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Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
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Appendix B


Agenda

The Science and Applications of Microbial Genomics

June 12–13, 2012
500 Fifth Street, NW
Washington DC

DAY ONE: TUESDAY, JUNE 12, 2012

8:45–9:15:

Registration and Continental Breakfast

9:15–9:30:

Welcoming Remarks: David Relman, James Hughes, and Lonnie King

9:30–10:00:

KEYNOTE: Yersinia pestis Population Genetics Across Time and Space

Paul Keim, Northern Arizona University

10:00–10:20:

Discussion

10:20–10:30:

BREAK

Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
×

SESSION I: Microbial Genomics—Diversity, Evolution, and Adaptation

Arturo Casadevall, Moderator

10:30–11:00:

The Earth Microbiome Project: Modeling the Earth’s Microbiome

Jack A. Gilbert, Argonne National Laboratory/University of Chicago

11:00–11:30:

Variation in Microbial Communities and Genomes

George Weinstock, Washington University in St. Louis

11:30–12:00:

Population Diversity in Deep-Sea Microbial Communities

Peter Girguis, Harvard University

12:00–12:30:

The Application of Computational/Theoretical and Experimental Approaches to Study the Evolution of Microorganisms

Eric Alm, Massachusetts Institute of Technology

12:30–1:00:

Discussion

1:00–1:45:

LUNCH

SESSION II: Microbial Genomics—Molecular Mechanisms
of Disease Emergence and Epidemiology

David Relman, Moderator

1:45–2:15:

Characterizing Intra-host Influenza Virus Populations to Predict Emergence

Elodie Ghedin, University of Pittsburgh School of Medicine

2:15–2:45:

Identifying Signatures of Recent Selection and Transmission in Pathogenic Bacteria

Julian Parkhill, The Sanger Institute

2:45–3:15:

Comparative Genomics of E. coli and Shigella: Identification and Characterization of Pathogenic Variants Based on Whole Genome Sequence Analysis

David Rasko, University of Maryland Institute for Genome Sciences

3:15–3:45:

BREAK

Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
×

3:45–4:15:

Coral Health and Disease in the Face of Climate Change

Kim Ritchie, Mote Marine Laboratory

4:15–4:45:

Evolution and Pathogenicity in the Deadly Chytrid Pathogen of Amphibians

Erica Bree Rosenblum, University of California–Berkeley

4:45–5:15:

Discussion

5:15–6:00:

Concluding Remarks

6:15:

ADJOURN DAY ONE

DAY TWO: WEDNESDAY, JUNE 13, 2012

8:30–9:00:

Registration and Continental Breakfast

9:00–9:15:

Welcoming Remarks and Summary of Day One: David Relman

SESSION III: Application of Genomics and High-Throughput
Technologies for Microbial Surveillance and Outbreak Traceback

Claire Fraser, Moderator

9:15–9:45:

Virulence as an Emergent Property

Arturo Casadevall, Albert Einstein College of Medicine

9:45–10:15:

Understanding the Origins, Evolution, and Transmission Dynamics of Outbreak Agents Through Genomic Epidemiology

Jennifer Gardy, British Columbia Centre for Disease Control/University of British Columbia

10:15–10:45:

Use of Genomic Platforms to Detect and Discover Emerging/Evolving Viral Diseases

David Wang, Washington University in St. Louis

10:45–11:00:

BREAK

11:00–11:30:

Genomic Epidemiology of Gram-Negative Pathogens: From Acinetobacter to E. coli

Mark Pallen, University of Birmingham

Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
×

11:30–12:00:

The Impact of Sequencing Errors on Estimates of Diversity in the Rare Biosphere (and Potential Solutions)

Susan Huse, Marine Biological Laboratory

12:00–12:30:

Discussion

12:30–1:15:

LUNCH

SESSION IV: Microbial Forensic Tools, Technologies, and
Platforms: Problems of Concordance and Discordance

Paul Keim, Moderator

1:15–1:45:

Microbial Forensics

Bruce Budowle, University of North Texas Health Science Center

1:45–2:15:

Discussion of the Technical Approaches Used in the Amerithrax Investigation

Claire Fraser, University of Maryland Institute for Genome Sciences

2:15–2:45:

Analyzing Metagenomic Data: Inferring Microbial Community Function with MG-RAST

Folker Meyer, Argonne National Laboratory

2:45–3:00:

BREAK

3:00–5:00:

Panel Discussion: The Problem of Concordance and Discordance in Data Generated Using Different Platforms and Technologies
DISCUSSANTS:
   • George Weinstock
   • Susan Huse
   • Mark Pallen
   • Jack Gilbert

5:00–5:15:

Concluding Remarks

5:15:

ADJOURN

Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
×
Page 379
Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
×
Page 380
Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
×
Page 381
Suggested Citation:"Appendix B--Agenda." Institute of Medicine. 2013. The Science and Applications of Microbial Genomics: Workshop Summary. Washington, DC: The National Academies Press. doi: 10.17226/18261.
×
Page 382
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Over the past several decades, new scientific tools and approaches for detecting microbial species have dramatically enhanced our appreciation of the diversity and abundance of the microbiota and its dynamic interactions with the environments within which these microorganisms reside. The first bacterial genome was sequenced in 1995 and took more than 13 months of work to complete. Today, a microorganism's entire genome can be sequenced in a few days. Much as our view of the cosmos was forever altered in the 17th century with the invention of the telescope, these genomic technologies, and the observations derived from them, have fundamentally transformed our appreciation of the microbial world around us.

On June 12 and 13, 2012, the Institute of Medicine's (IOM's) Forum on Microbial Threats convened a public workshop in Washington, DC, to discuss the scientific tools and approaches being used for detecting and characterizing microbial species, and the roles of microbial genomics and metagenomics to better understand the culturable and unculturable microbial world around us. Through invited presentations and discussions, participants examined the use of microbial genomics to explore the diversity, evolution, and adaptation of microorganisms in a wide variety of environments; the molecular mechanisms of disease emergence and epidemiology; and the ways that genomic technologies are being applied to disease outbreak trace back and microbial surveillance. Points that were emphasized by many participants included the need to develop robust standardized sampling protocols, the importance of having the appropriate metadata, data analysis and data management challenges, and information sharing in real time. The Science and Applications of Microbial Genomics summarizes this workshop.

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