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Updated: Feb 14, 2026
07:49
Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
Published on: August 16, 2017
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ViCTree: an automated framework for taxonomic classification from protein sequences
Sejal Modha1, Anil S Thanki2, Susan F Cotmore3
1MRC-University of Glasgow Centre for Virus Research, Glasgow, UK.
Bioinformatics (Oxford, England)
|February 24, 2018
Summary
ViCTree automatically builds and updates phylogenetic trees from public genetic sequences to aid viral classification. This tool identified six new insect virus species within the Parvoviridae family.
Area of Science:
- Bioinformatics
- Virology
- Computational Biology
Background:
- Public genetic sequence databases are rapidly expanding, offering valuable resources for organism classification.
- Accurate and automated viral classification is crucial for understanding viral diversity and evolution.
Purpose of the Study:
- To develop an automated system, ViCTree, for integrating and visualizing viral genetic sequences into phylogenetic trees.
- To facilitate interactive exploration of viral evolutionary relationships using maximum likelihood phylogenetic trees.
Main Methods:
- ViCTree automatically integrates relevant viral sequences from NCBI GenBank.
- It constructs interactive, automatically updatable maximum likelihood phylogenetic trees.
- ViCTreeView, a JavaScript tool, enables interactive exploration of the phylogenetic tree with pairwise distance data.
Main Results:
- Application of ViCTree to the Densovirinae subfamily of Parvoviridae demonstrated its utility.
- Six novel insect virus species within this subfamily were identified.
Conclusions:
- ViCTree provides an efficient and automated method for viral classification and phylogenetic analysis.
- The open-source nature and interactive visualization tool enhance its accessibility and usability for researchers.
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