Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore
Pseudomonas aeruginosa is a clinically important pathogen implicated in many hospital-acquired infections. Its propensity to acquire broad-spectrum resistance has earned the organism its status as a severe public health threat requiring urgent control measures. While whole-genome sequencing-based ge...
| Main Authors: | , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Taylor & Francis Group
2021-01-01
|
| Series: | Emerging Microbes and Infections |
| Subjects: | |
| Online Access: | https://www.tandfonline.com/doi/10.1080/22221751.2021.1968318 |
| _version_ | 1818987809015332864 |
|---|---|
| author | Jocelyn Qi-Min Teo Cheng Yee Tang Jie Chong Lim Shannon Jing-Yi Lee Si Hui Tan Tse-Hsien Koh James Heng-Chiak Sim Thuan-Tong Tan Andrea Lay-Hoon Kwa Rick Twee-Hee Ong |
| author_facet | Jocelyn Qi-Min Teo Cheng Yee Tang Jie Chong Lim Shannon Jing-Yi Lee Si Hui Tan Tse-Hsien Koh James Heng-Chiak Sim Thuan-Tong Tan Andrea Lay-Hoon Kwa Rick Twee-Hee Ong |
| author_sort | Jocelyn Qi-Min Teo |
| collection | DOAJ |
| description | Pseudomonas aeruginosa is a clinically important pathogen implicated in many hospital-acquired infections. Its propensity to acquire broad-spectrum resistance has earned the organism its status as a severe public health threat requiring urgent control measures. While whole-genome sequencing-based genomic surveillance provides a means to track antimicrobial resistance, its use in molecular epidemiological surveys of P. aeruginosa remains limited, especially in the Southeast Asian region. We sequenced the whole genomes of 222 carbapenem-non-susceptible P. aeruginosa (CNPA) isolates collected in 2006–2020 at the largest public acute care hospital in Singapore. Antimicrobial susceptibilities were determined using broth microdilution. Clonal relatedness, multi-locus sequence types, and antimicrobial resistance determinants (acquired and chromosomal) were determined. In this study, CNPA exhibited broad-spectrum resistance (87.8% multi-drug resistance), retaining susceptibility only to polymyxin B (95.0%) and amikacin (55.0%). Carbapenemases were detected in 51.4% of the isolates, where IMP and NDM metallo-β-lactamases were the most frequent. Carbapenem resistance was also likely associated with OprD alterations or efflux mechanisms (ArmZ/NalD mutations), which occurred in strains with or without carbapenemases. The population of CNPA in the hospital was diverse; the 222 isolates grouped into 68 sequence types (ST), which included various high-risk clones. We detected an emerging clone, the NDM-1-producing ST308, in addition to the global high-risk ST235 clone which was the predominant clone in our population. Our results thus provide a “snapshot” of the circulating lineages of CNPA locally and the prevailing genetic mechanisms contributing to carbapenem resistance. This database also serves as the baseline for future prospective surveillance studies. |
| first_indexed | 2024-12-20T19:12:35Z |
| format | Article |
| id | doaj.art-28fa35a1fd9d4179b821550b7fdcca68 |
| institution | Directory Open Access Journal |
| issn | 2222-1751 |
| language | English |
| last_indexed | 2024-12-20T19:12:35Z |
| publishDate | 2021-01-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Emerging Microbes and Infections |
| spelling | doaj.art-28fa35a1fd9d4179b821550b7fdcca682022-12-21T19:29:10ZengTaylor & Francis GroupEmerging Microbes and Infections2222-17512021-01-011011706171610.1080/22221751.2021.1968318Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in SingaporeJocelyn Qi-Min Teo0Cheng Yee Tang1Jie Chong Lim2Shannon Jing-Yi Lee3Si Hui Tan4Tse-Hsien Koh5James Heng-Chiak Sim6Thuan-Tong Tan7Andrea Lay-Hoon Kwa8Rick Twee-Hee Ong9Department of Pharmacy, Singapore General Hospital, Singapore, SingaporeSaw Swee Hock School of Public Health, National University of Singapore and National University Health System, Singapore, SingaporeDepartment of Pharmacy, National University of Singapore, Singapore, SingaporeDepartment of Pharmacy, Singapore General Hospital, Singapore, SingaporeDepartment of Pharmacy, Singapore General Hospital, Singapore, SingaporeDepartment of Microbiology, Singapore General Hospital, Singapore, SingaporeDepartment