Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing
Copyright policy )Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing
In 16S rRNA gene sequencing, certain bacterial genera were found to be underrepresented or even missing in taxonomic profiles when using unsuitable primer combinations, outdated reference databases, or inadequate pipeline settings. Concerning the last, quality thresholds as well as bioinformatic settings (i.e., clustering approach, analysis pipeline, and specific adjustments such as truncation) are responsible for a number of observed differences between studies.
- Technical University of Munich (TUM) Germany
- University of Southern Denmark Denmark
- Universität Hamburg Germany
- UNIVERSITY OF HAMBURG Germany
- Technical University of Munich Germany
DNA, Bacterial, Feces/microbiology, databases, Bacterial/genetics, microbiome, Gastrointestinal Microbiome/genetics, Microbiology, Feces, variable regions, RNA, Ribosomal, 16S, Humans, 16S rRNA gene sequencing, Phylogeny, DNA Primers, Ribosomal, DNA Primers/genetics, High-Throughput Nucleotide Sequencing/methods, RNA, Ribosomal, 16S/genetics, amplicon sequencing, Computational Biology, Genetic Variation, High-Throughput Nucleotide Sequencing, DNA, Sequence Analysis, DNA, QR1-502, Gastrointestinal Microbiome, mock communities, DNA, Bacterial/genetics, bioinformatic settings, RNA, Sequence Analysis, 16S/genetics, clustering, Research Article, ddc: ddc:
DNA, Bacterial, Feces/microbiology, databases, Bacterial/genetics, microbiome, Gastrointestinal Microbiome/genetics, Microbiology, Feces, variable regions, RNA, Ribosomal, 16S, Humans, 16S rRNA gene sequencing, Phylogeny, DNA Primers, Ribosomal, DNA Primers/genetics, High-Throughput Nucleotide Sequencing/methods, RNA, Ribosomal, 16S/genetics, amplicon sequencing, Computational Biology, Genetic Variation, High-Throughput Nucleotide Sequencing, DNA, Sequence Analysis, DNA, QR1-502, Gastrointestinal Microbiome, mock communities, DNA, Bacterial/genetics, bioinformatic settings, RNA, Sequence Analysis, 16S/genetics, clustering, Research Article, ddc: ddc:
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