Detail publikačního výsledku

Unveiling Diversity: Classification of Klebsiella Pneumoniae Plasmids from Long-read Assemblies

VÍTKOVÁ, H.; NYKRÝNOVÁ, M.; BEZDÍČEK, M.; LENGEROVÁ, M.

Originální název

Unveiling Diversity: Classification of Klebsiella Pneumoniae Plasmids from Long-read Assemblies

Anglický název

Unveiling Diversity: Classification of Klebsiella Pneumoniae Plasmids from Long-read Assemblies

Druh

Stať ve sborníku v databázi WoS či Scopus

Originální abstrakt

Plasmids, integral to bacterial evolution, pose challenges in their genome classification due to incomplete assembly data. While next-generation sequencing has improved plasmid classification, challenges persist in accurately assembling complete plasmid genomes. This study presents a novel plasmid classification methodology based on complete genome similarity, utilizing three metrics: nucleotide composition, gene occurrence, and structural dissimilarity. Tested on a local Klebsiella pneumoniae population, the method outperforms pMLST and PlasmidFinder, distinguishing plasmids even in fusion cases. Applied across diverse bacterial populations, this reference-free approach proves adaptable, offering a valuable tool for monitoring plasmid mobility and diversity. Third-generation sequencing advancements provide a comprehensive understanding of plasmid dynamics, which is essential for addressing antibiotic resistance and bacterial pathogenicity.

Anglický abstrakt

Plasmids, integral to bacterial evolution, pose challenges in their genome classification due to incomplete assembly data. While next-generation sequencing has improved plasmid classification, challenges persist in accurately assembling complete plasmid genomes. This study presents a novel plasmid classification methodology based on complete genome similarity, utilizing three metrics: nucleotide composition, gene occurrence, and structural dissimilarity. Tested on a local Klebsiella pneumoniae population, the method outperforms pMLST and PlasmidFinder, distinguishing plasmids even in fusion cases. Applied across diverse bacterial populations, this reference-free approach proves adaptable, offering a valuable tool for monitoring plasmid mobility and diversity. Third-generation sequencing advancements provide a comprehensive understanding of plasmid dynamics, which is essential for addressing antibiotic resistance and bacterial pathogenicity.

Klíčová slova

bacteria; diversity; genome alignment; pangenome; phylogenetics; plasmid type

Klíčová slova v angličtině

bacteria; diversity; genome alignment; pangenome; phylogenetics; plasmid type

Autoři

VÍTKOVÁ, H.; NYKRÝNOVÁ, M.; BEZDÍČEK, M.; LENGEROVÁ, M.

Rok RIV

2025

Vydáno

28.08.2024

Nakladatel

Springer Nature

ISBN

978-3-031-64636-2

Kniha

Lecture Notes in Bioinformatics

Edice

14849

ISSN

1611-3349

Periodikum

Lecture Notes in Computer Science

Svazek

14849

Číslo

II.

Stát

Švýcarská konfederace

Strany od

314

Strany do

328

Strany počet

15

URL

https://link.springer.com/chapter/10.1007/978-3-031-64636-2_24

BibTex

@inproceedings{BUT189778,
  author="Helena {Vítková} and Markéta {Jakubíčková} and Matěj {Bezdíček} and Martina {Lengerová}",
  title="Unveiling Diversity: Classification of Klebsiella Pneumoniae Plasmids from Long-read Assemblies",
  booktitle="Lecture Notes in Bioinformatics",
  year="2024",
  series="14849",
  journal="Lecture Notes in Computer Science",
  volume="14849",
  number="II.",
  pages="314--328",
  publisher="Springer Nature",
  doi="10.1007/978-3-031-64636-2\{_}24",
  isbn="978-3-031-64636-2",
  url="https://link.springer.com/chapter/10.1007/978-3-031-64636-2_24"
}