Pathogen Genomics: From Research to Implementation - July 9, 2015

Genomics|Features|Infectious Diseases

Pathogen Genomics

Pathogen Genomics: From Research to Implementation - July 9, 2015

CDC and Related Info

• CDC Advanced Molecular Detection Accomplishments 2014
• Advanced Molecular Detection Initiative
• What is Bourbon virus?
• CDC and partners investigate newly discovered virus
• Pathogen Genomics

Pathogen genomics into practice
Luheshi L, et al. PHG Foundation 2015 July 8

An integrated strategy for implementing infectious disease genomics, by Laura Blackburn, PHG Foundation, Jul 9

Pathogen genomics into practice: from potential to reality, by Sobia Raza, PHG Foundation, Jul 9

What was old is new again: using the host response to diagnose infectious disease.
Ko ER et al. Expert Rev. Mol. Diagn. 2015 Jul 4. 1-16

The role of pathogen genomics in assessing disease transmission.
Sintchenko V et al. BMJ 2015 h1314

A microbiological revolution meets an ancient disease: improving the management of tuberculosis with genomics.
Wlodarska M et al. Clin. Microbiol. Rev. 2015 Apr (2) 523-39

The application of genomics to tracing bacterial pathogen transmission.
Croucher NJ et al. Curr. Opin. Microbiol. 2015 Feb 62-7

Molecular epidemiology and genomics of group A Streptococcus.
Bessen DE et al. Infect. Genet. Evol. 2015 Jul 393-418

Epidemiologic data and pathogen genome sequences: a powerful synergy for public health.
Grad YH et al. Genome Biol. 2014 (11) 538

Advanced Molecular Detection and Public Health - April 14, 2015

CDC Advanced Molecular Detection Accomplishments 2014

CDC names winner of the “No-Petri-Dish” diagnostic test challenge

CDC Advanced Molecular Detection Initiative

Genomics and Infectious Disease Weekly Update features emerging role of pathogen genomics in infectious disease control and prevention

Bourbon Virus: Using Pathogen Genomics to Uncover a Hidden Virus - February 24, 2015

CDC information: What is Bourbon virus?

Tried-and-true and state-of-the-art combine to uncover a hidden virus, CDC Advanced Molecular Detection in Action

CDC paper: Novel thogotovirus species associated with febrile illness and death, United States, 2014 
OI Kosoy et al. Emerging Infectious Diseases, March 2015

CDC and partners investigate newly discovered virus

Genomics of Infectious Diseases: Progress and Challenges - November 26, 2014

Genome Medicine: Genomics of infectious diseases special issue, Nov 2014

Editorials:

Next-generation pathogen genomics
Weinstock GM, Peacock SJ. Genome Biology 2014, 15:528.

Microbial sequencing to improve individual and population health
Peacock SJ, Weinstock CM. Genome Medicine 2014, 6:103.

Stopping outbreaks with real-time genomic epidemiology
Tang P, Gardy JL. Genome Medicine 2014, 6:104.

Epidemiologic data and pathogen genome sequences: a powerful synergy for public health
Grad Y, Lipsitch M. Genome Biology 2014, 15:538.

Genomic analysis of emerging pathogens: methods, application and future trends
Lucy M Li, et al. Genome Biology, November 2014 

Enhanced methods for unbiased deep sequencing of Lassa and Ebola RNA viruses in clinical and biological samples
Christian B Matranga et al. Genome Biology, November 2014

Translating genomics research into control of tuberculosis: lessons learned and future prospects
Warner DF, Mizrahi V. Genome Biology 2014, 15:514.

Empowering African genomics for infectious disease control
Folarin OA, et al. Genome Biology 2014, 15:515.

Genomics and infectious disease: a call to identify the ethical, legal and social implications for public health and clinical practice
Geller G, et al. Genome Medicine 2014, 6:106. 

Pathogen Genome Sequencing: Public Health Applications - October 22, 2014

CDC Advanced Molecular Detection Initiative: Imagine doing a 10,000-piece jigsaw puzzle in the time it takes to finish a 100-piece puzzle. Apply that to infectious disease control, and that’s AMD at work. Now imagine putting together that 10,000-piece puzzle when key pieces are missing, disease is spreading, and people are dying. AMD gives CDC scientists the “key pieces” they need to protect people from ever-changing infectious disease threats

Genomic polish for shoe-leather epidemiology
Steven Y. C. Tong. Nature Reviews Microbiology 11, 8 (2013)

In Snow's footsteps: Commentary on shoe-leather and applied epidemiology
Denise Koo and Stephen B. Thacker. Epidemiologic Reviews (2010)

Sherlock genomes — viral investigator
Sarah E. Smith & Rachael S. Wash Nature Reviews Microbiology 11, 150 (2013)

High-throughput bacterial genome sequencing: an embarrassment of choice, a world of opportunity.
Nature Reviews Microbiology10, 599-606 (2012)

Transforming clinical microbiology with bacterial genome sequencing
Nature Reviews Genetics13, 601-612 (2012)

Bacterial genome sequencing in the clinic: bioinformatic challenges and solutions
W. Florian Fricke & David A. Rasko. Nature Reviews Genetics 15, 49-55 (2014)

Pathogen Genomics: Utility in Healthcare and Public Health - June 5, 2014

ePathGen - a new e-learning package in pathogen genomics
Eurosurveillance, Volume 19, Issue 21, 29 May 2014

CDC information: Multistate outbreak of Shiga toxin-producing Escherichia coli O157:H7 infections

CDC information: Pathogen genomics has changed the landscape of the fight against infectious diseases

CDC Advanced Molecular Detection Initiative

FDA Consumer Information: Whole Genome Sequencing Helps Identify Dangerous Bacteria

Whole genome sequencing helps FDA identify dangerous bacteria, FDA

GenomeTrakr helps FDA identify dangerous bacteria, Health News Digest, Jun 2

Beating the bugs: The pathogen genomics revolution, Leila Lehushi, PHG Foundation, May 2014  

Health care: Bring microbial sequencing to hospitals, Sharon Peacock Nature News, May 22