European external quality assessments for identification, molecular typing and characterization of Staphylococcus aureus

on behalf of the Study Group on Staphylococci and Staphylococcal Infections (ESGS) of ESCMID

doi:10.1093/jac/dky260

European external quality assessments for identification, molecular typing and characterization of Staphylococcus aureus

on behalf of the Study Group on Staphylococci and Staphylococcal Infections (ESGS) of ESCMID

Research output: Contribution to journal › Article › peer-review

3 Citations (Scopus)

Abstract

Objectives: We present the results of two European external quality assessments (EQAs) conducted in 2014 and 2016 under the auspices of the Study Group on Staphylococci and Staphylococcal Infections of ESCMID. The objective was to assess the performance of participating centres in characterizing Staphylococcus aureus using their standard in-house phenotypic and genotypic protocols. Methods: A total of 11 well-characterized blindly coded S. aureus (n " 9), Staphylococcus argenteus (n " 1) and Staphylococcus capitis (n " 1) strains were distributed to participants for analysis. Species identification, MIC determination, antimicrobial susceptibility testing, antimicrobial resistance and toxin gene detection and molecular typing including spa typing, SCCmec typing and MLST were performed. Results: Thirteen laboratories from 12 European countries participated in one EQA or both EQAs. Despite considerable diversity in the methods employed, good concordance (90%–100%) with expected results was obtained. Discrepancies were observed for: (i) identification of the S. argenteus strain; (ii) phenotypic detection of low-level resistance to oxacillin in the mecC-positive strain; (iii) phenotypic detection of the inducible MLS_B strain; and (iv) WGS-based detection of some resistance and toxin genes. Conclusions: Overall, good concordance (90%–100%) with expected results was observed. In some instances, the accurate detection of resistance and toxin genes from WGS data proved problematic, highlighting the need for validated and internationally agreed-on bioinformatics pipelines before such techniques are implemented routinely by microbiology laboratories. We strongly recommend all national reference laboratories and laboratories acting as referral centres to participate in such EQA initiatives.

Original language	English
Pages (from-to)	2662-2666
Number of pages	5
Journal	Journal of Antimicrobial Chemotherapy
Volume	73
Issue number	10
DOIs	https://doi.org/10.1093/jac/dky260
Publication status	Published - 1 Oct 2018

Bibliographical note

Funding Information:
This work was supported by: the Institut Scientifique de Santé Publique (ISP-WIZ), Brussels, Belgium; the Ministry of Health, Denmark; Public Health England, UK; the National Staphylococcal Reference Laboratory, Greece, under the scientific responsibility of I. S. (grant number C954, Hellenic Centre for Disease Control and Prevention, HCDCP/KEELPNO); the Department of Health, Ireland; Fundac¸ão para a Ciência e Tecnologia (grant numbers UID/CBQ/04612/2013 to Research Unit MOSTMICRO; SFRH/BPD/111922/2015 to FCT); the Ministry of Science and Higher Education, Poland, within the framework of the Mikrobank 2 Programme; the European Regional Development Fund within the EurHealth-1Health project (grant number EU/INTERREG VA-681377 to A. J. S. and A. W. F.); and ‘Santé Publique France’ the French national public health agency and the Hospices Civils de Lyon, Lyon, France. Limited financial support

Funding Information:
We thank all technical workers in the participating laboratories for their valuable contributions. This study was co-ordinated by the ESGS of ESCMID. This work was supported by: the Institut Scientifique de Santé Publique (ISP-WIZ), Brussels, Belgium; the Ministry of Health, Denmark; Public Health England, UK; the National Staphylococcal Reference Laboratory, Greece, under the scientific responsibility of I. S. (grant number C954, Hellenic Centre for Disease Control and Prevention, HCDCP/KEELPNO); the Department of Health, Ireland; Fundação para a Ciência e Tecnologia (grant numbers UID/CBQ/04612/2013 to Research Unit MOSTMICRO; SFRH/BPD/111922/2015 to FCT); the Ministry of Science and Higher Education, Poland, within the framework of the Mikrobank 2 Programme; the European Regional Development Fund within the EurHealth-1Health project (grant number EU/INTERREG VA-681377 to A. J. S. and A. W. F.); and ‘Santé Publique France’ the French national public health agency and the Hospices Civils de Lyon, Lyon, France. Limited financial support from the Study Group on Staphylococci and Staphylococcal Infections financed the EQA logistics.

