12:00pm - 1:00pm|
Microbiology and Immunology Department Seminar
Nicole Pecora, M.D., Ph.D
Assistant Professor, University of Rochester
"Microbial Whole Genome Sequencing in the Clinical Laboratory: Implementation and Applications"
Monday, April 10, 2017
Upper Auditorium (Room 3-7619)
Hosted by Steve Gill, Ph.D
Co-Sponsored by XXXXX
As microbial whole genome sequencing (WGS) has become more affordable and more accessible it has begun to enter the realm of routine clinical microbiology. Promising applications include outbreak epidemiology and clonality assessment, analysis of resistance and virulence factors, studies of novel organisms, microbiome assessment, and pathogen identification in primary specimens. In particular, WGS analysis of antibiotic resistance has the unique ability to place elements in a genetic context, i.e. chromosome versus plasmid, providing information about transmissibility. In a 3 year pilot study, we assessed the utility of WGS to assess the clonality and resistance genotype of all carbapenem-resistant Enterobacteriaceae (CRE) in a Boston area hospital. Combining the genomic data with clinical metadata allowed for a rich picture of institutional antibiotic resistance, including the mobilization apparatus (transposons and plasmids) associated with different genes. Following the pilot study, prospective use of microbial WGS has provided support in numerous clinical situations, including the characterization of a series of NDM-bearing organisms, a rare but increasing component of the CRE landscape in the United States. In summary, while challenges remain to develop customized analytical pipelines as well as a clinical reporting structure, WGS is poised to make a dramatic change in the clinical microbiology laboratory and the practice of infection control.
|Location: ||Upper Auditorium 3-7619|
Posted by: Jack McMahon, Micro & Immunolgy, 16-Mar-17 10:22am ET