A simple sequence-based filtering method for the removal of contaminants in low-biomass 16S rRNA amplicon sequencing approaches
| Autor: | Magdalena Stock, Antony Schneegans, Tilman E. Klassert, Aylina Kulle, Rasmus Leistner, Hortense Slevogt, Antje Vester, Robert Neubert, Petra Gastmeier, Cristina Zubiria-Barrera |
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| Rok vydání: | 2020 |
| Předmět: |
Microbiology (medical)
0303 health sciences 030306 microbiology Computer science Biomass Microbial profiling Computational biology Contamination 16S ribosomal RNA Microbiology 03 medical and health sciences Amplicon sequencing Microbiome Molecular Biology 030304 developmental biology Sequence (medicine) |
| Zdroj: | Journal of Microbiological Methods. 178:106060 |
| ISSN: | 0167-7012 |
| DOI: | 10.1016/j.mimet.2020.106060 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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