JoAnne L. Flynn, PhD

  • Distinguished Professor and Interim Chair, Department of Microbiology and Molecular Genetics
  • Distinguished Professor, Department of Immunology
  • Distinguished Professor, Department of Pediatrics
  • Member, Graduate Program in Microbiology and Immunology (PMI)

Education & Training

  • Albert Einstein College of Medicine, Bronx NY, HHMI Research Associate, Barry Bloom PI
  • Research Institute of Scripps Clinic, La Jolla CA. Magdalene So, PI
  • PhD, University of California Berkeley, 1987
  • BS, University of California Davis, 1982

Research Interest Summary

Tuberculosis, lung, infection, granuloma, immune response to infection

Research Interests

Our lab focuses on tuberculosis. We study host-pathogen interactions, immunology of tuberculosis, vaccines and drugs. We developed and use non-human primate models of tuberculosis for all our work. We also study HIV/M. tuberculosis co-infections in non-human primate models.


Gideon HP*, Hughes TK*, Tzouanas CN*, Wadsworth MH, Tu AA, Gierahn TM, Peters JM, Hopkins FF, Wei J-R, Kummerlowe C, Grant NL, Nargan K, Phuah JY, Borish HJ, Maiello P, White AG, Winchell CG, Nyquist SK, Ganchua SKC, Myers A, Patel KV, Ameel CL, Cochran CT, Ibrahim S, Tomko JA, Frye LJ, Rosenberg JM, Shih A, Chao M, Klein E, Scanga CA, Ordovas-Montanes J, Berger B, Mattila JT, Madansein R, Love JC, Lin PL, Leslie A, Behar SM, Bryson B, Flynn JL#, Fortune SM#, Shalek AK#. 2022. Multimodal profiling of lung granulomas in macaques reveals cellular correlates of tuberculosis control. Immunity. 55: 827-846. e10. doi: 10.1016/j.immuni.2022.04.004. Epub 2022 Apr 27. PMID: 35483355. *co-first authors; # co-senior authors

Grant NL, Maiello P, Klein E, Lin PL, Borish HJ, Tomko J, Frye LJ, White AG, Kirschner DE, Mattila JT, Flynn JL. 2022. T cell transcription factor expression evolves over time in granulomas from Mycobacterium tuberculosis-infected cynomolgus macaques. Cell Reports. 39: 7, p.110826. PMID: 35584684

Darrah PA, Zeppa JJ, Maiello P, Hackney JA, Wadsworth MH, Hughes TK, Pokkali S, Swanson PA, Grant NL, Rodgers MA, Kamath M, Causgrove CM, Laddy DJ, Bonavia A, Casimiro D, Lin PL, Klein E, White AG, Scanga CA, Shalek AK, Roederer M*, Flynn JL*, Seder RA*. 2020. Prevention of tuberculosis in nonhuman primates following intravenous BCG immunization. Nature. 577: 95-102. Epub 2020 Jan 1. PMID: 31894150. *co-senior authors

Cadena AM, Hopkins FF, Maiello P, Carey AF, Wong EA, Martin CJ, Gideon HP, DiFazio RM, Andersen P, Lin PL, Fortune SM, Flynn JL. 2018. Concurrent infection with Mycobacterium tuberculosis confers robust protection against secondary infection in macaques. PLoS Pathog. 14: e1007305. doi: 10.1371/journal.ppat.1007305. eCollection 2018 Oct. PMID: 30312351

Ganchua SKC, Cadena AM, Maiello P, Gideon HP, Myers AJ, Junecko BF, Klein EC, Lin PL, Mattila JT, Flynn JL. 2018. Lymph nodes are sites of prolonged bacterial persistence during Mycobacterium tuberculosis infection in macaques. PLoS Pathog. 14: e1007337. doi: 10.1371/journal.ppat.1007337. eCollection 2018 Nov. PMID: 30383808

Click here for a full list of publications>