TS Moon. Making space for young speakers. Nature Chemical Biology18, 353 (2022)

R Mackelprang, KP Adamala, ER Aurand, JC Diggans, AD Ellington, SW Evans, JLC Fortman, NJ Hillson, AW Hinman, FJ Isaacs, MI June, S Mamaghani, TS Moon, MJ Palmer, J Peccoud, EA Vitalis, I Hook-Barnard, D Friedman. Making Security Viral: Shifting engineering biology culture and publishing. ACS Synth. Biol. 11, 522–527 (2022)

AG Rottinghaus, A Ferreiro, SRS Fishbein, G Dantas and TS Moon. Genetically stable CRISPR-based kill switches for engineered microbes. Nature Communications.


AG Rottinghaus, C Xi, MB Amrofell, H Yi and TS Moon. Engineering probiotics for specific sensing of aromatic amino acids or neurochemicals. Cell Systems.
Recommended by Faculty Opinions

K Zhang, J Hodge, A Chatterjee, TS Moon and KM Parker. Duplex Structure of Double-Stranded RNA Provides Stability against Hydrolysis Relative to Single-Stranded RNA, Environ. Sci. Technol.

DM DeLorenzo, J Diao, R Carr, Y Hu and TS Moon. An improved CRISPR interference tool to engineer Rhodococcus opacus. ACS Synth. Biol.


MB Amrofell, AG Rottinghaus and TS Moon. Engineering microbial diagnostics and therapeutics with smart control. Curr. Opin. Biotechnol. 66, 11-17. (2020)

K Davis and TS Moon. Tailoring microbes to upgrade lignin. Curr. Opin. Chem. Biol. 59, 23-29 (2020)

K Zhang, J Wei, K Huff Hartz, M Lydy, TS Moon, M Sander and KM Parker. Analysis of RNA interference (RNAi) biopesticides: double-stranded RNA (dsRNA) extraction from agricultural soils and quantification by RT-qPCR. Environ. Sci. Technol. 54, 4893−4902 (2020)

C Frankfater, WR Henson, A Juenger-Leif, M Foston, TS Moon, J Turk, JLF Kao, A Haas and F Hsu. Structural determination of a new peptidolipid family from Rhodococcus opacus and the pathogen Rhodococcus equi by multiple stage mass spectrometry. J. Am. Soc. Mass Spectrom. 31, 611−623 (2020)

A Chatterjee, DM DeLorenzo, R Carr and TS Moon. Bioconversion of renewable feedstocks by Rhodococcus opacus. Curr. Opin. Biotechnol. 64, 10-16 (2020)


AG Rottinghaus, MB Amrofell and TS Moon. Biosensing in smart engineered probiotics. Biotechnol. J.

DM DeLorenzo and TS Moon. Construction of genetic logic gates based on the T7 RNA polymerase expression system in Rhodococcus opacus PD630. ACS Synth. Biol. 10.1021/acssynbio.9b00213 (2019)

W Anthony, RR Carr, DM DeLorenzo, T Campbell, Z Shang, M Foston, TS Moon and G Dantas. Development of Rhodococcus opacus as a chassis for lignin valorization and bioproduction of high-value compounds. Biotechnol Biofuels. 12:192. (2019)

GW Roell, R Carr, T Campbell, Z Shang, WR Henson, J Czajka, H Martin, F Zhang, M Foston, G Dantas, TS Moon and YJ Tang. A concerted systems biology analysis of phenol metabolism in Rhodococcus opacus PD630. Metab. Eng. 55, 120-130 (2019)

SJ Kim, M Leong, MB Amrofell, YJ Lee and TS Moon. Modulating responses of toehold switches by an inhibitory hairpin. ACS Synth. Biol.


WR Henson, F Hsu, G Dantas, TS Moon and M Foston. Lipid metabolism of phenol tolerant Rhodococcus opacus strains for lignin bioconversion. Biotechnol Biofuels. 11:339 (2018)

YJ Lee, SJ Kim, MB Amrofell and TS Moon. Establishing a multivariate model for predictable antisense RNA-mediated repression. ACS Synth. Biol.

