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JUN 17, 2020 4:30 PM PDT

Patterns of Intrahost and Interhost variation in SARS-CoV-2

C.E. Credits: P.A.C.E. CE Florida CE
Speaker
  • Assistant Professor, Computer Science, Rice University, Co-Lead COVID-19 International Research Team (COV-IRT)
    Biography
      Todd J. Treangen, Ph.D. is an Assistant Professor in the Department of Computer Science at Rice University and co-lead of the COVID-19 International Research Team (COV-IRT, www.cov-irt.org). Prior to joining Rice, Dr. Treangen was an Assistant Research Professor at the University of Maryland College Park. He received his Ph.D. in Computer Science in 2008 from the Polytechnic University of Catalonia (Barcelona, Spain). His research group focuses on solving large-scale computational problems specific to computational biology, with a focus on developing robust software tools targeted towards biothreat screening, infectious disease monitoring, and microbial forensics. For more info: https://www.treangenlab.com

    Abstract

    The fast spread of SARS-Cov-2 sparked much interest in understanding the underlying genomics of this 30,000bp Coronavirus. Thus far, thousands of genome assemblies are available, yet they feature only a relatively small number of single nucleotide polymorphisms (SNPs) that differentiate the main SARS-CoV-2 clades that have evolved while rapidly spreading throughout the world. In this talk, I will describe the mutational landscape of thousands of SARS-Cov-2 genomes and take a deep dive into the intrahost diversity of this devastating virus. Specifically, I will discuss within-host minor variants that are found across hosts and describe population-wide structural variations that highlight this underexplored intrahost diversity. Implications of these findings include both high false-negative rates of qPCR-based tests and as a key tool in transmission analyses.

    Learning Objectives:
    1. Differentiating consensus-level vs within-host variation of SARS-CoV-2

    2. Discovering the potential impact of single nucleotide variation on COVID-19 diagnostics

    3. Understanding the utility of minor variants on tracking SARS-CoV-2 transmission


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