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Related Concept Videos

Human Virome01:26

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The human body harbors a vast and diverse viral community known as the human virome. The virome includes bacteriophages that infect bacteria, and eukaryotic viruses that infect human cells. Transient dietary and environmental viruses also contribute to this dynamic ecosystem. Estimates suggest the human body may contain on the order of 10¹³ viral particles, though abundance varies widely by body site and detection method.Comprehensive characterization of the virome has become possible...
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Microbial communities, comprising bacteria, archaea, and eukaryotic microorganisms, inhabit diverse ecosystems and play crucial roles in environmental and biological processes. Their diversity is defined by three main parameters: species richness (the number of distinct species), species abundance (the relative quantity of each species), and species evenness (how uniformly individual species are distributed in various locations). These factors together shape the structure and ecological balance...
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Related Experiment Video

Updated: Mar 25, 2026

Exploring the Root Microbiome: Extracting Bacterial Community Data from the Soil, Rhizosphere, and Root Endosphere
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SS-VIME: a single-source virome-microbiome extraction protocol toward comprehensive soil community analysis.

Abdonaser Poursalavati1,2, Isabelle Laforest-Lapointe2, Mamadou Lamine Fall1

  • 1Saint-Jean-sur-Richelieu Research and Development Centre, Agriculture and Agri-Food Canada, Saint-Jean-sur-Richelieu, Quebec, Canada.

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|March 24, 2026
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Summary
This summary is machine-generated.

A new single-source extraction protocol (SS-VIME) unifies soil microbiome and virome analysis. This method reduces bias and improves understanding of virus-host dynamics in soil ecosystems.

Keywords:
cellulose column chromatographydsRNAnucleic acid extractionsingle-source extractionsoil microbiomesoil viromeunified protocolviromics

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Area of Science:

  • Soil microbiology and virology
  • Molecular ecology
  • Bioinformatics

Background:

  • Soil microbial and viral communities are crucial for ecosystem function.
  • Spatial heterogeneity in soil creates significant bias in separate extraction methods.
  • Existing workflows hinder integrated analysis of soil microbiomes and viromes.

Purpose of the Study:

  • To develop a unified protocol for simultaneous soil virome and microbiome profiling.
  • To overcome limitations of separate extraction workflows and subsampling strategies.
  • To provide a robust platform for investigating in situ virus-host dynamics.

Main Methods:

  • Developed Single-Source Extraction for Unified Soil Virome-Microbiome Profiling (SS-VIME).
  • Utilized extended cellulose column chromatography for sequential DNA and dsRNA elution.
  • Validated with spiked samples (microbial standard, viral dsRNA) and environmental soil.

Main Results:

  • SS-VIME accurately recovered bacterial (16S rRNA) and fungal (ITS) DNA profiles.
  • The dsRNA fraction specifically recovered the target viral signature.
  • Protocol successfully characterized complex native soil communities, minimizing subsample bias.

Conclusions:

  • SS-VIME offers a streamlined, unified approach for isolating high-quality nucleic acids.
  • Using dsRNA as a proxy for viral activity provides a more accurate virome profile.
  • This method enables robust investigation of virus-host interactions and soil ecosystem dynamics.