California NanoSystems Institute
CNSI
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Jeff Miller, Ph.D.

   
M. Philip Davis Chair, Microbiology, Immunology & Molecular Genetics
Associate Director, Pacific Southwest Regional Center of Excellence in Biodefense and Emerging Infectious Diseases
Professor, Microbiology, Immunology & Molecular Genetics
Member, CTSI, California NanoSystems Institute, Gene Regulation GPB Home Area, Genetics & Genomics GPB Home Area, Immunity, Microbes & Molecular Pathogenesis GPB Home Area

Education:
Degrees:
Ph.D., Tufts University School of Medicine, 1986
B.A., Case Western Reserve University, 1980
Fellowships:
2003 Fellow, American Academy of Microbiology
1986 - 1990 Stanford University School of Medicine, Postdoctoral Fellow

Contact Information:
Work Email Address: jfmiller@ucla.edu
Office Address: Office
615 Charles E. Young Drive South
BSRB 290C
Mail Code: 174718
Los Angeles, CA 90095
UNITED STATES
Fax Number: (310) 206-5668 Fax
Lab Number: (310) 206-9053 Laboratory
Office Phone Number: (310) 206-7926 Office
Work Phone Number: (310) 206-0240 Assistant's phone number
Research Interests:

Our laboratory studies molecular mechanisms of bacterial pathogenesis and the evolution of functional diversity in bacteria and bacteriophage. Multidisciplinary approaches are applied to a variety of interests including: i) biochemical and genetic studies of signal transduction networks that regulate the infectious cycles of Bordetella pertussis, which causes whooping cough, and Burkholderia pseudomallei, which causes life threatening systemic diseases, ii) alterations in host cell signaling pathways by Bordetella and Burkholderia, iv) biofilm formation and the hyper-colonization phenotype of Staphylococcus epidermiditis, and v) microevolutionary adaptation by diversity-generating retroelements, which function to introduce vast amounts of diversity in bacterial target proteins. Our research group includes graduate students, postdoctoral fellows and physician-scientists with expertise in computational biology and modeling, bacterial genomics, bacterial physiology, cell biology, neonatology, and infectious diseases. Numerous former trainees hold tenured or tenure-track academic positions at research universities. Since joining UCLA in 1990, we have received continuous funding from the NIH, as well as support from the American Cancer Society, the US Department of Agriculture, the Pew Foundation, and the Defense Threat Reduction Agency of the Department of Defense.



Selected Publications:

Arambula, D., Wong, W., Medhekar, B., Guo, H., Gingery, M., Czornyj, E., Liu M., Dey, S., Ghosh, P., Miller, J.F., Surface display of a massively variable lipoprotein by a Legionella diversity-generating retroelement, Proc. Natl. Acad. Sci, 2013 (110), 8212-8217.
Alayyoui, M., Guo, H., Dey, S., Golnazarian, T., Brooks, G., Rong, A., Miller, J.F., Ghosh, P., Structure of the essential diversit-generating retroelement protein Avd and its functional interaction with reverse transcriptase, Structure, 2013 (21), 266-276.
Miller, J. F., Gaming the competition in microbial cell-cell interactions, The EMBO journal, 2013, 32 (6), 778-80.
Fitz-Gibbon, S., Tomida, S., Chiu, B., Nguyen, L., Du, C., Liu, M., Elashoff, D., Erfe, M. C., Loncaric, A., Kim, J., Modlin, R., Miller, J.F., Sodergren, E., Craft, N., Weinstock G., Li H., Propionibacterium acnes Strain Populations in the Human Skin Microbiome Associated with Acne, The Journal of investigative dermatology, 2013, 53 (2).
Ahuja, U., Liu, M., Tomida, S., Park, J., Souda, P., Whitelegge, J., Li, H., Harvill, E.T., Parkhill, J., Miller, J.F., Phenotypic and genomic analysis of hypervirulent human-associated Bordetella bronchiseptica, BMC microbiology, 2012, 12 (5), 167.
