Items where Author is "Mather, Alison"

Article

Palau, Raphaёlle, Bloomfield, Samuel J., Jenkins, Claire, Greig, David R., Jorgensen, Frieda and Mather, Alison E. (2024) Yersinia enterocolitica biovar 1A: An underappreciated potential pathogen in the food chain. International Journal of Food Microbiology, 412. ISSN 0168-1605

Bloomfield, Samuel J., Janecko, Nicol, Palau, Raphaёlle, Alikhan, Nabil-Fareed and Mather, Alison E. (2023) Genomic diversity and epidemiological significance of non-typhoidal Salmonella found in retail food collected in Norfolk, UK. Microbial Genomics, 9 (7). ISSN 2057-5858

Janecko, Nicol, Zamudio, Roxana, Palau, Raphaëlle, Bloomfield, Samuel J. and Mather, Alison E. (2023) Repeated cross-sectional study identifies differing risk factors associated with microbial contamination in common food products in the United Kingdom. Food Microbiology, 111. ISSN 0740-0020

Bloomfield, Samuel J., Zomer, Aldert L., O'Grady, Justin, Kay, Gemma L., Wain, John, Janecko, Nicol, Palau, Raphaëlle and Mather, Alison E. (2023) Determination and quantification of microbial communities and antimicrobial resistance on food through host DNA-depleted metagenomics. Food Microbiology, 110. ISSN 0740-0020

Orlek, Alex, Anjum, Muna F., Mather, Alison E., Stoesser, Nicole and Walker, A. Sarah (2023) Factors associated with plasmid antibiotic resistance gene carriage revealed using large-scale multivariable analysis. Scientific Reports, 13. ISSN 2045-2322

Zamudio, Roxana, Boerlin, Patrick, Beyrouthy, Racha, Madec, Jean-Yves, Schwarz, Stefan, Mulvey, Michael R., Zhanel, George G., Cormier, Ashley, Chalmers, Gabhan, Bonnet, Richard, Haenni, Marisa, Eichhorn, Inga, Kaspar, Heike, Garcia-Fierro, Raquel, Wood, James L. N. and Mather, Alison E. (2022) Dynamics of extended-spectrum cephalosporin resistance genes in Escherichia coli from Europe and North America. Nature Communications, 13. ISSN 2041-1723

Djeghout, Bilal, Bloomfield, Samuel J., Rudder, Steven, Elumogo, Ngozi, Mather, Alison E., Wain, John and Janecko, Nicol (2022) Comparative genomics of Campylobacter jejuni from clinical campylobacteriosis stool specimens. Gut Pathogens, 14. ISSN 2076-0817

Mellor, Kate C., Blackwell, Grace A., Cawthraw, Shaun A., Mensah, Nana E., Reid, Stuart W. J., Thomson, Nicholas R., Petrovska, Liljana and Mather, Alison E. (2022) Contrasting long-term dynamics of antimicrobial resistance and virulence plasmids in Salmonella Typhimurium from animals. Microbial Genomics, 8 (8). ISSN 2057-5858

Mattock, Jennifer, Smith, Anthony M., Keddy, Karen H., Manners, Emma J., Duze, Sanelisiwe T., Smouse, Shannon, Tau, Nomsa, Baker, David, Chattaway, Marie Anne, Mather, Alison E., Wain, John and Langridge, Gemma C. (2022) Genetic characterization of Salmonella Infantis from South Africa, 2004–2016. Access Microbiology, 4 (7). ISSN 2516-8290

Alikhan, Nabil-Fareed, Moreno, Luisa Zanolli, Castellanos, Luis Ricardo, Chattaway, Marie Anne, McLauchlin, Jim, Lodge, Martin, O'Grady, Justin, Zamudio, Roxana, Doughty, Emma, Petrovska, Liljana, Cunha, Marcos Paulo Vieira, Knöbl, Terezinha, Moreno, Andrea Micke and Mather, Alison E. (2022) Dynamics of Salmonella enterica and antimicrobial resistance in the Brazilian poultry industry and global impacts on public health. PLoS Genetics, 18 (6). ISSN 1553-7390

Bloomfield, Samuel, Duong, Vu Thuy, Tuyen, Ha Thanh, Campbell, James I., Thomson, Nicholas R., Parkhill, Julian, Phuc, Hoang Le, Chau, Tran Thi Hong, Maskell, Duncan J., Perron, Gabriel G., Ngoc, Nguyen Minh, Vi, Lu Lan, Adriaenssens, Evelien M., Baker, Stephen and Mather, Alison E. (2022) Mobility of antimicrobial resistance across serovars and disease presentations in non-typhoidal Salmonella from animals and humans in Vietnam. Microbial Genomics, 8 (5). ISSN 2057-5858

