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Nanopore sequencing for One-Health

By 12 November, 2018 No Comments

Genome and plasmid characterization of a methicillin-resistant Staphylococcus pseudintermedius strain isolated from canine otitis and metagenomic samples from horse rectum.

 One-Health concept describes the collaboration between different ambits in order to improve environment, animal and people’s health in an all-together approximation.

This work focuses in the application of the innovator nanopore sequencing technology (Oxford Nanopore Technologies, ONT):

1) To characterize the genome and possible plasmids of a Staphylococcus pseudintermedius strain isolated from canine otitis that has been previously characterized by classical microbiology techniques, such as antibiotic susceptibility tests

Through MinION sequencer, a handheld device designed by ONT, we were able to describe antibiotic resistances (whether caused by antibiotic resistance genes or point mutations) to several antibiotic groups such as aminoglycosides, quinolones, tetracyclines, macrolids, betalactams or lincosamides.

Nanopore sequencing enabled to locate the resistances in the genome or a plasmid.

2) To characterize two rectal samples from a horse admitted to the infectious hospital (one sample from the day of admission and one sample after the infection of a surgical incision).

With the samples isolated from the horse’s rectum we were able to describe the rectum’s microbiota. A growth of Escherichia coli, Bacteroides fragilis ans Staphylococcus aureus was present in the second sample (likely related to infection).