2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia
| Format: | General Document |
|---|
| _version_ | 1860798001216225280 |
|---|---|
| building | INTELEK Repository |
| collection | Online Access |
| collectionurl | https://intelek.unisza.edu.my/intelek/pages/search.php?search=!collection3 |
| copyright | Copyright©PWB2025 |
| country | Malaysia |
| date | 2024-02-13 |
| format | General Document |
| id | 15372 |
| institution | UniSZA |
| internalnotes | Sila masukkan subject wajib Dissertations, Academic. Terima kasih... |
| originalfilename | DIVERSITY AND CHARACTERISATION OF PLASMIDS IN METHICILLIN-RESISTANT Staphylococcus aureus CLINICAL ISOLATES FROM TERENGGANU, MALAYSIA (PHD_2024).pdf |
| person | Esra’a Ibrahim Abdullah Al-Trad |
| recordtype | oai_dc |
| resourceurl | https://intelek.unisza.edu.my/intelek/pages/view.php?ref=15372 |
| sourcemedia | Server storage Scanned document |
| spelling | 15372 https://intelek.unisza.edu.my/intelek/pages/view.php?ref=15372 https://intelek.unisza.edu.my/intelek/pages/search.php?search=!collection3 General Document Malaysia Library Staff (Top Management) Library Staff (Management) Library Staff (Support) Terengganu Faculty of Medicine English application/pdf 1.5 309 Server storage Scanned document Universiti Sultan Zainal Abidin UniSZA Private Access Universiti Sultan Zainal Abidin SAMBox 3.0.10; modified using iTextSharp™ 5.5.10 ©2000-2016 iText Group NV (AGPL-version) 2024-02-13 2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia DIVERSITY AND CHARACTERISATION OF PLASMIDS IN METHICILLIN-RESISTANT Staphylococcus aureus CLINICAL ISOLATES FROM TERENGGANU, MALAYSIA (PHD_2024).pdf Staphylococcus infections—Microbiology Copyright©PWB2025 Esra’a Ibrahim Abdullah Al-Trad Plasmids play crucial roles in the genetic adaptability of bacteria, acting as vehicles for circulating antimicrobial resistance as well as virulence genes. Methicillin-resistant Staphylococcus aureus (MRSA) is a World Health Organisation-listed priority pathogen but there is scarce data regarding the characteristics of staphylococcal plasmids in Malaysian clinical isolates despite their importance. This study aims to comprehensively identify and analyse plasmids from the genome sequences of 79 MRSA isolates obtained from the main tertiary hospital in Terengganu over a five-year period (2016 – 2020). An additional 15 Malaysian MRSA genomes obtained from the GenBank database were also included in the analyses. High quality extracted genomic DNA from the 79 staphylococcal isolates were sequenced using the short-read paired end sequencing strategy on either the Illumina or DNBSeq platforms. Cleaned sequence data was assembled using Unicycler v0.4.8. Plasmid sequences were detected using a combination of PlasmidFinder v2.1, plasmidSPAdes v3.13.0 and the Bandage visualisation software. Polymerase chain reaction and conventional Sanger sequencing were carried out to fill in the gaps in assembled plasmid sequences. These plasmid sequences were then further analysed using bioinformatics tools. Analyses of the Malaysian MRSA genomes (79 from Terengganu and 15 from other parts of Malaysia) showed that the majority (85/94, or 90%) harboured 1 – 4 plasmids each, ranging in size from 2.3 – 58 kb. A total of 189 plasmids were identified from the Malaysian MRSA genomes with a predominance (120/189, or 63.5%) of small-sized plasmids (< 5 kb). All seven distinctive staphylococcal plasmid replication initiator protein (or replicase)-encoding genes were found with those bearing RepL (n = 63), RepA_N (n = 57) and Rep_1 (n = 54) domains being predominant. Low carriage of conjugative plasmids was observed (n = 2) but more than half (122/189, or 65%) of the non conjugative plasmids were potentially mobilisable by one or more alternative plasmid mobilisation mechanism. Majority of the plasmids (140/189, or 74%) carried determinants that mediated resistance towards either antimicrobial, heavy metals, or biocide compounds. The erm gene which confers resistance to macrolides lincosamides-streptogrammin B (MLSB) antibiotics had the highest incidence (n = 64) with ermC being found in 63 plasmids and ermB identified in a single plasmid. A total of 66 plasmids in the Malaysian MRSA isolates harboured genes that conferred resistance towards heavy metals such as cadmium (cadAC or cadDX genes), copper (copB or mco), arsenate (arsBC) and mercury (merAB). A lower percentage of the MRSA plasmids (56/189, or 30%) carried virulence-related genes. Of the 189 identified plasmids, 179 could be grouped into ten distinct clusters (designated A – J) with the largest group, Cluster A, being small (< 3 kb) ermC-encoded plasmids with the RepL domain replicase. This study provided detailed insights into the plasmidomic landscape of Malaysian MRSA clinical isolates and filled our current knowledge gap regarding their prevalence, types, and detailed molecular characteristics. The discovery of similar plasmids in diverse staphylococcal strains is indicative of the active transmission of these elements, thereby reinforcing their importance in the evolution of these bacterial pathogens. Dissertations, Academic Sila masukkan subject wajib Dissertations, Academic. Terima kasih... Staphylococcus Aureus Antibiotic Resistance Bacterial Plasmids Thesis |
