Identification of plasmids in avian-associated Escherichia coli using nanopore and illumina sequencing.

ABSTRACT:

Background

Avian pathogenic Escherichia coli (APEC) are the causative agents of colibacillosis in chickens, a disease which has significant economic impact on the poultry industry. Large plasmids detected in APEC are known to contribute to strain diversity for pathogenicity and antimicrobial resistance, but there could be other plasmids that are missed in standard analysis. In this study, we determined the impact of sequencing and assembly factors for the detection of plasmids in an E. coli whole genome sequencing project.

Results

Hybrid assembly (Illumina and Nanopore) combined with plasmid DNA extractions allowed for detection of the greatest number of plasmids in E. coli, as detected by MOB-suite software. In total, 79 plasmids were identified in 19 E. coli isolates. Hybr

SUBMITTER: Sanderson H 

PROVIDER: S-EPMC10664647 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature