Genomic identification of a novel co-trimoxazole resistance genotype and its prevalence amongst Streptococcus pneumoniae in Malawi

by Jennifer E. Cornick, Simon R. Harris, Christopher M. Parry, Michael J. Moore, Chikondi Jassi, Arox Kamng'ona, Benard Kulohoma, Robert S. Heyderman, Stephen D. Bentley, Dean B. Everett
Published 2018

Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei

by Claire Chewapreecha, Alison E. Mather, Simon R. Harris, Martin Hunt, Matthew T.G. Holden, Chutima Chaichana, Vanaporn Wuthiekanun, Gordon Dougan, Nicholas P.J. Day, Direk Limmathurotsakul, Julian Parkhill, Sharon J. Peacock
Published 2020

Comprehensive Identification of Single Nucleotide Polymorphisms Associated with Beta-lactam Resistance within Pneumococcal Mosaic Genes

by Claire Chewapreecha, Pekka Marttinen, Nicholas J. Croucher, Susannah J. Salter, Simon R. Harris, Alison E. Mather, William P. Hanage, David Goldblatt, Francois H. Nosten, Claudia Turner, Paul Turner, Stephen D. Bentley, Julian Parkhill
Published 2018

Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis

by Marcin J. Skwark, Nicholas J. Croucher, Santeri Puranen, Claire Chewapreecha, Maiju Pesonen, Ying Ying Xu, Paul Turner, Simon R. Harris, Stephen B. Beres, James M. Musser, Julian Parkhill, Stephen D. Bentley, Erik Aurell, Jukka Corander
Published 2018

Zero tolerance for healthcare-associated MRSA bacteraemia: Is it realistic?

by M. Estée Török, Simon R. Harris, Edward J.P. Cartwright, Kathy E. Raven, Nicholas M. Brown, Michael E.D. Allison, Daniel Greaves, Michael A. Quail, Direk Limmathurotsakul, Matthew T.G. Holden, Julian Parkhill, Sharon J. Peacock
Published 2018

Evolution of MRSA during hospital transmission and intercontinental spread

by Simon R. Harris, Edward J. Feil, Matthew T.G. Holden, Michael A. Quail, Emma K. Nickerson, Narisara Chantratita, Susana Gardete, Ana Tavares, Nick Day, Jodi A. Lindsay, Jonathan D. Edgeworth, Hermínia De Lencastre, Julian Parkhill, Sharon J. Peacock, Stephen D. Bentley
Published 2018

Dense genomic sampling identifies highways of pneumococcal recombination

by Claire Chewapreecha, Simon R. Harris, Nicholas J. Croucher, Claudia Turner, Pekka Marttinen, Lu Cheng, Alberto Pessia, David M. Aanensen, Alison E. Mather, Andrew J. Page, Susannah J. Salter, David Harris, Francois Nosten, David Goldblatt, Jukka Corander, Julian Parkhill, Paul Turner, Stephen D. Bentley
Published 2018

Evidence for soft selective sweeps in the evolution of pneumococcal multidrug resistance and vaccine escape

by Nicholas J. Croucher, Claire Chewapreecha, William P. Hanage, Simon R. Harris, Lesley McGee, Mark Van Der Linden, Jae Hoon Song, Kwan Soo Ko, Herminia De Lencastre, Claudia Turner, Fan Yang, Raquel Sa-Leao, Bernard Beall, Keith P. Klugman, Julian Parkhill, Paul Turner, Stephen D. Bentley
Published 2018

Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa

by Chinyere K. Okoro, Robert A. Kingsley, Thomas R. Connor, Simon R. Harris, Christopher M. Parry, Manar N. Al-Mashhadani, Samuel Kariuki, Chisomo L. Msefula, Melita A. Gordon, Elizabeth De Pinna, John Wain, Robert S. Heyderman, Stephen Obaro, Pedro L. Alonso, Inacio Mandomando, Calman A. MacLennan, Milagritos D. Tapia, Myron M. Levine, Sharon M. Tennant, Julian Parkhill, Gordon Dougan
Published 2018

Global and regional dissemination and evolution of Burkholderia pseudomallei

by Claire Chewapreecha, Matthew T.G. Holden, Minna Vehkala, Niko Välimäki, Zhirong Yang, Simon R. Harris, Alison E. Mather, Apichai Tuanyok, Birgit De Smet, Simon Le Hello, Chantal Bizet, Mark Mayo, Vanaporn Wuthiekanun, Direk Limmathurotsakul, Rattanaphone Phetsouvanh, Brian G. Spratt, Jukka Corander, Paul Keim, Gordon Dougan, David A.B. Dance, Bart J. Currie, Julian Parkhill, Sharon J. Peacock
Published 2018

