Bactabolize is a tool for high-throughput generation of bacterial strain-specific metabolic models.
Klebsiella pneumoniae
Klebsiella pneumoniae species complex
bacterial
computational biology
metabolic modelling
software
strain-specific
systems biology
Journal
eLife
ISSN: 2050-084X
Titre abrégé: Elife
Pays: England
ID NLM: 101579614
Informations de publication
Date de publication:
10 10 2023
10 10 2023
Historique:
medline:
2
11
2023
pubmed:
10
10
2023
entrez:
10
10
2023
Statut:
epublish
Résumé
Metabolic capacity can vary substantially within a bacterial species, leading to ecological niche separation, as well as differences in virulence and antimicrobial susceptibility. Genome-scale metabolic models are useful tools for studying the metabolic potential of individuals, and with the rapid expansion of genomic sequencing there is a wealth of data that can be leveraged for comparative analysis. However, there exist few tools to construct strain-specific metabolic models at scale. Here, we describe Bactabolize, a reference-based tool which rapidly produces strain-specific metabolic models and growth phenotype predictions. We describe a pan reference model for the priority antimicrobial-resistant pathogen,
Identifiants
pubmed: 37815531
doi: 10.7554/eLife.87406
pii: 87406
pmc: PMC10564454
doi:
pii:
Substances chimiques
Anti-Infective Agents
0
Anti-Bacterial Agents
0
Banques de données
figshare
['10.6084/m9.figshare.21728717']
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Informations de copyright
© 2023, Vezina, Watts et al.
Déclaration de conflit d'intérêts
BV, SW, JH, HC, LJ, AJ, JM, KH, KW No competing interests declared
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