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2021 5
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Linear plasmids in Klebsiella and other Enterobacteriaceae.
Hawkey J, Cottingham H, Tokolyi A, Wick RR, Judd LM, Cerdeira L, de Oliveira Garcia D, Wyres KL, Holt KE. Hawkey J, et al. Among authors: holt ke. Microb Genom. 2022 Apr;8(4). doi: 10.1099/mgen.0.000807. Microb Genom. 2022. PMID: 35416146 Free article.
To date, the only linear plasmids described in the family Enterobacteriaceae belong to Salmonella, first found in Salmonella enterica Typhi. Here, we describe a collection of 12 isolates of the Klebsiella pneumoniae species complex in which we identified linear plasmids. . …
To date, the only linear plasmids described in the family Enterobacteriaceae belong to Salmonella, first found in Salmonella enterica Typ …
Whole genome sequence analysis of Salmonella Typhi in Papua New Guinea reveals an established population of genotype 2.1.7 sensitive to antimicrobials.
Dyson ZA, Malau E, Horwood PF, Ford R, Siba V, Yoannes M, Pomat W, Passey M, Judd LM, Ingle DJ, Williamson DA, Dougan G, Greenhill AR, Holt KE. Dyson ZA, et al. Among authors: holt ke. PLoS Negl Trop Dis. 2022 Mar 28;16(3):e0010306. doi: 10.1371/journal.pntd.0010306. eCollection 2022 Mar. PLoS Negl Trop Dis. 2022. PMID: 35344544 Free PMC article. Review.
BACKGROUND: Typhoid fever, a systemic infection caused by Salmonella enterica serovar Typhi, remains a considerable public health threat in impoverished regions within many low- and middle-income settings. ...Genotypic and phenotypic data demonstrated that the PNG S …
BACKGROUND: Typhoid fever, a systemic infection caused by Salmonella enterica serovar Typhi, remains a considerable public hea …
Burden of enteric fever at three urban sites in Africa and Asia: a multicentre population-based study.
Meiring JE, Shakya M, Khanam F, Voysey M, Phillips MT, Tonks S, Thindwa D, Darton TC, Dongol S, Karkey A, Zaman K, Baker S, Dolecek C, Dunstan SJ, Dougan G, Holt KE, Heyderman RS, Qadri F, Pitzer VE, Basnyat B, Gordon MA, Clemens J, Pollard AJ; STRATAA Study Group. Meiring JE, et al. Among authors: holt ke. Lancet Glob Health. 2021 Dec;9(12):e1688-e1696. doi: 10.1016/S2214-109X(21)00370-3. Lancet Glob Health. 2021. PMID: 34798028 Free PMC article.
Numerous data gaps exist concerning the epidemiology of Salmonella enterica serotype Typhi (S Typhi) and Salmonella enterica serotype Paratyphi (S Paratyphi), which are the causative agents of enteric fever. ...Multidrug resistance was observed in 44% S Typhi …
Numerous data gaps exist concerning the epidemiology of Salmonella enterica serotype Typhi (S Typhi) and Salmonella enterica s …
Multiple introductions of multidrug-resistant typhoid associated with acute infection and asymptomatic carriage, Kenya.
Kariuki S, Dyson ZA, Mbae C, Ngetich R, Kavai SM, Wairimu C, Anyona S, Gitau N, Onsare RS, Ongandi B, Duchene S, Ali M, Clemens JD, Holt KE, Dougan G. Kariuki S, et al. Among authors: holt ke. Elife. 2021 Sep 13;10:e67852. doi: 10.7554/eLife.67852. Elife. 2021. PMID: 34515028 Free PMC article.
BACKGROUND: Understanding the dynamics of infection and carriage of typhoid in endemic settings is critical to finding solutions to prevention and control. ...RESULTS: 148 S. Typhi isolates from cases and 95 from controls (stool culture) were identified; a carriage …
BACKGROUND: Understanding the dynamics of infection and carriage of typhoid in endemic settings is critical to finding solutions to p …
Five Years of GenoTyphi: Updates to the Global Salmonella Typhi Genotyping Framework.
Dyson ZA, Holt KE. Dyson ZA, et al. Among authors: holt ke. J Infect Dis. 2021 Dec 20;224(12 Suppl 2):S775-S780. doi: 10.1093/infdis/jiab414. J Infect Dis. 2021. PMID: 34453548 Free PMC article. Review.
In 2016, a whole-genome sequence (WGS)-based genotyping framework (GenoTyphi) was developed and provided a phylogenetically informative nomenclature for lineages of Salmonella Typhi, the etiological agent of typhoid fever. Subsequent surveillance studies have reveal …
In 2016, a whole-genome sequence (WGS)-based genotyping framework (GenoTyphi) was developed and provided a phylogenetically informative nome …
A Bayesian approach for estimating typhoid fever incidence from large-scale facility-based passive surveillance data.
