Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Ribosome Profiling

Ribosome Profiling

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
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...

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...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Evolution trajectory of auxin response factor across Triticeae species underpin candidate genes for the regulation of salt/alkali stress responsive networks.

Plant cell reports·2026

Same author

TaSPL14-D diverged from its ortholog to regulate tiller angle in rice: a caveat for orthology-based functional inference.

Plant physiology·2026

Same author

Transcriptomic-based molecular classification of ampullary adenocarcinoma.

Cancer letters·2026

Same author

Direct resist-free patterning of an organic semiconductor via thermal scanning probe lithography.

Discover nano·2026

Same author

Development of Peroxymonosulfate Catalytic System and Photoenzymatic Catalytic System Utilizing Zn-Doped g-C<sub>3</sub>N<sub>4</sub> for the Degradation of Methylene Blue in Water.

Langmuir : the ACS journal of surfaces and colloids·2026

Same author

Prevalence and its associated factors of cancer-related fatigue among liver cancer patients: a cross-sectional study.

Scientific reports·2026

Search research articles

Related Experiment Video

Updated: Nov 30, 2025

An Easy Method for Plant Polysome Profiling

An Easy Method for Plant Polysome Profiling

Published on: August 28, 2016

Profiling Alternative 3' Untranslated Regions in Sorghum using RNA-seq Data.

Min Tu¹, Yin Li¹

¹Waksman Institute of Microbiology, Rutgers, The State University of New Jersey, Piscataway, NJ, United States.

Frontiers in Genetics

|November 16, 2020

Summary

This study profiles alternative 3' untranslated regions (3'UTRs) in sorghum using RNA-seq, revealing 612 high-confidence variants. These alternative 3'UTRs are linked to RNA modifications and show genotype specificity.

Keywords:

3′ untranslated regions RNA-seq alternative 3′UTR crop mRNA N6- methyladenosine sorghum transcriptome analysis

More Related Videos

Polysome Profiling without Gradient Makers or Fractionation Systems

Polysome Profiling without Gradient Makers or Fractionation Systems

Published on: June 1, 2021

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

Related Experiment Videos

Last Updated: Nov 30, 2025

An Easy Method for Plant Polysome Profiling

An Easy Method for Plant Polysome Profiling

Published on: August 28, 2016

Polysome Profiling without Gradient Makers or Fractionation Systems

Polysome Profiling without Gradient Makers or Fractionation Systems

Published on: June 1, 2021

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

Area of Science:

Plant molecular biology
Genomics
Transcriptomics

Background:

3' untranslated regions (3'UTRs) are crucial gene regulators affecting mRNA translation, transport, and stability.
Transcriptome-wide 3'UTR studies are limited in sorghum, despite its importance for food, feed, and fuel.
Previous sorghum research extensively utilized Illumina short-read sequencing for transcriptome characterization.

Purpose of the Study:

To profile alternative 3'UTRs at the transcriptome level in sorghum.
To investigate the relationship between alternative 3'UTRs and RNA N⁶-methyladenosine (m⁶A) modification.
To explore the genotype specificity of alternative 3'UTR usage in sorghum.

Main Methods:

RNA sequencing (RNA-seq) was employed to analyze transcriptomes.
Alternative 3'UTRs were identified and quantified across three sorghum lines (Rio, BTx406, R9188).
Statistical analysis was used to determine high-confidence alternative 3'UTRs and their overlap with m⁶A-associated genes.

Main Results:

A total of 1,197 transcripts with alternative 3'UTRs were detected.
612 high-confidence alternative 3'UTRs were identified.
Significant overlap was observed between alternative 3'UTR genes and those associated with m⁶A modification.
Evidence for genotype-specific usage of alternative 3'UTRs was found.

Conclusions:

This study provides the first transcriptome-wide profiling of alternative 3'UTRs in sorghum using standard RNA-seq.
Alternative 3'UTR usage is linked to m⁶A modification in sorghum.
Alternative 3'UTR profiles exhibit genotype specificity in sorghum, offering insights into crop regulation.