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Page 1
Global diversity and antimicrobial resistance of typhoid fever pathogens: Insights from a meta-analysis of 13,000 Salmonella Typhi genomes.
Carey ME, Dyson ZA, Ingle DJ, Amir A, Aworh MK, Chattaway MA, Chew KL, Crump JA, Feasey NA, Howden BP, Keddy KH, Maes M, Parry CM, Van Puyvelde S, Webb HE, Afolayan AO, Alexander AP, Anandan S, Andrews JR, Ashton PM, Basnyat B, Bavdekar A, Bogoch II, Clemens JD, da Silva KE, De A, de Ligt J, Diaz Guevara PL, Dolecek C, Dutta S, Ehlers MM, Francois Watkins L, Garrett DO, Godbole G, Gordon MA, Greenhill AR, Griffin C, Gupta M, Hendriksen RS, Heyderman RS, Hooda Y, Hormazabal JC, Ikhimiukor OO, Iqbal J, Jacob JJ, Jenkins C, Jinka DR, John J, Kang G, Kanteh A, Kapil A, Karkey A, Kariuki S, Kingsley RA, Koshy RM, Lauer AC, Levine MM, Lingegowda RK, Luby SP, Mackenzie GA, Mashe T, Msefula C, Mutreja A, Nagaraj G, Nagaraj S, Nair S, Naseri TK, Nimarota-Brown S, Njamkepo E, Okeke IN, Perumal SPB, Pollard AJ, Pragasam AK, Qadri F, Qamar FN, Rahman SIA, Rambocus SD, Rasko DA, Ray P, Robins-Browne R, Rongsen-Chandola T, Rutanga JP, Saha SK, Saha S, Saigal K, Sajib MSI, Seidman JC, Shakya J, Shamanna V, Shastri J, Shrestha R, Sia S, Sikorski MJ, Singh A, Smith AM, Tagg KA, Tamrakar D, Tanmoy AM, Thomas M, Thomas MS, Thomsen R, Thomson NR, Tupua S, Vaidya K, Valcanis M, Veeraraghavan B, Weill … See abstract for full author list ➔ Carey ME, et al. Among authors: keane ja. Elife. 2023 Sep 12;12:e85867. doi: 10.7554/eLife.85867. Elife. 2023. PMID: 37697804 Free PMC article.
Roary: rapid large-scale prokaryote pan genome analysis.
Page AJ, Cummins CA, Hunt M, Wong VK, Reuter S, Holden MT, Fookes M, Falush D, Keane JA, Parkhill J. Page AJ, et al. Among authors: keane ja. Bioinformatics. 2015 Nov 15;31(22):3691-3. doi: 10.1093/bioinformatics/btv421. Epub 2015 Jul 20. Bioinformatics. 2015. PMID: 26198102 Free PMC article.
Typhi Mykrobe: fast and accurate lineage identification and antimicrobial resistance genotyping directly from sequence reads for the typhoid fever agent Salmonella Typhi.
Ingle DJ, Hawkey J, Hunt M, Iqbal Z, Keane JA, Afolayan AO, Ahmed N, Andleeb S, Ashton PM, Bogoch II, Carey ME, Chattaway MA, Crump JA, Guevara PD, Howden BP, Izumiya H, Jacob JJ, Judd LM, Kapil A, Keddy KH, Kim JY, Levine MM, Morita M, Nair S, Octavia S, Okeke IN, Osadebamwen PE, Rahman SIA, Rokney A, Rasko DA, Shamanna V, Sikorski MJ, Smith AM, Sunmonu GT, Tagg KA, Wick RR, Dyson ZA, Holt KE; Global Typhoid Genomics Consortium. Ingle DJ, et al. Among authors: keane ja. bioRxiv [Preprint]. 2025 Jul 31:2024.09.30.613582. doi: 10.1101/2024.09.30.613582. bioRxiv. 2025. PMID: 40766357 Free PMC article. Preprint.
The origins of haplotype 58 (H58) Salmonella enterica serovar Typhi.
Carey ME, Thi Nguyen TN, Tran DHN, Dyson ZA, Keane JA, Pham Thanh D, Mylona E, Nair S, Chattaway M, Baker S. Carey ME, et al. Among authors: keane ja. Commun Biol. 2024 Jun 28;7(1):775. doi: 10.1038/s42003-024-06451-8. Commun Biol. 2024. PMID: 38942806 Free PMC article.
53 results