Weaver Westbrook M, Milisavljevic Vladana, Miller Jeff F, Di Carlo Dino, Fluid flow induces biofilm formation in Staphylococcus epidermidis polysaccharide intracellular adhesin-positive clinical isolates, Applied and environmental microbiology, 2012, 78 (16), 5890-6.
Marinelli, L.J., Fitz-Gibbon, S., Hayes, C., Bowman, C., Inkeles, M., Loncaric, A., Russell, D.A., Jacobs-Sera, D., Cokus, S., Pellegrini, M., Kim, J., Miller, J.F., Hatfull, G.F., Modlin, R.L., Propionibacterium acnes bacteriophages display limited genetic diversity and broad killing activity against bacterial skin isolates, mBio, 2012, 3 (5).
French, C.T., Toesca, I.J., Wu, T., Teslaa, T., Beaty, S., Wong, W., Liu, M., Schroeder, I., Chiou, P., Teitell, M., Miller, J.F., Dissection of the Burkholderia intracellular life cycle using a photothermal nanoblade, Proc. Natl. Acad. Sci, 2011, 108 (29), 12095-100.
Ting-Hsiang Wu, Tara Teslaa, Sheraz Kalim, Christopher T. French, Shahriar Moghadam, Randolph Wall, Jeffery F. Miller, Owen N. Witte, Michael A. Teitell, and Pei-Yu Chiou, Photothermal Nanoblade for Large Cargo Delivery into Mammalian Cells, Anal. Chem, 2011, 83 (4), 1321-7.
Guo H., Tse, L.V., Nieh, A.W., Czornyj, E., Williams, S., Oukil, S., Liu, V.B. & Miller, J.F. , Target site recognition by a diversity-generating retroelement, PLoS Genetics, 2011 (7), e1002414.
Guo Huatao, Tse Longping V, Nieh Angela W, Czornyj Elizabeth, Williams Steven, Oukil Sabrina, Liu Vincent B, Miller Jeff F, Target site recognition by a diversity-generating retroelement, PLoS genetics, 2011, 7 (12), e1002414.
Dai W, Hodes A, Hui WH, Gingery M, Miller JF, Zhou ZH., Three-dimensional structure of tropism-switching Bordetella bacteriophage, Proc Natl Acad Sci USA, 2010, 107 (9), 4347-52.
Medhekar, B., Shrivastava, R., Mattoo, S., Gingery, M.A. & Miller, J.F., Bordetella Bsp22 forms a filamentous type III secretion system tip complex and is immunoprotective in vitro and in vivo, Molecular Microbiology, 2009, 71 (2), 492-504.
Medhekar Bob, Shrivastava Ruchi, Mattoo Seema, Gingery Mari, Miller Jeff F, Bordetella Bsp22 forms a filamentous type III secretion system tip complex and is immunoprotective in vitro and in vivo, Molecular microbiology, 2009, 71 (2), 492-504.
Liu Scot D, Tomassian Tamar, Bruhn Kevin W, Miller Jeff F, Poirier Fran├žoise, Miceli M Carrie, Galectin-1 tunes TCR binding and signal transduction to regulate CD8 burst size, Journal of immunology (Baltimore, Md. : 1950), 2009, 182 (9), 5283-95.
French CT, Panina EM, Yeh SH, Griffith N, Arambula DG, Miller JF., The Bordetella type III secretion system effector BteA contains a conserved N-terminal motif that guides bacterial virulence factors to lipid rafts, Cell Microbiol, 2009, 11 (12), 1735-49.
French Christopher T, Panina Ekaterina M, Yeh Sylvia H, Griffith Natasha, Arambula Diego G, Miller Jeff F, The Bordetella type III secretion system effector BteA contains a conserved N-terminal motif that guides bacterial virulence factors to lipid rafts, Cellular microbiology, 2009, 11 (12), 1735-49.
Ruchi Shrivastava1 and Jeff F Miller, Virulence factor secretion and translocation by Bordetella species , Current Opinion in Microbiology, 2009, 12 (1), 88-93 .
