Zheng, Z., Chen, N., Luo, X., Tang, H. & Keasling, J. D., 2021, In: Microbial Cell Factories. 20, 1, 10 p., 202.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile108 Downloads (Pure) -
A synthetic RNA-mediated evolution system in yeast
Jensen, E. D., Laloux, M., Lehka, B. J., Pedersen, L. E., Jakočiūnas, T., Jensen, M. K. & Keasling, J. D., 2021, In: Nucleic Acids Research. 49, 15, e88.Research output: Contribution to journal › Journal article › Research › peer-review
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Biofuels for a sustainable future
Liu, Y., Cruz-Morales, P., Zargar, A., Belcher, M. S., Pang, B., Englund, E., Dan, Q., Yin, K. & Keasling, J. D., 2021, In: Cell. 184, 6, p. 1636-1647Research output: Contribution to journal › Journal article › Research › peer-review
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Engineering yeast metabolism for the discovery and production of polyamines and polyamine analogues
Qin, J., Krivoruchko, A., Ji, B., Chen, Y., Kristensen, M., Özdemir, E., Keasling, J. D., Jensen, M. K. & Nielsen, J., 2021, In: Nature Catalysis. 4, 6, p. 498-509Research output: Contribution to journal › Journal article › Research › peer-review
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Integrating continuous hypermutation with high-throughput screening for optimization of cis,cis-muconic acid production in yeast
Jensen, E. D., Ambri, F., Bendtsen, M. B., Javanpour, A. A., Liu, C. C., Jensen, M. K. & Keasling, J. D., 2021, In: Microbial Biotechnology. 14, 6, p. 2617-2626 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Lepidopteran mevalonate pathway optimization in Escherichia coli efficiently produces isoprenol analogs for next-generation biofuels
Pang, B., Li, J., Eiben, C. B., Oksen, E., Barcelos, C., Chen, R., Englund, E., Sundstrom, E. & Keasling, J. D., 2021, In: Metabolic Engineering. 68, p. 210-219 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Leveling the cost and carbon footprint of circular polymers that are chemically recycled to monomer
Vora, N., Christensen, P. R., Demarteau, J., Baral, N. R., Keasling, J. D., Helms, B. A. & Scown, C. D., 9 Apr 2021, In: Science Advances. 7, 15, 12 p., eabf0187.Research output: Contribution to journal › Journal article › Research › peer-review
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Optimising the biosynthesis of oxygenated and acetylated Taxol precursors in Saccharomyces cerevisiae using advanced bioprocessing strategies
Walls, L. E., Malci, K., Nowrouzi, B., Li, R., d'Espaux, L., Wong, J., Dennis, J. A., Semiao, A. J. C., Wallace, S., Martinez, J. L., Keasling, J. D. & Rios-Solis, L., 2021, In: Biotechnology and Bioengineering. 118, 1, p. 279-293 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
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The Design-Build-Test-Learn cycle for metabolic engineering of Streptomycetes
Whitford, C. M., Cruz-Morales, P., Keasling, J. D. & Weber, T., 2021, In: Essays in Biochemistry. 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Unnatural biosynthesis by an engineered microorganism with heterologously expressed natural enzymes and an artificial metalloenzyme
Huang, J., Liu, Z., Bloomer, B. J., Clark, D. S., Mukhopadhyay, A., Keasling, J. D. & Hartwig, J. F., 2021, In: Nature Chemistry. 13, p. 1186–1191 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
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2020
A bimodular PKS platform that expands the biological design space
Zargar, A., Valencia, L., Wang, J., Lal, R., Chang, S., Werts, M., Wong, A. R., Hernández, A. C., Benites, V., Baidoo, E. E. K., Katz, L. & Keasling, J. D., Sept 2020, In: Metabolic Engineering. 61, p. 389-396Research output: Contribution to journal › Journal article › Research › peer-review
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An iron (II) dependent oxygenase performs the last missing step of plant lysine catabolism
