Department of Energy, Environmental & Chemical Engineering

2024

Outstanding Reviewers for Environmental Science: Water Research & Technology in 2023

Anderson, L., Dai, R., Ling, F., McGaughey, A., Sharma, V. K., Sun, W., Wen, X., Zhang, K. & Zhao, Y., Jul 5 2024, In: Environmental Science: Water Research and Technology. 10, 8, p. 1737 1 p.

Research output: Contribution to journal › Review article › peer-review

The new chassis in the flask: Advances in Vibrio natriegens biotechnology research

Lima, M., Muddana, C., Xiao, Z., Bandyopadhyay, A., Wangikar, P. P., Pakrasi, H. B. & Tang, Y. J., Dec 2024, In: Biotechnology Advances. 77, 108464.

Research output: Contribution to journal › Review article › peer-review

Open Access

Toward Characterizing Environmental Sources of Non-tuberculous Mycobacteria (NTM) at the Species Level: A Tutorial Review of NTM Phylogeny and Phylogenetic Classification

Zhang, L., Lin, T. Y., Liu, W. T. & Ling, F., May 15 2024, In: ACS Environmental Au. 4, 3, p. 127-141 15 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

3 Scopus citations

2023

Advances in engineering genetic circuits for microbial biocontainment

Ma, Y., Manna, A. & Moon, T. S., Dec 2023, In: Current Opinion in Systems Biology. 36, 100483.

Research output: Contribution to journal › Review article › peer-review

Open Access

12 Scopus citations

Advances in ligand-specific biosensing for structurally similar molecules

Xi, C., Diao, J. & Moon, T. S., Dec 20 2023, In: Cell Systems. 14, 12, p. 1024-1043 20 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

3 Scopus citations

Applications and Tuning Strategies for Transcription Factor-Based Metabolite Biosensors

Zhou, G. J. & Zhang, F., Apr 2023, In: Biosensors. 13, 4, 428.

Research output: Contribution to journal › Review article › peer-review

Open Access

12 Scopus citations

Biosystem design of Corynebacterium glutamicum for bioproduction

Zha, J., Zhao, Z., Xiao, Z., Eng, T., Mukhopadhyay, A., Koffas, M. A. & Tang, Y. J., Feb 2023, In: Current Opinion in Biotechnology. 79, 102870.

Research output: Contribution to journal › Review article › peer-review

Open Access

22 Scopus citations

Diverse mechanisms of bioproduction heterogeneity in fermentation and their control strategies

Mu, X. & Zhang, F., 2023, In: Journal of Industrial Microbiology and Biotechnology. 50, 1, kuad033.

Research output: Contribution to journal › Review article › peer-review

Open Access

4 Scopus citations

Meta-analysis of biogas upgrading to renewable natural gas through biological CO₂ conversion

Rao, Y., Chibwe, K., Mantilla-Calderon, D., Ling, F. & He, Z., Nov 10 2023, In: Journal of Cleaner Production. 426, 139128.

Research output: Contribution to journal › Review article › peer-review

6 Scopus citations

Microbial Synthesis of High-Molecular-Weight, Highly Repetitive Protein Polymers

Jeon, J., Subramani, S. V., Lee, K. Z., Jiang, B. & Zhang, F., Apr 2023, In: International journal of molecular sciences. 24, 7, 6416.

Research output: Contribution to journal › Review article › peer-review

Open Access

14 Scopus citations

Protein-Based Hydrogels and Their Biomedical Applications

Lee, K. Z., Jeon, J., Jiang, B., Subramani, S. V., Li, J. & Zhang, F., Jul 2023, In: Molecules. 28, 13, 4988.