Shrivastava Ruchi, Miller Jeff F, Virulence factor secretion and translocation by Bordetella species, Current opinion in microbiology, 2009, 12 (1), 88-93.
Guo, H., Tse, V., Barbalet, R., Sivaamnuaiphorn, S., Xu, M., Sergei Doulatov & Miller, J.F., Diversity-Generating Retroelement Homing Regenerates Target Sequences for Repeated Rounds of Codon Rewriting and Protein Diversification, Molecular Cell, 2008, 31 (6), 813-823.
Guo Huatao, Tse Longping V, Barbalat Roman, Sivaamnuaiphorn Sameer, Xu Min, Doulatov Sergei, Miller Jeff F, Diversity-generating retroelement homing regenerates target sequences for repeated rounds of codon rewriting and protein diversification, Molecular cell, 2008, 31 (6), 813-23.
Miller J.L., Le Coq, J., Hodes, A., Barbalat, R., Miller, J.F. & P. Ghosh, Selective ligand recognition by a diversity-generating retroelement variable protein, PLoS Biology, 2008, 6 (6), 1195-1207.
Medhekar, B. and J.F. Miller, Diversity-generating retroelements, Current Opinion in Microbiology, 2007, 10 (4), 388-395.
Bruhn, K.W., Craft, N. & J.F. Miller, Listeria monocytogenes as a vaccine vector, Microbes and Infection, 2007, 9 (10), 1226-35.
Chang, C. and J.F. Miller, Campylobacter jejuni Colonization of Mice with Limited Enteric Flora , Infection and Immunity, 2006, 74 (9), 5261-5271.
Prins, R.M., Bruhn, K.W., Craft, N., Lin, J.W., Kim, C.H., Odesa, S.K., Miller, J.F. & L.M. Liau., Central nervous system tumor immunity generated by a recombinant listeria monocytogenes vaccine targeting tyrosinase related protein-2 and real-time imaging of intracranial tumor burden, Neurosurgery , 2006, 58 (1), 169-178.
Cummings, C.A., Bootsma, H.J., Relman, D.A. & J.F. Miller., Species- and strain-specific control of a complex, flexible regulon by Bordetella BvgAS, J. Bacteriology , 2006, 188 (5), 1775-1785.
Prins, R.M., Craft, N., Bruhn, K.W., Khan-Farooqi, H., Koya, R.C., Stripecke, R., Miller, J.F. & L.M. Liau., The TLR-7 agonist, imiquimod, enhances dendritic cell survival and promotes tumor antigen-specific T cell priming: relation to central nervous system antitumor immunity, J. Immunology, 2006, 176, 157-164.
Panina, EM Mattoo, S Griffith, N Kozak, NA Yuk, MH Miller, JF, A genome-wide screen identifies a Bordetella type III secretion effector and candidate effectors in other species, Molecular microbiology. , 2005, 58 (1), 267-79.
Foreman-Wykert, A.K., & J.F. Miller , A new animal model of Bordetella pertussis infection and immunity, Trends in Microbiology, 2005, 13 (12), 559-560.
Bruhn, K.W., Craft N., Nguyen B.D., Yip J. & Miller J.F., Characterization of anti-self CD8 T-cell responses stimulated by recombinant Listeria monocytogenes expressing the melanoma antigen TRP-2, Vaccine , 2005, 23 (33), 4263-4272.
Vergara-Irigaray, N., Chavarri-Martinez, A., Rodriguez-Cuesta, J., Miller, J.F., Cotter, P.A. & G. Martinez de Tejada, Evaluation of the role of the Bvg intermediate phase in Bordetella pertussis during experimental respiratory infection, Infect Immun, 2005, 73, 748-60.
Kozak, NA Mattoo, S Foreman-Wykert, AK Whitelegge, JP Miller, JF, Interactions between partner switcher orthologs BtrW and BtrV regulate type III secretion in Bordetella, Journal of bacteriology. , 2005, 187 (16), 5665-76.