Thompson, M. G., Blake-Hedges, J. M., Pereira, J. H., Hangasky, J. A., Belcher, M. S., Moore, W. M., Barajas, J. F., Cruz-Morales, P., Washington, L. J., Haushalter, R. W., Eiben, C. B., Liu, Y., Skyrud, W., Benites, V. T., Barnum, T. P., Baidoo, E. E. K., Scheller, H. V., Marletta, M. A., Shih, P. M., Adams, P. D., & 1 others, 2020, In: Nature Communications. 11, 1, 2931.Research output: Contribution to journal › Journal article › Research › peer-review
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A systems analysis of NADH dehydrogenase mutants reveals flexibility and limits of Pseudomonas taiwanensis VLB120's metabolism
Nies, S. C., Dinger, R., Chen, Y., Wordofa, G. G., Kristensen, M., Schneider, K., Büchs, J., Petzold, C. J., Keasling, J. D., Blank, L. M. & Ebert, B. E., 2020, In: Applied and Environmental Microbiology. 86, 11, e03038-19.Research output: Contribution to journal › Journal article › Research › peer-review
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Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism
Zhang, J., Petersen, S. D., Radivojevic, T., Ramirez, A., Pérez-Manríquez, A., Abeliuk, E., Sánchez, B. J., Costello, Z., Chen, Y., Fero, M. J., Martin, H. G., Nielsen, J., Keasling, J. D. & Jensen, M. K., 1 Dec 2020, In: Nature Communications. 11, 1, 13 p., 4880.Research output: Contribution to journal › Journal article › Research › peer-review
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Dietary Change Enables Robust Growth-Coupling of Heterologous Methyltransferase Activity in Yeast
Hansen, A. S. L., Dunham, M. J., Arsovska, D., Zhang, J., Keasling, J. D., Herrgard, M. J. & Jensen, M. K., 2020, In: ACS Synthetic Biology. 9, 12, p. 3408-3415 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Draft Genome Sequence of Agrobacterium fabrum ARqua1
Thompson, M. G., Cruz-Morales, P., Moore, W. M., Pearson, A. N., Keasling, J. D., Scheller, H. V. & Shih, P. M., 2020, In: Microbiology Resource Announcements. 9, 27, 3 p., e00506-20.Research output: Contribution to journal › Journal article › Research › peer-review
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Enhanced production of taxadiene in Saccharomyces cerevisiae
Nowrouzi, B., Li, R. A., Walls, L. E., d’Espaux, L., Malcı, K., Liang, L., Jonguitud-Borrego, N., Lerma-Escalera, A. I., Morones-Ramirez, J. R., Keasling, J. D. & Rios-Solis, L., 2020, In: Microbial Cell Factories. 19, 1, 12 p., 200.Research output: Contribution to journal › Journal article › Research › peer-review
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Evolution-guided engineering of small-molecule biosensors
Snoek, T., Chaberski, E. K., Ambri, F., Kol, S., Bjørn, S. P., Pang, B., Barajas, J. F., Welner, D. H., Jensen, M. K. & Keasling, J. D., 2020, In: Nucleic Acids Research. 48, 1, e3.Research output: Contribution to journal › Journal article › Research › peer-review
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Functional analysis of the fatty acid and alcohol metabolism of Pseudomonas putida using RB-TnSeq
Thompson, M. G., Incha, M. R., Pearson, A. N., Schmidt, M., Sharpless, W. A., Eiben, C. B., Cruz-Morales, P., Blake-Hedges, J. M., Liu, Y., Adams, C. A., Haushalter, R. W., Krishna, R. N., Lichtner, P., Blank, L. M., Mukhopadhyay, A., Deutschbauer, A. M., Shih, P. M. & Keasling, J. D., 2020, In: Applied and Environmental Microbiology. 86, 21, 23 p., e01665-20.Research output: Contribution to journal › Journal article › Research › peer-review
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Genome-scale metabolic rewiring improves titers rates and yields of the non-native product indigoidine at scale
Banerjee, D., Eng, T., Lau, A. K., Sasaki, Y., Wang, B., Chen, Y., Prahl, J. P., Singan, V. R., Herbert, R. A., Liu, Y., Tanjore, D., Petzold, C. J., Keasling, J. D. & Mukhopadhyay, A., 2020, In: Nature Communications. 11, 1, 11 p., 5385.Research output: Contribution to journal › Journal article › Research › peer-review