Cormier, Ashley C., Chalmers, Gabhan, Zamudio, Roxana, Mulvey, Michael R., Mather, Alison E. and Boerlin, Patrick (2022) Diversity of blaCTX-M-1-carrying plasmids recovered from Escherichia coli isolated from Canadian domestic animals. PLoS One, 17 (3). ISSN 1932-6203

Gomes, Vasco T. M., Moreno, Luisa Z., Silva, Ana Paula S., Thakur, Siddhartha, La Ragione, Roberto M., Mather, Alison E. and Moreno, Andrea M. (2022) Characterization of Salmonella enterica contamination in pork and poultry meat from São Paulo/Brazil: Serotypes, genotypes and antimicrobial resistance profiles. Pathogens, 11 (3). ISSN 2076-0817

de Oliveira Martins, Leonardo, Bloomfield, Samuel, Stoakes, Emily, Grant, Andrew J., Page, Andrew J. and Mather, Alison E. (2022) Tatajuba: exploring the distribution of homopolymer tracts. NAR Genomics and Bioinformatics, 4 (1). ISSN 2631-9268

Petrillo, Mauro, Fabbri, Marco, Kagkli, Dafni Maria, Querci, Maddalena, Van den Eede, Guy, Alm, Erik, Aytan-Aktug, Derya, Capella-Gutierrez, Salvador, Carrillo, Catherine, Cestaro, Alessandro, Chan, Kok Gan, Coque, Teresa, Endrullat, Christoph, Gut, Ivo, Hammer, Paul, Kay, Gemma L., Madec, Jean Yves, Mather, Alison E., McHardy, Alice Carolyn, Naas, Thierry, Paracchini, Valentina, Peter, Silke, Pightling, Arthur, Raffael, Barbara, Rossen, John, Ruppé, Etienne, Schlaberg, Robert, Vanneste, Kevin, Weber, Lukas M., Westh, Henrik and Angers-Loustau, Alexandre (2022) A roadmap for the generation of benchmarking resources for antimicrobial resistance detection using next generation sequencing. F1000Research, 10. ISSN 2046-1402

Bloomfield, Samuel J., Midwinter, Anne C., Biggs, Patrick J., French, Nigel P., Marshall, Jonathan C., Hayman, David T. S., Carter, Philip E., Mather, Alison E., Fayaz, Ahmed, Thornley, Craig, Kelly, David J. and Benschop, Jackie (2021) Genomic adaptations of Campylobacter jejuni to long-term human colonization. Gut Pathogens, 13 (1). ISSN 2076-0817

Lee, Winnie W. Y., Mattock, Jennifer, Greig, David R., Langridge, Gemma C., Baker, David, Bloomfield, Samuel, Mather, Alison E., Wain, John R., Edwards, Andrew M., Hartman, Hassan, Dallman, Timothy J., Chattaway, Marie A. and Nair, Satheesh (2021) Characterization of a pESI-like plasmid and analysis of multidrug-resistant Salmonella enterica infantis isolates in England and Wales. Microbial Genomics, 7 (10). ISSN 2057-5858

Janecko, Nicol, Bloomfield, Samuel J., Palau, Raphaëlle and Mather, Alison E. (2021) Whole genome sequencing reveals great diversity of Vibrio spp in prawns at retail. Microbial Genomics, 7 (9). ISSN 2057-5858

Page, Andrew J., Mather, Alison E., Le-Viet, Thanh, Meader, Emma J., Alikhan, Nabil-Fareed, Kay, Gemma L., De Oliveira Martins, Leonardo, Aydin, Alp, Baker, David J., Trotter, Alexander J., Rudder, Steven, Tedim, Ana P., Kolyva, Anastasia, Stanley, Rachael, Yasir, Muhammad, Diaz, Maria, Potter, Will, Stuart, Claire, Meadows, Lizzie, Bell, Andrew, Gutierrez, Ana Victoria, Thomson, Nicholas M., Adriaenssens, Evelien M., Swingler, Tracey, Gilroy, Rachel A. J., Griffith, Luke, Sethi, Dheeraj K., Aggarwal, Dinesh, Brown, Colin S., Davidson, Rose K. ORCID: https://orcid.org/0000-0002-6624-4011, Kingsley, Robert A., Bedford, Luke, Coupland, Lindsay J., Charles, Ian G., Elumogo, Ngozi, Wain, John, Prakash, Reenesh, Webber, Mark A., Smith, S. J. Louise, Chand, Meera, Dervisevic, Samir and O’Grady, Justin (2021) Large-scale sequencing of SARS-CoV-2 genomes from one region allows detailed epidemiology and enables local outbreak management. Microbial Genomics, 7 (6). ISSN 2057-5858

