A comprehensive on-line resource for quality checked and aligned ribosomal RNA sequence data.
SILVA provides comprehensive, quality checked and regularly updated datasets of aligned small (16S/18S, SSU) and large subunit (23S/28S, LSU) ribosomal RNA (rRNA) sequences for all three domains of life (Bacteria, Archaea and Eukarya).
SILVA are the official databases of the software package ARB.
For more background information Click here
The SILVA ACT service combines alignment, search and classify as well as reconstruction of trees in a single web application.
SILVA ACT is available at: www.arb-silva.de/act
The SILVA Tree Viewer is a web application to browse and query the SILVA guide trees.
A technical preview is available at www.arb-silva.de/treeviewer
The software package ARB represents a graphically-oriented, fully-integrated package of cooperating software tools for handling and analysis of sequence information.
The ARB project has been started more than 15 years ago by Wolfgang Ludwig at the Technical University in Munich, Germany, see www.arb-home.de.
SILVA is a member of the UniEuk project, a community-based project to achieve a universal taxonomic framework for Eukaryotes, focused primarily on protists. UniEuk is integrating information from relevant genetic markers and classical morphology-based data, validated by a comprehensive network of taxonomy experts.
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. Nucl. Acids Res. 41 (D1): D590-D596.
For the taxonomic framework:
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. Nucl. Acids Res. 42:D643-D648
SILVA follows a dual licensing model. In short, browsing the content of the SILVA webportal (including results of the data analysis services) and deploying this information is free for all users. Any downloads provided are free for ACADEMIC users. Redistribution of these downloads or their derivates requires a reference to the official SILVA license terms. NON-ACADEMIC users need to acquire a SILVA Commercial License for utilisation of any downloads provided. Change of license model for commercial users with SILVA release 138, please refer to the SILVA Terms of Use/License Information
Dear SILVA community, we are very sorry, but the release of SILVA 138 will be delayed until approximately February/March 2019. The main reason is that we had to change several of our "third-party" data providers since the providers we used were not longer up-to-date. This caused the need for refactoring parts of the software pipeline, which took longer then expected. We are working with high pressure on the new release.
The SILVA Team wishes you a Merry Christmas & Happy New Year. Many thanks for your support in helping us to improve SILVA and SILVAngs. Looking forward to see you again in 2019.
Content: de.NBI Industrial Forum - New de.NBI Website - de.NBI arcticle on Wikipedia - de.NBI/ GFBio Summer School 2018 and much more.
UNITE (https://unite.ut.ee/) is a web-based database and sequence management environment for the molecular identification of fungi. It targets the formal fungal barcode—the nuclear ribosomal internal transcribed spacer (ITS) region—and offers all 1 000 000 public fungal ITS sequences for reference.
SILVA is now part of the German Network for Bioinformatics Infrastructure de.NBI.
To evaluate and improve our quality of service we need your feedback. Please help us by participating in this short survey.
SSU Parc | SSU Ref | SSU Ref NR 99 | LSU Parc | LSU Ref | |||
---|---|---|---|---|---|---|---|
Minimal length | 300 | 1200/900 | 1200/900 | 300 | 1900 | ||
Quality filtering | basic | strong | strong | basic | strong | ||
Guide Tree | no | no | yes | no | yes | ||
Release date | 13.12.17 | 13.12.17 | 13.12.17 | 13.12.17 | 13.12.17 | ||
Aligned rRNA sequences | 6,073,181 | 2,090,668 | 695,171 | 907,382 | 198,843 |