of Microbiology, Singapore General Hospital, Singapore, SingaporeDepartment of Infectious Diseases, Singapore General Hospital, Singapore, SingaporeDepartment of Pharmacy, Singapore General Hospital, Singapore, SingaporeSaw Swee Hock School of Public Health, National University of Singapore and National University Health System, Singapore, SingaporePseudomonas aeruginosa is a clinically important pathogen implicated in many hospital-acquired infections. Its propensity to acquire broad-spectrum resistance has earned the organism its status as a severe public health threat requiring urgent control measures. While whole-genome sequencing-based genomic surveillance provides a means to track antimicrobial resistance, its use in molecular epidemiological surveys of P. aeruginosa remains limited, especially in the Southeast Asian region. We sequenced the whole genomes of 222 carbapenem-non-susceptible P. aeruginosa (CNPA) isolates collected in 2006–2020 at the largest public acute care hospital in Singapore. Antimicrobial susceptibilities were determined using broth microdilution. Clonal relatedness, multi-locus sequence types, and antimicrobial resistance determinants (acquired and chromosomal) were determined. In this study, CNPA exhibited broad-spectrum resistance (87.8% multi-drug resistance), retaining susceptibility only to polymyxin B (95.0%) and amikacin (55.0%). Carbapenemases were detected in 51.4% of the isolates, where IMP and NDM metallo-β-lactamases were the most frequent. Carbapenem resistance was also likely associated with OprD alterations or efflux mechanisms (ArmZ/NalD mutations), which occurred in strains with or without carbapenemases. The population of CNPA in the hospital was diverse; the 222 isolates grouped into 68 sequence types (ST), which included various high-risk clones. We detected an emerging clone, the NDM-1-producing ST308, in addition to the global high-risk ST235 clone which was the predominant clone in our population. Our results thus provide a “snapshot” of the circulating lineages of CNPA locally and the prevailing genetic mechanisms contributing to carbapenem resistance. This database also serves as the baseline for future prospective surveillance studies.https://www.tandfonline.com/doi/10.1080/22221751.2021.1968318Pseudomonas aeruginosawhole-genome sequencingresistomeclonesmulti-drug resistantgenomic surveillance |
| spellingShingle | Jocelyn Qi-Min Teo Cheng Yee Tang Jie Chong Lim Shannon Jing-Yi Lee Si Hui Tan Tse-Hsien Koh James Heng-Chiak Sim Thuan-Tong Tan Andrea Lay-Hoon Kwa Rick Twee-Hee Ong Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore Emerging Microbes and Infections Pseudomonas aeruginosa whole-genome sequencing resistome clones multi-drug resistant genomic surveillance |
| title | Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore |
| title_full | Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore |
| title_fullStr | Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore |
| title_full_unstemmed | Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore |
| title_short | Genomic characterization of carbapenem-non-susceptible Pseudomonas aeruginosa in Singapore |
| title_sort | genomic characterization of carbapenem non susceptible pseudomonas aeruginosa in singapore |
| topic | Pseudomonas aeruginosa whole-genome sequencing resistome clones multi-drug resistant genomic surveillance |
| url | https://www.tandfonline.com/doi/10.1080/22221751.2021.1968318 |
| work_keys_str_mv | AT jocelynqiminteo genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT chengyeetang genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT jiechonglim genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT shannonjingyilee genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT sihuitan genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT tsehsienkoh genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT jameshengchiaksim genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT thuantongtan genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT andrealayhoonkwa genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore AT ricktweeheeong genomiccharacterizationofcarbapenemnonsusceptiblepseudomonasaeruginosainsingapore |