Rivers-Auty, Jack, Tapia, Victor S., White, Claire S., Daniels, Michael J. D., Drinkall, Samuel, Kennedy, Paul T., Spence, Harry G., Yu, Shi, Green, Jack P, Hoyle, Christopher, Cook, James, Bradley, Amy, Mather, Alison E., Peters, Ruth, Tzeng, Te-Chen, Gordon, Margaret J., Beattie, John H., Brough, David and Lawrence, Catherine B. (2021) Zinc status alters Alzheimer’s disease progression through NLRP3-dependent inflammation. The Journal of Neuroscience, 41 (13). pp. 3025-3038. ISSN 0270-6474

Baker, Dave J., Aydin, Alp, Le Viet, Thanh, Kay, Gemma L., Rudder, Steven, de Oliveira Martins, Leonardo, Tedim, Ana P., Kolyva, Anastasia, Diaz, Maria, Alikhan, Nabil-Fareed, Meadows, Lizzie, Bell, Andrew, Gutierrez, Ana Victoria, Trotter, Alexander J., Thomson, Nicholas M., Gilroy, Rachel, Griffith, Luke, Adriaenssens, Evelien M., Stanley, Rachael, Charles, Ian, Franslem-Elumogo, Ngozi, Wain, John, Prakash, Reenesh, Meader, Emma, Mather, Alison, Webber, Mark, Dervisevic, Samir, Page, Andrew J. and O'Grady, Justin (2021) CoronaHiT: High throughput sequencing of SARS-CoV-2 genomes. Genome Medicine, 13. ISSN 1756-994X

Thuy Duong, Vu, Chung The, Hao, Do Hoang Nhu, Tran, Thanh Tuyen, Ha, Campbell, James I, Van Minh, Pham, Le Phuc, Hoang, Thi Hong Chau, Tran, Minh Ngoc, Nguyen, Lan Vi, Lu, Mather, Alison E and Baker, Stephen (2020) Genomic serotyping, clinical manifestations, and antimicrobial resistance of non-typhoidal Salmonella gastroenteritis in hospitalized children in Ho Chi Minh City, Vietnam. Journal of Clinical Microbiology, 58 (12). ISSN 0095-1137

Rivers-Auty, Jack, Mather, Alison, Peters, Ruth, Lawrence, Catherine B. and Brough, David (2020) Anti-inflammatories in Alzheimer’s disease – potential therapy or spurious correlate? Brain Communications, 2 (2). ISSN 2632-1297

Baker, Dave J., Kay, Gemma L., Aydin, Alp, Le-Viet, Thanh, Rudder, Steven, Tedim, Ana P., Kolyva, Anastasia, Diaz, Maria, de Oliveira Martins, Leonardo, Alikhan, Nabil-Fareed, Meadows, Lizzie, Bell, Andrew, Gurierrez, Ana Victoria, Trotter, Alexander J., Thomson, Nicholas M., Gilroy, Rachel, Griffith, Luke, Adriaenssens, Evelien M., Stanley, Rachael, Charles, Ian G., Elumogo, Nzogi, Wain, John, Prakash, Reenesh, Meader, Emma, Mather, Alison E., Webber, Mark A., Dervisevic, Samir, Page, Andrew J. and O'Grady, Justin (2020) CoronaHiT: High throughput sequencing of SARS-CoV-2 genomes.

de Oliveira Martins, Leonardo, Page, Andrew, Mather, Alison and Charles, Ian (2020) Taxonomic resolution of the ribosomal RNA operon in bacteria: Implications for its use with long-read sequencing. NAR Genomics and Bioinformatics, 2 (1). ISSN 2631-9268

Chewapreecha, Claire, Mather, Alison E., Harris, Simon R., Hunt, Martin, Holden, Matthew T. G., Chaichana, Chutima, Wuthiekanun, Vanaporn, Dougan, Gordon, Day, Nicholas P. J., Limmathurotsakul, Direk, Parkhill, Julian and Peacock, Sharon J. (2019) Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei. Communications Biology, 2. ISSN 2399-3642

