The microbes that live in and on us direct our immune status, susceptibility to disease, physiological development and metabolism. DNA sequencing of the microbial community in humans and animals during disease and health allows us to examine critical changes in this community that influence our well-being.  These studies are supplemented with detailed transcriptomic, proteomic and metabolomic data that reveal the underlying biochemical processes of these microbes that dictate health status. One research area is how the gastrointestinal community (gut microbiota) influences susceptibility to enteric pathogens including Clostridium difficile and E. coli as well as the progression of inflammatory bowel diseases and colorectal cancer. Other research efforts involving the gastrointestinal community includes how individual bacterial species harvest carbohydrate nutrition from the host diet in order to persist in the gut environment. The microbial ecology of mucosal surfaces including the gut, lungs, nasal cavity and vagina and the influence of these microbes in shaping mucosal immunity are also active areas of research. We are also using genomics to understand the evolution of antibiotic resistance and track bacterial pathogen outbreaks.

Faculty Researching Microbiome

Marcy Balunas, PhD

Associate Professor, Microbiology & Immunology
Associate Professor, Medicinal Chemistry

Robert Dickson, MD

Associate Professor, Department of Medicine, Division of Pulmonary & Critical Care Medicine
Associate Professor, Department of Microbiology and Immunology
Associate Division Chief (Research), Department of Medicine, Division of Pulmonary & Critical Care Medicine
Deputy Director, Weil Institute for Critical Care Research & Innovation

Gary B. Huffnagle, Ph.D.

Nina and Jerry D Luptak Professor of Food Allergy
Professor, Molecular, Cellular & Developmental Biology (MCDB)
Associate Chair for Undergraduate Studies, MCDB
Professor, Pulmonary & Critical Care Medicine
Research Professor, Mary H Weiser Food Allergy Center
Professor, Microbiology & Immunology
David Sherman

David Sherman, Ph.D.

CCMB Affiliate Faculty
Hans W. Vahlteich Professor of Medicinal Chemistry
Professor of Microbiology & Immunology
Professor of Chemistry
Evan Snitkin, Ph.D

Evan Snitkin, Ph.D.

CCMB Affiliate Faculty
Assistant Professor of Microbiology and Immunology
Vincent Young

Vincent B. Young, M.D., Ph.D.

William Henry Fitzbutler Collegiate Professor, Internal Medicine/Division of Infectious Diseases
Professor, Microbiology & Immunology