Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China
ABSTRACT: Purpose: The aim of this study was to characterize the genomic structure of the first isolated ST152 Klebsiella pneumoniae strain carrying blaNDM-1 in China. Methods: Antimicrobial susceptibility was determined by broth microdilution method. Whole-genome sequencing was conducted using the...
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Elsevier
2025-01-01
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| Series: | Journal of Global Antimicrobial Resistance |
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| author | Renchi Fang Lingfang Di Xuebin Tian Yongfeng Bai |
| author_facet | Renchi Fang Lingfang Di Xuebin Tian Yongfeng Bai |
| author_sort | Renchi Fang |
| collection | DOAJ |
| description | ABSTRACT: Purpose: The aim of this study was to characterize the genomic structure of the first isolated ST152 Klebsiella pneumoniae strain carrying blaNDM-1 in China. Methods: Antimicrobial susceptibility was determined by broth microdilution method. Whole-genome sequencing was conducted using the Illumina HiSeq and Oxford Nanopore GridION X5 platforms, and the genomic features were analyzed using a range of bioinformatics tools. Results: The strain HZKP1 demonstrated resistance to cefepime, ceftazidime, amoxicillin-clavulanic acid, amikacin, ciprofloxacin, meropenem, imipenem, and ertapenem, while showing sensitivity to tigecycline and colistin. It was classified as sequence type (ST) 152, K locus (KL) 105 and OC locus (OCL) O3b, respectively. The blaNDM-1 gene was identified on the IncX3 plasmid pHZKP1-NDM (54,035 bp), located downstream of the ISKox3-IS3000-ISAba125-IS5 segment and upstream of the bleMBL-IS26-blaSHV-69-IS26 segment. Phylogenetic analysis indicated its closest relative to be a strain isolated from a wound swab sample in Tanzania in 2013, differing by 598 alleles. Conclusion: We characterized genomic features of the first ST152 K. pneumoniae strain isolated in China. Our findings provide insights into the current status of resistance in new lineages within the region and enhance comprehension of K. pneumoniae carbapenem resistance transmission from a genetic structure perspective. |
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| institution | Kabale University |
| issn | 2213-7165 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Elsevier |
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| series | Journal of Global Antimicrobial Resistance |
| spelling | doaj-art-3d97dabbd67040eb9139246173a6c53d2025-02-08T05:00:24ZengElsevierJournal of Global Antimicrobial Resistance2213-71652025-01-01403436Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in ChinaRenchi Fang0Lingfang Di1Xuebin Tian2Yongfeng Bai3Department of Laboratory Medicine, the First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, China; Zhejiang Key Laboratory of Clinical In Vitro Diagnostic Techniques, Hangzhou, China; Institute of Laboratory Medicine, Zhejiang University, Hangzhou, ChinaDepartment of Clinical Laboratory, Tongxiang First people's hospital, Tongxiang, ChinaState Key Laboratory for Diagnosis and Treatment of Infectious Diseases, National Clinical Research Center for Infectious Diseases, National Medical Center for Infectious Diseases, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, The First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, ChinaDepartment of Clinical Laboratory, The Quzhou Affiliated Hospital of Wenzhou Medical University, Quzhou People's Hospital, Quzhou, China; Corresponding author. Yongfeng Bai, Department of Clinical Laboratory, The Quzhou Affiliated Hospital of Wenzhou Medical University, Quzhou People's Hospital, Quzhou 324000, China.ABSTRACT: Purpose: The aim of this study was to characterize the genomic structure of the first isolated ST152 Klebsiella pneumoniae strain carrying blaNDM-1 in China. Methods: Antimicrobial susceptibility was determined by broth microdilution method. Whole-genome sequencing was conducted using the Illumina HiSeq and Oxford Nanopore GridION X5 platforms, and the genomic features were analyzed using a range of bioinformatics tools. Results: The strain HZKP1 demonstrated resistance to cefepime, ceftazidime, amoxicillin-clavulanic acid, amikacin, ciprofloxacin, meropenem, imipenem, and ertapenem, while showing sensitivity to tigecycline and colistin. It was classified as sequence type (ST) 152, K locus (KL) 105 and OC locus (OCL) O3b, respectively. The blaNDM-1 gene was identified on the IncX3 plasmid pHZKP1-NDM (54,035 bp), located downstream of the ISKox3-IS3000-ISAba125-IS5 segment and upstream of the bleMBL-IS26-blaSHV-69-IS26 segment. Phylogenetic analysis indicated its closest relative to be a strain isolated from a wound swab sample in Tanzania in 2013, differing by 598 alleles. Conclusion: We characterized genomic features of the first ST152 K. pneumoniae strain isolated in China. Our findings provide insights into the current status of resistance in new lineages within the region and enhance comprehension of K. pneumoniae carbapenem resistance transmission from a genetic structure perspective.http://www.sciencedirect.com/science/article/pii/S2213716524004466blaNDM-1Klebsiella pneumoniaeST152Whole genome sequencing |
| spellingShingle | Renchi Fang Lingfang Di Xuebin Tian Yongfeng Bai Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China Journal of Global Antimicrobial Resistance blaNDM-1 Klebsiella pneumoniae ST152 Whole genome sequencing |
| title | Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China |
| title_full | Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China |
| title_fullStr | Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China |
| title_full_unstemmed | Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China |
| title_short | Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China |
| title_sort | genomic and phylogenetic analysis of a ndm 1 producing st152 klebsiella pneumoniae isolated from a bloodstream infection in china |
| topic | blaNDM-1 Klebsiella pneumoniae ST152 Whole genome sequencing |
| url | http://www.sciencedirect.com/science/article/pii/S2213716524004466 |
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