Microbiology, Virology, and Parasitology Faculty
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The University of Pennsylvania has a very collaborative and integrated research program in microbiology involving approximately 75 faculty throughout the campus. The program provides the best graduate training available in the molecular and cellular biology of viral and bacterial pathogenesis and parasitology. Faculty throughout the Perelman School of Medicine, the School of Veterinary Medicine, the School of Dental Medicine, the School of Arts and Sciences, Children's Hospital, and the Wistar Institute participate.
Current Members
Microbiology, Virology and Parasitology
Click the faculty member's name to see more detailed information.
Faculty
Flavia R Teles
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The current research interests of the faculty in microbiology and virology encompass a broad range of disciplines including:
- Bacteriology
- Emerging Infectious Disease
- Immune Responses
- Microbial Genomics and Evolution
- Parasitology
- Tumor Virology
- Virology
Faculty | Brief Research Description |
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Jorge Alvarez | Research in the Alvarez lab is aiming to understand the biology of the Central Nervous System (CNS) barriers under homeostatic and inflammatory conditions. These barriers selectively restrict the molecular and cellular trafficking between the periphery and the CNS, but also serve as a signaling interface that actively regulates exchanges between both compartments. They are composed of the blood-brain barrier (BBB), the blood-meningeal barrier (BMB) and the blood cerebrospinal fluid barrier (BCB). |
Andrew Binns | Agrobacterum tumefaciens; host-pathogen interaction; type IV secretion |
Dustin Brisson | Disease ecology, molecular evolution, microbial ecology/ evolution, host-pathogen interaction |
Igor Brodsky | Host-pathogen interactions; bacterial pathogenesis; Yersinia; innate immunity |
Frederic Bushman | Metagenomic analysis of bacterial communities |
Fevzi Daldal | Photosynthetic and respiratory electron transfer pathways and structure, function and biogenesis of cytochrome complexes |
Mark Goulian | Bacterial regulatory networks; two-component signaling; antimicrobial peptides |
Elizabeth Grice | microbial genomics, metagenomics, wound healing, innate immunity, microbiome of skin in health and disease |
Rahul Kohli | Antimicrobial resistance; SOS pathway |
Hyun (Michel) Koo | Assembly principles and the virulence determinants of oral biofilms, as well as developing novel therapeutic approaches to prevent biofilm-dependent oral infectious diseases such as dental caries |
Michael S. Marks | Cell biology of host-pathogen interactions; innate immunity; phagocytosis; dendritic cell responses to bacteria; primary immunodeficiency disorders |
Yvonne Paterson | Tumor immunology; Listeria monocytogenes; vaccines against infectious and neoplastic disease |
Paul Planet | Evolution and ecology of bacterial pathogens. |
Mechthild Pohlschroder | Protein secretion; membrane protein insertion; archaea |
Dieter Schifferli | Escherichia coli and Salmonella pathogenesis; fimbriae; vaccines |
Phillip Scott | T helper cell subsets; IL-12; T cell memory; Leishmania |
Hao Shen | Bacterial pathogenesis and mechanisms of immune evasion; Listeria monocytogenes; Bacillus anthracis |
Sunny Shin | Immunnity against bacterial pathogens; bacterial pathogenesis; Legionella pneumophila |
Joseph St. Geme, III | Molecular and cellular determinants of bacterial pathogenicity, with a particular focus on Haemophilus influenzae and Kingella kingae |
Joseph Zackular | Clostridium difficile; Enterococcus; Gut microbiome; Host-pathogen interactions; Pathogen-microbiota interactions; Inflammatory Bowel DIsease; Colorectal cancer. |
Jun (Jay) Zhu | Quorum sensing; bacterial pathogenesis; Vibrio cholerae and virulence gene regulation; biofilms |
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Faculty | Brief Research Description |
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Paul Bates | Ebola virus; hepatitis C; SARS |
Dustin Brisson | Disease ecology, molecular evolution, microbial ecology/ evolution, host-pathogen interaction |