Kiu, Raymond, Caim, Shabhonam, Painset, Anais, Pickard, Derek, Swift, Craig, Dougan, Gordon, Mather, Alison E., Amar, Corinne and Hall, Lindsay J. ORCID: https://orcid.org/0000-0001-8938-5709 (2019) Phylogenomic analysis of gastroenteritis-associated Clostridium perfringens in England and Wales over a 7-year period indicates distribution of clonal toxigenic strains in multiple outbreaks and extensive involvement of enterotoxin-encoding (CPE) plasmids. Microbial Genomics, 5 (10). ISSN 2057-5858

Mensah, Nana, Tang, Yue, Cawthraw, Shaun, Abuoun, Manal, Fenner, Jackie, Thomson, Nicholas R., Mather, Alison E. and Petrovska-Holmes, Liljana (2019) Determining antimicrobial susceptibility in Salmonella enterica serovar Typhimurium through whole genome sequencing: a comparison against multiple phenotypic susceptibility testing methods. BMC Microbiology, 19. ISSN 1471-2180

Musicha, Patrick, Msefula, Chisomo L., Mather, Alison E., Chaguza, Chrispin, Cain, Amy K., Peno, Chikondi, Kallonen, Teemu, Khonga, Margaret, Denis, Brigitte, Gray, Katherine J., Heyderman, Robert S., Thomson, Nicholas R., Everett, Dean B. and Feasey, Nicholas A. (2019) Genomic analysis of Klebsiella pneumoniae isolates from Malawi reveals acquisition of multiple ESBL determinants across diverse lineages. Journal of Antimicrobial Chemotherapy, 74 (5). 1223–1232. ISSN 0305-7453

Mellor, Kate C., Petrovska, Liljana, Thomson, Nicholas R., Harris, Kate, Reid, Stuart W. J. and Mather, Alison E. (2019) Antimicrobial resistance diversity suggestive of distinct Salmonella Typhimurium sources or selective pressures in food-production animals. Frontiers in Microbiology, 10. ISSN 1664-302X

Mather, Alison E., Phuong, Tu Le Thi, Gao, Yunfeng, Clare, Simon, Mukhopadhyay, Subhankar, Goulding, David A., Do Hoang, Nhu Tran, Tuyen, Ha Thanh, Lan, Nguyen Phu Huong, Thompson, Corinne N., Trang, Nguyen Hoang Thu, Carrique-Mas, Juan, Tue, Ngo Tri, Campbell, James I., Rabaa, Maia A., Thanh, Duy Pham, Harcourt, Katherine, Hoa, Ngo Thi, Trung, Nguyen Vinh, Schultsz, Constance, Perron, Gabriel G., Coia, John E., Brown, Derek J., Okoro, Chinyere, Parkhill, Julian, Thomson, Nicholas R., Chau, Nguyen Van Vinh, Thwaites, Guy E., Maskell, Duncan J., Dougan, Gordon, Kenney, Linda J. and Baker, Stephen (2018) New variant of multidrug-resistant Salmonella enterica serovar typhimurium associated with invasive disease in immunocompromised patients in Vietnam. mBIO, 9 (5). ISSN 2161-2129

Elnekave, Ehud, Hong, Samuel, Mather, Alison E., Boxrud, Dave, Taylor, Angela J., Lappi, Victoria, Johnson, Timothy J., Vannucci, Fabio, Davies, Peter, Hedberg, Craig, Perez, Andres and Alvarez, Julio (2018) Salmonella enterica Serotype 4,[5],12:i:- in swine in the United States Midwest: An emerging multidrug-resistant clade. Clinical Infectious Diseases, 66 (6). pp. 877-885. ISSN 1058-4838

Harkins, Catriona P., Pettigrew, Kerry A., Oravcová, Katarina, Gardner, June, Hearn, R. M. Ross, Rice, Debbie, Mather, Alison E., Parkhill, Julian, Brown, Sara J., Proby, Charlotte M. and Holden, Matthew T. G. (2018) The microevolution and epidemiology of Staphylococcus aureus colonization during atopic eczema disease flare. Journal of Investigative Dermatology, 138 (2). pp. 336-343. ISSN 0022-202X

Jamrozy, Dorota, Coll, Francesc, Mather, Alison E., Harris, Simon R., Harrison, Ewan M., Macgowan, Alasdair, Karas, Andreas, Elston, Tony, Török, M. Estée, Parkhill, Julian and Peacock, Sharon J. (2017) Evolution of mobile genetic element composition in an epidemic methicillin-resistant Staphylococcus aureus: temporal changes correlated with frequent loss and gain events. BMC Genomics, 18 (1). ISSN 1471-2164

