SARS-CoV-2 in the UK
COG-UK Consortium
Continuous evaluation of the lineages circulating in the UK
(updated weekly)
Open data visualization and sharing for genomic epidemiology
In partnership with
Global Distribution of SARS-CoV-2
COG-UK Consortium
Continuous evaluation of the lineages circulating around the globe.
(updated weekly)
Tracing the spread of carbapenem-resistant Klebsiella pneumoniae
David S et al. 2019.
Epidemic of carbapenem-resistant Klebsiella pneumoniae in Europe is driven by nosocomial spread. Nature Microbiology 2058-5276. (doi:10.1038/s41564-019-0492-8)
https://www.nature.com/articles/s41564-019-0492-8Streptococcus pneumoniae PMEN2
Croucher NJ et al. 2014.
Variable recombination dynamics during the emergence, transmission and 'disarming' of a multidrug-resistant pneumococcal clone. BMC Biology 12:49
http://www.ncbi.nlm.nih.gov/pubmed/24957517West African Ebola epidemic (2013-2016)
Dudas G. et al. 2017.
Phylogeographic reconstruction of the West African Ebola epidemic based 1610 complete genomes. Nature 1476-4687 (doi:10.1038/nature22040).
http://www.nature.com/nature/journal/vaop/ncurrent/full/nature22040.htmlZika virus in the Americas
Rodrigues Faria, N. et al. 2016.
Zika virus in the Americas: Early epidemiological and genetic findings. Science 352(6283):345-9.
http://science.sciencemag.org/content/352/6283/345.article-infoY-chromosome Human Phylogeny
Hallast P. et al. 2015.
The Y-chromosome tree bursts into leaf: 13,000 high-confidence SNPs covering the majority of known clades. Mol Biol Evol 32(3):661
http://www.ncbi.nlm.nih.gov/pubmed/25468874Vibrio cholerae
Mutreja A. et al. 2011.
Evidence for several waves of global transmission in the seventh cholera pandemic. Nature 477:462
http://www.ncbi.nlm.nih.gov/pubmed/21866102Staphylococcus aureus ST239
Harris S. et al. 2010.
Evolution of MRSA during hospital transmission and intercontinental spread.
http://www.ncbi.nlm.nih.gov/pubmed/20093474Yersinia enterocolitica
Reuter S. et al. 2015.
Directional gene flow and ecological separation in Yersinia enterocolitica. M Gen 1(3): doi:10.1099/mgen.0.000030.
http://mgen.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000030Salmonella Typhi
Wong V. et al. 2015.
Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter- and intra-continental transmission events. Nature Genetics 47(6):632
http://www.ncbi.nlm.nih.gov/pubmed/25961941