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Updated: Jun 6, 2026

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions

Published on: March 5, 2022

[Transcriptome analysis of bacterial pathogens in vivo: problems and solutions].

T A Skvortsov, T L Azhikina

Bioorganicheskaia Khimiia

|November 11, 2010

Summary

This review explores whole-transcriptome analysis for intracellular pathogens like Mycobacterium tuberculosis. It details RNA enrichment, cDNA synthesis, and RNA-seq methods for in vivo studies.

Area of Science:

Microbiology
Molecular Biology
Genomics

Context:

Intracellular pathogens pose significant challenges for transcriptomic analysis.
Understanding pathogen gene expression in vivo is crucial for developing effective treatments.
Current methods require specialized techniques for bacterial RNA isolation and analysis.

Purpose:

To review modern strategies for whole-transcriptome investigation of intracellular pathogens in vivo.
To detail methods for bacterial RNA enrichment, cDNA synthesis, and high-throughput RNA sequencing.
To discuss the application of these methods using Mycobacterium tuberculosis as a model.

Summary:

This review covers advanced techniques for analyzing the complete RNA content of intracellular bacteria within a host.

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Last Updated: Jun 6, 2026

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions

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Gene Expression Profiling of Infecting Microbes Using a Digital Bar-coding Platform

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Published on: January 13, 2016

Using a Bacterial Pathogen to Probe for Cellular and Organismic-level Host Responses

Using a Bacterial Pathogen to Probe for Cellular and Organismic-level Host Responses

Published on: February 22, 2019

It elaborates on methods for isolating bacterial RNA, converting it to complementary DNA (cDNA), and performing high-throughput sequencing (RNA-seq).

Examples from Mycobacterium tuberculosis infection models illustrate the practical application and comparison of different approaches.

Impact:

Provides a comprehensive guide to state-of-the-art transcriptomic methodologies for studying bacterial pathogens.
Facilitates deeper understanding of bacterial adaptation and virulence mechanisms during infection.
Aids in the identification of novel therapeutic targets and strategies against intracellular bacterial infections.