Molecular Surveillance Identifies Multiple Transmissions of Typhoid in West Africa

by Vanessa K. Wong, Kathryn E. Holt, Chinyere Okoro, Stephen Baker, Derek J. Pickard, Florian Marks, Andrew J. Page, Grace Olanipekun, Huda Munir, Roxanne Alter, Paul D. Fey, Nicholas A. Feasey, François Xavier Weill, Simon Le Hello, Peter J. Hart, Samuel Kariuki, Robert F. Breiman, Melita A. Gordon, Robert S. Heyderman, Jan Jacobs, Octavie Lunguya, Chisomo Msefula, Calman A. MacLennan, Karen H. Keddy, Anthony M. Smith, Robert S. Onsare, Elizabeth De Pinna, Satheesh Nair, Ben Amos, Gordon Dougan, Stephen Obaro, Julian Parkhill, Robert A. Kingsley, Nicholas R. Thomson, Jacqueline A. Keane, Jane Hawkey, David J. Edwards, Zoe A. Dyson, Simon R. Harris, Amy K. Cain, James Hadfield, Elizabeth J. Klemm, Conall H. Watson, W. John Edmunds, Nga Tran Vu Thieu, Mike Kama, Kylie Jenkins, Shanta Dutta, Josefina Campos, Corinne Thompson, Christiane Dolecek, Christopher M. Parry, Abhilasha Karkey, E. Kim Mulholland, James I. Campbell, Sabina Dongol, Buddha Basnyat, Amit Arjyal, Muriel Dufour, Don Bandaranayake, Take N. Toleafoa, Shalini Pravin Singh, Mochammad Hatta, Lupeoletalalelei Isaia
Published 2018

An extended genotyping framework for Salmonella enterica serovar Typhi, the cause of human typhoid

by Vanessa K. Wong, Stephen Baker, Thomas R. Connor, Derek Pickard, Andrew J. Page, Jayshree Dave, Niamh Murphy, Richard Holliman, Armine Sefton, Michael Millar, Zoe A. Dyson, Gordon Dougan, Kathryn E. Holt, Julian Parkhill, Robert A. Kingsley, Nicholas R. Thomson, Jacqueline A. Keane, James Hadfield, Elizabeth J. Klemm, Simon R. Harris, Amy K. Cain, Samuel Kariuki, Chinyere Okoro, Calman A. MacLennan, Nga Tran Vu Thieu, Duy Pham Thanh, Corinne Thompson, Christiane Dolecek, James I. Campbell, Guy Thwaites, Jeremy Farrar, Paul N. Newton, David Dance, Paul Turner, E. Kim Mulholland, Jane Hawkey, David J. Edwards, Nicholas A. Feasey, François Xavier Weill, Simon Le Hello, Peter J. Hart, Robert F. Breiman, Robert S. Onsare, Conall H. Watson, W. John Edmunds, Melita A. Gordon, Robert S. Heyderman, Chisomo Msefula, Jan Jacobs, Octavie Lunguya, Jose A. Chabalgoity, Mike Kama, Kylie Jenkins, Shanta Dutta, Florian Marks, Josefina Campos, Stephen Obaro, Karen H. Keddy, Anthony M. Smith, Christopher M. Parry, Abhilasha Karkey, Sabina Dongol, Buddha Basnyat, Amit Arjyal, Muriel Dufour, Don Bandaranayake
Published 2018

Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter-and intracontinental transmission events

by Vanessa K. Wong, Stephen Baker, Derek J. Pickard, Julian Parkhill, Andrew J. Page, Nicholas A. Feasey, Robert A. Kingsley, Nicholas R. Thomson, Jacqueline A. Keane, François Xavier Weill, David J. Edwards, Jane Hawkey, Simon R. Harris, Alison E. Mather, Amy K. Cain, James Hadfield, Peter J. Hart, Nga Tran Vu Thieu, Elizabeth J. Klemm, Dafni A. Glinos, Robert F. Breiman, Conall H. Watson, Samuel Kariuki, Melita A. Gordon, Robert S. Heyderman, Chinyere Okoro, Jan Jacobs, Octavie Lunguya, W. John Edmunds, Chisomo Msefula, Jose A. Chabalgoity, Mike Kama, Kylie Jenkins, Shanta Dutta, Florian Marks, Josefina Campos, Corinne Thompson, Stephen Obaro, Calman A. Maclennan, Christiane Dolecek, Karen H. Keddy, Anthony M. Smith, Christopher M. Parry, Abhilasha Karkey, E. Kim Mulholland, James I. Campbell, Sabina Dongol, Buddha Basnyat, Muriel Dufour, Don Bandaranayake, Take Toleafoa Naseri, Shalini Pravin Singh, Mochammad Hatta, Paul Newton, Robert S. Onsare, Lupeoletalalei Isaia, David Dance, Viengmon Davong, Guy Thwaites, Lalith Wijedoru, John A. Crump, Elizabeth De Pinna, Satheesh Nair, Eric J. Nilles, Duy Pham Thanh, Paul Turner, Sona Soeng, Mary Valcanis, Joan Powling, Karolina Dimovski, Geoff Hogg, Jeremy Farrar, Kathryn E. Holt
Published 2018