Domman, Daryl, Quilici, Marie-laure, Dorman, Matthew J., Njamkepo, Elisabeth, Mutreja, Ankur, Mather, Alison E., Delgado, Gabriella, Morales-Espinosa, Rosario, Grimont, Patrick A. D., Lizárraga-Partida, Marcial Leonardo, Bouchier, Christiane, Aanensen, David M., Kuri-Morales, Pablo, Tarr, Cheryl L., Dougan, Gordon, Parkhill, Julian, Campos, Josefina, Cravioto, Alejandro, Weill, François-Xavier and Thomson, Nicholas R. (2017) Integrated view of Vibrio cholerae in the Americas. Science, 358 (6364). pp. 789-793. ISSN 0036-8075

Campos, J., Pichel, M., Della Gaspera, A., Duarte-Martínez, F., Campos-Chacón, E., Bolaños-Acuña, H. M., Guzmán-Verri, C., Mather, A. E., Diaz Velasco, S., Zamudio Rojas, M. L., Forbester, J. L., Connor, T. R., Keddy, K. H., Smith, A. M., López de Delgado, E. A., Angiolillo, G., Cuaical, N., Fernández, J., Aguayo, C., Morales Aguilar, M., Valenzuela, C., Morales Medrano, A. J., Sirok, A., Weiler Gustafson, N., Diaz Guevara, P. L., Montaño, L. A., Perez, E. and Thomson, N. R. (2017) Whole genome sequencing of Shigella sonnei through PulseNet Latin America and Caribbean: advancing global surveillance of foodborne illnesses. Clinical Microbiology and Infection, 23 (11). pp. 845-853. ISSN 1198-743X

Hunt, Martin, Mather, Alison E, Sánchez-busó, Leonor, Page, Andrew J, Parkhill, Julian, Keane, Jacqueline A and Harris, Simon R (2017) ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads. Microbial Genomics, 3 (10). ISSN 2057-5858

Hernandez-Garcia, Juan, Wang, Jinhong, Restif, Olivier, Holmes, Mark A., Mather, Alison E., Weinert, Lucy A., Wileman, Thomas M., Thomson, Jill R., Langford, Paul R., Wren, Brendan W., Rycroft, Andrew, Maskell, Duncan J. and Tucker, Alexander W. (2017) Patterns of antimicrobial resistance in Streptococcus suis isolates from pigs with or without streptococcal disease in England between 2009 and 2014. Veterinary Microbiology, 207. pp. 117-124. ISSN 0378-1135

Bloomfield, Samuel J., Benschop, Jackie, Biggs, Patrick J., Marshall, Jonathan C., Hayman, David T. S., Carter, Philip E., Midwinter, Anne C., Mather, Alison E. and French, Nigel P. (2017) Genomic analysis of Salmonella enterica serovar typhimurium DT160 associated with a 14-year outbreak, New Zealand, 1998–2012. Emerging Infectious Diseases, 23 (6). pp. 906-913. ISSN 1080-6040

Musicha, Patrick, Feasey, Nicholas A., Cain, Amy K., Kallonen, Teemu, Chaguza, Chrispin, Peno, Chikondi, Khonga, Margaret, Thompson, Sarah, Gray, Katherine J., Mather, Alison E., Heyderman, Robert S., Everett, Dean B., Thomson, Nicholas R. and Msefula, Chisomo L. (2017) Genomic landscape of extended-spectrum β-lactamase resistance in Escherichia coli from an urban African setting. Journal of Antimicrobial Chemotherapy, 72 (6). pp. 1602-1609. ISSN 0305-7453

Chewapreecha, Claire, Holden, Matthew T. G., Vehkala, Minna, Välimäki, Niko, Yang, Zhirong, Harris, Simon R., Mather, Alison E., Tuanyok, Apichai, De Smet, Birgit, Le Hello, Simon, Bizet, Chantal, Mayo, Mark, Wuthiekanun, Vanaporn, Limmathurotsakul, Direk, Phetsouvanh, Rattanaphone, Spratt, Brian G., Corander, Jukka, Keim, Paul, Dougan, Gordon, Dance, David A. B., Currie, Bart J., Parkhill, Julian and Peacock, Sharon J. (2017) Global and regional dissemination and evolution of Burkholderia pseudomallei. Nature Microbiology, 2 (4). ISSN 2058-5276

