20172020

Research output per year

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Research Output

  • 11 Journal article

Adaptation to the coupling of glycolysis to toxic methylglyoxal production in tpiA deletion strains of Escherichia coli requires synchronized and counterintuitive genetic changes

McCloskey, D., Xu, S., Sandberg, T. E., Brunk, E., Hefner, Y., Szubin, R., Feist, A. M. & Palsson, B. O., 2018, In : Metabolic Engineering. 48, p. 82-93

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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191 Downloads (Pure)

Adaptive laboratory evolution resolves energy depletion to maintain high aromatic metabolite phenotypes in Escherichia coli strains lacking the Phosphotransferase System

McCloskey, D., Xu, S., Sandberg, T. E., Brunk, E., Hefner, Y., Szubin, R., Feist, A. M. & Palsson, B. O., 2018, In : Metabolic Engineering. 48, p. 233-242

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
182 Downloads (Pure)

Antibiotic-Induced Changes to the Host Metabolic Environment Inhibit Drug Efficacy and Alter Immune Function

Yang, J. H., Bhargava, P., McCloskey, D., Mao, N., Palsson, B. & Collins, J. J., 2017, In : Cell Host & Microbe. 22, p. 757-765

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
234 Downloads (Pure)

A White-Box Machine Learning Approach for Revealing Antibiotic Mechanisms of Action

Yang, J. H., Wright, S. N., Hamblin, M., McCloskey, D., Alcantar, M. A., Schrübbers, L., Lopatkin, A. J., Satish, S., Nili, A., Palsson, B. O., Walker, G. C. & Collins, J. J., 2019, In : CELL. 177, 6, p. 1649-1661.e9

Research output: Contribution to journalJournal articleResearchpeer-review

Evolution of gene knockout strains of E-coli reveal regulatory architectures governed by metabolism

McCloskey, D., Xu, S., Sandberg, T. E., Brunk, E., Hefner, Y., Szubin, R., Feist, A. M. & Palsson, B. O., 2018, In : Nature Communications. 9, 15 p., 3796.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
249 Downloads (Pure)

Growth Adaptation of gnd and sdhCB Escherichia coli Deletion Strains Diverges From a Similar Initial Perturbation of the Transcriptome

McCloskey, D., Xu, S., Sandberg, T. E., Brunk, E., Hefner, Y., Szubin, R., Feist, A. M. & Palsson, B. O., 2018, In : Frontiers in Microbiology. 9, 16 p., 1793.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
236 Downloads (Pure)

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

Research output: Contribution to journalJournal articleResearchpeer-review

Laboratory evolution reveals a two-dimensional rate-yield tradeoff in microbial metabolism

Cheng, C., O'Brien, E. J., McCloskey, D., Utrilla, J., Olson, C., LaCroix, R. A., Sandberg, T. E., Feist, A. M., Palsson, B. O. & King, Z. A., 2019, In : PLOS Computational Biology. 15, 6, e1007066.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
348 Downloads (Pure)

Multi-omics analysis of fatty alcohol production in engineered yeasts saccharomyces cerevisiae and yarrowia lipolytica

Dahlin, J., Holkenbrink, C., Marella, E. R., Wang, G., Liebal, U., Lieven, C., Weber, D., McCloskey, D., Ebert, B. E., Herrgård, M. J., Blank, L. M. & Borodina, I., 2019, In : Frontiers in Genetics. 10, 747.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
62 Downloads (Pure)

Multiple Optimal Phenotypes Overcome Redox and Glycolytic Intermediate Metabolite Imbalances in Escherichia coli pgi Knockout Evolutions

McCloskey, D., Xu, S., Sandberg, T. E., Brunk, E., Hefner, Y., Szubin, R., Feist, A. M. & Palsson, B. O., 2018, In : Applied and Environmental Microbiology. 84, 19, 17 p., e00823-18.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
152 Downloads (Pure)

RapidRIP quantifies the intracellular metabolome of 7 industrial strains of E. coli

McCloskey, D., Xu, J., Schrübbers, L., Christensen, H. B. & Herrgård, M. J., 2018, In : Metabolic Engineering. 47, p. 383-392

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
401 Downloads (Pure)