Not logged in Strain-level transmission inference across multi-kingdom metagenomic data using TRACS Tonkin-Hill, Gerry; Shao, Yan; Zarebski, Alexander E.; Mallawaarachchi, Sudaraka; Xie, Ouli; Maklin, Tommi; Thorpe, Harry A.; Davies, Mark R.; Bentley, Stephen D.; Lawley, Trevor D.; Corander, Jukka Share Save
Identification of transporter-dependent capsular loci associated with the invasive potential of Escherichia coli Gladstone, Rebecca A.; Pesonen, Maiju; Pontinen, Anna K.; Maklin, Tommi; Macalasdair, Neil; Thorpe, Harry; Shao, Yan; Mallawaarachchi, Sudaraka; Arredondo-Alonso, Sergio; Parcell, Benjamin J.; Turnbull, Jake David; Tonkin-hill, Gerry; Johnsen, Pal J.; Samuelsen, Orjan; Thomson, Nicholas R.; Lawley, Trevor; Corander, Jukka Share Save
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Diversity, functional classification and genotyping of SHV /3-lactamases in Klebsiella pneumoniae Tsang, Kara K.; Lam, Margaret M. C.; Wick, Ryan R.; Wyres, Kelly L.; Bachman, Michael; Baker, Stephen; Barry, Katherine; Brisse, Sylvain; Campino, Susana; Chiaverini, Alexandra; Cirillo, Daniela Maria; Clark, Taane; Corander, Jukka; Corbella, Marta; Cornacchia, Alessandra; Cuenod, Aline; D'Alterio, Nicola; Di Marco, Federico; Donado-Godoy, Pilar; Egli, Adrian; Farzana, Refath; Feil, Edward J.; Fostervold, Aasmund; Gorrie, Claire L.; Hassan, Brekhna; Hetland, Marit Andrea Klokkhammer; Hoa, Le Nguyen Minh; Hoi, Le Thi; Howden, Benjamin; Ikhimiukor, Odion O.; Jenney, Adam W. J.; Kaspersen, Hakon; Khokhar, Fahad; Leangapichart, Thongpan; Ligowska-Marzeta, Malgorzata; Lohr, Iren Hoyland; Long, Scott W.; Mathers, Amy J.; Mcarthur, Andrew G.; Nagaraj, Geetha; Oaikhena, Anderson O.; Okeke, Iruka N.; Perdigao, Joao; Parikh, Hardik; Pham, My H.; Pomilio, Francesco; Raffelsberger, Niclas; Rakotondrasoa, Andriniaina; Kumar, K. L. Ravi; Roberts, Leah W.; Rodrigues, Carla; Samuelsen, Orjan; Sands, Kirsty; Sassera, Davide; Seth-Smith, Helena; Shamanna, Varun; Sherry, Norelle L.; Sia, Sonia; Spadar, Anton; Stoesser, Nicole; Sunde, Marianne; Sundsfjord, Arnfinn; Thach, Pham Ngoc; Thomson, Nicholas R.; Thorpe, Harry A.; Torok, M. Estee; Trang, Van Dinh; Trung, Nguyen Vu; Vornhagen, Jay; Walsh, Timothy; Warne, Ben; Wilson, Hayley; Wright, Gerard D.; Holt, Kathryn E. Share Save
Pangenome-spanning epistasis and coselection analysis via de Bruijn graphs Kuronen, Juri; Horsfield, Samuel T.; Pontinen, Anna K.; Mallawaarachchi, Sudaraka; Arredondo-Alonso, Sergio; Thorpe, Harry; Gladstone, Rebecca A.; Willems, Rob J. L.; Bentley, Stephen D.; Croucher, Nicholas J.; Pensar, Johan; Lees, John A.; Tonkin-Hill, Gerry; Corander, Jukka Share Save
Deep sequencing of Escherichia coli exposes colonisation diversity and impact of antibiotics in Punjab, Pakistan Khawaja, Tamim; Maklin, Tommi; Kallonen, Teemu; Gladstone, Rebecca A.; Pontinen, Anna K.; Mero, Sointu; Thorpe, Harry A.; Samuelsen, Orjan; Parkhill, Julian; Izhar, Mateen; Akhtar, M. Waheed; Corander, Jukka; Kantele, Anu Share Save
