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

Next-generation Sequencing

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.

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...

You might also read

Related Articles

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

Sort by

Same author

Stable lineages, rewired landscapes: single-cell and spatial multi-omics reveal developmental plasticity under abiotic stress.

The New phytologist·2026

Same author

PAM1 regulates meiosis by coupling RNA processing to the chromosome axis.

Proceedings of the National Academy of Sciences of the United States of America·2026

Same author

Zaxinone mimics boost growth and productivity of wheat under normal and low-nutrient regimes.

BMC plant biology·2026

Same author

Prognostic Role of Acute-on-Chronic Liver Failure in Acute Variceal Bleeding: A Multicenter Retrospective Study in Australia.

Gut and liver·2026

Same author

Synthetic Melanoma Image Generation and Evaluation Using Generative Adversarial Networks.

Bioengineering (Basel, Switzerland)·2026

Same author

Association of Biologic/Targeted-Synthetic DMARDs with a Lower Prevalence of Hand Joint Deformity in Rheumatoid Arthritis: A Cross-Sectional Real-World Study.

Medicina (Kaunas, Lithuania)·2026

Same journal

LSL-YOLO11n: a YOLO11n-based model for maize leaf disease detection in complex field environments.

Frontiers in plant science·2026

Same journal

Patterns of plastid gene evolution: identifying candidate genes for plastid-nuclear incompatibility across the Campanulaceae.

Frontiers in plant science·2026

Same journal

Assembly and comparative analysis of the complete mitochondrial genome of <i>Holmskioldia sanguinea</i>.

Frontiers in plant science·2026

Same journal

Genotypic resilience and fruit quality responses of tomato (<i>Solanum lycopersicum</i> L.) in progressive salinity stress across diverse cultivation conditions.

Frontiers in plant science·2026

Same journal

Growth history revealed by tree rings provides clues for the conservation of an endangered subtropical tree species.

Frontiers in plant science·2026

Same journal

Climate change reshapes habitat suitability of ancient tea trees in Yunnan: insights from an optimized MaxEnt model.

Frontiers in plant science·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Jun 26, 2026

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Published on: November 13, 2017

Establishing an optimized ATAC-seq protocol for the maize.

Jo-Wei Allison Hsieh^1,2, Pei-Yu Lin¹, Chi-Ting Wang¹

¹Institute of Plant and Microbial Biology, Academia Sinica, Taipei, Taiwan.

Frontiers in Plant Science

|June 12, 2024

Summary

This summary is machine-generated.

We developed a simple Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) protocol for maize. This method efficiently maps the chromatin landscape, aiding crop improvement and precise gene control strategies.

Keywords:

ATAC-seq protocol chromatin accessibility chromatin structure maize ATAC-seq next-generation sequencing

More Related Videos

ATAC-seq Assay with Low Mitochondrial DNA Contamination from Primary Human CD4+ T Lymphocytes

ATAC-seq Assay with Low Mitochondrial DNA Contamination from Primary Human CD4+ T Lymphocytes

Published on: March 22, 2019

ATAC-Seq Optimization for Cancer Epigenetics Research

ATAC-Seq Optimization for Cancer Epigenetics Research

Published on: June 30, 2022

Related Experiment Videos

Last Updated: Jun 26, 2026

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Published on: November 13, 2017

ATAC-seq Assay with Low Mitochondrial DNA Contamination from Primary Human CD4+ T Lymphocytes

ATAC-seq Assay with Low Mitochondrial DNA Contamination from Primary Human CD4+ T Lymphocytes

Published on: March 22, 2019

ATAC-Seq Optimization for Cancer Epigenetics Research

ATAC-Seq Optimization for Cancer Epigenetics Research

Published on: June 30, 2022

Area of Science:

Genomics
Plant Biology
Molecular Biology

Background:

Next-generation sequencing provides insights into chromatin structure, crucial for understanding gene activity in crop development and adaptation.
Maize exhibits dynamic chromatin structure linked to transcriptional variations, necessitating integration of chromatin data for precise gene control in breeding.

Purpose of the Study:

To develop an accessible and efficient Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) protocol for maize.
To enable precise assessment of the maize chromatin landscape for crop improvement applications.

Main Methods:

Developed a streamlined, four-step ATAC-seq protocol for maize requiring fewer nuclei and standard equipment.
Nuclei purification achieved without cell sorting, using only a standard bench-top centrifuge.
Bioinformatic analysis included validation by read length periodicity, key metrics, and correlation with transcript abundance.

Main Results:

Demonstrated a precise and efficient method for assessing the maize chromatin landscape.
The protocol successfully maps cis-regulatory elements crucial for crop improvement.
Validated the protocol's effectiveness through comprehensive bioinformatic analyses.

Conclusions:

The developed ATAC-seq protocol is easy-to-implement for maize, facilitating chromatin structure studies.
This method supports precise gene control strategies in crop breeding.
The protocol's design is adaptable for other crops and tissues, especially those with limited sample sizes.