holtlab.net - Holt Lab | microbial genomics

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Description: Welcome to the website of Kat Holt and her research group  We use genome sequencing, phylogenetics, spatiotemporal analysis and epidemiology to study the evolution and transmission of bacterial pathogens, including tropical diseases such as typhoid, dysentery, E. coli diarrhoea and tuberculosis; and hospital associated pathogens such as Klebsiella and Acinetobacter. We are particularly interested in the global…

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We use genome sequencing, phylogenetics, spatiotemporal analysis and epidemiology to study the evolution and transmission of bacterial pathogens, including tropical diseases such as typhoid , dysentery ,  E. coli diarrhoea and  tuberculosis ; and hospital associated pathogens such as Klebsiella and Acinetobacter .

We are particularly interested in the global health crisis of antimicrobial resistance ( AMR ), using genomic epidemiology tools to understand the evolutionary history and global dissemination of multidrug resistant pathogens, and developing new tools for prospective surveillance and tracking of emerging problems in the public health and clinical infectious disease space.

We are also interested in human, animal and environmental microbiomes , and their role in chronic disease, infectious disease, and horizontal gene transfer . We develop bioinformatics software when needed, and have developed lab and computational methods for nanopore sequencing  (see links, top right). We publish open access wherever we can (usually with preprints available before peer review, links on the right), deposit all data in public databases, and release open source code .

Links to holtlab.net (5)



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