Research output: Contribution to journal › Review article › peer-review

Open Access

24 Scopus citations

Structured Ethical Review for Wastewater-Based Testing in Support of Public Health

Bowes, D. A., Darling, A., Driver, E. M., Kaya, D., Maal-Bared, R., Lee, L. M., Goodman, K., Adhikari, S., Aggarwal, S., Bivins, A., Bohrerova, Z., Cohen, A., Duvallet, C., Elnimeiry, R. A., Hutchison, J. M., Kapoor, V., Keenum, I., Ling, F., Sills, D. & Tiwari, A. & 3 others, Vikesland, P., Ziels, R. & Mansfeldt, C., Sep 5 2023, In: Environmental Science and Technology. 57, 35, p. 12969-12980 12 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

16 Scopus citations

SynHEAL: Synthesis of Health Equity, Advancement, and Leadership

Moon, T. S., Jun 16 2023, In: ACS synthetic biology. 12, 6, p. 1583-1585 3 p.

Research output: Contribution to journal › Review article › peer-review

3 Scopus citations

2022

Artificial intelligence: a solution to involution of design–build–test–learn cycle

Liao, X., Ma, H. & Tang, Y. J., Jun 2022, In: Current Opinion in Biotechnology. 75, 102712.

Research output: Contribution to journal › Review article › peer-review

24 Scopus citations

Harnessing electrical-to-biochemical conversion for microbial synthesis

Fang, Z., Tang, Y. J. & Koffas, M. A., Jun 2022, In: Current Opinion in Biotechnology. 75, 102687.

Research output: Contribution to journal › Review article › peer-review

15 Scopus citations

Making Security Viral: Shifting Engineering Biology Culture and Publishing

Mackelprang, R., Adamala, K. P., Aurand, E. R., Diggans, J. C., Ellington, A. D., Evans, S. W., Fortman, J. L. C., Hillson, N. J., Hinman, A. W., Isaacs, F. J., Medford, J. I., Mamaghani, S., Moon, T. S., Palmer, M. J., Peccoud, J., Vitalis, E. A., Hook-Barnard, I. & Friedman, D. C., Feb 18 2022, In: ACS synthetic biology. 11, 2, p. 522-527 6 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

7 Scopus citations

Meta-Analysis of the Expansion in the Field of Structural Biology of ABC Transporters

Kim, S., Bajaj, T., Chabon, C., Tablante, E., Kulchinskaya, T., Moon, T. S. & Bajaj, R., 2022, In: BioDesign Research. 2022, 9806979.

Research output: Contribution to journal › Review article › peer-review

Open Access

SynMADE: synthetic microbiota across diverse ecosystems

Moon, T. S., Dec 2022, In: Trends in Biotechnology. 40, 12, p. 1405-1414 10 p.

Research output: Contribution to journal › Review article › peer-review

21 Scopus citations

2021

Amyloids as building blocks for macroscopic functional materials: Designs, applications and challenges

Li, J. & Zhang, F., Oct 1 2021, In: International journal of molecular sciences. 22, 19, 10698.

Research output: Contribution to journal › Review article › peer-review

Open Access

31 Scopus citations

Dynamic control in metabolic engineering: Theories, tools, and applications

Hartline, C. J., Schmitz, A. C., Han, Y. & Zhang, F., Jan 2021, In: Metabolic Engineering. 63, p. 126-140 15 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

108 Scopus citations

2020

Bacterial metabolic heterogeneity: origins and applications in engineering and infectious disease

Evans, T. D. & Zhang, F., Aug 2020, In: Current Opinion in Biotechnology. 64, p. 183-189 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

21 Scopus citations

Bioconversion of renewable feedstocks by Rhodococcus opacus

Chatterjee, A., DeLorenzo, D. M., Carr, R. & Moon, T. S., Aug 2020, In: Current Opinion in Biotechnology. 64, p. 10-16 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

36 Scopus citations

Biosensing in Smart Engineered Probiotics

Rottinghaus, A. G., Amrofell, M. B. & Moon, T. S., Oct 1 2020, In: Biotechnology Journal. 15, 10, 1900319.

