Overview on our ARB/SILVA-related Projects
dsrAB@SILVA
For users interested in dsrA/B-based amplicon surveys to study the microbial ecology of dsrAB-encoding sulfate/sulfite reducers or sulfur oxidizers, dsrAB@SILVA provides a curated dsrA and dsrB database.
Eukaryotic Taxonomy Working Group (ETWG)
The Eukaryotic Taxonomy Working Group (ETWG) has been founded in October 2011 to create a unified taxonomy for Eukaryotes based on 18S/28S ribosomal RNA gene sequences. It is now funded by the Gordon and Betty Moore Foundation as the UniEuk project.
'The All-Species Living Tree' Project
The All-Species Living Tree is a regularly-updated 16S (SSU) rRNA-based phylogenetic tree harboring all sequenced type strains of the hitherto classified species of Archaea and Bacteria.
Contextual Data (Metadata) for Environmental Sequences
Contextual data (metadata) is the set of data describing aspects like geographic location and habitat type from which a sequence was retrieved as well as the processing of the sample.
Following the MIGS/MIMS and MIMARKS standards for environmental samples at least providing the GPS position (longitude, latitude), depth/altitude and time of sampling is highly recommended.
The SILVA team together with the Genomics Standards Consortium has started a project to facilitate and improve the integration of contextual data for environmental sequences with an emphasis on marker genes like ribosomal RNA sequence data.
A Standard Operating Procedure for Phylogenetic Inference (SOPPI)
A Standard Operating Procedure offering a helping hand in working through the process of contextual data acquisition, alignment, phylogenetic tree reconstruction, presentation of trees and documentation.
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