Host-associated Microbiota

Host-associated microbiota are communities of microorganisms that live on or within a host, where they influence health, development, and disease. These bacteria, archaea, fungi, and viruses interact with host tissues and each other through nutrient exchange, metabolite production, immune signaling, and competition for space and resources. In biology, studying these communities helps explain processes such as colonization resistance, digestion, immune-system maturation, and infection susceptibility. Microbiota profiling and experimental manipulation support research into host-microbe interactions, disease mechanisms, probiotics, personalized medicine, and therapies that modify microbial communities to improve host function.

Host-associated Microbiota - Related Videos

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JoVE EoE - Immune Response

An Ex Vivo Gut Organ Culture System to Study Host-Microbiota Interactions

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2025

In this video, we describe the methodology for setting up an ex vivo gut organ culture system to study the interactions between mouse intestinal tissue fragments and specific gut bacteria. The device consists of two pairs of input-output ports, the first connecting the intestinal tissue lumen and supplying the specific bacterial suspension into it, and the second continuously supplying media to the device's wells to maintain ex vivo tissue viability.

An Intestinal Gut Organ Culture System for Analyzing Host-Microbiota Interactions

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Cited by 5 •

2021

This article presents a unique method for analyzing host-microbiome interactions using a novel gut organ culture system for ex vivo experiments.

A Method to Assess Bacteriocin Effects on the Gut Microbiota of Mice

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Cited by 9 •

2017

Bacteriocins are believed to play a key role in defining microbial diversity in different ecological niches. Here, we describe an efficient procedure to assess how bacteriocins affect gut microbiota composition in an animal model.

Assessing the Role of Gut Microbiota in Modulating Hepatitis B Infection in Mice

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2026

Take a control mouse with a normal gut microbiota and an experimental mouse with depleted gut microbiota. The depletion compromises the integrity of the gut barrier.This enables bacteria to translocate through the blood vessel into the liver tissue.Inject both mice with the hepatitis B virus or HBV plasmid to induce an HBV infection in the liver tissue.In the control mouse, the T cell detects an infected liver cell through the interaction of its receptors with viral antigens, and produces...

Research

JoVE Journal - Immunology and Infection
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Visualization of Gut Microbiota-host Interactions via Fluorescence In Situ Hybridization, Lectin Staining, and Imaging

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Cited by 10 •

2021

This streamlined protocol details a workflow to detect and image bacteria in complex tissue samples, from fixing the tissue to staining microbes with fluorescent in situ hybridization.

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