Genomic analysis of ESBL-producing Klebsiella pneumoniae strain AA isolated from irrigated vegetables in Lagos, Nigeria
4 affiliations
- 1Department of Biological Sciences, Lead City University, Ibadan, Oyo State Nigeria
- 2Molecular Biology and Biotechnology Department, Nigerian Institute of Medical Research (NIMR), Yaba, Lagos, Lagos State Nigeria
- 3Inqaba Biotec West Africa, Opposite IITA Bus Stop, Ibadan, Oyo State Nigeria
- 4Department of Biological Sciences, Mountain Top University, Ibafo, Ogun State Nigeria
Abstract
Background: Klebsiella pneumoniae (K. pneumoniae) is a known pathogen that has been implicated in both hospital and community-acquired infections. Several strains are emerging as hypervirulent, raising public health concerns. This study aimed to gain genomic insight into multidrug-resistant (MDR) K. pneumoniae AA strain isolated from the leafy vegetable Corchorus olitorius (Ewedu), specifically characterizing its resistome, mobilome and virulence determinants.
Methods: K. pneumoniae AA was isolated from the vegetable using standard microbiological methods. Antibiotic susceptibility testing was performed using the disc diffusion method, and isolates were screened for extended spectrum β-lactamase (ESBL) production using the double-disc diffusion method. Whole-genome sequencing was carried out using the PacBio Onso sequencing platform.
Results: K. pneumoniae AA was positive for ESBL production and was MDR, showing resistance to eight of the ten antibiotics tested. The genome of K. pneumoniae AA was 5.4 Mb in size, comprising 558 contigs and a G + C content of 57.5%. K. pneumoniae AA belonged to sequence type (ST) 36 and sublineage 268. The capsule type of K. pneumoniae AA was K27, while the O-antigen type was O2β. Plasmids showing 98.93% and 91.60% homology to IncFIB(K)-1 and Col(pHAD28), respectively, were detected. The genome was found to harbour blaSHV-13 and fosA4 genes which mediate resistance to β-lactam antibiotics and fosfomycin, respectively.
Conclusion: Close attention should be paid to multidrug-resistant K. pneumoniae strains circulating in the food chain, as their dissemination to humans may result in infections that are difficult to treat.
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BibTeX
@article{akintunde2026genomic,
title = {{Genomic analysis of ESBL-producing Klebsiella pneumoniae strain AA isolated from irrigated vegetables in Lagos, Nigeria}},
author = {Grace Bosede Akintunde and Felicia Adesina and Abraham Ajayi and Utibeima Udo Essiet and Adetutu Excellence Olumeh and Olanrewaju Olufowobi and Fatima Onawoga and Stella Ifeanyi Smith},
journal = {BMC Genomic Data},
year = {2026},
month = aug,
doi = {10.1186/s12863-026-01478-8},
url = {https://doi.org/10.1186/s12863-026-01478-8},
note = {CC BY-NC-ND 4.0},
}
RIS
TY - JOUR
TI - Genomic analysis of ESBL-producing Klebsiella pneumoniae strain AA isolated from irrigated vegetables in Lagos, Nigeria
AU - Grace Bosede Akintunde
AU - Felicia Adesina
AU - Abraham Ajayi
AU - Utibeima Udo Essiet
AU - Adetutu Excellence Olumeh
AU - Olanrewaju Olufowobi
AU - Fatima Onawoga
AU - Stella Ifeanyi Smith
PY - 2026
DA - 2026/08/08
JO - BMC Genomic Data
DO - 10.1186/s12863-026-01478-8
UR - https://doi.org/10.1186/s12863-026-01478-8
AB - Background: Klebsiella pneumoniae (K. pneumoniae) is a known pathogen that has been implicated in both hospital and community-acquired infections. Several strains are emerging as hypervirulent, raising public health concerns. This study aimed to gain genomic insight into multidrug-resistant (MDR) K. pneumoniae AA strain isolated from the leafy vegetable Corchorus olitorius (Ewedu), specifically characterizing its resistome, mobilome and virulence determinants. Methods: K. pneumoniae AA was isolated from the vegetable using standard microbiological methods. Antibiotic susceptibility testing was performed using the disc diffusion method, and isolates were screened for extended spectrum β-lactamase (ESBL) production using the double-disc diffusion method. Whole-genome sequencing was carried out using the PacBio Onso sequencing platform. Results: K. pneumoniae AA was positive for ESBL production and was MDR, showing resistance to eight of the ten antibiotics tested. The genome of K. pneumoniae AA was 5.4 Mb in size, comprising 558 contigs and a G + C content of 57.5%. K. pneumoniae AA belonged to sequence type (ST) 36 and sublineage 268. The capsule type of K. pneumoniae AA was K27, while the O-antigen type was O2β. Plasmids showing 98.93% and 91.60% homology to IncFIB(K)-1 and Col(pHAD28), respectively, were detected. The genome was found to harbour blaSHV-13 and fosA4 genes which mediate resistance to β-lactam antibiotics and fosfomycin, respectively. Conclusion: Close attention should be paid to multidrug-resistant K. pneumoniae strains circulating in the food chain, as their dissemination to humans may result in infections that are difficult to treat.
SN - 2730-6844
ER -