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High-resolution scanning of optimal biosensor reporter promoters in yeast
Ambri, F., D'ambrosio, V., Di Blasi, R., Maury, J., Baallal Jacobsen, S. A., McCloskey, D., Jensen, M. K. & Keasling, J. D., 2020, In: ACS Synthetic Biology. 9, 2, p. 218-226 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
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High titer methyl ketone production with tailored Pseudomonas taiwanensis VLB120
Nies, S. C., Alter, T. B., Nölting, S., Thiery, S., Phan, A. N. T., Drummen, N., Keasling, J. D., Blank, L. M. & Ebert, B. E., 2020, In: Metabolic Engineering. 62, p. 84-94Research output: Contribution to journal › Journal article › Research › peer-review
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Identification, Characterization, and Application of a Highly Sensitive Lactam Biosensor from Pseudomonas putida
Thompson, M. G., Pearson, A. N., Barajas, J. F., Cruz-Morales, P., Sedaghatian, N., Costello, Z., Garber, M. E., Incha, M. R., Valencia, L. E., Baidoo, E. E. K., Martin, H. G., Mukhopadhyay, A. & Keasling, J. D., 2020, In: ACS Synthetic Biology. 9, 1, p. 53-62 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Insights into the Mechanism of Phenylacetate Decarboxylase (PhdB), a Toluene-Producing Glycyl Radical Enzyme
Rodrigues, A. V., Tantillo, D. J., Mukhopadhyay, A., Mukhopadhyay, A., Keasling, J. & Beller, H. R., 2020, In: ChemBioChem. 21, 5, p. 663-671Research output: Contribution to journal › Journal article › Research › peer-review
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Leveraging host metabolism for bisdemethoxycurcumin production in Pseudomonas putida
Incha, M. R., Thompson, M. G., Blake-Hedges, J. M., Liu, Y., Pearson, A. N., Schmidt, M., Gin, J. W., Petzold, C. J., Deutschbauer, A. M. & Keasling, J. D., 2020, In: Metabolic Engineering Communications. 10, e00119.Research output: Contribution to journal › Journal article › Research › peer-review
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Programmable polyketide biosynthesis platform for production of aromatic compounds in yeast
Jakočiūnas, T., Klitgaard, A. K., Kontou, E. E., Nielsen, J. B., Thomsen, E., Romero Suarez, D., Blin, K., Petzold, C. J., Gin, J. W., Tong, Y., Gotfredsen, C. H., Charusanti, P., Frandsen, R. J. N., Weber, T., Lee, S. Y., Jensen, M. K. & Keasling, J. D., 2020, In: Synthetic and Systems Biotechnology. 5, 1, p. 11-18 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Regulatory control circuits for stabilizing long-term anabolic product formation in yeast
D'ambrosio, V., Dore, E., Di Blasi, R., van den Broek, M., Sudarsan, S., ter Horst, J., Ambri, F., Sommer, M. O. A., Rugbjerg, P., Keasling, J. D., Mans, R. & Jensen, M. K., 2020, In: Metabolic Engineering. 61, p. 369-380Research output: Contribution to journal › Journal article › Research › peer-review
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Response of Pseudomonas putida to Complex, Aromatic-Rich Fractions from Biomass
Park, M. R., Chen, Y., Thompson, M., Benites, V. T., Fong, B., Petzold, C. J., Baidoo, E. E. K., Gladden, J. M., Adams, P. D., Keasling, J. D., Simmons, B. A. & Singer, S. W., 2020, In: ChemSusChem. 13, 17, p. 4455-4467Research output: Contribution to journal › Journal article › Research › peer-review
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Structural Mechanism of Regioselectivity in an Unusual Bacterial Acyl-CoA Dehydrogenase
Blake-Hedges, J. M., Pereira, J. H., Cruz-Morales, P., Thompson, M. G., Barajas, J. F., Chen, J., Krishna, R. N., Chan, L. J. G., Nimlos, D., Alonso-Martinez, C., Baidoo, E. E. K., Chen, Y., Gin, J. W., Katz, L., Petzold, C. J., Adams, P. D. & Keasling, J. D., 2020, In: Journal of the American Chemical Society. 142, 2, p. 835-846Research output: Contribution to journal › Journal article › Research › peer-review
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