Frederic Bushman | Poxvirus topoisomerases |
Sara Cherry | West Nile Virus; Dengue Virus; Rift Valley Fever Virus; Venezuealan Equine Encephalitis virus; Poxvirus |
Gary Cohen | Smallpox glycoproteins; vaccinia virus |
Ronald Harty | Ebola virus; VSV; Matrix Proteins; Budding; Reverse-Genetics; Virus-Host Interactions |
Stuart Isaacs | Vaccinia virus, Recombinant vaccines, poxvirus , pathogenesis, smallpox, smallpox therapeutics |
Paul Planet | Evolution and ecology of bacterial pathogens |
Robert Ricciardi | Smallpox and vaccinia processivity factors |
Erle Robertson | oncogenesis, viruses and cancer, viral oncology, Tumor Virology, Gene therapy, Kaposi's Sarcoma, Epstein-Barr Virus, Lymphoproliferative disease, Lymphomas |
David Roos | Molecular parasitology, drug resistance, organellar targeting, eukaryotic evolution, pathogen genomics, database mining, computational biology, Toxoplasma, Plasmodium, malaria |
Dieter Schifferli | Yersinia pestis, Salmonella, Escherichia coli, fimbriae, adhesion, plague |
Hao Shen | Listeria, Ebola, T lymphocyte, bacterial pathogenesis, vaccine |
David Weiner | DNA Vaccines, HIV, Viral Protein R., Vaccines |
Susan Weiss | murine coronavirus, SARS associated coronavirus, viral pathogenesis |
James Wilson | adenovirus, adeno-associated virus (AAV), gene therapy, gene transfer, lentivirus |
Yan Yuan | Kaposi's sarcoma-associated herpesvirus, virus-host interaction, microRNAs. |
Jun (Jay) Zhu | Genomics, Genetics, host-pathogen interaction, cell-cell signaling. |
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Faculty | Brief Research Description |
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Michael Betts | HIV; T cell; Immune Response |
Igor Brodsky | Host-pathogen interactions; bacterial pathogenesis; Yersinia; innate immunity |
Kyong-Mi Chang | HCV, HBV, liver disease, HIV/HCV coinfection, alcohol, viral pathogenesis, viral persistence, immune regulation, T cell exhaustion, transplant tolerance, epitope mapping, immunogenetics |
Sara Cherry | Virus, genomics, RNAi, genetics, Drosophila, innate, immunity |
Hildegund Ertl | HIV Vaccine, HPV vaccines, Rabies Virus vaccines |
Harvey Friedman | HSV immune evasion, glycoprotein gC, glycoprotein gE, complement, pathogenesis. |
Glen Gaulton | Lymphocyte Development, Retrovirus Pathology, HIV-1, Imaging, Diagnostics |
Elizabeth Grice | microbial genomics, metagenomics, wound healing, innate immunity, microbiome of skin in health and disease |
Scott Hensley | Influenza virus, antigenic drift, viral pathogenesis, viral receptors, antibody specificity, vaccines |
James Hoxie | AIDS, CD4, chemokine receptors, HIV, SIV, envelope glycoproteins, viral entry, neutralization, vaccine |
Christopher Hunter | Innate and adaptive immunity to infection; immune pathology; cytokine biology; cell biology of intracellular parasites; neuroimmunology |
Stuart Isaacs | Vaccinia virus, Recombinant vaccines, poxvirus , pathogenesis, smallpox, smallpox therapeutics |
Carl June | T cells, human, gene therapy, genetic engineering, signal transduction |
Rahul Kohli | Antibody diversity; innate immune retroviral restriction resistance |
Michael S. Marks | Cell biology of host-pathogen interactions; innate immunity; phagocytosis; dendritic cell responses to bacteria; primary immunodeficiency disorders |
Luis Montaner | HIV immunopathogenesis; innate immunity; cytokines |
Paula Oliver | Lymphocyte activation and tolerance; T cell response to pathogen infection; HECT-type E3 ubiquitin ligases |
Yvonne Paterson | Immune regulation, antigen design, vaccine development, cancer immunotherapy, HIV, HPV |
Paul Planet | Evolution and ecology of bacterial pathogen |
Michael Povelones | Mosquito immunity to malaria parasites; Innate recognition of pathogens; Regulation of the immune response |
Robert Ricciardi | Adenovirus; Human Kaposi’s Sarcoma Virus; immune escape |
James Riley | T cell activation, Tumor Specific T cells, HIV specific T cells, expression profiles |
David Roos | Molecular parasitology, drug resistance, organellar targeting, eukaryotic evolution, pathogen genomics, database mining, computational biology, Toxoplasma, Plasmodium, malaria |
Dieter Schifferli | Yersinia pestis, Salmonella, Escherichia coli, fimbriae, adhesion, plague |
