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Evaluation of ERIC-PCR and MALDI-TOF as typing tools for multidrug resistant Klebsiella pneumoniae clinical isolates from a tertiary care center in India

View ORCID ProfileJyoti Kundu, Shubhangi Kansal, Shivali Rathore, Meenakshi Kaundal, View ORCID ProfileArchana Angrup, Manisha Biswal, Kamini Walia, View ORCID ProfilePallab Ray
doi: https://doi.org/10.1101/2022.07.06.499023
Jyoti Kundu
1Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
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Shubhangi Kansal
1Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
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Shivali Rathore
1Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
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Meenakshi Kaundal
1Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
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Archana Angrup
1Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
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Manisha Biswal
1Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
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Kamini Walia
2Division of Epidemiology and Communicable Diseases, Indian Council of Medical Research, New Delhi, India
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Pallab Ray
1Department of Medical Microbiology, Postgraduate Institute of Medical Education and Research, Chandigarh, India
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Abstract

Background and Aim Multidrug resistant Klebsiella pneumoniae is associated with nosocomial infections in both outbreak and non-outbreak situations. The study intends to evaluate the potential of enterobacterial repetitive intergenic consensus-polymerase chain reaction (ERIC-PCR), a genomic based typing and matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) proteomic-based typing techniques for clonal relatedness among multidrug resistant Klebsiella pneumoniae isolates.

Methodology Multidrug resistant clinical isolates of Klebsiella pneumoniae (n =137) were collected from March 2019 to February 2020. Identification and protein-based phylogenetic analysis were performed by MALDI-TOF MS. Genomic typing was done by ERIC-PCR and analyzed by an online data analysis service (PyElph). Dice method with unweighted pair group method with arithmetic mean (UPGMA) program was used to compare the ERIC profiles. The samples were also evaluated by PCR for the presence of genes encoding carbapenemases, extended spectrum beta lactamases (ESBLs) and mobile colistin resistance-1 (mcr1).

Result and Conclusion Isolates were typed into 40 ERIC types, and six groups by MALDI-TOF-MS. PCR-based analysis revealed that all the strains harbored two or more ESBL and carbapenemase genes. None of the isolates revealed the presence of the plasmid mediated mcr-1 gene for colistin resistance. The study presents ERIC based typing as more robust in comparison to MALDI-TOF for finding the clonal relatedness in epidemiological studies.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted July 06, 2022.
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Evaluation of ERIC-PCR and MALDI-TOF as typing tools for multidrug resistant Klebsiella pneumoniae clinical isolates from a tertiary care center in India
Jyoti Kundu, Shubhangi Kansal, Shivali Rathore, Meenakshi Kaundal, Archana Angrup, Manisha Biswal, Kamini Walia, Pallab Ray
bioRxiv 2022.07.06.499023; doi: https://doi.org/10.1101/2022.07.06.499023
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Evaluation of ERIC-PCR and MALDI-TOF as typing tools for multidrug resistant Klebsiella pneumoniae clinical isolates from a tertiary care center in India
Jyoti Kundu, Shubhangi Kansal, Shivali Rathore, Meenakshi Kaundal, Archana Angrup, Manisha Biswal, Kamini Walia, Pallab Ray
bioRxiv 2022.07.06.499023; doi: https://doi.org/10.1101/2022.07.06.499023

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