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Phylodynamic analysis of a prolonged meningococcal epidemic reveals multiple introductions and pre-epidemic expansion Yang, Zuyu; Davies, Heather; Clapham, Jane; Lopez, Liza; Bratcher, Holly B.; Tiong, Audrey; Didelot, Xavier; Maiden, Martin C. J.; Carter, Philip E.; Ren, Xiaoyun Share Save
Epistasis, core-genome disharmony, and adaptation in recombining bacteria Taylor, Aidan J.; Yahara, Koji; Pascoe, Ben; Ko, Seungwon; Mageiros, Leonardos; Mourkas, Evangelos; Calland, Jessica K.; Puranen, Santeri; Hitchings, Matthew D.; Jolley, Keith A.; Kobras, Carolin M.; Bayliss, Sion; Williams, Nicola J.; van Vliet, Arnoud H. M.; Parkhill, Julian; Maiden, Martin C. J.; Corander, Jukka; Hurst, Laurence D.; Falush, Daniel; Keim, Paul; Didelot, Xavier; Kelly, David J.; Sheppard, Samuel K. Share Save
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Rapid expansion and international spread of M1UK in the post-pandemic UK upsurge of Streptococcus pyogenes Vieira, Ana; Wan, Yu; Ryan, Yan; Li, Ho Kwong; Guy, Rebecca L.; Papangeli, Maria; Huse, Kristin K.; Reeves, Lucy C.; Soo, Valerie W. C.; Daniel, Roger; Harley, Alessandra; Broughton, Karen; Dhami, Chenchal; Ganner, Mark; Ganner, Marjorie A.; Mumin, Zaynab; Razaei, Maryam; Rundberg, Emma; Mammadov, Rufat; Mills, Ewurabena A.; Sgro, Vincenzo; Mok, Kai Yi; Didelot, Xavier; Croucher, Nicholas J.; Jauneikaite, Elita; Lamagni, Theresa; Brown, Colin S.; Coelho, Juliana; Sriskandan, Shiranee Share Save
Presence of phage- plasmids in multiple serovars of Salmonella enterica Nair, Satheesh; Barker, Clare R.; Bird, Matthew; Greig, David R.; Collins, Caitlin; Painset, Anais; Chattaway, Marie; Pickard, Derek; Larkin, Lesley; Gharbia, Saheer; Didelot, Xavier; Ribeca, Paolo Share Save
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Integrated Analysis of Patient Networks and Plasmid Genomes to Investigate a Regional, Multispecies Outbreak of Carbapenemase-Producing Enterobacterales Carrying Both blaIMP and mcr-9 Genes Wan, Yu; Myall, Ashleigh C.; Boonyasiri, Adhiratha; Bolt, Frances; Ledda, Alice; Mookerjee, Siddharth; Weisse, Andrea Y.; Getino, Maria; Turton, Jane F.; Abbas, Hala; Prakapaite, Ruta; Sabnis, Akshay; Abdolrasouli, Alireza; Malpartida-Cardenas, Kenny; Miglietta, Luca; Donaldson, Hugo; Gilchrist, Mark; Hopkins, Katie L.; Ellington, Matthew J.; Otter, Jonathan A.; Larrouy-Maumus, Gerald; Edwards, Andrew M.; Rodriguez-Manzano, Jesus; Didelot, Xavier; Barahona, Mauricio; Holmes, Alison H.; Jauneikaite, Elita; Davies, Frances Share Save
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Genomic epidemiology of the clinically dominant clonal complex 1 in the Listeria monocytogenes population in the UK Fotopoulou, Emily T.; Jenkins, Claire; Barker, Clare R.; Painset, Anais; Didelot, Xavier; Simbo, Ameze; Douglas, Amy; Godbole, Gauri; Jorgensen, Frieda; Gharbia, Saheer; McLauchlin, Jim Share Save
A smooth tubercle bacillus from Ethiopia phylogenetically close to the Mycobacterium tuberculosis complex Yenew, Bazezew; Ghodousi, Arash; Diriba, Getu; Tesfaye, Ephrem; Cabibbe, Andrea Maurizio; Amare, Misikir; Moga, Shewki; Alemu, Ayinalem; Dagne, Binyam; Sinshaw, Waganeh; Mollalign, Hilina; Meaza, Abyot; Tadesse, Mengistu; Gamtesa, Dinka Fikadu; Abebaw, Yeshiwork; Seid, Getachew; Zerihun, Betselot; Getu, Melak; Chiacchiaretta, Matteo; Gaudin, Cyril; Marceau, Michael; Didelot, Xavier; Tolera, Getachew; Abdella, Saro; Kebede, Abebaw; Getahun, Muluwork; Mehammed, Zemedu; Supply, Philip; Cirillo, Daniela Maria Share Save
Within-host diversity improves phylogenetic and transmission reconstruction of SARS-CoV-2 outbreaks Ortiz, Arturo Torres; Kendall, Michelle; Storey, Nathaniel; Hatcher, James; Dunn, Helen; Roy, Sunando; Williams, Rachel; Williams, Charlotte; Goldstein, Richard A.; Didelot, Xavier; Harris, Kathryn; Breuer, Judith; Grandjean, Louis Share Save
Analysis of Escherichia coli O157 strains in cattle and humans between Scotland and England & Wales: implications for human health Chase-Topping, Margo; Dallman, Timothy J.; Allison, Lesley; Lupolova, Nadejda; Matthews, Louise; Mitchell, Sonia; Banks, Christopher J.; Prentice, Jamie; Brown, Helen; Tongue, Sue; Henry, Madeleine; Evans, Judith; Gunn, George; Hoyle, Deborah; McNeilly, Tom N.; Fitzgerald, Stephen; Smith-Palmer, Alison; Shaaban, Sharif; Holmes, Anne; Hanson, Mary; Woolhouse, Mark; Didelot, Xavier; Jenkins, Claire; Gally, David L. Share Save
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Phylogenetic analysis of the origin and spread of plague in Madagascar Esquivel Gomez, Luis Roger; Savin, Cyril; Andrianaivoarimanana, Voahangy; Rahajandraibe, Soloandry; Randriantseheno, Lovasoa Nomena; Zhou, Zhemin; Kocher, Arthur; Didelot, Xavier; Rajerison, Minoarisoa; Kuehnert, Denise Share Save
Penicillin Binding Protein Substitutions Cooccur with Fluoroquinolone Resistance in Epidemic Lineages of Multidrug-Resistant Clostridioides difficile Dingle, Kate E.; Freeman, Jane; Didelot, Xavier; Quan, T. Phuong; Eyre, David W.; Swann, Jeremy; Spittal, William D.; Clark, Emma V.; Jolley, Keith A.; Walker, A. Sarah; Wilcox, Mark H.; Crook, Derrick W. Share Save
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