Research output: Contribution to journal › Review article › peer-review

39 Scopus citations

Biosynthesis of terpene compounds using the non-model yeast Yarrowia lipolytica: grand challenges and a few perspectives

Worland, A. M., Czajka, J. J., Li, Y., Wang, Y., Tang, Y. J. & Su, W. W., Aug 2020, In: Current Opinion in Biotechnology. 64, p. 134-140 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

35 Scopus citations

Control strategies to manage trade-offs during microbial production

Han, Y. & Zhang, F., Dec 2020, In: Current Opinion in Biotechnology. 66, p. 158-164 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

15 Scopus citations

Engineering microbial diagnostics and therapeutics with smart control

Amrofell, M. B., Rottinghaus, A. G. & Moon, T. S., Dec 2020, In: Current Opinion in Biotechnology. 66, p. 11-17 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

22 Scopus citations

Mitigation of host cell mutations and regime shift during microbial fermentation: a perspective from flux memory

Czajka, J. J., Okumuş, B., Koffas, M. A., Blenner, M. & Tang, Y. J., Dec 2020, In: Current Opinion in Biotechnology. 66, p. 227-235 9 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

6 Scopus citations

Tailoring microbes to upgrade lignin

Davis, K. & Moon, T. S., Dec 2020, In: Current Opinion in Chemical Biology. 59, p. 23-29 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

24 Scopus citations

2019

Biosynthesis, regulation, and engineering of microbially produced branched biofuels

Bai, W., Geng, W., Wang, S. & Zhang, F., Apr 13 2019, In: Biotechnology for Biofuels. 12, 1, 84.

Research output: Contribution to journal › Review article › peer-review

Open Access

38 Scopus citations

Development of Rhodococcus opacus as a chassis for lignin valorization and bioproduction of high-value compounds

Anthony, W. E., Carr, R. R., Delorenzo, D. M., Campbell, T. P., Shang, Z., Foston, M., Moon, T. S. & Dantas, G., Aug 5 2019, In: Biotechnology for Biofuels. 12, 1, 192.

Research output: Contribution to journal › Review article › peer-review

Open Access

42 Scopus citations

Drinking Water Microbiome Project: Is it Time?

Hull, N. M., Ling, F., Pinto, A. J., Albertsen, M., Jang, H. G., Hong, P. Y., Konstantinidis, K. T., LeChevallier, M., Colwell, R. R. & Liu, W. T., Aug 2019, In: Trends in Microbiology. 27, 8, p. 670-677 8 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

48 Scopus citations

Engineering microbial consortia by division of labor

Roell, G. W., Zha, J., Carr, R. R., Koffas, M. A., Fong, S. S. & Tang, Y. J., Feb 8 2019, In: Microbial Cell Factories. 18, 1, 35.

Research output: Contribution to journal › Review article › peer-review

Open Access

183 Scopus citations

2018

Design rules of synthetic non-coding RNAs in bacteria

Lee, Y. J. & Moon, T. S., Jul 1 2018, In: Methods. 143, p. 58-69 12 p.

Research output: Contribution to journal › Review article › peer-review

39 Scopus citations

Leveraging knowledge engineering and machine learning for microbial bio-manufacturing

Oyetunde, T., Bao, F. S., Chen, J. W., Martin, H. G. & Tang, Y. J., Jul 1 2018, In: Biotechnology Advances. 36, 4, p. 1308-1315 8 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

61 Scopus citations

Steps towards ‘drop-in’ biofuels: focusing on metabolic pathways

Jiang, W., Gu, P. & Zhang, F., Oct 2018, In: Current Opinion in Biotechnology. 53, p. 26-32 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

26 Scopus citations

2017

Channeling in native microbial pathways: Implications and challenges for metabolic engineering

Abernathy, M. H., He, L. & Tang, Y. J., Nov 1 2017, In: Biotechnology Advances. 35, 6, p. 805-814 10 p.

Research output: Contribution to journal › Review article › peer-review

53 Scopus citations

Engineering Microbial Metabolite Dynamics and Heterogeneity

Schmitz, A. C., Hartline, C. J. & Zhang, F., Oct 2017, In: Biotechnology Journal. 12, 10, 1700422.

Research output: Contribution to journal › Review article › peer-review

Open Access

34 Scopus citations

Synthetic biology for manufacturing chemicals: constraints drive the use of non-conventional microbial platforms

Czajka, J., Wang, Q., Wang, Y. & Tang, Y. J., Oct 1 2017, In: Applied Microbiology and Biotechnology. 101, 20, p. 7427-7434 8 p.