Esson, Diane, Gupta, Srishti, Bailey, David, Wigley, Paul, Wedley, Amy, Mather, Alison E., Méric, Guillaume, Mastroeni, Pietro, Sheppard, Samuel K., Thomson, Nicholas R., Parkhill, Julian, Maskell, Duncan J., Christie, Graham and Grant, Andrew J. (2017) Identification and initial characterisation of a protein involved in Campylobacter jejuni cell shape. Microbial Pathogenesis, 104. pp. 202-211. ISSN 0882-4010

Richard, Mathilde, Knauf, Sascha, Lawrence, Philip, Mather, Alison E, Munster, Vincent J, Müller, Marcel A, Smith, Derek and Kuiken, Thijs (2017) Factors determining human-to-human transmissibility of zoonotic pathogens via contact. Current Opinion in Virology, 22. pp. 7-12. ISSN 1879-6257

Esson, Diane, Mather, Alison E., Scanlan, Eoin, Gupta, Srishti, De Vries, Stefan P. W., Bailey, David, Harris, Simon R., Mckinley, Trevelyan J., Méric, Guillaume, Berry, Sophia K., Mastroeni, Pietro, Sheppard, Samuel K., Christie, Graham, Thomson, Nicholas R., Parkhill, Julian, Maskell, Duncan J. and Grant, Andrew J. (2016) Genomic variations leading to alterations in cell morphology of Campylobacter spp. Scientific Reports, 6. ISSN 2045-2322

Mather, Alison E., Lawson, Becki, de Pinna, Elizabeth, Wigley, Paul, Parkhill, Julian, Thomson, Nicholas R., Page, Andrew J., Holmes, Mark A. and Paterson, Gavin K. (2016) Genomic analysis of Salmonella enterica serovar Typhimurium from wild passerines in England and Wales. Applied and Environmental Microbiology, 82 (22). pp. 6728-6735. ISSN 0099-2240

Feasey, Nicholas A., Hadfield, James, Keddy, Karen H., Dallman, Timothy J., Jacobs, Jan, Deng, Xiangyu, Wigley, Paul, Barquist, Lars, Langridge, Gemma C., Feltwell, Theresa, Harris, Simon R., Mather, Alison E, Fookes, Maria, Aslett, Martin, Msefula, Chisomo, Kariuki, Samuel, MacLennan, Calman A., Onsare, Robert S., Weill, François-Xavier, Le Hello, Simon, Smith, Anthony M., McClelland, Michael, Desai, Prerak, Parry, Christopher M., Cheesbrough, John, French, Neil, Campos, Josefina, Chabalgoity, Jose A., Betancor, Laura, Hopkins, Katie L., Nair, Satheesh, Humphrey, Tom J., Lunguya, Octavie, Cogan, Tristan A., Tapia, Milagritos D., Sow, Samba O., Tennant, Sharon M., Bornstein, Kristin, Levine, Myron M., Lacharme-Lora, Lizeth, Everett, Dean B., Kingsley, Robert A., Parkhill, Julian, Heyderman, Robert S., Dougan, Gordon, Gordon, Melita A. and Thomson, Nicholas R. (2016) Distinct Salmonella Enteritidis lineages associated with enterocolitis in high-income settings and invasive disease in low-income settings. Nature Genetics, 48 (10). pp. 1211-1217. ISSN 1061-4036

Phu Huong Lan, Nguyen, Le Thi Phuong, Tu, Nguyen Huu, Hien, Thuy, Le, Mather, Alison E., Park, Se Eun, Marks, Florian, Thwaites, Guy E., Van Vinh Chau, Nguyen, Thompson, Corinne N. and Baker, Stephen (2016) Invasive non-typhoidal salmonella infections in Asia: Clinical observations, disease outcome and dominant serovars from an infectious disease hospital in Vietnam. PLoS Neglected Tropical Diseases, 10 (8). ISSN 1935-2735

Mather, Alison E., Reeve, Richard, Mellor, Dominic J., Matthews, Louise, Reid-Smith, Richard J., Dutil, Lucie, Haydon, Daniel T. and Reid, Stuart W. J. (2016) Detection of rare antimicrobial resistance profiles by active and passive surveillance approaches. PLoS One, 11 (7). ISSN 1932-6203

Petrovska, Liljana, Mather, Alison E., AbuOun, Manal, Branchu, Priscilla, Harris, Simon R., Connor, Thomas, Hopkins, K. L., Underwood, A., Lettini, Antonia A., Page, Andrew J., Bagnall, Mary, Wain, John, Parkhill, Julian, Dougan, Gordon, Davies, Robert and Kingsley, Robert A. ORCID: https://orcid.org/0000-0002-0194-6485 (2016) Microevolution during the emergence of a monophasic Salmonella Typhimurium epidemic in the United Kingdom. Emerging Infectious Diseases, 22 (4). pp. 617-624. ISSN 1080-6059