WR Henson, T Campbell, D DeLorenzo, Y Gao, B Berla, SJ Kim, M Foston, TS Moon and G Dantas. Multi-omic elucidation of aromatic catabolism in adaptively evolved Rhodococcus opacus. Metab. Eng. 49, 69–83 (2018)

DM DeLorenzo and TS Moon. Selection of stable reference genes for RT-qPCR in Rhodococcus opacus PD630. Sci. Rep. 8:6019 (2018)

YJ Lee, SJ Kim and TS Moon. Multilevel regulation of bacterial gene expression with the combined STAR and antisense RNA system. ACS Synth. Biol. 10.1021/acssynbio.7b00322

DM DeLorenzo, AG Rottinghaus, WR Henson and TS Moon. Molecular toolkit for gene expression control and genome modification in Rhodococcus opacus PD630. ACS Synth. Biol. 10.1021/acssynbio.7b00416

YJ Lee and TS Moon. Design rules of synthetic non-coding RNAs in bacteria. Methods.


DM DeLorenzo, WR Henson and TS Moon. Development of Chemical and Metabolite Sensors for Rhodococcus opacus PD630. ACS Synth. Biol. Accepted. DOI: 10.1021/acssynbio.7b00192

T Shopera, WR Henson and TS Moon. Dynamics of sequestration-based gene regulatory cascades. Nucleic Acids Res. DOI: 10.1093/nar/gkx465

T Shopera, L He, T Oyetunde, YJ Tang and TS Moon. Decoupling resource-coupled gene expression in living cells. ACS Synth. Biol. Accepted. DOI: 10.1021/acssynbio.7b00119

TS Moon. What Is the Role of Circuit Design in the Advancement of Synthetic Biology? Cell Systems 4, 370-372 (with 8 other contributors).

N Wan, DM DeLorenzo, L He, L You, CM Immethun, G Wang, EEK Baidoo, W Hollinshead, JD Keasling, TS Moon and YJ Tang. Cyanobacterial carbon metabolism: fluxome plasticity and oxygen dependence. Biotechnol. Bioeng. Accepted. DOI: 10.1002/bit.26287

A Hoynes-O’Connor, T Shopera, K Hinman, JP Creamer and TS Moon. Enabling Complex Genetic Circuits to Respond to Extrinsic Environmental Signals. Biotechnol. Bioeng. Accepted. DOI: 10.1002/bit.26279

CM Immethun, DM DeLorenzo, CM Focht, D Gupta, CB Johnson and TS Moon. Physical, Chemical, and Metabolic State Sensors Expand the Synthetic Biology Toolbox for Synechocystis sp. PCC 6803. Biotechnol. Bioeng. Accepted. DOI: 10.1002/bit.26275


A Hoynes-O’Connor and TS Moon. Development of design rules for reliable antisense RNA behavior in E. coli. ACS Synth. Biol. 5, 1441−1454 (2016)
Featured on the Cover Page

R Saha, D Liu, A Hoynes-O’Connor, M Liberton, J Yu, M Bhattacharyya-Pakrasi, A Balassy, F Zhang, TS Moon, CD Maranas and HB Pakrasi. Diurnal Regulation of Cellular Processes in the Cyanobacterium Synechocystis sp. Strain PCC 6803: Insights from Transcriptomic, Fluxomic and Physiological Analyses. mBio. 7, e00464-16 (2016)

CM Immethun, WR Henson, X Wang, D Nielsen and TS Moon. Engineering Central Metabolism for Production of Higher Alcohol-based Biofuels, Chapter 1, p1-34 in “Biotechnologies for Biofuel Production and Optimization” (CA Eckert & CT Trinh, Ed). Elsevier.

YJ Lee, A Hoynes-O’Connor, MC Leong and TS Moon. Programmable control of bacterial gene expression with the combined CRISPR and antisense RNA system. Nucleic Acids Res. DOI: 10.1093/nar/gkw056 (2016)
One of NAR Top Articles (most often accessed in July 2017)

A Yoneda, WR Henson, NK Goldner, KJ Park, KJ Forsberg, SJ Kim, MW Pesesky, M Foston, G Dantas and TS Moon. Comparative transcriptomics elucidates adaptive phenol tolerance and utilization in lipid-accumulating Rhodococcus opacus PD630. Nucleic Acids Res. DOI: 10.1093/nar/gkw055 (2016)


T Shopera, WR Henson, A Ng, YJ Lee, K Ng and TS Moon. Robust, tunable genetic memory from protein sequestration combined with positive feedback. Nucleic Acids Res. DOI: 10.1093/nar/gkv936 (2015)

CM Immethun, KM Ng, DM DeLorenzo, B Waldron-Feinstein, YC Lee and TS Moon. Oxygen-Responsive Genetic Circuits Constructed in Synechocystis sp. PCC 6803. Biotechnol. Bioeng. DOI: 10.1002/bit.25722 (2015)

