Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

RNA-seq03:21

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...

You might also read

Related Articles

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

Sort by
Same author

A deep learning model captures position-specific preferences of plant regulatory sequences and suggests genes under complex regulation.

Plant physiology·2026
Same author

Palliative Care Coaching for Family Caregivers of Patients With Advanced Cancer: A Randomized Clinical Trial.

JAMA network open·2026
Same author

Larval antibiosis to cabbage stem flea beetle (Psylliodes chrysocephala) is absent within oilseed rape (Brassica napus).

Pest management science·2026
Same author

Integrating family integrated care into neonatal practice: nursing experiences and education program development-A qualitative study.

Frontiers in pediatrics·2026
Same author

Natural variation in Arabidopsis uncouples leaf and flower development and reveals massive transcriptomic heterochrony.

Journal of experimental botany·2026
Same author

Decision support training for chronic kidney disease dyads: the ImPart Study protocol.

Pilot and feasibility studies·2025

Related Experiment Video

Updated: May 9, 2026

A Nonsequencing Approach for the Rapid Detection of RNA Editing
08:50

A Nonsequencing Approach for the Rapid Detection of RNA Editing

Published on: April 21, 2022

Sequencing-based variant detection in the polyploid crop oilseed rape.

Rachel Wells1, Martin Trick, Fiona Fraser

  • 1John Innes Centre, Norwich Research Park, Norwich NR4 7UH, UK.

BMC Plant Biology
|August 7, 2013
PubMed
Summary

This study introduces a cost-effective method using barcoded amplification tags (BATs) for sequencing PCR products, enabling efficient genetic variation screening in crops. The approach facilitates SNP genotyping and mutation detection, even in complex polyploid genomes.

More Related Videos

An Efficient Method for the Isolation of Highly Purified RNA from Seeds for Use in Quantitative Transcriptome Analysis
06:31

An Efficient Method for the Isolation of Highly Purified RNA from Seeds for Use in Quantitative Transcriptome Analysis

Published on: January 11, 2017

Assessment of DNA Contamination in RNA Samples Based on Ribosomal DNA
13:16

Assessment of DNA Contamination in RNA Samples Based on Ribosomal DNA

Published on: January 22, 2018

Related Experiment Videos

Last Updated: May 9, 2026

A Nonsequencing Approach for the Rapid Detection of RNA Editing
08:50

A Nonsequencing Approach for the Rapid Detection of RNA Editing

Published on: April 21, 2022

An Efficient Method for the Isolation of Highly Purified RNA from Seeds for Use in Quantitative Transcriptome Analysis
06:31

An Efficient Method for the Isolation of Highly Purified RNA from Seeds for Use in Quantitative Transcriptome Analysis

Published on: January 11, 2017

Assessment of DNA Contamination in RNA Samples Based on Ribosomal DNA
13:16

Assessment of DNA Contamination in RNA Samples Based on Ribosomal DNA

Published on: January 22, 2018

Area of Science:

  • Genomics
  • Plant Breeding
  • Molecular Biology

Background:

  • Genetic variation is crucial for crop improvement, but polyploid genomes pose challenges for gene analysis.
  • Existing methods for variation screening in crops can be limited by genomic complexity.

Purpose of the Study:

  • To develop a novel amplicon sequencing methodology using barcoded amplification tags (BATs) to overcome challenges in analyzing genetic variation in polyploid crops.
  • To enable cost-effective and efficient screening of large populations for genetic markers and mutations.

Main Methods:

  • Developed a protocol for tagging PCR products with oligonucleotide barcode extensions.
  • Created a computational method for de-convoluting pooled products and detecting sequence variants.
  • Applied the methodology to screen a *B. napus* mapping population for markers and a mutation population for induced mutations.

Main Results:

  • Successfully developed and validated a protocol for barcoded amplification tag (BAT) incorporation and sequencing.
  • Demonstrated robust detection and scoring of sequence variants in *B. napus* mapping and mutation populations.
  • Identified 24 markers in the mapping population and detected 10 and 41 mutants in specific gene loci within the mutation population.

Conclusions:

  • Utilizing barcode tags for pooled PCR products in multiplexed sequencing offers a cost-effective approach for SNP genotyping and mutation detection.
  • This method is effective for variation screening, including identifying causative genetic changes, even in polyploid species.
  • Integration with existing Illumina workflows allows for high-throughput, efficient, and economical analysis of thousands of plant lines.