Publisher Copyright:
© The Author(s) 2018. Published by Oxford University Press on behalf of the British Society for Antimicrobial Chemotherapy. All rights reserved.

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10.1093/jac/dky260

Cite this

@article{5b8f9046fd6b45c5a1b3545fb240c919,

title = "European external quality assessments for identification, molecular typing and characterization of Staphylococcus aureus",

abstract = "Objectives: We present the results of two European external quality assessments (EQAs) conducted in 2014 and 2016 under the auspices of the Study Group on Staphylococci and Staphylococcal Infections of ESCMID. The objective was to assess the performance of participating centres in characterizing Staphylococcus aureus using their standard in-house phenotypic and genotypic protocols. Methods: A total of 11 well-characterized blindly coded S. aureus (n {"} 9), Staphylococcus argenteus (n {"} 1) and Staphylococcus capitis (n {"} 1) strains were distributed to participants for analysis. Species identification, MIC determination, antimicrobial susceptibility testing, antimicrobial resistance and toxin gene detection and molecular typing including spa typing, SCCmec typing and MLST were performed. Results: Thirteen laboratories from 12 European countries participated in one EQA or both EQAs. Despite considerable diversity in the methods employed, good concordance (90%–100%) with expected results was obtained. Discrepancies were observed for: (i) identification of the S. argenteus strain; (ii) phenotypic detection of low-level resistance to oxacillin in the mecC-positive strain; (iii) phenotypic detection of the inducible MLSB strain; and (iv) WGS-based detection of some resistance and toxin genes. Conclusions: Overall, good concordance (90%–100%) with expected results was observed. In some instances, the accurate detection of resistance and toxin genes from WGS data proved problematic, highlighting the need for validated and internationally agreed-on bioinformatics pipelines before such techniques are implemented routinely by microbiology laboratories. We strongly recommend all national reference laboratories and laboratories acting as referral centres to participate in such EQA initiatives.",

author = "{on behalf of the Study Group on Staphylococci and Staphylococcal Infections (ESGS) of ESCMID} and Ariane Deplano and Magali Dod{\'e}mont and Olivier Denis and Henrik Westh and Heidi Gumpert and Larsen, {Anders Rhod} and Jesper Larsen and Angela Kearns and Bruno Pichon and Franziska Layer and Berit Schulte and Christiane Wolz and Iris Spiliopoulou and Gr{\'a}inne Brennan and Joanna Empel and Waleria Hryniewicz and {de Lencastre}, Herminia and Faria, {Nuno Alexandre} and Irina Codita and Sabat, {Artur J.} and Friedrich, {Alexander W.} and Deurenberg, {Ruud H.} and Anne Tristan and Fr{\'e}d{\'e}ric Laurent and Fran{\c c}ois Vandenesch",

note = "Funding Information: This work was supported by: the Institut Scientifique de Sant{\'e} Publique (ISP-WIZ), Brussels, Belgium; the Ministry of Health, Denmark; Public Health England, UK; the National Staphylococcal Reference Laboratory, Greece, under the scientific responsibility of I. S. (grant number C954, Hellenic Centre for Disease Control and Prevention, HCDCP/KEELPNO); the Department of Health, Ireland; Fundac¸{\~a}o para a Ci{\^e}ncia e Tecnologia (grant numbers UID/CBQ/04612/2013 to Research Unit MOSTMICRO; SFRH/BPD/111922/2015 to FCT); the Ministry of Science and Higher Education, Poland, within the framework of the Mikrobank 2 Programme; the European Regional Development Fund within the EurHealth-1Health project (grant number EU/INTERREG VA-681377 to A. J. S. and A. W. F.); and {\textquoteleft}Sant{\'e} Publique France{\textquoteright} the French national public health agency and the Hospices Civils de Lyon, Lyon, France. Limited financial support Funding Information: We thank all technical workers in the participating laboratories for their valuable contributions. This study was co-ordinated by the ESGS of ESCMID. This work was supported by: the Institut Scientifique de Sant{\'e} Publique (ISP-WIZ), Brussels, Belgium; the Ministry of Health, Denmark; Public Health England, UK; the National Staphylococcal Reference Laboratory, Greece, under the scientific responsibility of I. S. (grant number C954, Hellenic Centre for Disease Control and Prevention, HCDCP/KEELPNO); the Department of Health, Ireland; Funda{\c c}{\~a}o para a Ci{\^e}ncia e Tecnologia (grant numbers UID/CBQ/04612/2013 to Research Unit MOSTMICRO; SFRH/BPD/111922/2015 to FCT); the Ministry of Science and Higher Education, Poland, within the framework of the Mikrobank 2 Programme; the European Regional Development Fund within the EurHealth-1Health project (grant number EU/INTERREG VA-681377 to A. J. S. and A. W. F.); and {\textquoteleft}Sant{\'e} Publique France{\textquoteright} the French national public health agency and the Hospices Civils de Lyon, Lyon, France. Limited financial support from the Study Group on Staphylococci and Staphylococcal Infections financed the EQA logistics. Publisher Copyright: {\textcopyright} The Author(s) 2018. Published by Oxford University Press on behalf of the British Society for Antimicrobial Chemotherapy. All rights reserved.",

