Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays

Abstract Antibiotic resistances progressively cause treatment failures, and their spreading dynamics reached an alarming level. Some strains have already been classified as highly critical, e.g. the ones summarised by the acronym ESKAPE (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumo...

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Autores principales:	Noa Wolff, Michaela Hendling, Fabian Schroeder, Silvia Schönthaler, Andreas F. Geiss, Branka Bedenic, Ivan Barišić
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/5d800ff2a2f842ca93f346b609166ddf
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spelling	oai:doaj.org-article:5d800ff2a2f842ca93f346b609166ddf2021-12-02T13:17:55ZFull pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays10.1038/s41598-021-85438-52045-2322https://doaj.org/article/5d800ff2a2f842ca93f346b609166ddf2021-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-85438-5https://doaj.org/toc/2045-2322Abstract Antibiotic resistances progressively cause treatment failures, and their spreading dynamics reached an alarming level. Some strains have already been classified as highly critical, e.g. the ones summarised by the acronym ESKAPE (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa and Enterobacter spp.). To restrain this trend and enable effective medication, as much information as possible must be obtained in the least possible time. Here, we present a DNA microarray-based assay that screens for the most important sepsis-relevant 44 pathogenic species, 360 virulence factors (mediate pathogenicity in otherwise non-pathogenic strains), and 409 antibiotic resistance genes in parallel. The assay was evaluated with 14 multidrug resistant strains, including all ESKAPE pathogens, mainly obtained from clinical isolates. We used a cost-efficient ligation-based detection platform designed to emulate the highly specific multiplex detection of padlock probes. Results could be obtained within one day, requiring approximately 4 h for amplification, application to the microarray, and detection.Noa WolffMichaela HendlingFabian SchroederSilvia SchönthalerAndreas F. GeissBranka BedenicIvan BarišićNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Noa Wolff Michaela Hendling Fabian Schroeder Silvia Schönthaler Andreas F. Geiss Branka Bedenic Ivan Barišić Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays
description	Abstract Antibiotic resistances progressively cause treatment failures, and their spreading dynamics reached an alarming level. Some strains have already been classified as highly critical, e.g. the ones summarised by the acronym ESKAPE (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa and Enterobacter spp.). To restrain this trend and enable effective medication, as much information as possible must be obtained in the least possible time. Here, we present a DNA microarray-based assay that screens for the most important sepsis-relevant 44 pathogenic species, 360 virulence factors (mediate pathogenicity in otherwise non-pathogenic strains), and 409 antibiotic resistance genes in parallel. The assay was evaluated with 14 multidrug resistant strains, including all ESKAPE pathogens, mainly obtained from clinical isolates. We used a cost-efficient ligation-based detection platform designed to emulate the highly specific multiplex detection of padlock probes. Results could be obtained within one day, requiring approximately 4 h for amplification, application to the microarray, and detection.
format	article
author	Noa Wolff Michaela Hendling Fabian Schroeder Silvia Schönthaler Andreas F. Geiss Branka Bedenic Ivan Barišić
author_facet	Noa Wolff Michaela Hendling Fabian Schroeder Silvia Schönthaler Andreas F. Geiss Branka Bedenic Ivan Barišić
author_sort	Noa Wolff
title	Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays
title_short	Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays
title_full	Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays
title_fullStr	Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays
title_full_unstemmed	Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays
title_sort	full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex dna-assays
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/5d800ff2a2f842ca93f346b609166ddf
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Full pathogen characterisation: species identification including the detection of virulence factors and antibiotic resistance genes via multiplex DNA-assays

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