Andrew Rambaut 🦠🧬🌲🔮🤦♂️
Professor of Molecular Evolution | University of Edinburgh | FRSE
Thought Leader
| #9 | Infectious Disease |
Last synced from Twitter 81d ago
Establishment & lineage dynamics of the SARS-CoV-2 epidemic in the UK
The UK's COVID-19 epidemic during early 2020 was one of world's largest and unusually well represented by virus genomic sampling. Here we reveal the fine-scale genetic lineage structure of this epidemic through analysis of 50,887 SARS-CoV-2 genomes,...
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Andrew Rambaut 🦠🧬🌲🔮🤦♂️
Establishment & lineage dynamics of the SARS-CoV-2 epidemic in the UK:
medrxiv.org/content/10.110…
gestated to term by @EvolveDotZoo and based on the @CovidGenomicsUK CoG-UK project data.
82d
Virus rebel Professor Edward Holmes named NSW Scientist of the Year
The man who first published the genome sequence of the coronavirus for the world to see has been named NSW Scientist of the Year.
Accommodating individual travel history and unsampled diversity in Bayesian phylogeographic inference of SARS-CoV-2
Spatiotemporal sampling gaps in existing pathogen genomic data limits their use in understanding epidemiological patterns. Here, the authors apply a phylogeographic approach with SARS-CoV-2 genomes to accurately reproduce pathogen spread by...
Wellcome Trust PhD programme in Hosts, Pathogens and Global Health
The Wellcome Trust 4-yearPhD programme in Hosts, Pathogens and Global Health was established at the University of Edinburgh in 2016. It provides broad, interdisciplinary training in all aspects of infectious disease research, from immunology to...
Morning roll - Wikipedia
Andrew Rambaut 🦠🧬🌲🔮🤦♂️
I am going to go out on a limb here but I assert that by far the best breading for a bacon roll is a fresh Scottish morning-roll. en.wikipedia.org/wiki/Morning_r… but note the picture is wrong.
99d
MAJORA: Continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance
Genomic epidemiology has become an increasingly common tool for epidemic response. Recent technological advances have made it possible to sequence genomes rapidly enough to inform outbreak response, and cheaply enough to justify dense sampling of...
Reassortment networks and why I think they’re cool
Why you’re reading this
Bayesian inference of reassortment networks reveals fitness benefits of reassortment in human influenza viruses
Genetic recombination processes, such as reassortment, make it complex or impossible to use standard phylogenetic and phylodynamic methods. This is due to the fact that the shared evolutionary history of individuals has to be represented by a...
Evolutionary Arms Race between Virus and Host Drives Genetic Diversity in Bat Severe Acute Respiratory Syndrome-Related Coronavirus Spike Genes
The Chinese horseshoe bat (Rhinolophus sinicus), reservoir host of severe acute respiratory syndrome coronavirus (SARS-CoV), carries many bat SARS-related CoVs (SARSr-CoVs) with high genetic diversity, particularly in the spike gene. Despite these...
This biologist helped trace SARS to bats. Now, he's working to uncover the origins of COVID-19
Linfa Wang's innovative new assay could help reveal when and where the virus spilled over to humans
COG-UK/civet
Contribute to COG-UK/civet development by creating an account on GitHub.
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Andrew Rambaut 🦠🧬🌲🔮🤦♂️
I would like to mention Civet - used to pick out parts of the tree with cases of interest, showing the trees, relevant epi data, maps, genetic differences in a nice report. By @AineToole @viralverity @StefanRooke @McCroneIV github.com/cog-uk/civet Logo by @AineToole of course!
123d
Real-time gene sequencing can help control pandemics - STAT
Fast, portable gene sequencing machines can offer great insight into how a virus like SARS-CoV-2 becomes dispersed in real time.
The emergence of SARS-CoV-2 in Europe and North America
Accurate understanding of the global spread of emerging viruses is critically important for public health responses and for anticipating and preventing future outbreaks. Here, we elucidate when, where and how the earliest sustained SARS-CoV-2...
Origin of new emergent Coronavirus and Candida fungal diseases—Terrestrial or cosmic?
The origins and global spread of two recent, yet quite different, pandemic diseases is discussed and reviewed in depth: Candida auris, a eukaryotic fungal disease, and COVID-19 (SARS-CoV-2), a positive strand RNA viral respiratory disease. Both...
1
Andrew Rambaut 🦠🧬🌲🔮🤦♂️
Tweet from January quoted in a paper claiming SARS-CoV-2 came from space on an asteroid. ncbi.nlm.nih.gov/pmc/articles/P… Not sure space was the hypothesis I had in mind - all I was saying is it was clearly transmitting from human to human rather than repeated spillover.
133d
nCoV-2019 sequencing protocol v3 (LoCost)
Amplicon sequencing protocol for SARS-CoV-2 v3 (LoCost)We thank the ARTIC network, Oxford Nanopore Technologies, New England Biolabs, BCCDC, COG-UK, CanCOGen and protocols.io commenters...
A SARS-CoV-2 vaccine candidate would likely match all currently circulating variants
The rapid spread of the virus causing COVID-19, SARS-CoV-2, raises questions about the possibility of a universally effective vaccine. The virus can mutate in a given individual, and these variants can be propagated across populations and time. To...
Imperfect vaccines and the evolution of pathogen virulence - PubMed
Vaccines rarely provide full protection from disease. Nevertheless, partially effective (imperfect) vaccines may be used to protect both individuals and whole populations. We studied the potential impact of different types of imperfect vaccines on...
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Andrew Rambaut 🦠🧬🌲🔮🤦♂️
@MarionKoopmans Indeed: “Imperfect vaccines and the evolution of pathogen virulence” pubmed.ncbi.nlm.nih.gov/11742400/ journals.plos.org/plosbiology/ar…
141d
Imperfect Vaccination Can Enhance the Transmission of Highly Virulent Pathogens
A study using Marek's disease virus in poultry shows that by reducing natural selection against highly virulent strains, imperfect vaccination enables the spread of viral strains that would otherwise be too lethal to persist.
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Andrew Rambaut 🦠🧬🌲🔮🤦♂️
@MarionKoopmans Indeed: “Imperfect vaccines and the evolution of pathogen virulence” pubmed.ncbi.nlm.nih.gov/11742400/ journals.plos.org/plosbiology/ar…
141d
Divergent influenza-like viruses of amphibians and fish support an ancient evolutionary association
Influenza viruses (family Orthomyxoviridae) infect a variety of vertebrates, including birds, humans, and other mammals. Recent metatranscriptomic studies have uncovered divergent influenza viruses in amphibians, fish and jawless vertebrates,...
Two Ebola virus variants circulating during the 2020 Equateur Province outbreak
On June 5th, 2020, we posted the first viral genome from the 2020 Equateur Province outbreak. Phylogenetic analysis indicated the cluster of cases was caused by a new spillover event and represented the 11th Ebola virus disease (EVD) outbreak in the...
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Andrew Rambaut 🦠🧬🌲🔮🤦♂️
This is unexpected: “Two Ebola virus variants circulating during the 2020 Equateur Province outbreak”
155d