A new and effective genes-based method for phylogenetic analysis of Klebsiella pneumoniae.
Core genes
Klebsiella pneumoniae
Nitrogen-fixing bacteria
Phylogenetic analysis
Virulence genes
Journal
Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases
ISSN: 1567-7257
Titre abrégé: Infect Genet Evol
Pays: Netherlands
ID NLM: 101084138
Informations de publication
Date de publication:
06 2022
06 2022
Historique:
received:
02
06
2021
revised:
16
03
2022
accepted:
21
03
2022
pubmed:
28
3
2022
medline:
20
4
2022
entrez:
27
3
2022
Statut:
ppublish
Résumé
The exponential increase in the number of genomes deposited in public databases can help us gain a more holistic understanding of the phylogeny and epidemiology of Klebsiella pneumoniae. However, inferring the evolutionary relationships of K. pneumoniae based on big genomic data is challenging for existing methods. In this study, core genes of K. pneumoniae were determined and analysed in terms of differences in GC content, mutation rate, size, and potential functions. We then developed a stable genes-based method for big data analysis and compared it with existing methods. Our new method achieved a higher resolution phylogenetic analysis of K. pneumoniae. Using this genes-based method, we explored global phylogenetic relationships based on a public database of nearly 953 genomes. The results provide useful information to facilitate the phylogenetic and epidemiological analysis of K. pneumoniae, and the findings are relevant for security applications.
Identifiants
pubmed: 35339697
pii: S1567-1348(22)00072-7
doi: 10.1016/j.meegid.2022.105275
pii:
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
105275Informations de copyright
Copyright © 2022 The Authors. Published by Elsevier B.V. All rights reserved.