Publications by authors named "Stefan Rooke"
Genomics-informed outbreak investigations of SARS-CoV-2 using civet.
PLOS Glob Public Health
December 2022
The scale of data produced during the SARS-CoV-2 pandemic has been unprecedented, with more than 13 million sequences shared publicly at the time of writing. This wealth of sequence data provides important context for interpreting local outbreaks. However, placing sequences of interest into national and international context is difficult given the size of the global dataset.
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- - This study analyzes 203 whole genome sequences of SARS-CoV-2 from Rwanda between May 2020 and February 2021, revealing a shift towards the A.23.1 sub-lineage, which is now the dominant strain.
- - The research also identified the first cases of the concerning B.1.1.7 and B.1.351 variants among travelers arriving at Kigali International Airport.
- - It emphasizes the significant role of neighboring countries in introducing new cases to Rwanda and calls for ongoing genomic surveillance and regional cooperation to effectively tackle COVID-19.
Coronavirus disease 2019 (COVID-19) was first diagnosed in Scotland on 1 March 2020. During the first month of the outbreak, 2,641 cases of COVID-19 led to 1,832 hospital admissions, 207 intensive care admissions and 126 deaths. We aimed to identify the source and number of introductions of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) into Scotland using a combined phylogenetic and epidemiological approach.
View Article and Find Full Text PDFThe free-living nematode Caenorhabditis elegans is a key laboratory model for metazoan biology. C. elegans has also become a model for parasitic nematodes despite being only distantly related to most parasitic species.
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