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Whole-genome sequencing of clinical isolates from a tertiary hospital in Terengganu, Malaysia (2011-2020), revealed the predominance of the Global Clone 2 lineage.

作者信息

Din Nurul Saidah, Mohd Rani Farahiyah, Alattraqchi Ahmed Ghazi, Ismail Salwani, A Rahman Nor Iza, Cleary David W, Clarke Stuart C, Yeo Chew Chieng

机构信息

Centre for Research in Infectious Diseases and Biotechnology, Faculty of Medicine, Universiti Sultan Zainal Abidin, Kuala Terengganu, Malaysia.

Department of Microbes, Infections and Microbiomes, School of Infection, Inflammation and Immunology, College of Medicine and Health, University of Birmingham, Birmingham, UK.

出版信息

Microb Genom. 2025 Feb;11(2). doi: 10.1099/mgen.0.001345.


DOI:10.1099/mgen.0.001345
PMID:39908088
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11798184/
Abstract

Carbapenem-resistant is recognized by the World Health Organization (WHO) as one of the top priority pathogens. Despite its public health importance, genomic data of clinical isolates from Malaysia remain scarce. In this study, whole-genome sequencing was performed on 126 . isolates collected from the main tertiary hospital in the state of Terengganu, Malaysia, over a 10-year period (2011-2020). Antimicrobial susceptibilities determined for 20 antibiotics belonging to 8 classes showed that 77.0% (=97/126) of the isolates were categorized as multidrug resistant (MDR), with all MDR isolates being carbapenem resistant. Multilocus sequence typing analysis categorized the Terengganu clinical isolates into 34 Pasteur and 44 Oxford sequence types (STs), with ST2 of the Global Clone 2 lineage identified as the dominant ST (=76/126; 60.3%). The ST2 isolates could be subdivided into six Oxford STs with the majority being ST195 (=35) and ST208 (=17). Various antimicrobial resistance genes were identified with the -encoded carbapenemase being the predominant acquired carbapenemase gene (=90/126; 71.4%). Plasmid-encoded genes were identified in nearly all (=122/126; 96.8%) of the isolates with the majority being Rep_3 family (=121). Various virulence factors were identified, highlighting the pathogenic nature of this bacterium. Only 14/126 (11.1%) of the isolates were positive for the carriage of CRISPR-Cas arrays with none of the prevalent ST2 isolates harbouring them. This study provided a genomic snapshot of the isolates obtained from a single tertiary healthcare centre in Malaysia over a 10-year period and showed the predominance of a single closely related ST2 lineage, indicating the entrenchment of this clone in the hospital.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/32c57ade8875/mgen-11-01345-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/7e1463272126/mgen-11-01345-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/b03ca723d1e9/mgen-11-01345-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/57983de38843/mgen-11-01345-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/6735d16d78dd/mgen-11-01345-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/7dfd3f27225d/mgen-11-01345-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/32c57ade8875/mgen-11-01345-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/7e1463272126/mgen-11-01345-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/b03ca723d1e9/mgen-11-01345-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/57983de38843/mgen-11-01345-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/6735d16d78dd/mgen-11-01345-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/7dfd3f27225d/mgen-11-01345-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/693f/11798184/32c57ade8875/mgen-11-01345-g006.jpg

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[1]
Whole-genome sequencing of clinical isolates from a tertiary hospital in Terengganu, Malaysia (2011-2020), revealed the predominance of the Global Clone 2 lineage.

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本文引用的文献

[1]
Examining the role of Acinetobacter baumannii plasmid types in disseminating antimicrobial resistance.

NPJ Antimicrob Resist. 2024-1-5

[2]
Longitudinal genomics reveals carbapenem-resistant Acinetobacter baumannii population changes with emergence of highly resistant ST164 clone.

Nat Commun. 2024-11-2

[3]
Sub-MIC antibiotics increased the fitness cost of CRISPR-Cas in .

Front Microbiol. 2024-7-1

[4]
Multicenter retrospective genomic characterization of carbapenemase-producing isolates from Jiangxi patients 2021-2022: identification of a novel international clone, IC11.

mSphere. 2024-6-25

[5]
A bioinformatic approach to identify confirmed and probable CRISPR-Cas systems in the - complex genomes.

Front Microbiol. 2024-4-9

[6]
Molecular and clinical epidemiology of carbapenem resistant ST2 in Oceania: a multicountry cohort study.

Lancet Reg Health West Pac. 2023-9-22

[7]
Comparative genotypic characterization related to antibiotic resistance phenotypes of clinical carbapenem-resistant Acinetobacter baumannii MTC1106 (ST2) and MTC0619 (ST25).

BMC Genomics. 2023-11-17

[8]
Phylogenomics of species and analysis of antimicrobial resistance genes.

Front Microbiol. 2023-10-19

[9]
Genomic surveillance for antimicrobial resistance - a One Health perspective.

Nat Rev Genet. 2024-2

[10]
Global Clone-Specific Resistomes Explored in Clinical Isolates Recovered from Egypt.

Antibiotics (Basel). 2023-7-4

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