دورية أكاديمية
Genome analysis of multidrug resistant Enterococcus faecium and Enterococcus faecalis circulating among hospitalized patients in uMgungundlovu District, KwaZulu-Natal, South Africa.
| العنوان: | Genome analysis of multidrug resistant Enterococcus faecium and Enterococcus faecalis circulating among hospitalized patients in uMgungundlovu District, KwaZulu-Natal, South Africa. |
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| المؤلفون: | Founou RC; Antimicrobial Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4000, South Africa. czangue@gmail.com.; Department of Microbiology-Haematology and Immunology, Faculty of Medicine and Pharmaceutical Sciences, University of Dschang, Dschang, Cameroon. czangue@gmail.com.; Antimicrobial Resistance and Infectious Disease Research Unit, Research Institute of Centre of Expertise and Biological Diagnostic of Cameroon (CEDBCAM-RI), Yaoundé, Cameroon. czangue@gmail.com., Founou LL; Antimicrobial Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4000, South Africa.; Reproductive, Maternal, Newborn and Child Health (ReMARCH) Research Unit, Research Institute of the Centre of Expertise and Biological Diagnostic of Cameroon (CEDBCAM-RI), Yaoundé, Cameroon.; Bioinformatics & Applied Machine Learning Research Unit, EDEN Biosciences Research Institute (EBRI), EDEN Foundation, Yaoundé, Cameroon., Allam M; Sequencing Core Facility, National Institute for Communicable Diseases a Division of the National Health Laboratory Service, Johannesburg, 2131, South Africa., Ismail A; Sequencing Core Facility, National Institute for Communicable Diseases a Division of the National Health Laboratory Service, Johannesburg, 2131, South Africa.; Department of Biochemistry and Microbiology, Faculty of Science, Engineering and Agriculture, University of Venda, Thohoyandou, 0950, South Africa.; Institute for Water and Wastewater Technology, Durban University of Technology, Durban, 4000, South Africa., Essack SY; Antimicrobial Research Unit, School of Health Sciences, University of KwaZulu-Natal, Durban, 4000, South Africa. |
| المصدر: | BMC infectious diseases [BMC Infect Dis] 2024 Jul 04; Vol. 24 (1), pp. 671. Date of Electronic Publication: 2024 Jul 04. |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: BioMed Central Country of Publication: England NLM ID: 100968551 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2334 (Electronic) Linking ISSN: 14712334 NLM ISO Abbreviation: BMC Infect Dis Subsets: MEDLINE |
| أسماء مطبوعة: | Original Publication: London : BioMed Central, [2001- |
| مواضيع طبية MeSH: | Enterococcus faecium*/genetics , Enterococcus faecium*/drug effects , Enterococcus faecium*/isolation & purification , Enterococcus faecalis*/genetics , Enterococcus faecalis*/drug effects , Enterococcus faecalis*/isolation & purification , Gram-Positive Bacterial Infections*/microbiology , Gram-Positive Bacterial Infections*/epidemiology , Drug Resistance, Multiple, Bacterial*/genetics , Whole Genome Sequencing*, Humans ; South Africa/epidemiology ; Cross-Sectional Studies ; Male ; Female ; Adult ; Middle Aged ; Anti-Bacterial Agents/pharmacology ; Young Adult ; Vancomycin-Resistant Enterococci/genetics ; Vancomycin-Resistant Enterococci/isolation & purification ; Vancomycin-Resistant Enterococci/drug effects ; Aged ; Microbial Sensitivity Tests ; Adolescent ; Genome, Bacterial ; Virulence Factors/genetics ; Hospitalization ; Virulence/genetics |
| مستخلص: | Background: Vancomycin-resistant enterococci (VRE) are important pathogens categorized as high-priority bacteria in the Global Priority List of Antibiotic-Resistant Bacteria to Guide Research, Discovery, and Development of New Antibiotics published by the World Health Organization. The aim of this study was to determine the risk factors, resistance, virulence, mobilomes associated with multidrug-resistant and clonal lineages of Enterococcus faecium and faecalis circulating among hospitalized patients following the health system in South Africa, using whole genome sequencing (WGS). Methods: A cross-sectional study was conducted during a two-month periods among hospitalized patients in 2017. Rectal swabs were collected from patients admitted to medical and surgical wards in an urban tertiary hospital, and a rural district hospital in uMgungundlovu district, South Africa. Enterococci were screened for vancomycin resistance on bile esculin azide agar supplemented with 6 mg/L of vancomycin and confirmation of VRE was done using ROSCO kits. Conventional and real-time PCR methods were used to ascertain the presence of VanA, VanB, VanC-2/3 and VanC-1 genes. All six multidrug-resistant Enterococcus faecalis and faecium selected were identified using multiplexed paired-end libraries (2 × 300 bp) with the Nextera XT DNA sample preparation kit (Illumina, San Diego, CA, USA) and genome sequencing was done using Illumina MiSeq instrument with 100× coverage at the National Institute of Communicable Diseases Sequencing Core Facility, South Africa. Antibiotic resistance genes, virulence factors, plasmids, integrons and CRISPR were characterized using RAST, ResFinder, VirulenceFinder, PlasmidFinder, PHAST and ISFinder respectively. Results: Sequencing analysis revealed that these strains harbouring numerous resistance genes to glycopeptides (vanC[100%], vex3[100%], vex2[83,33%] and vanG[16,66%]), macrolides, lincosamides, sterptogramine B (ermB[33,32%], Isa[16,66%], emeA[16,66%]) and tetracyclines (tetM[33,32%]) in both district and tertiary hospitals. Multidrug efflux pumps including MATE, MFS and pmrA conferring resistance to several classes of antibiotics were also identified. The main transposable elements observed were in the Tn3 family, specifically Tn1546. Four single sequence types (STs) were identified among E. faecium in the district hospital, namely ST822, ST636, ST97 along with a novel ST assigned ST1386, while one lineage, ST29 was detected in the tertiary hospital. Conclusion: The study reveals the genetic diversity and high pathogenicity of multidrug-resistant Enterococcus faecalis and faecium circulating among hospitalized patients. It underlines the necessity to implement routine screening of admitted patients coupled with infection control procedures, antimicrobial stewardship and awareness should be strengthened to prevent and/or contain the carriage and spread of multidrug resistant E. faecium and E. faecalis in hospitals and communities in South Africa. (© 2024. The Author(s).) |
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| معلومات مُعتمدة: | 85595 NRF Incentive Funding; 106063 United Kingdom WT_ Wellcome Trust; 98342 DST/NRF South African Research Chair in Antibiotic Resistance and One Health |
| فهرسة مساهمة: | Keywords: Enterococcus; Carriage; Hospitals; Mobilome; WGS |
| المشرفين على المادة: | 0 (Anti-Bacterial Agents) 0 (Virulence Factors) |
| تواريخ الأحداث: | Date Created: 20240704 Date Completed: 20240704 Latest Revision: 20240707 |
| رمز التحديث: | 20240707 |
| مُعرف محوري في PubMed: | PMC11225414 |
| DOI: | 10.1186/s12879-024-09380-3 |
| PMID: | 38965470 |
| قاعدة البيانات: | MEDLINE |
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Full Text Finder | تدمد: | 1471-2334 |
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| DOI: | 10.1186/s12879-024-09380-3 |