Njamkepo, Elisabeth, Fawal, Nizar, Tran-Dien, Alicia, Hawkey, Jane, Strockbine, Nancy, Jenkins, Claire, Talukder, Kaisar A., Bercion, Raymond, Kuleshov, Konstantin, Kolínská, Renáta, Russell, Julie E., Kaftyreva, Lidia, Accou-Demartin, Marie, Karas, Andreas, Vandenberg, Olivier, Mather, Alison E., Mason, Carl J., Page, Andrew J., Ramamurthy, Thandavarayan, Bizet, Chantal, Gamian, Andrzej, Carle, Isabelle, Sow, Amy Gassama, Bouchier, Christiane, Wester, Astrid Louise, Lejay-Collin, Monique, Fonkoua, Marie-Christine, Hello, Simon Le, Blaser, Martin J., Jernberg, Cecilia, Ruckly, Corinne, Mérens, Audrey, Page, Anne-laure, Aslett, Martin, Roggentin, Peter, Fruth, Angelika, Denamur, Erick, Venkatesan, Malabi, Bercovier, Hervé, Bodhidatta, Ladaporn, Chiou, Chien-shun, Clermont, Dominique, Colonna, Bianca, Egorova, Svetlana, Pazhani, Gururaja P., Ezernitchi, Analia V., Guigon, Ghislaine, Harris, Simon R., Izumiya, Hidemasa, Korzeniowska-Kowal, Agnieszka, Lutyńska, Anna, Gouali, Malika, Grimont, Francine, Langendorf, Céline, Marejková, Monika, Peterson, Lorea A. M., Perez-Perez, Guillermo, Ngandjio, Antoinette, Podkolzin, Alexander, Souche, Erika, Makarova, Mariia, Shipulin, German A., Ye, Changyun, Žemličková, Helena, Herpay, Mária, Grimont, Patrick A. D., Parkhill, Julian, Sansonetti, Philippe, Holt, Kathryn E., Brisse, Sylvain, Thomson, Nicholas R. and Weill, François-Xavier (2016) Global phylogeography and evolutionary history of Shigella dysenteriae type 1. Nature Microbiology, 1 (4). ISSN 2058-5276

Murray, Gemma G.R., Wang, Fang, Harrison, Ewan M., Paterson, Gavin K., Mather, Alison E., Harris, Simon R., Holmes, Mark A., Rambaut, Andrew and Welch, John J. (2016) The effect of genetic structure on molecular dating and tests for temporal signal. Methods in Ecology and Evolution, 7 (1). pp. 80-89. ISSN 2041-210X

Chowdhury, Fahima, Mather, Alison E., Begum, Yasmin Ara, Asaduzzaman, Muhammad, Baby, Nabilah, Sharmin, Salma, Biswas, Rajib, Ikhtear Uddin, Muhammad, Larocque, Regina C., Harris, Jason B., Calderwood, Stephen B., Ryan, Edward T., Clemens, John D., Thomson, Nicholas R. and Qadri, Firdausi (2015) Vibrio cholerae Serogroup O139: Isolation from cholera patients and asymptomatic household family members in Bangladesh between 2013 and 2014. PLoS Neglected Tropical Diseases, 9 (11). ISSN 1935-2735

Afema, J. A., Mather, A. E. and Sischo, W. M. (2015) Antimicrobial resistance profiles diversity in Salmonella from humans cattle, 2004-2011. Zoonoses and Public Health, 62 (7). pp. 506-517. ISSN 1863-1959

Mather, Alison E., Vaughan, Timothy G. and French, Nigel P. (2015) Molecular approaches to understanding transmission and source attribution in nontyphoidal Salmonella and their application in Africa. Clinical Infectious Diseases, 61 (suppl 4). S259-S265. ISSN 1058-4838

Cybis, Gabriela B., Sinsheimer, Janet S., Bedford, Trevor, Mather, Alison E., Lemey, Philippe and Suchard, Marc A. (2015) Assessing phenotypic correlation through the multivariate phylogenetic latent liability model. Annals of Applied Statistics, 9 (2). pp. 969-991. ISSN 1932-6157

