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Isolation of Fidelity Variants of RNA Viruses and Characterization of Virus Mutation Frequency
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Optimizing viral genome subsampling by genetic diversity and temporal distribution (TARDiS) for phylogenetics
Simone Marini1,2, Carla Mavian2,3, Alberto Riva4
1Department of Epidemiology, University of Florida, Gainesville, FL 32611, USA.
Bioinformatics (Oxford, England)
|October 21, 2021
Summary
TARDiS is a new phylogenetic tool that optimizes genetic diversity and temporal distribution for better evolutionary studies. This genetic algorithm-based software aids in selecting optimal genetic samples for research.
Area of Science:
- Bioinformatics
- Evolutionary Biology
- Computational Biology
Background:
- Phylogenetic analyses require careful selection of genetic samples to accurately represent evolutionary history.
- Existing subsampling methods may not adequately balance genetic diversity and temporal representation.
Purpose of the Study:
- To introduce TARDiS, a novel computational tool for optimizing genetic subsampling in phylogenetic studies.
- To enhance the accuracy and efficiency of phylogenetic tree construction by improving sample selection.
Main Methods:
- Development of TARDiS, a phylogenetic tool utilizing a genetic algorithm.
- Implementation of algorithms to optimize both genetic diversity and temporal distribution of selected samples.
Main Results:
- TARDiS provides an optimized approach to genetic subsampling.
- The tool effectively balances genetic diversity and temporal spread in sample selection.
Conclusions:
- TARDiS offers a robust solution for optimal genetic subsampling in phylogenetics.
- The tool is publicly available with datasets and a user manual for broad accessibility.
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