Maria Fookes
Wellcome Trust Sanger Institute
47 Papers
232 Citations
Maria Fookes is an academic researcher from Wellcome Trust Sanger Institute. The author has contributed to research in topics: Salmonella enterica & Salmonella. The author has an hindex of 27, co-authored 47 publications. Previous affiliations of Maria Fookes include Wellcome Trust.
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Papers
Roary: Rapid large-scale prokaryote pan genome analysis
Andrew J. Page,Carla A. Cummins,Martin Hunt,Vanessa K. Wong,Sandra Reuter,Matthew T. G. Holden,Maria Fookes,Daniel Falush,Jacqueline A. Keane,Julian Parkhill +9 more
TL;DR: Roary, a tool that rapidly builds large-scale pan genomes, identifying the core and accessory genes, is introduced, making construction of the pan genome of thousands of prokaryote samples possible on a standard desktop without compromising on the accuracy of results.
Roary: Rapid large-scale prokaryote pan genome analysis
Andrew J. Page,Carla A. Cummins,Martin Hunt,Vanessa K. Wong,Sandra Reuter,Matthew T. G. Holden,Maria Fookes,Jacqueline A. Keane,Julian Parkhill +8 more
TL;DR: Roary is introduced, a tool that rapidly builds large-scale pan genomes, identifying the core and dispensable accessory genes and making construction of the pan genome of thousands of prokaryote samples possible on a standard desktop without compromising on the accuracy of results.
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Distinguishable epidemics of multidrug-resistant Salmonella typhimurium DT104 in different hosts
Alison E. Mather,Stuart Reid,Duncan J. Maskell,Julian Parkhill,Maria Fookes,Simon R. Harris,Derek J. Brown,J. E. Coia,Michael R. Mulvey,Matthew W. Gilmour,Liljana Petrovska,E. de Pinna,Makoto Kuroda,M. Akiba,Hidemasa Izumiya,Thomas R. Connor,Marc A. Suchard,Philippe Lemey,Dominic J. Mellor,Daniel T. Haydon,Nicholas R. Thomson +20 more
TL;DR: Contrary to current tenets supporting a single homogeneous epidemic, it is demonstrated that the bacterium and its resistance genes were largely maintained within animal and human populations separately and that there was limited transmission, in either direction.
Salmonella bongori provides insights into the evolution of the salmonellae
Maria Fookes,Gunnar N. Schroeder,Gemma C. Langridge,Carlos J. Blondel,Caterina Mammina,Thomas R. Connor,Helena M. B. Seth-Smith,Georgios S. Vernikos,Keith S. Robinson,Mandy Sanders,Nicola K. Petty,Robert A. Kingsley,Andreas J. Bäumler,Sean Paul Nuccio,Inés Contreras,Carlos A. Santiviago,Duncan J. Maskell,Paul A. Barrow,Tom J. Humphrey,Antonino Nastasi,Mark Roberts,Gad Frankel,Julian Parkhill,Gordon Dougan,Nicholas R. Thomson +24 more
TL;DR: This work suggests that S. bongori has inherited the ancestral Salmonella virulence gene set, but has adapted by incorporating virulence determinants that resemble those employed by EPEC.
A simple method for directional transcriptome sequencing using Illumina technology
Nicholas J. Croucher,Maria Fookes,Tim Perkins,Daniel J. Turner,Samuel Marguerat,Thomas M. Keane,Michael A. Quail,Miao He,Sammey Assefa,Jürg Bähler,Robert A. Kingsley,Julian Parkhill,Stephen D. Bentley,Gordon Dougan,Nicholas R. Thomson +14 more
TL;DR: An equivalent technique optimized for studying complete prokaryotic transcriptomes that minimizes the manipulation of the RNA sample is devised, indicting that ss-cDNA sequencing is both robust and appropriate for use in quantitative studies of transcription.