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Global diversity and antimicrobial resistance of typhoid fever pathogens: Insights from a meta-analysis of 13,000 Salmonella Typhi genomes.

Autor: Carey ME; Cambridge Institute of Therapeutic Immunology and Infectious Disease (CITIID), University of Cambridge School of Clinical Medicine, Cambridge Biomedical Campus, Cambridge, United Kingdom.; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, United Kingdom.; IAVI, Chelsea & Westminster Hospital, London, United Kingdom., Dyson ZA; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, United Kingdom.; Department of Infectious Diseases, Central Clinical School, Monash University, Melbourne, Australia.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom., Ingle DJ; Department of Microbiology and Immunology at the Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Australia., Amir A; National Institute of Health, Islamabad, Pakistan., Aworh MK; Nigeria Field Epidemiology and Laboratory Training Programme, Abuja, Nigeria.; College of Veterinary Medicine, North Carolina State University, Raleigh, United States., Chattaway MA; United Kingdom Health Security Agency, London, United Kingdom., Chew KL; National University Hospital, Singapore, Singapore., Crump JA; Centre for International Health, University of Otago, Dunedin, New Zealand., Feasey NA; Department of Clinical Sciences, Liverpool School of Tropical Medicine, Liverpool, United Kingdom.; Malawi-Liverpool Wellcome Programme, Kamuzu University of Health Sciences, Blantyre, Malawi., Howden BP; Centre for Pathogen Genomics, Department of Microbiology and Immunology, University of Melbourne at Doherty Institute for Infection and Immunity, Melbourne, Australia.; Microbiological Diagnostic Unit Public Health Laboratory, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, Australia., Keddy KH; Independent consultant, Johannesburg, South Africa., Maes M; Cambridge Institute of Therapeutic Immunology and Infectious Disease (CITIID), University of Cambridge School of Clinical Medicine, Cambridge Biomedical Campus, Cambridge, United Kingdom., Parry CM; Department of Clinical Sciences, Liverpool School of Tropical Medicine, Liverpool, United Kingdom., Van Puyvelde S; Cambridge Institute of Therapeutic Immunology and Infectious Disease (CITIID), University of Cambridge School of Clinical Medicine, Cambridge Biomedical Campus, Cambridge, United Kingdom.; University of Antwerp, Antwerp, Belgium., Webb HE; Centers for Disease Control and Prevention, Atlanta, United States., Afolayan AO; Global Health Research Unit (GHRU) for the Genomic Surveillance of Antimicrobial Resistance, Faculty of Pharmacy, University of Ibadan, Ibadan, Nigeria., Alexander AP; Lady Willingdon Hospital, Manali, India., Anandan S; Department of Clinical Microbiology, Christian Medical College, Vellore, India., Andrews JR; Division of Infectious Diseases and Geographic Medicine, Stanford University, Stanford, United States., Ashton PM; Malawi-Liverpool Wellcome Programme, Blantyre, Malawi.; Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool, United Kingdom., Basnyat B; Oxford University Clinical Research Unit Nepal, Kathmandu, Nepal., Bavdekar A; KEM Hospital Research Centre, Pune, India., Bogoch II; Department of Medicine, Division of Infectious Diseases, University of Toronto, Toronto, Canada., Clemens JD; International Vaccine Institute, Seoul, Republic of Korea.; International Centre for Diarrhoeal Disease Research, Dhaka, Bangladesh.; UCLA Fielding School of Public Health, Los Angeles, United States.; Korea University, Seoul, Republic of Korea., da Silva KE; Division of Infectious Diseases and Geographic Medicine, Stanford University, Stanford, United States., De A; Topiwala National Medical College, Mumbai, India., de Ligt J; ESR, Institute of Environmental Science and Research Ltd., Porirua, Wellington, New Zealand., Diaz Guevara PL; Grupo de Microbiologia, Instituto Nacional de Salud, Bogota, Colombia., Dolecek C; Centre for Tropical Medicine and Global Health, Nuffield Department of Medicine, University of Oxford, Oxford, United Kingdom.; Mahidol Oxford Tropical Medicine Research Unit, Mahidol University, Bangkok, Thailand., Dutta S; ICMR - National Institute of Cholera & Enteric Diseases, Kolkata, India., Ehlers MM; Department of Medical Microbiology, Faculty of Health Sciences, University of Pretoria, Pretoria, South Africa.; Department of Medical Microbiology, Tshwane Academic