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Updated: Jun 8, 2026

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

Published on: June 11, 2015

Mosaic graphs and comparative genomics in phage communities.

Mahdi Belcaid¹, Anne Bergeron, Guylaine Poisson

¹Information and Computer Sciences, University of Hawaii, Honolulu, HI, USA.

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology

|September 30, 2010

Summary

Virus genomes form complex mosaics through extensive sequence sharing with multiple partners, creating diverse communities. Mosaic graphs reveal the extent of this sharing and its impact on viral evolution and metagenomics.

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Area of Science:

Virology
Genomics
Bioinformatics

Background:

Closely related viral genomes often exhibit mosaic structures with alternating identical and unique sequences.
Comparative analysis of multiple viral genomes reveals widespread sequence sharing, forming complex mosaic communities.

Purpose of the Study:

To analyze sequence sharing patterns in Staphylococcus aureus phages.
To introduce mosaic graphs for visualizing complex viral recombination events.
To understand the implications of sequence sharing on viral evolution and metagenomics.

Main Methods:

Comparative genomic analysis of Staphylococcus aureus phages.
Development and application of mosaic graphs to represent sequence sharing and recombination.
Identification of breakpoints in viral genomes.

Main Results:

Staphylococcus aureus phages share large identical sequences with multiple other genomes.
Mosaic graphs illustrate extensive sequence sharing, with some genomes composed almost entirely of shared sequences.
Genomes with shared sequences can incorporate alternate functional modules, and breakpoints were identified.

Conclusions:

Viral sequence sharing creates complex mosaic communities with implications for horizontal gene transfer.
Mosaic graphs are valuable tools for understanding viral evolution and composition.
Findings impact phage metagenomics assembly and the study of virus community dynamics.