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RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...

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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
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The technique...

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Related Experiment Video

Updated: Apr 4, 2026

Transcriptome Analysis of Single Cells

Transcriptome Analysis of Single Cells

Published on: April 25, 2011

RNA-seq based transcriptomic analysis of single bacterial cells.

Jiangxin Wang¹, Lei Chen¹, Zixi Chen¹

¹Laboratory of Synthetic Microbiology, School of Chemical Engineering & Technology, Tianjin University, Tianjin 300072, P. R. China. wwzhang8@tju.edu.cn and Key Laboratory of Systems Bioengineering, Ministry of Education of China, Tianjin 300072, P. R. China.

Integrative Biology : Quantitative Biosciences From Nano to Macro

|September 3, 2015

Summary

This summary is machine-generated.

Researchers developed a novel bacterial single-cell RNA sequencing (RNA-seq) method to analyze gene expression heterogeneity in cyanobacteria. This method revealed increasing gene expression variability in mobile elements under nitrogen starvation stress over time.

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Last Updated: Apr 4, 2026

Transcriptome Analysis of Single Cells

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Published on: April 25, 2011

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

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RIBO-seq in Bacteria: a Sample Collection and Library Preparation Protocol for NGS Sequencing

RIBO-seq in Bacteria: a Sample Collection and Library Preparation Protocol for NGS Sequencing

Published on: August 7, 2021

Area of Science:

Microbiology
Genomics
Molecular Biology

Background:

Gene-expression heterogeneity influences bacterial population dynamics.
Understanding single-cell responses to environmental stress is crucial.

Purpose of the Study:

To develop and apply a bacterial single-cell RNA sequencing (RNA-seq) method for analyzing gene expression heterogeneity.
To investigate gene expression changes in single cyanobacteria cells under nitrogen starvation stress.

Main Methods:

Developed BaSiC RNA-seq, a method for isolating, synthesizing cDNA, amplifying, and performing RNA-seq on single cyanobacterium cells (Synechocystis sp. PCC 6803).
Applied BaSiC RNA-seq to single cells and bulk controls at 24 and 72 hours post-nitrogen starvation.
Validated findings using single-cell RT-qPCR.

Main Results:

BaSiC RNA-seq successfully identified a high percentage of genes in single bacterial cells (82-98% at 24h, 31-48% at 72h).
Observed a potential increase in gene expression heterogeneity from 24h to 72h after nitrogen starvation.
Genes in the 'Mobile elements' category showed the most significant increase in expression heterogeneity upon stress.

Conclusions:

BaSiC RNA-seq is an effective method for studying single-cell transcriptomics in bacteria.
Environmental stress, like nitrogen starvation, can induce significant gene expression heterogeneity in bacterial populations.
Mobile genetic elements are particularly responsive to stress-induced heterogeneity.