Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing

Andrei Prodan; Valentina Tremaroli; Harald Brolin; Aeilko H. Zwinderman; Max Nieuwdorp; Evgeni Levin

doi:10.1371/journal.pone.0227434

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Open Access

Peer-reviewed

Research Article

Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing

Andrei Prodan ,

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

* E-mail: a.prodan@amsterdamumc.nl

Affiliation Department of Experimental Vascular Medicine, Amsterdam University Medical Centers, Amsterdam, The Netherlands

http://orcid.org/0000-0003-2789-7789

⨯
Valentina Tremaroli,

Roles Investigation, Resources, Writing – review & editing

Affiliation Wallenberg Laboratory for Cardiovascular and Metabolic Research, Department of Molecular and Clinical Medicine, Institute of Medicine, Sahlgrenska Academy, University of Gothenburg, Gothenburg, Sweden
⨯
Harald Brolin,

Roles Writing – review & editing

Affiliation Wallenberg Laboratory for Cardiovascular and Metabolic Research, Department of Molecular and Clinical Medicine, Institute of Medicine, Sahlgrenska Academy, University of Gothenburg, Gothenburg, Sweden
⨯
Aeilko H. Zwinderman,

Roles Conceptualization, Writing – review & editing

Affiliation Department of Clinical Epidemiology, Biostatistics and Bioinformatics, Amsterdam University Medical Centers, Amsterdam, The Netherlands
⨯
Max Nieuwdorp,

Roles Conceptualization, Funding acquisition, Methodology, Project administration, Resources, Supervision, Writing – review & editing

Affiliation Department of Experimental Vascular Medicine, Amsterdam University Medical Centers, Amsterdam, The Netherlands
⨯
Evgeni Levin

Roles Conceptualization, Supervision, Writing – review & editing

Affiliations Department of Experimental Vascular Medicine, Amsterdam University Medical Centers, Amsterdam, The Netherlands, Horaizon BV, Delft, the Netherlands
⨯

Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing

Andrei Prodan,
Valentina Tremaroli,
Harald Brolin,
Aeilko H. Zwinderman,
Max Nieuwdorp,
Evgeni Levin

Published: January 16, 2020
https://doi.org/10.1371/journal.pone.0227434

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Ribosomal RNA
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Bioinformatics
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Quality control
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Bacteria
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Clustering algorithms
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DNA sequencing
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Microbial ecology
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Gene sequencing
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