Microbiome diversity protects against pathogens by nutrient blocking by Spragge, F, Bakkeren, E, Jahn, MT, Araujo Batista Neves, E, Pearson, CF, Wang, X, Pankhurst, L, Cunrath, O, Foster, KR

Development of nanopore-based whole genome sequencing to allow Mycobacterium diagnosis directly from patient samples by Pankhurst, L, Bradley, P, Votintseva, A, del Ojo Elias, C, Sanderson, N, Morgan, M, Walker, A, Peto, T, Crook, D, Iqbal, Z

Pandora: nucleotide-resolution bacterial pan-genomics with reference graphs by Colquhoun, RM, Hall, MB, Lima, L, Roberts, LW, Malone, KM, Hunt, M, Letcher, B, Hawkey, J, George, S, Pankhurst, L, Iqbal, Z

Temporal and spatial changes in the microbial bioaerosol communities in green-waste composting. by Pankhurst, L, Whitby, C, Pawlett, M, Larcombe, L, McKew, B, Deacon, L, Morgan, S, Villa, R, Drew, G, Tyrrel, S, Pollard, S, Coulon, F

Klebsiella pneumoniae Carbapenemase (KPC)-Producing K. pneumoniae at a Single Institution: Insights into Endemicity from Whole-Genome Sequencing. by Mathers, A, Stoesser, N, Sheppard, A, Pankhurst, L, Giess, A, Yeh, A, Didelot, X, Turner, S, Sebra, R, Kasarskis, A, Peto, T, Crook, D, Sifri, C

Illumina short-read and MinION long-read whole genome sequencing to characterise the molecular epidemiology of an NDM-1-Serratia marcescens outbreak in Romania by Phan, H, Stoesser, N, Maciuca, I, Toma, F, Szekely, E, Flonta, M, Hubbard, A, Pankhurst, L, Do, T, Peto, T, Walker, A, Crook, D, Timofte, D

Resolving plasmid structures in Enterobacteriaceae using the MinION nanopore sequencer: assessment of MinION and MinION/Illumina hybrid data assembly approaches by George, S, Pankhurst, L, Hubbard, A, Votintseva, A, Stoesser, N, Sheppard, A, Mathers, A, Norris, R, Navickaite, I, Eaton, C, Iqbal, Z, Crook, D, Phan, H

Mycobacterial DNA extraction for whole-genome sequencing from early positive liquid (MGIT) cultures by Votintseva, A, Pankhurst, L, Anson, L, Morgan, MR, Gascoyne-Binzi, D, Walker, T, Quan, T, Wyllie, D, Del Ojo Elias, C, Wilcox, M, Walker, A, Peto, T, Crook, D

DNA extraction from primary liquid blood cultures for bloodstream infection diagnosis using whole genome sequencing by Anson, LW, Chau, K, Sanderson, N, Hoosdally, S, Bradley, P, Iqbal, Z, Phan, H, Foster, D, Oakley, S, Morgan, M, Peto, TEA, MMM Informatics Group, Crook, DW, Pankhurst, L

Can rapid integrated polymerase chain reaction-based diagnostics for gastrointestinal pathogens improve routine hospital infection control practice? A diagnostic study. by Pankhurst, L, Macfarlane-Smith, L, Buchanan, J, Anson, L, Davies, K, O'Connor, L, Ashwin, H, Pike, G, Dingle, K, Peto, T, Wordsworth, S, Walker, A, Wilcox, M, Crook, D

Genomic epidemiology of global Klebsiella pneumoniae carbapenemase (KPC)-producing Escherichia coli by Stoesser, N, Sheppard, AE, Peirano, G, Anson, LW, Pankhurst, L, Sebra, R, Phan, HTT, Kasarskis, A, Mathers, AJ, Peto, TEA, Bradford, P, Motyl, MR, Walker, AS, Crook, DW, Pitout, JD

Same-day diagnostic and surveillance data for tuberculosis via whole genome sequencing of direct respiratory samples by Votintseva, A, Bradley, P, Pankhurst, L, del Ojo Elias, C, Loose, M, Nilgiriwala, K, Chatterjee, A, Smith, E, Sanderson, N, Walker, T, Morgan, M, Wyllie, D, Walker, A, Peto, T, Crook, D, Iqbal, Z

