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SILVA tree viewer: interactive web browsing of the SILVA phylogenetic guide trees
Alan Beccati1, Jan Gerken1, Christian Quast2
1Department of Life Sciences & Chemistry, Jacobs University gGmbH, Bremen, Germany.
BMC Bioinformatics
|October 2, 2017
Summary
Visualizing large phylogenetic trees is now easier with the SILVA Tree Viewer. This web application offers interactive navigation and feedback tools for evolutionary studies.
Area of Science:
- Bioinformatics
- Evolutionary Biology
- Computational Biology
Background:
- Phylogenetic trees are crucial for understanding organismal evolution.
- Large datasets of taxa present visualization challenges, hindering user interaction and taxonomic framework refinement.
Purpose of the Study:
- To develop an accessible web application for visualizing large phylogenetic trees.
- To facilitate user interaction and feedback for improving taxonomic frameworks.
Main Methods:
- Developed a web application utilizing Web Geographic Information Systems (Web-GIS) technology.
- Implemented a PostgreSQL backend for data management.
- Integrated zoom and pan functionalities similar to Google Maps for intuitive navigation.
Main Results:
- The SILVA Tree Viewer allows visualization of large phylogenetic trees without software or data downloads.
- Provides access to two key phylogenetic trees from the SILVA database: SSU Ref NR99 and LSU Ref.
- Offers interactive features including navigation, search, and browse functionalities.
Conclusions:
- The SILVA Tree Viewer enhances user interaction with large phylogenetic datasets.
- An integrated feedback system supports taxonomy refinement and tool improvement.
- Web-GIS technology enables efficient visualization of complex evolutionary relationships.
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