Towards a genomics-informed, real-time, global pathogen surveillance system

By Jennifer L. Gardy, Nicholas J. Loman. Nature reviews genetics, 2017

673 citations recorded by the source corpus.

The recent Ebola and Zika epidemics demonstrate the need for the continuous surveillance, rapid diagnosis and real-time tracking of emerging infectious diseases. Fast, affordable sequencing of pathogen genomes — now a staple of the public health microbiology laboratory in well-resourced settings — can affect each of these areas. Coupling genomic diagnostics and epidemiology to innovative digital disease detection platforms raises the possibility of an open, global, digital pathogen surveillance system. When informed by a One Health approach, in which human, animal and environmental health are considered together, such a genomics-based system has profound potential to improve public health in settings lacking robust laboratory capacity.

Subfields: Infectious Diseases, Public Health, Environmental and Occupational Health

View Paper: https://www.semanticscholar.org/paper/d728326a9ff4812a5d51e45e6ff659af28f2904c

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

1. Joshua Quick
2. John R. Tyson
3. Nicholas J. Loman
4. N. Grubaugh
5. P. James
6. Andrew D. Smith
7. D. Stoddart
8. K. Gangavarapu

Citations in the corpus

• An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar (2018, background): “In addition, for virus sequencing in resource­limited conditions, the Oxford Nanopore MinION is gaining popularity due to its portability and low instrument cost [19,28,37] , which is enabling real­time outbreak tracking [38] .”
• Improvements to the ARTIC multiplex PCR method for SARS-CoV-2 genome sequencing using nanopore (2020, background): “Rapid data sharing allows sequences to be compared across labs or public health authorities and can provide insight into routes of transmission and effectiveness of containment measures​[18]​.”