Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
University of Bremen · Constructor University · +2 more institutions
Abstract
16S ribosomal RNA gene (rDNA) amplicon analysis remains the standard approach for the cultivation-independent investigation of microbial diversity. The accuracy of these analyses depends strongly on the choice of primers. The overall coverage and phylum spectrum of 175 primers and 512 primer pairs were evaluated in silico with respect to the SILVA 16S/18S rDNA non-redundant reference dataset (SSURef 108 NR). Based on this evaluation a selection of 'best available' primer pairs for Bacteria and Archaea for three amplicon size classes (100-400, 400-1000, ≥ 1000 bp) is provided. The most promising bacterial primer pair (S-D-Bact-0341-b-S-17/S-D-Bact-0785-a-A-21), with an amplicon size of 464 bp, was…
Citation impact
- FWCI
- 35.06
- Percentile
- 100%
- References
- 57
Authors
7- AKAnna KlindworthCorresponding
University of Bremen, Constructor University, University of Vienna, Max Planck Institute for Marine Microbiology
- EPElmar Pruesse
University of Bremen, Constructor University, University of Vienna, Max Planck Institute for Marine Microbiology
- TSTimmy Schweer
University of Bremen, Max Planck Institute for Marine Microbiology, University of Vienna, Constructor University
- JPJörg Peplies
Constructor University, University of Bremen, University of Vienna, Max Planck Institute for Marine Microbiology
- CQChristian Quast
University of Bremen, Constructor University, University of Vienna, Max Planck Institute for Marine Microbiology
Topics & keywords
- Biology
- Amplicon
- 16S ribosomal RNA
- Primer (cosmetics)
- Genetics
- Ribosomal RNA
- In silico
- Ribosomal DNA
- Life in Land