Spatial and Genomic Data to Characterize Endemic Typhoid Transmission
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| Název: | Spatial and Genomic Data to Characterize Endemic Typhoid Transmission |
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| Autoři: | Eva Heinz, Nicholas R. Thomson, Jonathan M Read, Franziska Olgemoeller, Jane Mallewa, Robert S. Heyderman, Sithembile Bilima, Alexander M. Wailan, Jillian S Gauld, Nicholas A. Feasey, Rose Nkhata, Melita A. Gordon, Neil Kennedy, Peter J. Diggle |
| Zdroj: | Clin Infect Dis Gauld, J S, Olgemoeller, F, Heinz, E, Nkhata, R, Bilima, S, Wailan, A M, Kennedy, N, Mallewa, J, Gordon, M A, Read, J M, Heyderman, R S, Thomson, N R, Diggle, P J & Feasey, N A 2022, 'Spatial and genomic data to characterize endemic typhoid transmission', Clinical Infectious Diseases, vol. 74, no. 11. https://doi.org/10.1093/cid/ciab745 |
| Informace o vydavateli: | Oxford University Press (OUP), 2021. |
| Rok vydání: | 2021 |
| Témata: | 0301 basic medicine, Veterinary medicine, Gene, salmonella typhi, Cohort Studies, Agricultural and Biological Sciences, Endocrinology, Sociology, name=SDG 3 - Good Health and Well-being, spatial patterns, Water Science and Technology, Dynamics and Pathogenesis of Cholera Bacteria, Waterborne Disease Outbreaks and Pathogen Transport, Geography, Nucleotides, Incidence (geometry), Physics, Life Sciences, Genomics, Global Burden of Foodborne Pathogens, FOS: Sociology, 3. Good health, Environmental health, Physical Sciences, Telecommunications, Medicine, qu_450, Typhoid fever, typhoid fever, Population, qu_475, wa_395, Microbiology, 03 medical and health sciences, Biochemistry, Genetics and Molecular Biology, Virology, genomics, Genetics, Escherichia coli, Humans, Typhoid Fever, Biology, Demography, Environmental transmission, wc_270, Optics, Salmonella typhi, Transmission (telecommunications), Computer science, Major Articles and Commentaries, FOS: Biological sciences, Environmental Science, environmental transmission, Microbial Source Tracking, Food Science |
| Popis: | Background Diverse environmental exposures and risk factors have been implicated in the transmission of Salmonella Typhi, but the dominant transmission pathways through the environment to susceptible humans remain unknown. Here, we use spatial, bacterial genomic, and hydrological data to refine our view of typhoid transmission in an endemic setting. Methods A total of 546 patients presenting to Queen Elizabeth Central Hospital in Blantyre, Malawi, with blood culture–confirmed typhoid fever between April 2015 and January 2017 were recruited to a cohort study. The households of a subset of these patients were geolocated, and 256 S. Typhi isolates were whole-genome sequenced. Pairwise single-nucleotide variant distances were incorporated into a geostatistical modeling framework using multidimensional scaling. Results Typhoid fever was not evenly distributed across Blantyre, with estimated minimum incidence ranging across the city from 100 cases per 100 000 population per year. Pairwise single-nucleotide variant distance and physical household distances were significantly correlated (P = .001). We evaluated the ability of river catchment to explain the spatial patterns of genomics observed, finding that it significantly improved the fit of the model (P = .003). We also found spatial correlation at a smaller spatial scale, of households living Conclusions These findings reinforce the emerging view that hydrological systems play a key role in the transmission of typhoid fever. By combining genomic and spatial data, we show how multifaceted data can be used to identify high incidence areas, explain the connections between them, and inform targeted environmental surveillance, all of which will be critical to shape local and regional typhoid control strategies. |
| Druh dokumentu: | Article Other literature type |
| Popis souboru: | application/pdf; text |
| Jazyk: | English |
| ISSN: | 1537-6591 1058-4838 |
| DOI: | 10.1093/cid/ciab745 |
| DOI: | 10.60692/cpnxs-y4m77 |
| DOI: | 10.60692/rsgw1-q4p93 |
| Přístupová URL adresa: | https://academic.oup.com/cid/advance-article-pdf/doi/10.1093/cid/ciab745/41244244/ciab745.pdf https://pubmed.ncbi.nlm.nih.gov/34463736 https://archive.lstmed.ac.uk/18814/1/ciab745.pdf https://pure.qub.ac.uk/en/publications/spatial-and-genomic-data-to-characterize-endemic-typhoid-transmis https://archive.lstmed.ac.uk/18814/ https://pure.qub.ac.uk/en/publications/ac199bd2-7117-49e2-81a3-ccd51fb79c95 https://discovery-pp.ucl.ac.uk/id/eprint/10137096/ |
| Rights: | CC BY URL: http://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
| Přístupové číslo: | edsair.doi.dedup.....868528c1e5165e9a8d8dbbdb5452ee1a |
| Databáze: | OpenAIRE |
Nájsť tento článok vo Web of Science | Abstrakt: | Background Diverse environmental exposures and risk factors have been implicated in the transmission of Salmonella Typhi, but the dominant transmission pathways through the environment to susceptible humans remain unknown. Here, we use spatial, bacterial genomic, and hydrological data to refine our view of typhoid transmission in an endemic setting. Methods A total of 546 patients presenting to Queen Elizabeth Central Hospital in Blantyre, Malawi, with blood culture–confirmed typhoid fever between April 2015 and January 2017 were recruited to a cohort study. The households of a subset of these patients were geolocated, and 256 S. Typhi isolates were whole-genome sequenced. Pairwise single-nucleotide variant distances were incorporated into a geostatistical modeling framework using multidimensional scaling. Results Typhoid fever was not evenly distributed across Blantyre, with estimated minimum incidence ranging across the city from 100 cases per 100 000 population per year. Pairwise single-nucleotide variant distance and physical household distances were significantly correlated (P = .001). We evaluated the ability of river catchment to explain the spatial patterns of genomics observed, finding that it significantly improved the fit of the model (P = .003). We also found spatial correlation at a smaller spatial scale, of households living Conclusions These findings reinforce the emerging view that hydrological systems play a key role in the transmission of typhoid fever. By combining genomic and spatial data, we show how multifaceted data can be used to identify high incidence areas, explain the connections between them, and inform targeted environmental surveillance, all of which will be critical to shape local and regional typhoid control strategies. |
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| ISSN: | 15376591 10584838 |
| DOI: | 10.1093/cid/ciab745 |