Phillips MT, Meiring JE, Voysey M, Warren JL, Baker S, Basnyat B, Clemens JD, Dolecek C, Dunstan SJ, Dougan G, Gordon MA, Thindwa D, Heyderman RS, Holt KE, Qadri F, Pollard AJ, Pitzer VE; STRATAA Study Group. Phillips MT, et al. Among authors: holt ke. Stat Med. 2021 Nov 20;40(26):5853-5870. doi: 10.1002/sim.9159. Epub 2021 Aug 24. Stat Med. 2021. PMID: 34428309
Decisions about typhoid fever prevention and control are based on estimates of typhoid incidence and their uncertainty. ...Adjusted incidence rates were within or below the seroincidence rate limits of typhoid infection. Estimates of blood-culture-confirmed …
Decisions about typhoid fever prevention and control are based on estimates of typhoid incidence and their uncertainty. ...Adj …
A global resource for genomic predictions of antimicrobial resistance and surveillance of Salmonella Typhi at pathogenwatch.
Argimón S, Yeats CA, Goater RJ, Abudahab K, Taylor B, Underwood A, Sánchez-Busó L, Wong VK, Dyson ZA, Nair S, Park SE, Marks F, Page AJ, Keane JA, Baker S, Holt KE, Dougan G, Aanensen DM. Argimón S, et al. Among authors: holt ke. Nat Commun. 2021 May 17;12(1):2879. doi: 10.1038/s41467-021-23091-2. Nat Commun. 2021. PMID: 34001879 Free PMC article.
Here we present the Pathogenwatch scheme for Salmonella enterica serovar Typhi (S. Typhi), a web application enabling the rapid identification of genomic markers of antimicrobial resistance (AMR) and contextualization with public genomic data. ...Pathogenwatch provi …
Here we present the Pathogenwatch scheme for Salmonella enterica serovar Typhi (S. Typhi), a web application enabling the rapi …
GeneMates: an R package for detecting horizontal gene co-transfer between bacteria using gene-gene associations controlled for population structure.
Wan Y, Wick RR, Zobel J, Ingle DJ, Inouye M, Holt KE. Wan Y, et al. Among authors: holt ke. BMC Genomics. 2020 Sep 24;21(1):658. doi: 10.1186/s12864-020-07019-6. BMC Genomics. 2020. PMID: 32972363 Free PMC article.
Validation studies of GeneMates on known acquired antimicrobial resistance genes in Escherichia coli and Salmonella Typhimurium show advantages of our network approach over simple association analysis: (1) distinguishing between allelic co-occurrence driven by HGcoT and th …
Validation studies of GeneMates on known acquired antimicrobial resistance genes in Escherichia coli and Salmonella Typhimurium show …
Protection conferred by typhoid fever against recurrent typhoid fever in urban Kolkata.
Im J, Islam MT, Kim DR, Ahmmed F, Chon Y, Zaman K, Khan AI, Ali M, Sur D, Kanungo S, Dutta S, Bhattacharya SK, Dougan G, Holt KE, Marks F, Kim JH, Qadri F, Clemens JD. Im J, et al. Among authors: holt ke. PLoS Negl Trop Dis. 2020 Aug 17;14(8):e0008530. doi: 10.1371/journal.pntd.0008530. eCollection 2020 Aug. PLoS Negl Trop Dis. 2020. PMID: 32804950 Free PMC article. Clinical Trial.
We evaluated the protection conferred by a first documented visit for clinical care of typhoid fever against recurrent typhoid fever prompting a visit. This study takes advantage of multi-year follow-up of a population with endemic typhoid participating in a …
We evaluated the protection conferred by a first documented visit for clinical care of typhoid fever against recurrent typhoid …
Pathogen genomic surveillance of typhoidal Salmonella infection in adults and children reveals no association between clinical outcomes and infecting genotypes.
Britto CD, Mathias S, Bosco A, Dyson ZA, Dougan G, Raveendran S, Abin VL, Jose S, Nagaraj S, Holt KE, Pollard AJ. Britto CD, et al. Among authors: holt ke. Trop Med Health. 2020 Jul 13;48:58. doi: 10.1186/s41182-020-00247-2. eCollection 2020. Trop Med Health. 2020. PMID: 32684794 Free PMC article.
There were atypical presentations including arthritis, acute haemolysis and a case of repeated typhoid infection with two separate S. Typhi genotypes. There was no association between infecting genotype/serovar and treatment status (outpatient vs inpatient), month o …
There were atypical presentations including arthritis, acute haemolysis and a case of repeated typhoid infection with two separate S. …
46 results