Phillip Scott | Parasites, Leishmania, T cells, Th1 cells, Th2 cells, memory T cells |
Hao Shen | Listeria, Ebola, T lymphocyte, bacterial pathogenesis, vaccine |
Sunny Shin | Immunnity against bacterial pathogens; bacterial pathogenesis; Legionella pneumophila |
David Weiner | DNA Vaccines, HIV, Viral Protein R., Vaccines. |
Susan Weiss | murine coronavirus, SARS associated coronavirus, viral pathogenesis |
Drew Weissman | HIV, Immunopathogenesis, RNAi, DMBT1, dendritic cell, siRNA, antigen presentation |
E. John Wherry | Immunological memory, T cell memory, Chronic infection, T cell dysfunction, Memory T cell differentiation |
James Wilson | adenovirus, adeno-associated virus (AAV), gene therapy, gene transfer, lentivirus |
Yan Yuan | Kaposi's sarcoma-associated herpesvirus, virus-host interaction, microRNAs |
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Faculty | Brief Research Description |
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Dustin Brisson | I am interested in the interactions between pathogenic microbes and their hosts and how specifically those interactions shape the ecology and evolution of both the microbe and the host populations. Additionally, I am interested in the causes and consequences of molecular evolution and population genetics of pathogens. Methods from field ecology (including chicken-wire and cargo pants!), advanced molecular techniques, mathematical modeling, and computational analysis are commonly used in my lab to address relevant hypotheses. |
Frederic Bushman | HIV, integration, integrase, poxvirus, DNA modifying enzyme, virology, variola, RNA interference, interferon |
Sara Cherry | Virus, genomics, RNAi, genetics, Drosophila, innate, immunity |
M. Fevzi Daldal | Rhodobacter, cytochrome |
Elizabeth Grice | microbial genomics, metagenomics, wound healing, innate immunity, microbiome of skin in health and disease |
Scott Hensley | Influenza virus, antigenic drift, viral pathogenesis, viral receptors, antibody specificity, vaccine |
Rahul Kohli | Our laboratory focuses on the enzymatic generation of genomic diversity. We utilize a broad array of approaches, including biochemical characterization of enzyme mechanisms, chemical synthesis of enzyme probes, and biological assays spanning immunology and virology to study this central tactic in the constant battle between our immune system and pathogens. |
Paul Planet | Evolution and ecology of bacterial pathogens |
Joshua Plotkin | I am broadly interested in molecular population genetics and evolution. My research is based largely on computation and mathematical theory. A primary goal is to develop statistical methods for inferring the action of natural selection from intra-specific polymorphism data and from inter-specific sequence variation. Of particular interest are applications to the genomes of pathogens, whose proteins experience a wide range of selective pressures determined by interactions with their hosts. |
Mechthild Pohlschroder | Archaea, protein secretion, porkaryotes, haloarchaea, type IV pili, flagella, biofilm. |
David Roos | Molecular parasitology, drug resistance, organellar targeting, eukaryotic evolution, pathogen genomics, database mining, computational biology, Toxoplasma, Plasmodium, malaria |
Joseph Zackular | Clostridium difficile; Enterococcus; Gut microbiome; Host-pathogen interactions; Pathogen-microbiota interactions; Inflammatory Bowel DIsease; Colorectal cancer. |
Jun (Jay) Zhu | Genomics, Genetics, host-pathogen interaction, cell-cell signaling. |
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Faculty | Brief Research Description |
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Daniel Beiting | Immunology, microbiology, genomics |
Dustin Brisson | Disease ecology, molecular evolution, microbial ecology/ evolution, host-pathogen interaction |
De'Broski Herbert | Regulatory networks, immunity, inflammation, tissue repair, mucosal interface |
Christopher Hunter | Immunity to Toxoplasma gondii; innate immunity; immunopathology |
James Lok | Strongyloides, Caenorhabditis, Dirofilaria, transcription factor, dauer, G protein, TGF beta, parasite, nematode. |
Thomas Nolan | Strongyloides stercoralis, parasite behavior, canine and feline parasites, Parasitology. |
