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Mark Mimee

TitleAssistant Professor
InstitutionUniversity of Chicago
AddressChicago IL 60637
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    Collapse Overview 
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    The Mimee Lab leverages synthetic biology to engineer the microbiome, exploring strategies to modify commensal bacteria and bacteriophage for diagnostic and therapeutic applications.By genetically manipulating commensal microbes, we seek to create living devices that can serve as biosensors to probe the structure and function of the microbiome and as cell-based therapeutics for infectious and inflammatory disease. Additionally, we develop approaches to augment the natural properties of viruses that infect bacteria, called bacteriophage, to create novel therapies for antibiotic-resistant bacterial infections. Our long-term vision is to implement these synthetic biology technologies to chart new basic and translational studies to exploit the microbiota for human health.
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    Collapse Biography 
    Collapse education and training
    Massachusetts Institute of Technology, Cambridge, MA, USA08/2019Synthetic Biology
    Massachusetts Institute of Technology, Cambridge, MA, USAPhD06/2018Microbiology
    McGill University, Montreal, QC, CanadaBSc06/2011Microbiology & Immunology

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Kemter AM, Patry RT, Arnold J, Hesser LA, Campbell E, Ionescu E, Mimee M, Wang S, Nagler CR. Commensal bacteria signal through TLR5 and AhR to improve barrier integrity and prevent allergic responses to food. Cell Rep. 2023 10 31; 42(10):113153. PMID: 37742185; PMCID: PMC10697505.
      Citations:    Fields:    Translation:AnimalsCells
    2. Inda-Webb ME, Jimenez M, Liu Q, Phan NV, Ahn J, Steiger C, Wentworth A, Riaz A, Zirtiloglu T, Wong K, Ishida K, Fabian N, Jenkins J, Kuosmanen J, Madani W, McNally R, Lai Y, Hayward A, Mimee M, Nadeau P, Chandrakasan AP, Traverso G, Yazicigil RT, Lu TK. Sub-1.4 cm3 capsule for detecting labile inflammatory biomarkers in situ. Nature. 2023 Aug; 620(7973):386-392. PMID: 37495692.
      Citations: 2     Fields:    Translation:HumansAnimalsCells
    3. Arnold J, Glazier J, Mimee M. Genetic Engineering of Resident Bacteria in the Gut Microbiome. J Bacteriol. 2023 07 25; 205(7):e0012723. PMID: 37382533; PMCID: PMC10367592.
      Citations:    Fields:    Translation:HumansCells
    4. Fogarty EC, Schechter MS, Lolans K, Sheahan ML, Veseli I, Moore R, Kiefl E, Moody T, Rice PA, Yu MK, Mimee M, Chang EB, Mclellan SL, Willis AD, Comstock LE, Eren AM. A highly conserved and globally prevalent cryptic plasmid is among the most numerous mobile genetic elements in the human gut. bioRxiv. 2023 Mar 25. PMID: 36993556; PMCID: PMC10055365.
    5. Fuerte-Stone J, Mimee M. Host happy hour: Phage cocktail targets IBD-associated microbes. Cell Host Microbe. 2022 10 12; 30(10):1352-1353. PMID: 36228584.
      Citations: 1     Fields:    Translation:AnimalsCells
    6. Bousbaine D, Fisch LI, London M, Bhagchandani P, Rezende de Castro TB, Mimee M, Olesen S, Reis BS, VanInsberghe D, Bortolatto J, Poyet M, Cheloha RW, Sidney J, Ling J, Gupta A, Lu TK, Sette A, Alm EJ, Moon JJ, Victora GD, Mucida D, Ploegh HL, Bilate AM. A conserved Bacteroidetes antigen induces anti-inflammatory intestinal T lymphocytes. Science. 2022 08 05; 377(6606):660-666. PMID: 35926021; PMCID: PMC9766740.
      Citations: 15     Fields:    Translation:AnimalsCells
    7. McClure S, Enam F, Arnold J, Mimee M. Proceedings from the 3rd International Conference on Microbiome Engineering. Biotechnol Prog. 2022 05; 38(3):e3241. PMID: 35092364; PMCID: PMC9286688.