Same-day diagnostic and surveillance data for tuberculosis via whole genome sequencing of direct respiratory samples by Iqbal, Z, Votintseva, A, Bradley, P, Pankhurst, L, del Ojo Elias, C, Loose, M, Nilgiriwala, K, Chatterjee, A, Smith, E, Sanderson, N, Walker, T, Morgan, M, Wyllie, D, Walker, A, Peto, T, Crook, D

Nested Russian doll-like genetic mobility drives rapid dissemination of the carbapenem resistance gene blaKPC by Sheppard, A, Stoesser, N, Wilson, D, Sebra, R, Kasarkis, A, Anson, L, Giess, A, Pankhurst, L, Vaughan, A, Grim, C, Cox, H, Yeh, A, Sifri, C, Walker, A, Peto, T, Crook, D, Mathers, A

Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study by Pankhurst, L, Fermont, J, del Ojo Elias, C, Votintseva, A, Walker, T, Cole, K, Davies, J, Gascoyne-Binzi, D, Kohl, T, Kong, C, Lemaitre, N, Niemann, S, Paul, J, Rogers, T, Roycroft, E, Smith, E, Supply, P, Tang, P, Wilcox, M

Covert dissemination of carbapenemase-producing Klebsiella pneumoniae (KPC) in a successfully controlled outbreak: long and short-read whole-genome sequencing demonstrate multiple... by Martin, J, Phan, H, Findlay, J, Stoesser, N, Pankhurst, L, Navickaite, I, De Maio, N, Eyre, D, Toogood, G, Orsi, N, Kirby, A, Young, N, Turton, J, Hill, R, Hopkins, K, Woodford, N, Peto, T, Walker, A, Crook, D, Wilcox, M

Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis by Bradley, P, Gordon, N, Walker, T, Dunn, L, Heys, S, Huang, B, Earle, S, Pankhurst, L, Anson, L, De Cesare, M, Piazza, P, Votintseva, A, Golubchik, T, Wilson, D, Wyllie, D, Diel, R, Niemann, S, Feuerriegel, S, Kohl, T, Ismail, N, Omar, S, Smith, E, Buck, D, McVean, G, Walker, A, Peto, T, Crook, D, Iqbal, Z

Corrigendum: Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis by Bradley, P, Gordon, N, Walker, T, Dunn, L, Heys, S, Huang, B, Earle, S, Pankhurst, L, Anson, L, De Cesare, M, Piazza, P, Votintseva, A, Golubchik, T, Wilson, D, Wyllie, D, Diel, R, Niemann, S, Feuerriegel, S, Kohl, T, Ismail, N, Omar, S, Smith, E, Buck, D, McVean, G, Walker, A, Peto, T, Crook, D, Iqbal, Z

A large, refractory nosocomial outbreak of Klebsiella pneumoniae carbapenemase (KPC)-producing Escherichia coli demonstrates carbapenemase gene outbreaks involving sink sites requi... by Decraene, V, Phan, H, George, R, Wyllie, D, Akinremi, O, Aiken, Z, Cleary, P, Dodgson, A, Pankhurst, L, Crook, D, Lenney, C, Walker, A, Woodford, N, Sebra, R, Fath-Ordoubadi, F, Mathers, A, Seale, A, Guiver, M, McEwan, A, Watts, V, Welfare, W, Stoesser, N, Cawthorne, J, TRACE Investigators’ Group

Evolutionary history of the global emergence of the Escherichia coli epidemic clone ST131 by Stoesser, N, Sheppard, AE, Pankhurst, L, De Maio, N, Moore, CE, Sebra, R, Turner, P, Anson, LW, Kasarskis, A, Batty, EM, Kos, V, Wilson, DJ, Phetsouvanh, R, Wyllie, D, Sokurenko, E, Manges, AR, Johnson, TJ, Price, LB, Peto, TEA, Johnson, JR, Didelot, X, Walker, AS, Crook, DW, Modernizing Medical Microbiology Informatics Group (MMMIG)