Detecting co-selection through excess linkage disequilibrium in bacterial genomes Mallawaarachchi, Sudaraka; Tonkin-Hill, Gerry; Pontinen, Anna K.; Calland, Jessica K.; Gladstone, Rebecca A.; Arredondo-Alonso, Sergio; MacAlasdair, Neil; Thorpe, Harry A.; Top, Janetta; Sheppard, Samuel K.; Balding, David; Croucher, Nicholas J.; Corander, Jukka Share Save
Repeated out-of-Africa expansions of Helicobacter pylori driven by replacement of deleterious mutations (vol 13, 6842, 2022) Thorpe, Harry A.; Tourrette, Elise; Yahara, Koji; Vale, Filipa F.; Liu, Siqi; Oleastro, Monica; Alarcon, Teresa; Perets, Tsachi-Tsadok; Latifi-Navid, Saeid; Yamaoka, Yoshio; Martinez-Gonzalez, Beatriz; Karayiannis, Ioannis; Karamitros, Timokratis; Sgouras, Dionyssios N.; Elamin, Wael; Pascoe, Ben; Sheppard, Samuel K.; Ronkainen, Jukka; Aro, Pertti; Engstrand, Lars; Agreus, Lars; Suerbaum, Sebastian; Thorell, Kaisa; Falush, Daniel Share Save
Strong pathogen competition in neonatal gut colonisation Maklin, Tommi; Thorpe, Harry A.; Pontinen, Anna K.; Gladstone, Rebecca A.; Shao, Yan; Pesonen, Maiju; McNally, Alan; Johnsen, Pal J.; Samuelsen, Orjan; Lawley, Trevor D.; Honkela, Antti; Corander, Jukka Share Save
Repeated out-of-Africa expansions of Helicobacter pylori driven by replacement of deleterious mutations Thorpe, Harry A.; Tourrette, Elise; Yahara, Koji; Vale, Filipa F.; Liu, Siqi; Oleastro, Monica; Alarcon, Teresa; Perets, Tsachi-Tsadok; Latifi-Navid, Saeid; Yamaoka, Yoshio; Martinez-Gonzalez, Beatriz; Karayiannis, Ioannis; Karamitros, Timokratis; Sgouras, Dionyssios N.; Elamin, Wael; Pascoe, Ben; Sheppard, Samuel K.; Ronkainen, Jukka; Aro, Pertti; Engstrand, Lars; Agreus, Lars; Suerbaum, Sebastian; Thorell, Kaisa; Falush, Daniel Share Save
Quantifying bacterial evolution in the wild: A birthday problem for Campylobacter lineages Calland, Jessica K.; Pascoe, Ben; Bayliss, Sion C.; Mourkas, Evangelos; Berthenet, Elvire; Thorpe, Harry A.; Hitchings, Matthew D.; Feil, Edward J.; Corander, Jukka; Blaser, Martin J.; Falush, Daniel; Sheppard, Samuel K. Share Save
A high prevalence of blaOXA-48 in Klebsiella (Raoultella) ornithinolytica and related species in hospital wastewater in South West England Gibbon, Marjorie J.; Couto, Natacha; David, Sophia; Barden, Ruth; Standerwick, Richard; Jagadeesan, Kishore; Birkwood, Hollie; Dulyayangkul, Punyawee; Avison, Matthew B.; Kannan, Andrew; Kibbey, Dan; Craft, Tim; Habib, Samia; Thorpe, Harry A.; Corander, Jukka; Kasprzyk-Hordern, Barbara; Feil, Edward J. Share Save
Description of Klebsiella spallanzanii sp. nov. and of Klebsiella pasteurii sp. nov. Merla, Cristina; Rodrigues, Carla; Passet, Virginie; Corbella, Marta; Thorpe, Harry A.; Kallonen, Teemu V. S.; Zong, Zhiyong; Marone, Piero; Bandi, Claudio; Sassera, Davide; Corander, Jukka; Feil, Edward J.; Brisse, Sylvain Share Save
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Whole genome sequencing and phylogenetic analysis of strains of the agent of Lyme disease Borrelia burgdorferi from Canadian emergence zones Tyler, Shaun; Tyson, Shari; Dibernardo, Antonia; Drebot, Michael; Feil, Edward J.; Graham, Morag; Knox, Natalie C.; Lindsay, L. Robbin; Margos, Gabriele; Mechai, Samir; Van Domselaar, Gary; Thorpe, Harry A.; Ogden, Nick H. Share Save
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