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RNA-seq

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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.
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Related Experiment Video

Updated: Nov 15, 2025

High Throughput Yeast Strain Phenotyping with Droplet-Based RNA Sequencing

High Throughput Yeast Strain Phenotyping with Droplet-Based RNA Sequencing

Published on: May 21, 2020

Yeast Single-cell RNA-seq, Cell by Cell and Step by Step.

Mariona Nadal-Ribelles^1,2,3,4, Saiful Islam^1,2, Wu Wei^1,2,5

¹Department of Genetics, Stanford University, School of Medicine, California, USA.

|March 3, 2021

Summary

We developed yscRNA-seq, an inexpensive and high-throughput single-cell RNA sequencing (scRNA-seq) method for yeast. This protocol addresses challenges in yeast transcriptomics, enabling detailed molecular analysis of single cells.

Keywords:

Noncoding RNA Single-cell RNA-seq Transcript isoforms Transcriptomics Yeast

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Last Updated: Nov 15, 2025

High Throughput Yeast Strain Phenotyping with Droplet-Based RNA Sequencing

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Published on: May 21, 2020

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Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

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Published on: January 7, 2020

Area of Science:

Molecular Biology
Genomics
Biotechnology

Background:

Single-cell RNA sequencing (scRNA-seq) reveals cellular heterogeneity.
Yeast presents unique challenges for scRNA-seq due to small size and low RNA content.
Existing scRNA-seq methods have limitations for microbial research.

Purpose of the Study:

To present a detailed protocol for yeast single-cell RNA sequencing (yscRNA-seq).
To offer an accessible, high-throughput method for analyzing yeast heterogeneity.
To facilitate the adoption of scRNA-seq in yeast research.

Main Methods:

Developed a cost-effective, high-throughput yeast single-cell RNA sequencing (yscRNA-seq) protocol.
Integrated index sorting for single-cell phenotyping.
Incorporated unique molecule identifiers for precise transcript quantification.

Main Results:

The yscRNA-seq protocol is detailed step-by-step for experimental and computational procedures.
The method allows for strand- and isoform-specific digital counting of RNA molecules.
The protocol is designed to be easily implemented in other laboratories.

Conclusions:

The yscRNA-seq protocol overcomes technical hurdles in yeast transcriptomics.
This method enables deep insights into yeast cellular heterogeneity.
The protocol serves as a foundation for developing new single-cell technologies for microorganisms.