year = "2018",

month = oct,

day = "1",

doi = "10.1093/jac/dky260",

language = "English",

volume = "73",

pages = "2662--2666",

journal = "Journal of Antimicrobial Chemotherapy",

issn = "0305-7453",

publisher = "Oxford University Press",

number = "10",

}

European external quality assessments for identification, molecular typing and characterization of Staphylococcus aureus. / on behalf of the Study Group on Staphylococci and Staphylococcal Infections (ESGS) of ESCMID.

In: Journal of Antimicrobial Chemotherapy, Vol. 73, No. 10, 01.10.2018, p. 2662-2666.

Research output: Contribution to journal › Article › peer-review

TY - JOUR

T1 - European external quality assessments for identification, molecular typing and characterization of Staphylococcus aureus

AU - on behalf of the Study Group on Staphylococci and Staphylococcal Infections (ESGS) of ESCMID

AU - Deplano, Ariane

AU - Dodémont, Magali

AU - Denis, Olivier

AU - Westh, Henrik

AU - Gumpert, Heidi

AU - Larsen, Anders Rhod

AU - Larsen, Jesper

AU - Kearns, Angela

AU - Pichon, Bruno

AU - Layer, Franziska

AU - Schulte, Berit

AU - Wolz, Christiane

AU - Spiliopoulou, Iris

AU - Brennan, Gráinne

AU - Empel, Joanna

AU - Hryniewicz, Waleria

AU - de Lencastre, Herminia

AU - Faria, Nuno Alexandre

AU - Codita, Irina

AU - Sabat, Artur J.

AU - Friedrich, Alexander W.

AU - Deurenberg, Ruud H.

AU - Tristan, Anne

AU - Laurent, Frédéric

AU - Vandenesch, François

N1 - Funding Information: This work was supported by: the Institut Scientifique de Santé Publique (ISP-WIZ), Brussels, Belgium; the Ministry of Health, Denmark; Public Health England, UK; the National Staphylococcal Reference Laboratory, Greece, under the scientific responsibility of I. S. (grant number C954, Hellenic Centre for Disease Control and Prevention, HCDCP/KEELPNO); the Department of Health, Ireland; Fundac¸ão para a Ciência e Tecnologia (grant numbers UID/CBQ/04612/2013 to Research Unit MOSTMICRO; SFRH/BPD/111922/2015 to FCT); the Ministry of Science and Higher Education, Poland, within the framework of the Mikrobank 2 Programme; the European Regional Development Fund within the EurHealth-1Health project (grant number EU/INTERREG VA-681377 to A. J. S. and A. W. F.); and ‘Santé Publique France’ the French national public health agency and the Hospices Civils de Lyon, Lyon, France. Limited financial support Funding Information: We thank all technical workers in the participating laboratories for their valuable contributions. This study was co-ordinated by the ESGS of ESCMID. This work was supported by: the Institut Scientifique de Santé Publique (ISP-WIZ), Brussels, Belgium; the Ministry of Health, Denmark; Public Health England, UK; the National Staphylococcal Reference Laboratory, Greece, under the scientific responsibility of I. S. (grant number C954, Hellenic Centre for Disease Control and Prevention, HCDCP/KEELPNO); the Department of Health, Ireland; Fundação para a Ciência e Tecnologia (grant numbers UID/CBQ/04612/2013 to Research Unit MOSTMICRO; SFRH/BPD/111922/2015 to FCT); the Ministry of Science and Higher Education, Poland, within the framework of the Mikrobank 2 Programme; the European Regional Development Fund within the EurHealth-1Health project (grant number EU/INTERREG VA-681377 to A. J. S. and A. W. F.); and ‘Santé Publique France’ the French national public health agency and the Hospices Civils de Lyon, Lyon, France. Limited financial support from the Study Group on Staphylococci and Staphylococcal Infections financed the EQA logistics. Publisher Copyright: © The Author(s) 2018. Published by Oxford University Press on behalf of the British Society for Antimicrobial Chemotherapy. All rights reserved.