Division, National Health Laboratory Service, Pretoria, South Africa., Francois Watkins L; Centers for Disease Control and Prevention, Atlanta, United States., Garrett DO; Sabin Vaccine Institute, Washington DC, United States., Godbole G; United Kingdom Health Security Agency, London, United Kingdom., Gordon MA; Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool, United Kingdom., Greenhill AR; Federation University Australia, Churchill, Australia.; Papua New Guinea Institute of Medical Research, Goroka, Papua New Guinea., Griffin C; Centers for Disease Control and Prevention, Atlanta, United States., Gupta M; Post Graduate Institute of Medical Education and Research, Chandigarh, India., Hendriksen RS; Technical University of Denmark, Copenhagen, Denmark., Heyderman RS; Research Department of Infection, Division of Infection and Immunity, University College London, London, United Kingdom., Hooda Y; Child Health Research Foundation, Dhaka, Bangladesh., Hormazabal JC; Bacteriologia, Subdepartamento de Enfermedades Infecciosas, Departamento de Laboratorio Biomedico, Instituto de Salud Publica de Chile (ISP), Santiago, Chile., Ikhimiukor OO; Global Health Research Unit (GHRU) for the Genomic Surveillance of Antimicrobial Resistance, Faculty of Pharmacy, University of Ibadan, Ibadan, Nigeria., Iqbal J; Department of Pediatrics and Child Health, Aga Khan University, Karachi, Pakistan., Jacob JJ; Department of Clinical Microbiology, Christian Medical College, Vellore, India., Jenkins C; United Kingdom Health Security Agency, London, United Kingdom., Jinka DR; Rural Development Trust Hospital, Anantapur, India., John J; Department of Community Health, Christian Medical College, Vellore, India., Kang G; Department of Community Health, Christian Medical College, Vellore, India., Kanteh A; Medical Research Council Unit The Gambia at London School Hygiene & Tropical Medicine, Fajara, Gambia., Kapil A; All India Institute of Medical Sciences, Delhi, India., Karkey A; Oxford University Clinical Research Unit Nepal, Kathmandu, Nepal., Kariuki S; Centre for Microbiology Research, Kenya Medical Research Institute, Nairobi, Kenya., Kingsley RA; Quadram Institute Bioscience, Norwich, United Kingdom., Koshy RM; Makunda Christian Hospital, Assam, India., Lauer AC; Centers for Disease Control and Prevention, Atlanta, United States., Levine MM; Center for Vaccine Development and Global Health (CVD), University of Maryland School of Medicine, Baltimore, Maryland, USA, Baltimore, United States., Lingegowda RK; Central Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India., Luby SP; Division of Infectious Diseases and Geographic Medicine, Stanford University, Stanford, United States., Mackenzie GA; Medical Research Council Unit The Gambia at London School Hygiene & Tropical Medicine, Fajara, Gambia., Mashe T; National Microbiology Reference Laboratory, Harare, Zimbabwe.; World Health Organization, Harare, Zimbabwe., Msefula C; Kamuzu University of Health Sciences, Blantyre, Malawi., Mutreja A; Cambridge Institute of Therapeutic Immunology and Infectious Disease (CITIID), University of Cambridge School of Clinical Medicine, Cambridge Biomedical Campus, Cambridge, United Kingdom., Nagaraj G; Central Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India., Nagaraj S; Saint Johns Medical College and Hospital, Bengaluru, India., Nair S; United Kingdom Health Security Agency, London, United Kingdom., Naseri TK; Ministry of Health, Government of Samoa, Apia, Samoa., Nimarota-Brown S; Ministry of Health, Government of Samoa, Apia, Samoa., Njamkepo E; Institut Pasteur, Université Paris Cité, Paris, France., Okeke IN; Global Health Research Unit (GHRU) for the Genomic Surveillance of Antimicrobial Resistance, Faculty of Pharmacy, University of Ibadan, Ibadan, Nigeria., Perumal SPB; Kanchi Kamakoti CHILDS Trust Hospital, Chennai, India., Pollard AJ; Oxford Vaccine Group, Department of Paediatrics, University of Oxford, Oxford, United Kingdom.; The NIHR Oxford Biomedical Research Centre, Oxford, United Kingdom., Pragasam AK; Department of Clinical Microbiology, Christian Medical College, Vellore, India., Qadri F; International Centre for Diarrhoeal Disease Research, Dhaka, Bangladesh., Qamar FN; Department of Pediatrics and Child Health, Aga Khan University, Karachi, Pakistan., Rahman SIA; International Centre for Diarrhoeal Disease Research, Dhaka, Bangladesh., Rambocus SD; Microbiological Diagnostic Unit Public Health