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DNA Bacteriophages

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Bacteriophages, or phages, are viruses that specifically infect bacteria, utilizing their genetic material to hijack host cellular machinery for replication. DNA bacteriophages employ single-stranded DNA (ssDNA) or double-stranded DNA (dsDNA) genomes. These phages exhibit diverse replication strategies and host interactions, influencing their ecological roles and applications in biotechnology and medicine.ssDNA BacteriophagesssDNA phages, with their small genomes, utilize unique strategies to...

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Updated: Mar 22, 2026

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

Published on: June 11, 2015

High-resolution phage-host assignment through key proteins using large language models.

Zhihua Du¹, Min Li^2,3,4,5, Kaihuang Lin¹

¹College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, 518060, China.

Nature Communications

|March 21, 2026

Summary

This summary is machine-generated.

VirHost Hunter accurately identifies phage hosts using protein features, advancing virome research. This method enhances phage host assignments and aids in developing targeted microbiome therapies.

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Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

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A Protocol for Phage Display and Affinity Selection Using Recombinant Protein Baits

A Protocol for Phage Display and Affinity Selection Using Recombinant Protein Baits

Published on: February 16, 2014

Area of Science:

Virology
Bioinformatics
Microbiome research

Background:

Vast numbers of viral sequences are uncharacterized, limiting understanding of their roles and applications.
Existing methods struggle with incomplete viral genomes and identifying host interactions.

Purpose of the Study:

To develop an innovative framework, VirHost Hunter, for efficient and high-resolution phage host assignment.
To improve the prediction accuracy of phage-host interactions by analyzing protein functional homology.

Main Methods:

Utilized Protein Language Models and Vision Transformers to analyze phage tails and lysins.
Bypassed the need for complete viral genomes, focusing on conserved protein domains.
Calibrated VirHost Hunter on disease-associated gut bacteria datasets.

Main Results:

VirHost Hunter significantly improved phage host assignments, doubling previous capabilities.
Expanded the taxonomic reach of identified phages, including those targeting Akkermansia and Prevotella.
Established a gut phage lysin database and synthesized a specific lysin targeting an obesity-promoting bacterium.

Conclusions:

VirHost Hunter offers a precise and scalable solution for virome research.
The framework advances the potential for developing novel microbiome-based therapies.
This work highlights the importance of protein functional homology in predicting phage-host relationships.