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The SILVA ribosomal RNA database project

Max Planck Institute for Marine Microbiology and Jacobs University, Bremen, Germany


For any question please send a message to:

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If you find SILVA a useful resource for your research or applications please cite:

Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO (2013) The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Opens external link in new windowNucl. Acids Res. 41 (D1): D590-D596.

Yilmaz P, Parfrey LW, Yarza P, Gerken J, Pruesse E, Quast C, Schweer T, Peplies J, Ludwig W, Glöckner FO (2014) The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks. Opens external link in new windowNucl. Acids Res. 42:D643-D648

Glöckner FO, Yilmaz P, Quast C, Gerken J, Beccati A, Ciuprina A, Bruns G, Yarza P, Peplies J, Westram R, Ludwig W (2017) 25 years of serving the community with ribosomal RNA gene reference databases and tools. Opens external link in new windowJ. Biotechnol.

Candidate Taxonomic Units:

Yarza P, Yilmaz P, Pruesse E, Glöckner FO, Ludwig W, Schleifer KH, Whitman WB, Euzéby J, Amann R, Rosselló-Móra R (2014) Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences. Opens external link in new windowNature Reviews Microbiology volume 12, pages 635–645

If you use the TreeViewer:

Beccati A, Gerken J, Quast C, Yilmaz P, Glöckner FO (2017) SILVA tree viewer: interactive web browsing of the SILVA phylogenetic guide trees. Opens external link in new windowBMC Bioinformatics 18:43

The first SILVA paper:

Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig WG, Peplies J, Glöckner FO (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucl. Acids Res. 35:7188-7196

If you use SINA please cite:

Pruesse, E, Peplies, J and Glöckner, FO (2012) SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Opens external link in new windowBioinformatics, 28, 1823-1829

For primer evaluation consider:

Klindworth A, Pruesse E, Schweer T, Peplies J, Quast C, Horn M, Glöckner FO (2013) Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Opens external link in new windowNucl. Acids Res. 41:e1

If you use ARB:

Westram R, Bader K, Pruesse E, Kumar Y, Meier H, Glöckner FO, Ludwig W (2011) ARB: a software environment for sequence data. In: de Bruijn FJ (ed) Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches.Opens external link in new window John Wiley & Sons, Inc., pp 399-406



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