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. 2020 Sep 16:178:106060.
doi: 10.1016/j.mimet.2020.106060. Online ahead of print.

A simple sequence-based filtering method for the removal of contaminants in low-biomass 16S rRNA amplicon sequencing approaches

Cristina Zubiria-Barrera  1 , Magdalena Stock  1 , Robert Neubert  1 , Antje Vester  1 , Aylina Kulle  1 , Antony Schneegans  1 , Rasmus Leistner  2 , Petra Gastmeier  2 , Hortense Slevogt  1 , Tilman E Klassert  3
Affiliations

A simple sequence-based filtering method for the removal of contaminants in low-biomass 16S rRNA amplicon sequencing approaches

Cristina Zubiria-Barrera et al. J Microbiol Methods. .

Abstract

Controlling for contaminant sequences in microbiome experiments involving low-biomass samples is a highly challenging task which still lacks of standardized protocols. Here we propose a simple sequence-based filtering method for 16S rRNA gene microbial profiling approaches, and validate its efficiency using mock community dilution series and environmental samples collected in a clinical setting.

Keywords: Contaminants; Low-biomass; Microbiome; Sequence-based filtering.

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Conflict of interest statement

Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.

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