Cargando…
A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain
Klebsiella pneumoniae is considered an opportunistic pathogen frequently involved with healthcare-associated infections. The genome of K. pneumoniae is versatile, harbors diverse virulence factors and easily acquires and exchanges resistance plasmids, facilitating the emergence of new threatening cl...
Autores principales: | , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2022
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9781218/ https://www.ncbi.nlm.nih.gov/pubmed/36558729 http://dx.doi.org/10.3390/pathogens11121394 |
_version_ | 1784857020025798656 |
---|---|
author | de Sales, Romário Oliveira Leaden, Laura Migliorini, Letícia Busato Severino, Patricia |
author_facet | de Sales, Romário Oliveira Leaden, Laura Migliorini, Letícia Busato Severino, Patricia |
author_sort | de Sales, Romário Oliveira |
collection | PubMed |
description | Klebsiella pneumoniae is considered an opportunistic pathogen frequently involved with healthcare-associated infections. The genome of K. pneumoniae is versatile, harbors diverse virulence factors and easily acquires and exchanges resistance plasmids, facilitating the emergence of new threatening clones. In the last years, ST16 has been described as an emergent, clinically relevant strain, increasingly associated with outbreaks, and carrying virulence factors (such as ICEKp, iuc, rmpADC/2) and a diversity of resistance genes. However, a far-reaching phylogenetic study of ST16, including geographically, clinically and temporally distributed isolates is not available. In this work, we analyzed all publicly available ST16 K. pneumoniae genomes in terms of virulence factors, including capsular lipopolysaccharide and polysaccharide diversity, plasmids and antimicrobial resistance genes. A core genome SNP analysis shows that less than 1% of studied sites were variant sites, with a median pairwise single nucleotide polymorphism difference of 87 SNPs. The number and diversity of antimicrobial resistance genes, but not of virulence-related genes, increased consistently in ST16 strains during the studied period. A genomic comparison between ST16 and the high-risk clone ST11 K. pneumoniae, showed great similarities in their capacity to acquire resistance and virulence markers, differing mostly in the great diversity of capsular lipopolysaccharide and polysaccharide types in ST11, in comparison with ST16. While virulence and antimicrobial resistance scores indicated that ST11 might still constitute a more difficult-to-manage strain, results presented here demonstrate the great potential of the ST16 clone becoming critical in public health. |
format | Online Article Text |
id | pubmed-9781218 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-97812182022-12-24 A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain de Sales, Romário Oliveira Leaden, Laura Migliorini, Letícia Busato Severino, Patricia Pathogens Article Klebsiella pneumoniae is considered an opportunistic pathogen frequently involved with healthcare-associated infections. The genome of K. pneumoniae is versatile, harbors diverse virulence factors and easily acquires and exchanges resistance plasmids, facilitating the emergence of new threatening clones. In the last years, ST16 has been described as an emergent, clinically relevant strain, increasingly associated with outbreaks, and carrying virulence factors (such as ICEKp, iuc, rmpADC/2) and a diversity of resistance genes. However, a far-reaching phylogenetic study of ST16, including geographically, clinically and temporally distributed isolates is not available. In this work, we analyzed all publicly available ST16 K. pneumoniae genomes in terms of virulence factors, including capsular lipopolysaccharide and polysaccharide diversity, plasmids and antimicrobial resistance genes. A core genome SNP analysis shows that less than 1% of studied sites were variant sites, with a median pairwise single nucleotide polymorphism difference of 87 SNPs. The number and diversity of antimicrobial resistance genes, but not of virulence-related genes, increased consistently in ST16 strains during the studied period. A genomic comparison between ST16 and the high-risk clone ST11 K. pneumoniae, showed great similarities in their capacity to acquire resistance and virulence markers, differing mostly in the great diversity of capsular lipopolysaccharide and polysaccharide types in ST11, in comparison with ST16. While virulence and antimicrobial resistance scores indicated that ST11 might still constitute a more difficult-to-manage strain, results presented here demonstrate the great potential of the ST16 clone becoming critical in public health. MDPI 2022-11-22 /pmc/articles/PMC9781218/ /pubmed/36558729 http://dx.doi.org/10.3390/pathogens11121394 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article de Sales, Romário Oliveira Leaden, Laura Migliorini, Letícia Busato Severino, Patricia A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain |
title | A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain |
title_full | A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain |
title_fullStr | A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain |
title_full_unstemmed | A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain |
title_short | A Comprehensive Genomic Analysis of the Emergent Klebsiella pneumoniae ST16 Lineage: Virulence, Antimicrobial Resistance and a Comparison with the Clinically Relevant ST11 Strain |
title_sort | comprehensive genomic analysis of the emergent klebsiella pneumoniae st16 lineage: virulence, antimicrobial resistance and a comparison with the clinically relevant st11 strain |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9781218/ https://www.ncbi.nlm.nih.gov/pubmed/36558729 http://dx.doi.org/10.3390/pathogens11121394 |
work_keys_str_mv | AT desalesromariooliveira acomprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain AT leadenlaura acomprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain AT migliorinileticiabusato acomprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain AT severinopatricia acomprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain AT desalesromariooliveira comprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain AT leadenlaura comprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain AT migliorinileticiabusato comprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain AT severinopatricia comprehensivegenomicanalysisoftheemergentklebsiellapneumoniaest16lineagevirulenceantimicrobialresistanceandacomparisonwiththeclinicallyrelevantst11strain |