Michael Povelones | Mosquito immunity to malaria parasites; Innate recognition of pathogens; Regulation of the immune response |
David Roos | Molecular parasitology, drug resistance, organellar targeting, eukaryotic evolution, pathogen genomics, database mining, computational biology, Toxoplasma, Plasmodium, malaria. |
Phillip Scott | Parasites, Leishmania, T cells, Th1 cells, Th2 cells, memory T cells |
Hao Shen | Listeria, Ebola, T lymphocyte, bacterial pathogenesis, vaccine |
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Faculty | Brief Research Description |
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Paul Bates | Ebola, Virus entry, glycoproteins, viral assembly, SARS, retrovirus, gene therapy. |
Jeffrey Bergelson | Virus entry, adenovirus, coxsackievirus, viral pathogenesis, virus receptor, vaccine delivery |
Kyong-Mi Chang | HCV immune pathogenesis, HCV persistence, Viral escape, Viral persistence, Epitope mapping, Liver disease, T cell suppression, HIV/HCV coinfection, Alcohol |
Ronald Collman | HIV, virus, tropism, signal transduction, gp120, viral envelope, macrophage |
Laurence Eisenlohr | Cell biology of MHC class I-restricted antigen processing and presentation, MHD class II-restricted antigen processing and presentation, "Cryptic" MHC Class I-Restricted Epitopes, Cancer immunotherapy and autoimmunity |
Harvey Freidman | HSV immune evasion, glycoprotein gC, glycoprotein gE, complement, pathogenesis |
Glen Gaulton | Lymphocyte Development, Retrovirus Pathology, HIV-1, Gene Therapy |
James Hoxie | AIDS, CD4, chemokine receptors, HIV, SIV, envelope glycoproteins, viral entry, neutralization, vaccine |
Dennis Kolson | Neuron, hippocampus, apoptosis, gene expression, single-cell mRNA, HIV, chemokine receptor, NMDA receptor |
Paul Lieberman | Viral latency, chromatin, DNA replication, transcription, cancer |
Ronen Marmorstein | Transcription, Chromatin regulation, Protein-DNA recognition, Posttranslational modification, Tumor Suppressors, Viral oncoproteins, X-ray Crystallography, Enzymology, Structure, Biophysics |
Robert Ricciardi | Mechanisms by which oncogenic proteins of human viruses exploit cellular functions and regulate gene expression to produce disease and cancer |
Erle Robertson | Oncogenesis, viruses and cancer, viral oncology, Tumor Virology, Gene therapy, Kaposi's Sarcoma, Epstein-Barr Virus, Lymphoproliferative disease, Lymphomas |
Andrei Thomas-Tikhonenko | Myc, p53, microRNA, angiogenesis, colon cancer, B-lymphoma, interferons, infection |
David Weiner | DNA Vaccines, HIV, Viral Protein R., Vaccines |
Susan Weiss | Murine coronavirus, SARS associated coronavirus, viral pathogenesis |
Drew Weissman | HIV, Immunopathogenesis, RNAi, gp-340, dendritic cell, siRNA, antigen presentation, HIV vaccine |
Matthew D. Weitzman | Virology, Virus Replication, DNA Damage and Repair, Genome Instability, Viral Vectors |
Elizabeth White | Human Papillomavirus, tumor virus, cancer virology, transformation, innate immunity, HPV |
Jianxin You | DNA tumor viruses, Host targets, Persistent virl latent infection, Viral oncogenesis, Tumor virology, Bromodomain protein BRD4 and cancer |
Yan Yuan | Kaposi's sarcoma-associated herpesvirus, virus-host interaction, the external guide sequence technique |
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Faculty | Brief Research Description |
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Paul Bates | Ebola, Virus entry, glycoproteins, viral assembly, SARS, retrovirus, gene therapy |
Jeffrey Bergelson | Virus entry, adenovirus, coxsackievirus, viral pathogenesis, virus receptor |
Michael Betts | HIV; T cell; Immune Response |
Frederic Bushman | HIV, integration, integrase, poxvirus, DNA modifying enzyme, virology, variola, RNA interference, interferon |
Kyong-Mi Chang | HCV, HBV, liver disease, HIV/HCV coinfection, alcohol, viral pathogenesis, viral persistence, immune regulation, T cell exhaustion, transplant tolerance, epitope mapping, immunogenetics |
Sara Cherry | Virus, genomics, RNAi, genetics, Drosophila, innate, immunity |
Gary Cohen | Herpes, HSV, virology, glycoproteins, virus entry |
Ronald Collman | HIV, virus, tropism, signal transduction, gp120, viral envelope, macrophage |
