Estimation of pathogenic potential of an environmental Pseudomonas aeruginosa isolate using comparative genomics.
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
14 01 2021
14 01 2021
Historique:
received:
15
09
2020
accepted:
21
12
2020
entrez:
15
1
2021
pubmed:
16
1
2021
medline:
10
8
2021
Statut:
epublish
Résumé
The isolation and sequencing of new strains of Pseudomonas aeruginosa created an extensive dataset of closed genomes. Many of the publicly available genomes are only used in their original publication while additional in silico information, based on comparison to previously published genomes, is not being explored. In this study, we defined and investigated the genome of the environmental isolate P. aeruginosa KRP1 and compared it to more than 100 publicly available closed P. aeruginosa genomes. By using different genomic island prediction programs, we could identify a total of 17 genomic islands and 8 genomic islets, marking the majority of the accessory genome that covers ~ 12% of the total genome. Based on intra-strain comparisons, we are able to predict the pathogenic potential of this environmental isolate. It shares a substantial amount of genomic information with the highly virulent PSE9 and LESB58 strains. For both of these, the increased virulence has been directly linked to their accessory genome before. Hence, the integrated use of previously published data can help to minimize expensive and time consuming wetlab work to determine the pathogenetic potential.
Identifiants
pubmed: 33446769
doi: 10.1038/s41598-020-80592-8
pii: 10.1038/s41598-020-80592-8
pmc: PMC7809047
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1370Subventions
Organisme : European Research Council
ID : 864669
Pays : International
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