PY - 2018/10/1

Y1 - 2018/10/1

N2 - Objectives: We present the results of two European external quality assessments (EQAs) conducted in 2014 and 2016 under the auspices of the Study Group on Staphylococci and Staphylococcal Infections of ESCMID. The objective was to assess the performance of participating centres in characterizing Staphylococcus aureus using their standard in-house phenotypic and genotypic protocols. Methods: A total of 11 well-characterized blindly coded S. aureus (n " 9), Staphylococcus argenteus (n " 1) and Staphylococcus capitis (n " 1) strains were distributed to participants for analysis. Species identification, MIC determination, antimicrobial susceptibility testing, antimicrobial resistance and toxin gene detection and molecular typing including spa typing, SCCmec typing and MLST were performed. Results: Thirteen laboratories from 12 European countries participated in one EQA or both EQAs. Despite considerable diversity in the methods employed, good concordance (90%–100%) with expected results was obtained. Discrepancies were observed for: (i) identification of the S. argenteus strain; (ii) phenotypic detection of low-level resistance to oxacillin in the mecC-positive strain; (iii) phenotypic detection of the inducible MLSB strain; and (iv) WGS-based detection of some resistance and toxin genes. Conclusions: Overall, good concordance (90%–100%) with expected results was observed. In some instances, the accurate detection of resistance and toxin genes from WGS data proved problematic, highlighting the need for validated and internationally agreed-on bioinformatics pipelines before such techniques are implemented routinely by microbiology laboratories. We strongly recommend all national reference laboratories and laboratories acting as referral centres to participate in such EQA initiatives.

AB - Objectives: We present the results of two European external quality assessments (EQAs) conducted in 2014 and 2016 under the auspices of the Study Group on Staphylococci and Staphylococcal Infections of ESCMID. The objective was to assess the performance of participating centres in characterizing Staphylococcus aureus using their standard in-house phenotypic and genotypic protocols. Methods: A total of 11 well-characterized blindly coded S. aureus (n " 9), Staphylococcus argenteus (n " 1) and Staphylococcus capitis (n " 1) strains were distributed to participants for analysis. Species identification, MIC determination, antimicrobial susceptibility testing, antimicrobial resistance and toxin gene detection and molecular typing including spa typing, SCCmec typing and MLST were performed. Results: Thirteen laboratories from 12 European countries participated in one EQA or both EQAs. Despite considerable diversity in the methods employed, good concordance (90%–100%) with expected results was obtained. Discrepancies were observed for: (i) identification of the S. argenteus strain; (ii) phenotypic detection of low-level resistance to oxacillin in the mecC-positive strain; (iii) phenotypic detection of the inducible MLSB strain; and (iv) WGS-based detection of some resistance and toxin genes. Conclusions: Overall, good concordance (90%–100%) with expected results was observed. In some instances, the accurate detection of resistance and toxin genes from WGS data proved problematic, highlighting the need for validated and internationally agreed-on bioinformatics pipelines before such techniques are implemented routinely by microbiology laboratories. We strongly recommend all national reference laboratories and laboratories acting as referral centres to participate in such EQA initiatives.

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U2 - 10.1093/jac/dky260

DO - 10.1093/jac/dky260

M3 - Article

C2 - 30099486

AN - SCOPUS:85061208058

VL - 73

SP - 2662

EP - 2666

JO - Journal of Antimicrobial Chemotherapy

JF - Journal of Antimicrobial Chemotherapy

SN - 0305-7453

IS - 10

ER -

European external quality assessments for identification, molecular typing and characterization of Staphylococcus aureus

Abstract

Bibliographical note

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