Combined bacterial and fungal targeted amplicon sequencing of respiratory samples: Does the DNA extraction method matter?

Cécile Angebault; Mathilde Payen; Paul-Louis Woerther; Christophe Rodriguez; Françoise Botterel

doi:10.1371/journal.pone.0232215

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Open Access

Peer-reviewed

Research Article

Combined bacterial and fungal targeted amplicon sequencing of respiratory samples: Does the DNA extraction method matter?

Cécile Angebault ,

Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Resources, Validation, Visualization, Writing – original draft, Writing – review & editing

* E-mail: cecile.angebault@aphp.fr

Affiliations Unité de Parasitologie-Mycologie, Département de Prévention, Diagnostic et Traitement des Infections, CHU Henri Mondor, Assistance Publique des Hôpitaux de Paris (APHP), Créteil, France, EA DYNAMiC 7380, Faculté de Santé, Univ Paris-Est Créteil, Créteil, France, EA DYNAMiC 7380, Ecole nationale vétérinaire d’Alfort, USC Anses, Maison-Alfort, France

http://orcid.org/0000-0001-7641-3002

⨯
Mathilde Payen,

Roles Data curation, Formal analysis, Investigation, Resources

Affiliation Unité de Parasitologie-Mycologie, Département de Prévention, Diagnostic et Traitement des Infections, CHU Henri Mondor, Assistance Publique des Hôpitaux de Paris (APHP), Créteil, France
⨯
Paul-Louis Woerther,

Roles Visualization, Writing – review & editing

Affiliations EA DYNAMiC 7380, Faculté de Santé, Univ Paris-Est Créteil, Créteil, France, Unité de Bactériologie-Hygiène, Département de Prévention, Diagnostic et Traitement des Infections, CHU Henri Mondor, APHP, Créteil, France
⨯
Christophe Rodriguez,

Roles Data curation, Formal analysis, Software, Writing – review & editing

Affiliation Next-Generation Sequencing Platform”Génomiques”, INSERM U955, APHP, IMRB Créteil, Créteil, France
⨯
Françoise Botterel

Roles Conceptualization, Formal analysis, Funding acquisition, Methodology, Resources, Supervision, Visualization, Writing – original draft, Writing – review & editing

Affiliations Unité de Parasitologie-Mycologie, Département de Prévention, Diagnostic et Traitement des Infections, CHU Henri Mondor, Assistance Publique des Hôpitaux de Paris (APHP), Créteil, France, EA DYNAMiC 7380, Faculté de Santé, Univ Paris-Est Créteil, Créteil, France, EA DYNAMiC 7380, Ecole nationale vétérinaire d’Alfort, USC Anses, Maison-Alfort, France
⨯

Combined bacterial and fungal targeted amplicon sequencing of respiratory samples: Does the DNA extraction method matter?

Cécile Angebault,
Mathilde Payen,
Paul-Louis Woerther,
Christophe Rodriguez,
Françoise Botterel

Published: April 28, 2020
https://doi.org/10.1371/journal.pone.0232215

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DNA extraction
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Bacteria
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Aspergillus
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DNA sequencing
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Candida albicans
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