| spellingShingle | 2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia |
| state | Terengganu |
| subject | Staphylococcus infections—Microbiology Dissertations, Academic |
| summary | Plasmids play crucial roles in the genetic adaptability of bacteria, acting as vehicles for circulating antimicrobial resistance as well as virulence genes. Methicillin-resistant Staphylococcus aureus (MRSA) is a World Health Organisation-listed priority pathogen but there is scarce data regarding the characteristics of staphylococcal plasmids in Malaysian clinical isolates despite their importance. This study aims to comprehensively identify and analyse plasmids from the genome sequences of 79 MRSA isolates obtained from the main tertiary hospital in Terengganu over a five-year period (2016 – 2020). An additional 15 Malaysian MRSA genomes obtained from the GenBank database were also included in the analyses. High quality extracted genomic DNA from the 79 staphylococcal isolates were sequenced using the short-read paired end sequencing strategy on either the Illumina or DNBSeq platforms. Cleaned sequence data was assembled using Unicycler v0.4.8. Plasmid sequences were detected using a combination of PlasmidFinder v2.1, plasmidSPAdes v3.13.0 and the Bandage visualisation software. Polymerase chain reaction and conventional Sanger sequencing were carried out to fill in the gaps in assembled plasmid sequences. These plasmid sequences were then further analysed using bioinformatics tools. Analyses of the Malaysian MRSA genomes (79 from Terengganu and 15 from other parts of Malaysia) showed that the majority (85/94, or 90%) harboured 1 – 4 plasmids each, ranging in size from 2.3 – 58 kb. A total of 189 plasmids were identified from the Malaysian MRSA genomes with a predominance (120/189, or 63.5%) of small-sized plasmids (< 5 kb). All seven distinctive staphylococcal plasmid replication initiator protein (or replicase)-encoding genes were found with those bearing RepL (n = 63), RepA_N (n = 57) and Rep_1 (n = 54) domains being predominant. Low carriage of conjugative plasmids was observed (n = 2) but more than half (122/189, or 65%) of the non conjugative plasmids were potentially mobilisable by one or more alternative plasmid mobilisation mechanism. Majority of the plasmids (140/189, or 74%) carried determinants that mediated resistance towards either antimicrobial, heavy metals, or biocide compounds. The erm gene which confers resistance to macrolides lincosamides-streptogrammin B (MLSB) antibiotics had the highest incidence (n = 64) with ermC being found in 63 plasmids and ermB identified in a single plasmid. A total of 66 plasmids in the Malaysian MRSA isolates harboured genes that conferred resistance towards heavy metals such as cadmium (cadAC or cadDX genes), copper (copB or mco), arsenate (arsBC) and mercury (merAB). A lower percentage of the MRSA plasmids (56/189, or 30%) carried virulence-related genes. Of the 189 identified plasmids, 179 could be grouped into ten distinct clusters (designated A – J) with the largest group, Cluster A, being small (< 3 kb) ermC-encoded plasmids with the RepL domain replicase. This study provided detailed insights into the plasmidomic landscape of Malaysian MRSA clinical isolates and filled our current knowledge gap regarding their prevalence, types, and detailed molecular characteristics. The discovery of similar plasmids in diverse staphylococcal strains is indicative of the active transmission of these elements, thereby reinforcing their importance in the evolution of these bacterial pathogens. |
| title | 2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia |
| title_full | 2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia |
| title_fullStr | 2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia |
| title_full_unstemmed | 2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia |
| title_short | 2024_Diversity and Characterisation of Plasmids in Methicillin-Resistant Staphylococcus Aureus Clinical Isolates from Terengganu, Malaysia |
| title_sort | 2024_diversity and characterisation of plasmids in methicillin-resistant staphylococcus aureus clinical isolates from terengganu, malaysia |