Wong, Vanessa K., Baker, Stephen, Pickard, Derek J., Parkhill, Julian, Page, Andrew J., Feasey, Nicholas A., Kingsley, Robert A., Thomson, Nicholas R., Keane, Jacqueline A., Weill, François-Xavier, Edwards, David J., Hawkey, Jane, Harris, Simon R., Mather, Alison E., Cain, Amy K., Hadfield, James, Hart, Peter J., Thieu, Nga Tran Vu, Klemm, Elizabeth J., Glinos, Dafni A., Breiman, Robert F., Watson, Conall H., Kariuki, Samuel, Gordon, Melita A., Heyderman, Robert S., Okoro, Chinyere, Jacobs, Jan, Lunguya, Octavie, Edmunds, W. John, Msefula, Chisomo, Chabalgoity, Jose A., Kama, Mike, Jenkins, Kylie, Dutta, Shanta, Marks, Florian, Campos, Josefina, Thompson, Corinne, Obaro, Stephen, MacLennan, Calman A., Dolecek, Christiane, Keddy, Karen H., Smith, Anthony M., Parry, Christopher M., Karkey, Abhilasha, Mulholland, E. Kim, Campbell, James I., Dongol, Sabina, Basnyat, Buddha, Dufour, Muriel, Bandaranayake, Don, Naseri, Take Toleafoa, Singh, Shalini Pravin, Hatta, Mochammad, Newton, Paul, Onsare, Robert S., Isaia, Lupeoletalalei, Dance, David, Davong, Viengmon, Thwaites, Guy, Wijedoru, Lalith, Crump, John A., De Pinna, Elizabeth, Nair, Satheesh, Nilles, Eric J., Thanh, Duy Pham, Turner, Paul, Soeng, Sona, Valcanis, Mary, Powling, Joan, Dimovski, Karolina, Hogg, Geoff, Farrar, Jeremy, Holt, Kathryn E. and Dougan, Gordon (2015) Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter- and intracontinental transmission events. Nature Genetics, 47 (6). pp. 632-639. ISSN 1061-4036

Baker, Kate S., Mather, Alison E., McGregor, Hannah, Coupland, Paul, Langridge, Gemma C., Day, Martin, Deheer-Graham, Ana, Parkhill, Julian, Russell, Julie E. and Thomson, Nicholas R. (2014) The extant World War 1 dysentery bacillus NCTC1: a genomic analysis. The Lancet, 384 (9955). pp. 1691-1697. ISSN 0140-6736

Mather, Alison E., Baker, Kate S., McGregor, Hannah, Coupland, Paul, Mather, Pamela L., Deheer-Graham, Ana, Parkhill, Julian, Bracegirdle, Philippa, Russell, Julie E. and Thomson, Nicholas R. (2014) Bacillary dysentery from World War 1 and NCTC1, the first bacterial isolate in the National Collection. The Lancet, 384 (9955). p. 1720. ISSN 0140-6736

Chewapreecha, Claire, Marttinen, Pekka, Croucher, Nicholas J., Salter, Susannah J., Harris, Simon R., Mather, Alison E., Hanage, William P., Goldblatt, David, Nosten, Francois H., Turner, Claudia, Turner, Paul, Bentley, Stephen D. and Parkhill, Julian (2014) Comprehensive identification of single nucleotide polymorphisms associated with beta-lactam resistance within pneumococcal mosaic genes. PLoS Genetics, 10 (8). ISSN 1553-7404

Chewapreecha, Claire, Harris, Simon R., Croucher, Nicholas J., Turner, Claudia, Marttinen, Pekka, Cheng, Lu, Pessia, Alberto, Aanensen, David M., Mather, Alison E., Page, Andrew J., Salter, Susannah J., Harris, David, Nosten, Francois, Goldblatt, David, Corander, Jukka, Parkhill, Julian, Turner, Paul and Bentley, Stephen D. (2014) Dense genomic sampling identifies highways of pneumococcal recombination. Nature Genetics, 46 (3). pp. 305-309. ISSN 1061-4036

Mather, A. E., Reid, S. W. J., Maskell, D. J., Parkhill, J., Fookes, M. C., Harris, S. R., Brown, D. J., Coia, J. E., Mulvey, M. R., Gilmour, M. W., Petrovska, L., De Pinna, E., Kuroda, M., Akiba, M., Izumiya, H., Connor, T. R., Suchard, M. A., Lemey, P., Mellor, D. J., Haydon, D. T. and Thomson, N. R. (2013) Distinguishable epidemics of multidrug-resistant Salmonella typhimurium DT104 in different hosts. Science, 341 (6153). pp. 1514-1517. ISSN 0036-8075