Research output: Contribution to journal › Review article › peer-review

27 Scopus citations

2016

Metabolic Burden: Cornerstones in Synthetic Biology and Metabolic Engineering Applications

Wu, G., Yan, Q., Jones, J. A., Tang, Y. J., Fong, S. S. & Koffas, M. A. G., Aug 1 2016, In: Trends in Biotechnology. 34, 8, p. 652-664 13 p.

Research output: Contribution to journal › Review article › peer-review

462 Scopus citations

2015

Programmable genetic circuits for pathway engineering

Hoynes-O'Connor, A. & Moon, T. S., Dec 1 2015, In: Current Opinion in Biotechnology. 36, p. 115-121 7 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

28 Scopus citations

2014

Elucidation of intrinsic biosynthesis yields using ¹³C-based metabolism analysis

Varman, A. M., He, L., You, L., Hollinshead, W. & Tang, Y. J., Mar 19 2014, In: Microbial Cell Factories. 13, 1, 42.

Research output: Contribution to journal › Review article › peer-review

Open Access

19 Scopus citations

'Hybrid' processing strategies for expanding and improving the synthesis of renewable bioproducts

Thompson, B., Moon, T. S. & Nielsen, D. R., Dec 2014, In: Current Opinion in Biotechnology. 30, p. 17-23 7 p.

Research output: Contribution to journal › Review article › peer-review

9 Scopus citations

2013

Development of synechocystis sp. PCC 6803 as a phototrophic cell factory

Yu, Y., You, L., Liu, D., Hollinshead, W., Tang, Y. J. & Zhang, F., Aug 2013, In: Marine Drugs. 11, 8, p. 2894-2916 23 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

113 Scopus citations

Synthetic biology of cyanobacteria: Unique challenges and opportunities

Berla, B. M., Saha, R., Immethun, C. M., Maranas, C. D., Moon, T. S. & Pakrasi, H. B., 2013, In: Frontiers in Microbiology. 4, AUG

Research output: Contribution to journal › Review article › peer-review

Open Access

240 Scopus citations

2012

Microbial engineering for the production of advanced biofuels

Peralta-Yahya, P. P., Zhang, F., Del Cardayre, S. B. & Keasling, J. D., Aug 16 2012, In: Nature. 488, 7411, p. 320-328 9 p.

Research output: Contribution to journal › Review article › peer-review

909 Scopus citations

Recent advances in mapping environmental microbial metabolisms through ¹³C isotopic fingerprints

Tang, J. K. H., You, L., Blankenship, R. E. & Tang, Y. J., Nov 7 2012, In: Journal of the Royal Society Interface. 9, 76, p. 2767-2780 14 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

31 Scopus citations

2011

Biosensors and their applications in microbial metabolic engineering

Zhang, F. & Keasling, J., Jul 2011, In: Trends in Microbiology. 19, 7, p. 323-329 7 p.

Research output: Contribution to journal › Review article › peer-review

156 Scopus citations

Carbon metabolic pathways in phototrophic bacteria and their broader evolutionary implications

Tang, K. H., Tang, Y. J. & Blankenship, R. E., 2011, In: Frontiers in Microbiology. 2, AUG

Research output: Contribution to journal › Review article › peer-review

Open Access

106 Scopus citations

Metabolic engineering of microbial pathways for advanced biofuels production

Zhang, F., Rodriguez, S. & Keasling, J. D., Dec 2011, In: Current Opinion in Biotechnology. 22, 6, p. 775-783 9 p.

Research output: Contribution to journal › Review article › peer-review

294 Scopus citations

2010

Bridging the gap between fluxomics and industrial biotechnology

Tang, Y. J., Feng, X., Page, L., Rubens, J., Chircus, L., Colletti, P. & Pakrasi, H. B., 2010, In: Journal of Biomedicine and Biotechnology. 2010, 460717.

Research output: Contribution to journal › Review article › peer-review

Open Access

26 Scopus citations

Department of Energy, Environmental & Chemical Engineering

Research output

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