SARS-CoV-2 und COVID19 -- genomische Epidemilogie in Echtzeit
Richard Neher
Biozentrum, University of Basel
BBC
Data summarized by Ian MacKay
Data summarized by Ian MacKay
Data summarized by Ian MacKay
Data summarized by Ian MacKay
Data summarized by Ian MacKay
by Trevor Bedford
by Trevor Bedford
Tracking diversity and spread of SARS-CoV-2 in Nextstrain
Genome sequences record the spread of pathogens
in SARS-CoV-2 a new mutation accumulates about every 2 weeks
Available data on Jan 26
Early genomes differed by only a few mutations, suggesting very recent emergence
→ the closest to "real-time" we have experienced so far...
Figure by James Hadfield/Emma HodcroftTurning data into actionable insights
- hundreds of new sequences every day
- more than 200k sequences right now
- comprehensive analysis require hours to days to complete
→ requires continuous analysis and easy dissemination
→ interpretable and intuitive visualization
nextstrain.org
joint project with Trevor Bedford & his lab
Diversified into multiple global variants. Groups 20A/B/C have taken over.
Large scale spread of the virus
Regional variants emerged over the summer
Spread of a variant through travel and tourism
Genomic analysis as complement to contact tracing
Genomic analysis as complement to contact tracing
Investigation of hospital outbreaks
Influenza vaccine strain selection schedule
Klingen and McHardy, Trends in Microbiology
Acknowledgments
Trevor Bedford and his lab -- terrific collaboration since 2014
especially James Hadfield, Emma Hodcroft, Ivan Aksamentov, Moira Zuber, and Tom Sibley
Data we analyze are contributed by scientists from all over the world
Data are shared and curated by GISAID
Acknowledgments
- Emma Hodcroft
- Moira Zuber
- Inaki Comas
- Fernando Gonzales
- Tanja Stadler
- Sarah Nadeau
- Tim Vaughan
- Jesse Bloom
- David Veesler
