Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care Hospital
Background: Methicillin-resistant Staphylococcus aureus (MRSA) is a significant healthcare-associated (HA-MRSA) pathogen due to its increased morbidity and mortality rates. There is a paucity of data regarding MRSA clones circulating in the Middle East in the literature, especially from Egypt. We ai...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2023-08-01
|
| Series: | Journal of Microbiology, Immunology and Infection |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S168411822300083X |
| _version_ | 1797749188711153664 |
|---|---|
| author | Reem M. Hassan Mervat G. Elanany Mostafa M. Mostafa Reham Hamed A. Yousef Sherifa T. Salem |
| author_facet | Reem M. Hassan Mervat G. Elanany Mostafa M. Mostafa Reham Hamed A. Yousef Sherifa T. Salem |
| author_sort | Reem M. Hassan |
| collection | DOAJ |
| description | Background: Methicillin-resistant Staphylococcus aureus (MRSA) is a significant healthcare-associated (HA-MRSA) pathogen due to its increased morbidity and mortality rates. There is a paucity of data regarding MRSA clones circulating in the Middle East in the literature, especially from Egypt. We aimed to identify the pattern of resistance and virulence in the propagating clones using NGS technologies for the whole genome sequence. Methods: From an 18-month surveillance program for MRSA-positive patients, 18 MRSA isolates from surgical healthcare associated infections were selected. The Vitek2 system was used to assess antimicrobial susceptibility. The whole genome sequencing was performed using the NovaSeq6000. The reads were mapped to the reference genome (Staphylococcus_aureus_ATCC_BAA_1680), used for variant calling, screened for virulence/resistance genes, and typed using multi-locus sequence typing and spa typing. Correlation between demographic and clinical data and molecular findings were performed. Results: All the MRSA isolates were highly resistant to tetracycline followed by gentamicin (61%) and highly susceptible to trimethoprim/sulfamethoxazole. Most of the isolates showed a high virulence profile. ST239 was the predominant sequence type (6/18), while t037 was the predominant spa type (7/18). Five isolates shared the same ST239 and spa t037. ST1535, an emerging MRSA strain, was the second most prevalent in our study. One isolate showed a unique pattern of a high abundance of resistance and virulence genes. Conclusion: WGS elucidated the resistance and virulence profiles of MRSA isolated from clinical samples of HAI patients with high-resolution tracking of clones predominant in our healthcare facility. |
| first_indexed | 2024-03-12T16:15:42Z |
| format | Article |
| id | doaj.art-9d2fa2c3dca5436089002fc2371e679e |
| institution | Directory Open Access Journal |
| issn | 1684-1182 |
| language | English |
| last_indexed | 2024-03-12T16:15:42Z |
| publishDate | 2023-08-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Journal of Microbiology, Immunology and Infection |
| spelling | doaj.art-9d2fa2c3dca5436089002fc2371e679e2023-08-09T04:32:18ZengElsevierJournal of Microbiology, Immunology and Infection1684-11822023-08-01564802814Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care HospitalReem M. Hassan0Mervat G. Elanany1Mostafa M. Mostafa2Reham Hamed A. Yousef3Sherifa T. Salem4Department of Clinical and Chemical Pathology, Faculty of Medicine, Cairo University, EgyptDepartment of Clinical and Chemical Pathology, Faculty of Medicine, Cairo University, EgyptFaculty of Pharmacy, Ain Shams University, EgyptDepartment of Clinical and Chemical Pathology, Faculty of Medicine, Cairo University, EgyptDepartment of Clinical and Chemical Pathology, Faculty of Medicine, Cairo University, Egypt; Corresponding author.Background: Methicillin-resistant Staphylococcus aureus (MRSA) is a significant healthcare-associated (HA-MRSA) pathogen due to its increased morbidity and mortality rates. There is a paucity of data regarding MRSA clones circulating in the Middle East in the literature, especially from Egypt. We aimed to identify the pattern of resistance and virulence in the propagating clones using NGS technologies for the whole genome sequence. Methods: From an 18-month surveillance program for MRSA-positive patients, 18 MRSA isolates from surgical healthcare associated infections were selected. The Vitek2 system was used to assess antimicrobial susceptibility. The whole genome sequencing was performed using the NovaSeq6000. The reads were mapped to the reference genome (Staphylococcus_aureus_ATCC_BAA_1680), used for variant calling, screened for virulence/resistance genes, and typed using multi-locus sequence typing and spa typing. Correlation between demographic and clinical data and molecular findings were performed. Results: All the MRSA isolates were highly resistant to tetracycline followed by gentamicin (61%) and highly susceptible to trimethoprim/sulfamethoxazole. Most of the isolates showed a high virulence profile. ST239 was the predominant sequence type (6/18), while t037 was the predominant spa type (7/18). Five isolates shared the same ST239 and spa t037. ST1535, an emerging MRSA strain, was the second most prevalent in our study. One isolate showed a unique pattern of a high abundance of resistance and virulence genes. Conclusion: WGS elucidated the resistance and virulence profiles of MRSA isolated from clinical samples of HAI patients with high-resolution tracking of clones predominant in our healthcare facility.http://www.sciencedirect.com/science/article/pii/S168411822300083XMRSANGSHealthcare-associated infectionsST239spa t037 |
| spellingShingle | Reem M. Hassan Mervat G. Elanany Mostafa M. Mostafa Reham Hamed A. Yousef Sherifa T. Salem Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care Hospital Journal of Microbiology, Immunology and Infection MRSA NGS Healthcare-associated infections ST239 spa t037 |
| title | Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care Hospital |
| title_full | Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care Hospital |
| title_fullStr | Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care Hospital |
| title_full_unstemmed | Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care Hospital |
| title_short | Whole genome characterization of methicillin resistant Staphylococcus aureus in an Egyptian Tertiary Care Hospital |
| title_sort | whole genome characterization of methicillin resistant staphylococcus aureus in an egyptian tertiary care hospital |
| topic | MRSA NGS Healthcare-associated infections ST239 spa t037 |
| url | http://www.sciencedirect.com/science/article/pii/S168411822300083X |
| work_keys_str_mv | AT reemmhassan wholegenomecharacterizationofmethicillinresistantstaphylococcusaureusinanegyptiantertiarycarehospital AT mervatgelanany wholegenomecharacterizationofmethicillinresistantstaphylococcusaureusinanegyptiantertiarycarehospital AT mostafammostafa wholegenomecharacterizationofmethicillinresistantstaphylococcusaureusinanegyptiantertiarycarehospital AT rehamhamedayousef wholegenomecharacterizationofmethicillinresistantstaphylococcusaureusinanegyptiantertiarycarehospital AT sherifatsalem wholegenomecharacterizationofmethicillinresistantstaphylococcusaureusinanegyptiantertiarycarehospital |