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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 microarray-based...

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Related Experiment Video

Updated: May 14, 2026

2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications

2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications

Published on: July 10, 2020

Deep sequencing from hen1 mutants to identify small RNA 3' modifications.

J Zhai¹, B C Meyers

¹Department of Plant & Soil Sciences, and Delaware Biotechnology Institute, University of Delaware, Newark, Delaware 19711, USA.

Cold Spring Harbor Symposia on Quantitative Biology

|February 9, 2013

Summary

This summary is machine-generated.

MicroRNA (miRNA) turnover is poorly understood due to challenges in studying these ephemeral molecules. The HEN1 protein protects small RNAs (sRNAs) from degradation, and hen1 mutants offer a new platform for miRNA decay research.

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Last Updated: May 14, 2026

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Area of Science:

Molecular Biology
Genetics
Biochemistry

Background:

MicroRNAs (miRNAs) regulate gene expression by targeting messenger RNAs, impacting crucial biological processes in plants and animals.
While miRNA biogenesis is understood, miRNA turnover and decay pathways remain largely uncharacterized.
The HEN1 protein plays a protective role by methylating the 3' end of small RNAs (sRNAs), preventing polyuridylation and degradation.

Purpose of the Study:

To investigate the poorly understood mechanisms of miRNA turnover.
To leverage hen1 mutants as a model system for studying miRNA decay.
To characterize 3' modifications of sRNAs with high precision.

Main Methods:

Utilizing deep sequencing technology to analyze small RNAs (sRNAs) in hen1 mutants.
Comparing sRNA populations in wild-type and hen1 mutant backgrounds.
Analyzing 3' end modifications of sRNAs.

Main Results:

Deep sequencing of sRNAs in hen1 mutants provides a novel platform for studying miRNA turnover.
The study offers unprecedented precision in characterizing 3' modifications of sRNAs.
HEN1's role in protecting sRNAs from degradation is further elucidated.

Conclusions:

Hen1 mutants are a valuable tool for dissecting miRNA decay pathways.
Deep sequencing of sRNAs in these mutants enables detailed analysis of miRNA turnover.
Understanding miRNA turnover is crucial for comprehending gene regulation in eukaryotes.