McMahon, SA Miller, JL Lawton, JA Kerkow, DE Hodes, A Marti-Renom, MA Doulatov, S Narayanan, E Sali, A Miller, JF Ghosh, P, The C-type lectin fold as an evolutionary solution for massive sequence variation, Nature structural & molecular biology. , 2005, 12 (10), 886-92.
Craft, N Bruhn, KW Nguyen, BD Prins, R Lin, JW Liau, LM Miller, JF, The TLR7 agonist imiquimod enhances the anti-melanoma effects of a recombinant Listeria monocytogenes vaccine, Journal of immunology (Baltimore, Md. : 1950) , 2005, 175 (3), 1983-90.
Liu, M., Gingery, M., Doulatov, S.R., Liu, Y., Hodes, A., Baker, S., Davis, P., Simmonds, M., Churcher, C., Mungall, K., Quail, M.A., Preston, A., Harvill, E.T., Maskell, D.J., Eiserling, F.A., Parkhill, J., & J.F. Miller, Genomic and genetic analysis of Bordetella bacteriophages encoding reverse transcriptase-mediated tropism-switching cassettes, J. Bacteriology, 2004, 186 (5), 1503-1517.
Joseph SB, Bradley MN, Castrillo A, Bruhn KW, Mak PA, Pei L, Hogenesch J, O'connell RM, Cheng G, Saez E, Miller JF, Tontonoz P, LXR-dependent gene expression is important for macrophage survival and the innate immune response, Cell, 2004, 119 (2), 299-309.
Starks, H., Bruhn, K.W., Shen, H., Barry, R.A., Dubensky, T., Hinrichs, D.J., Higgins, D.E., Miller, J.F., Giedlin, M., & H.G. Bouwer, Listeria monocytogenes as a vaccine vector: virulence attenuation or existing antivector immunity does not diminish therapeutic efficacy, Journal of Immunology, 2004, 173 (1), 420-427.
Mattoo, S Yuk, MH Huang, LL Miller, JF, Regulation of type III secretion in Bordetella, Molecular microbiology. , 2004, 52 (4), 1201-14.
MacKichan JK, Gaynor EC, Chang C, Cawthraw S, Newell DG, Miller JF and S Falkow, The Campylobacter jejuni dccRS two-component system is required for optimal in vivo colonization but is dispensable for in vitro growth, Molecular Microbiology, 2004, 54 (5), 1269-1286.
Doulatov, S., Hodes, A., Dai, L., Mandhana, N., Liu, M., Deora, R., Simons, R.W., Zimmerly, S. & J.F. Miller, Tropism switching in Bordetella bacteriophage defines a family of diversity-generating retroelements, Nature, 2004, 431, 476-481.
O'Connell, RM Saha, SK Vaidya, SA Bruhn, KW Miranda, GA Zarnegar, B Perry, AK Nguyen, BO Lane, TF Taniguchi, T Miller, JF Cheng, G, Type I interferon production enhances susceptibility to Listeria monocytogenes infection, The Journal of experimental medicine. , 2004, 200 (4), 437-45.
Miller, JF, Bacteriophage and the evolution of epidemic cholera, Infection and immunity. , 2003, 71 (6), 2981-2.
Stockbauer, KE Foreman-Wykert, AK Miller, JF, Bordetella type III secretion induces caspase 1-independent necrosis, Cellular microbiology. , 2003, 5 (2), 123-32.
Foreman-Wykert, A.K. and J.F. Miller, Hypervirulence and Pathogen Fitness, Trends in Microbiology, 2003, 11 (3), 105-108.
Chin, AI Dempsey, PW Bruhn, K Miller, JF Xu, Y Cheng, G, Involvement of receptor-interacting protein 2 in innate and adaptive immune responses, Nature, 2002, 416 (6877), 190-4.
Liu, M., Deora, R., Doulatov, S.R., Gingery, M., Eiserling, F.A., Preston, A., Simons, R.W., Cotter, P.A., Parkhill, J. & J.F. Miller, Reverse Transcriptase-Mediated Tropism Switching in Bordetella Bacteriophage , Science, 2002, 295, 2091-2094.