Laboratory, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, Australia., Rasko DA; Department of Microbiology and Immunology, University of Maryland School of Medicine, Baltimore, United States.; Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, United States., Ray P; Post Graduate Institute of Medical Education and Research, Chandigarh, India., Robins-Browne R; Department of Microbiology and Immunology at the Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Australia.; Murdoch Children's Research Institute, Royal Children's Hospital, Parkville, Australia., Rongsen-Chandola T; Centre for Health Research and Development, Society for Applied Studies, Delhi, India., Rutanga JP; University of Rwanda, College of Science and Technology, Kigali, Rwanda., Saha SK; Child Health Research Foundation, Dhaka, Bangladesh., Saha S; Child Health Research Foundation, Dhaka, Bangladesh., Saigal K; Chacha Nehru Bal Chikitsalaya, Delhi, India., Sajib MSI; Child Health Research Foundation, Dhaka, Bangladesh.; Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Glasgow, United Kingdom., Seidman JC; Sabin Vaccine Institute, Washington DC, United States., Shakya J; Dhulikhel Hospital, Dhulikhel, Nepal.; Institute for Research in Science and Technology, Kathmandu, Nepal., Shamanna V; Central Research Laboratory, Kempegowda Institute of Medical Sciences, Bengaluru, India., Shastri J; Topiwala National Medical College, Mumbai, India.; Kasturba Hospital for Infectious Diseases, Mumbai, India., Shrestha R; Center for Infectious Disease Research & Surveillance, Dhulikhel Hospital, Kathmandu University Hospital, Dhulikhel, Nepal., Sia S; Research Institute for Tropical Medicine, Department of Health, Muntinlupa City, Philippines., Sikorski MJ; Center for Vaccine Development and Global Health (CVD), University of Maryland School of Medicine, Baltimore, Maryland, USA, Baltimore, United States.; Department of Microbiology and Immunology, University of Maryland School of Medicine, Baltimore, United States.; Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, United States., Singh A; Chinchpada Christian Hospital, Navapur, India., Smith AM; Centre for Enteric Diseases, National Institute for Communicable Diseases, Johannesburg, South Africa., Tagg KA; Centers for Disease Control and Prevention, Atlanta, United States., Tamrakar D; Center for Infectious Disease Research & Surveillance, Dhulikhel Hospital, Kathmandu University Hospital, Dhulikhel, Nepal., Tanmoy AM; Child Health Research Foundation, Dhaka, Bangladesh., Thomas M; Christian Medical College, Ludhiana, Ludhiana, India., Thomas MS; Duncan Hospital, Raxaul, India., Thomsen R; Ministry of Health, Government of Samoa, Apia, Samoa., Thomson NR; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom., Tupua S; Ministry of Health, Government of Samoa, Apia, Samoa., Vaidya K; University of California Davis, Davis, United States., Valcanis M; Microbiological Diagnostic Unit Public Health Laboratory, The University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne, Australia., Veeraraghavan B; Department of Clinical Microbiology, Christian Medical College, Vellore, India., Weill FX; Institut Pasteur, Université Paris Cité, Paris, France., Wright J; ESR, Institute of Environmental Science and Research Ltd., Porirua, Wellington, New Zealand., Dougan G; Cambridge Institute of Therapeutic Immunology and Infectious Disease (CITIID), University of Cambridge School of Clinical Medicine, Cambridge Biomedical Campus, Cambridge, United Kingdom., Argimón S; Centre for Genomic Pathogen Surveillance, Big Data Institute, University of Oxford, Oxford, United Kingdom., Keane JA; Cambridge Institute of Therapeutic Immunology and Infectious Disease (CITIID), University of Cambridge School of Clinical Medicine, Cambridge Biomedical Campus, Cambridge, United Kingdom., Aanensen DM; Centre for Genomic Pathogen Surveillance, Big Data Institute, University of Oxford, Oxford, United Kingdom., Baker S; Cambridge Institute of Therapeutic Immunology and Infectious Disease (CITIID), University of Cambridge School of Clinical Medicine, Cambridge Biomedical Campus, Cambridge, United Kingdom.; IAVI, Chelsea & Westminster Hospital, London, United Kingdom., Holt KE; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, United Kingdom.; Department of Infectious Diseases, Central Clinical School, Monash University, Melbourne, Australia.

Publikováno v: ELife [Elife] 2023 Sep 12; Vol. 12. Date of Electronic Publication: 2023 Sep 12.