دورية أكاديمية
Whole genome sequencing analysis of Mycobacterium tuberculosis reveals circulating strain types and drug-resistance mutations in the Philippines.
| العنوان: | Whole genome sequencing analysis of Mycobacterium tuberculosis reveals circulating strain types and drug-resistance mutations in the Philippines. |
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| المؤلفون: | Wang L; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, WC1E 7HT, UK., Lim DR; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Phelan JE; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, WC1E 7HT, UK., Reyes LT; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Palparan AG; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Sanchez MGC; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Asuncion LAA; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Tujan MAA; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Medado IAP; Molecular Biology Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Daga CMA; Department of Epidemiology and Biostatistics, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Llames JS; Philippine Genome Center, University of Philippines Diliman, Quezon City, Philippines., Mitarai S; Department of Mycobacterium Reference and Research, Research Institute of Tuberculosis, Japan Anti-Tuberculosis Association, Tokyo, Japan., Murase Y; Department of Mycobacterium Reference and Research, Research Institute of Tuberculosis, Japan Anti-Tuberculosis Association, Tokyo, Japan., Morishige Y; Department of Mycobacterium Reference and Research, Research Institute of Tuberculosis, Japan Anti-Tuberculosis Association, Tokyo, Japan., Ang CF; College of Medicine, University of the Philippines, Manila, Philippines., Malabad JCM; Department of Science and Technology, DOST Compound, Bicutan, Taguig City, Philippine, Philippines., Montoya JC; College of Medicine, University of the Philippines, Manila, Philippines., Hafalla JC; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, WC1E 7HT, UK., Campino S; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, WC1E 7HT, UK., Hibberd ML; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, WC1E 7HT, UK., Ama CG; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., Basilio RP; National Tuberculosis Reference Laboratory, Research Institute for Tropical Medicine, Department of Health, Filinvest, Alabang, Muntinlupa City, Philippines., La Paz EMC; Philippine Genome Center, University of Philippines Diliman, Quezon City, Philippines.; College of Medicine, University of the Philippines, Manila, Philippines., Clark TG; Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, WC1E 7HT, UK. Taane.clark@lshtm.ac.uk.; Department of Infectious Disease Epidemiology, Faculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK. Taane.clark@lshtm.ac.uk. |
| المصدر: | Scientific reports [Sci Rep] 2024 Aug 23; Vol. 14 (1), pp. 19602. Date of Electronic Publication: 2024 Aug 23. |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Nature Publishing Group Country of Publication: England NLM ID: 101563288 Publication Model: Electronic Cited Medium: Internet ISSN: 2045-2322 (Electronic) Linking ISSN: 20452322 NLM ISO Abbreviation: Sci Rep Subsets: MEDLINE |
| أسماء مطبوعة: | Original Publication: London : Nature Publishing Group, copyright 2011- |
| مواضيع طبية MeSH: | Mycobacterium tuberculosis*/genetics , Mycobacterium tuberculosis*/drug effects , Mycobacterium tuberculosis*/isolation & purification , Whole Genome Sequencing*/methods , Mutation* , Tuberculosis, Multidrug-Resistant*/microbiology , Tuberculosis, Multidrug-Resistant*/epidemiology , Tuberculosis, Multidrug-Resistant*/transmission , Antitubercular Agents*/pharmacology, Philippines/epidemiology ; Humans ; Extensively Drug-Resistant Tuberculosis/microbiology ; Extensively Drug-Resistant Tuberculosis/epidemiology ; Genome, Bacterial ; Drug Resistance, Multiple, Bacterial/genetics ; Genotype ; Phylogeny ; Microbial Sensitivity Tests |
| مستخلص: | The Philippines is a high-incidence country for tuberculosis, with the increasing prevalence of multi- (MDR-TB) and extensively-drug (XDR-TB) resistant Mycobacterium tuberculosis strains posing difficulties to disease control. Understanding the genetic diversity of circulating strains can provide insights into underlying drug resistance mutations and transmission dynamics, thereby assisting the design of diagnostic tools, including those using next generation sequencing (NGS) platforms. By analysing genome sequencing data of 732 isolates from Philippines drug-resistance survey collections spanning from 2011 to 2019, we found that the majority belonged to lineages L1 (531/732; 72.5%) and L4 (European-American; n = 174; 23.8%), with the Manila strain (L1.2.1.2.1) being the most prominent (475/531). Approximately two-thirds of isolates were found to be at least MDR-TB (483/732; 66.0%), and potential XDR-TB genotypic resistance was observed (3/732; 0.4%), highlighting an emerging problem in the country. Genotypic resistance was highly concordant with laboratory drug susceptibility testing. By finding isolates with (near-)identical genomic variation, five major clusters containing a total of 114 isolates were identified: all containing either L1 or L4 isolates with at least MDR-TB resistance and spanning multiple years of collection. Closer inspection of clusters revealed transmission in prisons, some involving isolates with XDR-TB, and mutations linked to third-line drug bedaquiline. We have also identified previously unreported mutations linked to resistance for isoniazid, rifampicin, ethambutol, and fluoroquinolones. Overall, this study provides important insights into the genetic diversity, transmission and circulating drug resistance mutations of M. tuberculosis in the Philippines, thereby informing clinical and surveillance decision-making, which is increasingly using NGS platforms. (© 2024. The Author(s).) |
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| معلومات مُعتمدة: | BB/T008709/1 United Kingdom BB_ Biotechnology and Biological Sciences Research Council; MR/N010469/1 Medical Research Council,United Kingdom; MR/N010469/1 Medical Research Council,United Kingdom; EP/Y018842/1 Engineering and Physical Sciences Research Council; EP/Y018842/1 Engineering and Physical Sciences Research Council; 261868591 British Council |
| المشرفين على المادة: | 0 (Antitubercular Agents) |
| تواريخ الأحداث: | Date Created: 20240823 Date Completed: 20240823 Latest Revision: 20240826 |
| رمز التحديث: | 20240826 |
| مُعرف محوري في PubMed: | PMC11344074 |
| DOI: | 10.1038/s41598-024-70471-x |
| PMID: | 39179783 |
| قاعدة البيانات: | MEDLINE |
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Full Text Finder | تدمد: | 2045-2322 |
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| DOI: | 10.1038/s41598-024-70471-x |