WD Hollinshead, WR Henson, Mary Abernathy, TS Moon, and YJ Tang. Rapid Metabolic Analysis of Rhodococcus opacus PD630 via parallel 13C-Metabolite Fingerprinting. Biotechnol. Bioeng. DOI: 10.1002/bit.25702 (2015)

A Hoynes-O’Connor and TS Moon. Programmable genetic circuits for pathway engineering. Curr. Opin. Biotechnol. 36, 115-121 (2015)

A Hoynes-O’Connor, K Hinman, L Kirchner and TS Moon. De novo design of heat-repressible RNA thermosensors in E. coli. Nucleic Acids Res. 43, 6166–6179 (2015)


B Thompson, TS Moon and D Nielsen. ‘Hybrid’ Processing Strategies for Expanding and Improving the Synthesis of Renewable Bioproducts, Curr. Opin. Biotechnol. 30, 17-23 (2014).


D Nielsen and TS Moon. From Promise to Practice: the Role of Synthetic Biology in Green Chemistry, EMBO Reports, published online, doi:10.1038/embor.2013.178 (2013)

BM Berla, R Saha, CM Immethun, CD Maranas, TS Moon and H Pakrasi. Synthetic Biology of Cyanobacteria: Unique Challenges and Opportunities, Front. Microbiol. 4:246 (2013)

K Solomon, TS Moon, B Ma, TM Sanders and KJ Prather. Tuning primary metabolism for heterologous pathway productivity, ACS Synth. Biol. 2, 126-135 (2013)
Professor Moon is highlighted in ACS Synthetic Biology’s “Introducing Our Authors”.

CM Immethun, AG Hoynes-O’Connor, A Balassy and TS Moon. Microbial Production of Isoprenoids Enabled by Synthetic Biology, Front. Microbio. 4 (75), Invited review (2013),_ecotoxicology_and_bioremediation/10.3389/fmicb.2013.00075/abstract


TS Moon, C Lou, A Tamsir, BC Stanton and CA Voigt. Genetic Programs Constructed from Layered Logic Gates in Single Cells, Nature. 491, 249-253 (2012)

TS Moon*, D Nielsen* and KJ Prather. Sensitivity Analysis of a Proposed Model Mechanism for Newly Created Glucose 6-Oxidases, AIChE J. 58, 2303-2308 (2012)


TS Moon, EJ Clarke, ES Groban, A Tamsir, RM Clark, M Eames, T Kortemme and CA Voigt. Construction of a genetic multiplexer to toggle between chemosensory pathways in Escherichia coli, J. Mol. Biol. 406, 215-227 (2011)


SM Lippow*, TS Moon*, S Basu, S-H Yoon, X Li, B Chapman, K Robison, D Lipovšek and KJ Prather. Engineering enzyme specificity using computational design of a defined-sequence library, Chem. Biol. 17, 1306-1315 (2010)
Selected as a “Recommended” paper by faculty of 1000

TS Moon, JE Dueber, E Shiue and KJ Prather. Use of Modular, Synthetic Scaffolds for Improved Production of Glucaric Acid in Engineered E. coli, Metab. Eng. 12, 298-305 (2010)


JE Dueber, GC Wu, GR Malmirchegini, TS Moon, CJ Petzold, AV Ullal, KJ Prather and JD Keasling. Synthetic Protein Scaffolds Provide Modular Control over Metabolic Flux, Nat. Biotechnol. 27, 753-759 (2009) 10.1038/nbt.1557

TS Moon, S-H Yoon, M-J Tsang Mui Ching, A Lanza and KJ Prather. Enzymatic assay of D-glucuronate using uronate dehydrogenase, Anal. Biochem. 392, 183-185 (2009)

S-H Yoon, TS Moon, P Iranpour, A Lanza and KJ Prather. Cloning and characterization of uronate dehydrogenases from two Pseudomonads and Agrobacterium tumefaciens str. C58, J. Bateriol. 191, 1565-1573 (2009)

TS Moon, S-H Yoon, A Lanza, J Roy-Mayhew and KJ Prather. Production of glucaric acid from a synthetic pathway in recombinant Escherichia coli, Appl. Environ. Microbiol. 75, 589-595 (2009)


SH Kim, K Hyun, TS Moon, T Mitsumata, JS Hong, KH Ahn and SJ Lee. Morphology-rheology relationship in hyaluronate/poly(vinyl alcohol)/borax polymer blends, Polymer, 46, 7156-7163 (2005)

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