      Citations: 2     Fields:    Translation:HumansCells
    8. Mimee M, Nagler CR. Engineered yeast tune down gut inflammation. Nat Med. 2021 Jul; 27(7):1150-1151. PMID: 34183835.
      Citations: 3     Fields:    Translation:Animals
    9. Yehl K, Yang AC, Ando H, Mimee M, Torres MT, de la Fuente-Nunez C, Lu TK, Lemire S. Engineering Phage Host-Range and Suppressing Bacterial Resistance through Phage Tail Fiber Mutagenesis. Cell. 2019 10 03; 179(2):459-469.e9. PMID: 31585083; PMCID: PMC6924272.
      Citations: 110     Fields:    Translation:AnimalsCells
    10. Inda ME, Mimee M, Lu TK. Cell-based biosensors for immunology, inflammation, and allergy. J Allergy Clin Immunol. 2019 09; 144(3):645-647. PMID: 31376406.
      Citations: 8     Fields:    Translation:HumansAnimalsCells
    11. Mimee M, Nadeau P, Hayward A, Carim S, Flanagan S, Jerger L, Collins J, McDonnell S, Swartwout R, Citorik RJ, Bulovic V, Langer R, Traverso G, Chandrakasan AP, Lu TK. An ingestible bacterial-electronic system to monitor gastrointestinal health. Science. 2018 05 25; 360(6391):915-918. PMID: 29798884; PMCID: PMC6430580.
      Citations: 119     Fields:    Translation:Animals
    12. Mimee M, Citorik RJ, Lu TK. Microbiome therapeutics - Advances and challenges. Adv Drug Deliv Rev. 2016 10 01; 105(Pt A):44-54. PMID: 27158095; PMCID: PMC5093770.
      Citations: 74     Fields:    Translation:HumansAnimals
    13. Mimee M, Tucker AC, Voigt CA, Lu TK. Programming a Human Commensal Bacterium, Bacteroides thetaiotaomicron, to Sense and Respond to Stimuli in the Murine Gut Microbiota. Cell Syst. 2016 Mar 23; 2(3):214. PMID: 27135367.
      Citations: 13     Fields:    
    14. Mimee M, Tucker AC, Voigt CA, Lu TK. Programming a Human Commensal Bacterium, Bacteroides thetaiotaomicron, to Sense and Respond to Stimuli in the Murine Gut Microbiota. Cell Syst. 2015 Jul 29; 1(1):62-71. PMID: 26918244; PMCID: PMC4762051.
      Citations: 119     Fields:    
    15. Citorik RJ, Mimee M, Lu TK. Sequence-specific antimicrobials using efficiently delivered RNA-guided nucleases. Nat Biotechnol. 2014 Nov; 32(11):1141-5. PMID: 25240928; PMCID: PMC4237163.
      Citations: 262     Fields:    Translation:Cells
    16. Citorik RJ, Mimee M, Lu TK. Bacteriophage-based synthetic biology for the study of infectious diseases. Curr Opin Microbiol. 2014 Jun; 19:59-69. PMID: 24997401; PMCID: PMC4125527.
      Citations: 30     Fields:    Translation:Cells
    17. Thanabalasuriar A, Bergeron J, Gillingham A, Mimee M, Thomassin JL, Strynadka N, Kim J, Gruenheid S. Sec24 interaction is essential for localization and virulence-associated function of the bacterial effector protein NleA. Cell Microbiol. 2012 Aug; 14(8):1206-18. PMID: 22432415.
      Citations: 11     Fields:    Translation:HumansAnimalsCells
    18. Thanabalasuriar A, Koutsouris A, Weflen A, Mimee M, Hecht G, Gruenheid S. The bacterial virulence factor NleA is required for the disruption of intestinal tight junctions by enteropathogenic Escherichia coli. Cell Microbiol. 2010 Jan; 12(1):31-41. PMID: 19712078; PMCID: PMC2850276.
      Citations: 52     Fields:    Translation:HumansCells
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