Laurence Eisenlohr | Cell biology of MHC class I-restricted antigen processing and presentation, MHD class II-restricted antigen processing and presentation, "Cryptic" MHC Class I-Restricted Epitopes, Cancer immunotherapy and autoimmunity |
Harvey Friedman | HSV immune evasion, glycoprotein gC, glycoprotein gE, complement, pathogenesis |
Glen Gaulton | Lymphocyte Development, Retrovirus Pathology, HIV-1, Imaging, Diagnostics |
Beatrice Hahn | HIV-1 transmission, ape Plasmodium infections, SIVcpz infection of wild chimpanzee, HIV vaccine development |
Ronald Harty | Ebola virus; VSV; Matrix Proteins; Budding; Reverse-Genetics; Virus-Host Interactions. |
Scott Hensley | Influenza virus, antigenic drift, viral pathogenesis, viral receptors, antibody specificity, vaccines |
James Hoxie | AIDS, CD4, chemokine receptors, HIV, SIV, envelope glycoproteins, viral entry, neutralization, vaccine |
Stuart Isaacs | Vaccinia virus, Recombinant vaccines, poxvirus , pathogenesis, smallpox, smallpox therapeutics. |
Kelly Jordan-Sciutto | Cell Cycle, Oxidative Stress Response, Antioxidant Response, Neurodegeneration, Transcription, Primary Culture, HIV encephalitis, Alzheimer Disease, Parkinson disease, Retinoblastoma, E2F1 |
Rahul Kohli | Our laboratory focuses on the enzymatic generation of genomic diversity. We utilize a broad array of approaches, including biochemical characterization of enzyme mechanisms, chemical synthesis of enzyme probes, and biological assays spanning immunology and virology to study this central tactic in the constant battle between our immune system and pathogens. |
Dennis Kolson | Neuron, hippocampus, apoptosis, gene expression, single-cell mRNA, HIV, chemokine receptor, NMDA receptor. |
Paul Lieberman | Viral latency, telomeres, chromatin, DNA replication, transcription regulation, herpesvirus. |
Luis Montaner | Innate Immunity & HIV-1 Infection: Dendritic cells & Natural Killer Cells Direct or indirect interactions of viral particles with innate and specific adaptive immunity effector cells affects the cross talk between antigen presenting cells (APCs), NK cells and the antigen specific T and B-lymphocytes, and may contribute to regulate HIV disease progression. Specifically, we are pursuing analysis of the effects of HIV infection in macrophages, dendritic cells and Natural Killer cells |
Una O'Doherty | HIV, latency, reservoirs, dendritic cells, viral pathogenesis, proviral integration, retrovirus, virology, T cell activation, resting T cells. |
Yvonne Paterson | Immune regulation, antigen design, vaccine development, cancer immunotherapy, HIV, HPV |
Robert Ricciardi | Our laboratory is interested in the mechanisms by which oncogenic proteins of human viruses exploit cellular functions and regulate gene expression to produce disease and cancer. |
James Riley | T cell activation, Tumor Specific T cells, HIV specific T cells, expression profiles. |
Erle Robertson | oncogenesis, viruses and cancer, viral oncology, Tumor Virology, Gene therapy, Kaposi's Sarcoma, Epstein-Barr Virus, Lymphoproliferative disease, Lymphomas. |
George Shaw | Molecular studies of HIV-1 transmission, persistence and pathogenesis, SIV transmission, persistence and pathogenesis, HCV transmission, persistence and pathogenesis |
David Weiner | DNA Vaccines, HIV, Viral Protein R., Vaccines. |
Susan Weiss | Murine coronavirus, SARS associated coronavirus, viral pathogenesis. |
Drew Weissman | HIV, Immunopathogenesis, RNAi, DMBT1, dendritic cell, siRNA, antigen presentation. |
Matthew D. Weitzman | Virology, Virus Replication, DNA Damage and Repair, Genome Instability, Viral Vectors |
E. John Wherry | Immunological memory, T cell memory, Chronic infection, T cell dysfunction, Memory T cell differentiation. |
Elizabeth White | Human Papillomavirus, tumor virus, cancer virology, transformation, innate immunity, HPV |
James Wilson | Adenovirus, adeno-associated virus (AAV), gene therapy, gene transfer, lentivirus. |
Jianxin You | DNA tumor viruses, Host targets, Persistent latent infection, Episome maintenance, Oncogenesis, Tumor virology, Gene therapy, |
Yan Yuan | Kaposi's sarcoma-associated herpesvirus, virus-host interaction, microRNAs. |
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