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Updated: May 4, 2026

Genotyping of Staphylococcus aureus by Ribosomal Spacer PCR RS-PCR
Published on: November 4, 2016
Extensive genetic diversity identified among sporadic methicillin-resistant Staphylococcus aureus isolates recovered
Peter M Kinnevey1, Anna C Shore, Grainne I Brennan
1Microbiology Research Unit, Dublin Dental University Hospital, University of Dublin, Trinity College Dublin, Dublin, Ireland.
Abstract:
Clonal replacement of predominant nosocomial methicillin-resistant Staphylococcus aureus (MRSA) strains has occurred several times in Ireland during the last 4 decades. However, little is known about sporadically occurring MRSA in Irish hospitals or in other countries. Eighty-eight representative pvl-negative sporadic MRSA isolates recovered in Irish hospitals between 2000 and 2012 were investigated. These yielded unusual pulsed-field gel electrophoresis and antibiogram-resistogram typing patterns distinct from those of the predominant nosocomial MRSA clone, ST22-MRSA-IV, during the study period. Isolates were characterized by spa typing and DNA microarray profiling for multilocus sequence type (MLST) clonal complex (CC) and/or sequence type (ST) and SCCmec type assignment, as well as for detection of virulence and antimicrobial resistance genes. Conventional PCR-based SCCmec subtyping was undertaken when necessary. Extensive diversity was detected, including 38 spa types, 13 MLST-CCs (including 18 STs among 62 isolates assigned to STs), and 25 SCCmec types (including 2 possible novel SCCmec elements and 7 possible novel SCCmec subtypes). Fifty-four MLST-spa-SCCmec type combinations were identified. Overall, 68.5% of isolates were assigned to nosocomial lineages, with ST8-t190-MRSA-IID/IIE±SCCM1 predominating (17.4%), followed by CC779/ST779-t878-MRSA-ψSCCmec-SCC-SCCCRISPR (7.6%) and CC22/ST22-t032-MRSA-IVh (5.4%). Community-associated clones, including CC1-t127/t386/t2279-MRSA-IV, CC59-t216-MRSA-V, CC8-t008-MRSA-IVa, and CC5-t002/t242-MRSA-IV/V, and putative animal-associated clones, including CC130-t12399-MRSA-XI, ST8-t064-MRSA-IVa, ST398-t011-MRSA-IVa, and CC6-t701-MRSA-V, were also identified. In total, 53.3% and 47.8% of isolates harbored genes for resistance to two or more classes of antimicrobial agents and two or more mobile genetic element-encoded virulence-associated factors, respectively. Effective ongoing surveillance of sporadic nosocomial MRSA is warranted for early detection of emerging clones and reservoirs of virulence, resistance, and SCCmec genes.
Insights
Sporadic methicillin-resistant Staphylococcus aureus (MRSA) in Irish hospitals shows significant genetic diversity, including novel types. Ongoing surveillance is crucial for detecting emerging MRSA clones and their resistance genes.
Area of Science:
- Microbiology
- Infectious Diseases
- Genetics
Background:
- Nosocomial methicillin-resistant Staphylococcus aureus (MRSA) clonal replacement is documented in Ireland.
- Limited knowledge exists on sporadically occurring MRSA in Irish hospitals.
Purpose of the Study:
- To characterize sporadic MRSA isolates from Irish hospitals (2000-2012).
- To identify genetic diversity, resistance, and virulence factors in these isolates.
Main Methods:
- Analysis of 88 pvl-negative sporadic MRSA isolates.
- Utilized pulsed-field gel electrophoresis, spa typing, and DNA microarray profiling.
- Assigned multilocus sequence type (MLST) clonal complex (CC)/sequence type (ST) and SCCmec types.
Main Results:
- Identified extensive diversity: 38 spa types, 13 MLST-CCs, and 25 SCCmec types.
- Detected 54 MLST-spa-SCCmec type combinations, including potential novel elements.
- 68.5% of isolates belonged to nosocomial lineages; community-associated and animal-associated clones were also found.
- 53.3% and 47.8% harbored resistance to multiple antimicrobial classes and multiple virulence factors, respectively.
Conclusions:
- Sporadic MRSA in Irish hospitals exhibit considerable genetic diversity.
- The presence of various MRSA lineages highlights the need for continuous surveillance.
- Early detection of emerging clones and reservoirs of resistance/virulence genes is essential.
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