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

Genomics02:02

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
RACE - Rapid Amplification of cDNA Ends02:35

RACE - Rapid Amplification of cDNA Ends

Rapid Amplification of cDNA Ends, or RACE, is one of the most effective methods to obtain a full-length cDNA from an mRNA sequence between a known internal region to the unknown sequence at the 5’ or 3’ end. The unknown region is cloned in the cDNA by a gene-specific primer that binds the known end, and a hybrid primer that attaches a predefined anchor sequence to the unknown end of the cDNA. The sequence in between is amplified by PCR with an anchor primer and a gene-specific primer.
Since the...
Sanger Sequencing01:57

Sanger Sequencing

DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
Next-generation Sequencing03:00

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-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...
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.

You might also read

Related Articles

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

Sort by
Same author

Phase II trial, multicenter, first-line paclitaxel-avelumab treatment of inoperable angiosarcoma (KCSG UN 18-15).

ESMO open·2026
Same author

Identifying predictive markers of head and neck squamous cell carcinoma in an umbrella trial (KCSG HN 15-16 TRIUMPH trial).

ESMO open·2025
Same author

Corrigendum to "An open-label, phase IB/II study of abemaciclib with paclitaxel for tumors with CDK4/6 pathway genomic alterations": [ESMO Open 10 (2025) 104106].

ESMO open·2025
Same author

Rethinking Experiences of Birth in Our Operating Theatre (REBOOT): A Qualitative Study of Patient and Staff Experiences of Birth in the Operating Theatre.

The Australian & New Zealand journal of obstetrics & gynaecology·2025
Same author

An open-label, phase IB/II study of abemaciclib with paclitaxel for tumors with CDK4/6 pathway genomic alterations.

ESMO open·2025
Same author

Pan-Asian adapted ESMO Clinical Practice Guidelines for the diagnosis, treatment and follow-up of patients with oncogene-addicted metastatic non-small-cell lung cancer.

ESMO open·2024
Same journal

Genetic and therapeutic control of diabetogenic CD8+ T cells.

Novartis Foundation symposium·2009
Same journal

Translating mucosal antigen based prevention of autoimmune diabetes to human.

Novartis Foundation symposium·2009
Same journal

Re-establishing immune tolerance in type 1 diabetes via regulatory T cells.

Novartis Foundation symposium·2009
Same journal

Immune markers of disease and therapeutic intervention in type 1 diabetes.

Novartis Foundation symposium·2009
Same journal

Towards a curative therapy in type 1 diabetes: remission of autoimmunity, maintenance and augmentation of beta cell mass.

Novartis Foundation symposium·2009
Same journal

CD8 and cytotoxic T cells in type 1 diabetes.

Novartis Foundation symposium·2009
See all related articles

Related Experiment Video

Updated: May 9, 2026

Obtaining High-Quality Transcriptome Data from Cereal Seeds by a Modified Method for Gene Expression Profiling
07:18

Obtaining High-Quality Transcriptome Data from Cereal Seeds by a Modified Method for Gene Expression Profiling

Published on: May 21, 2020

A framework for sequencing the rice genome.

G G Presting1, M A Budiman, T Wood

  • 1Clemson University Genomics Institute, 100 Jordan Hall, Clemson University, Clemson, SC 2963-5708, USA.

Novartis Foundation Symposium
|June 5, 2001
PubMed
Summary
This summary is machine-generated.

Researchers are nearing completion of a rice genome project, generating BAC end sequences and contigs. This work reveals surprising insights into rice genome organization, impacting future sequencing efforts.

More Related Videos

Genome-wide Analysis of Histone Modifications Distribution using the Chromatin Immunoprecipitation Sequencing Method in Magnaporthe oryzae
09:25

Genome-wide Analysis of Histone Modifications Distribution using the Chromatin Immunoprecipitation Sequencing Method in Magnaporthe oryzae

Published on: June 2, 2021

Breeding by Design for Functional Rice with Genome Editing Technologies
09:43

Breeding by Design for Functional Rice with Genome Editing Technologies

Published on: January 3, 2025

Related Experiment Videos

Last Updated: May 9, 2026

Obtaining High-Quality Transcriptome Data from Cereal Seeds by a Modified Method for Gene Expression Profiling
07:18

Obtaining High-Quality Transcriptome Data from Cereal Seeds by a Modified Method for Gene Expression Profiling

Published on: May 21, 2020

Genome-wide Analysis of Histone Modifications Distribution using the Chromatin Immunoprecipitation Sequencing Method in Magnaporthe oryzae
09:25

Genome-wide Analysis of Histone Modifications Distribution using the Chromatin Immunoprecipitation Sequencing Method in Magnaporthe oryzae

Published on: June 2, 2021

Breeding by Design for Functional Rice with Genome Editing Technologies
09:43

Breeding by Design for Functional Rice with Genome Editing Technologies

Published on: January 3, 2025

Area of Science:

  • Genomics
  • Plant Biology
  • Agricultural Science

Background:

  • Rice (Oryza sativa) is a crucial food crop and a model organism for cereal genomics.
  • Anticipating the international rice genome sequencing effort, Clemson University Genomics Institute initiated a framework project.
  • The project focuses on constructing and analyzing bacterial artificial chromosome (BAC) libraries for the Nipponbare cultivar.

Purpose of the Study:

  • To generate a foundational map of the rice genome.
  • To analyze unique and redundant genomic sequences.
  • To provide insights into genome organization relevant to large-scale sequencing.

Main Methods:

  • Construction of two bacterial artificial chromosome (BAC) libraries from Oryza sativa cv. Nipponbare.
  • Generation of over 100,000 BAC end sequences (28 Mbp total).
  • Fingerprinting and assembly of over 60,000 clones into contigs using FPC software, followed by chromosomal anchoring and hybridization experiments.

Main Results:

  • BAC end sequences represent 6.5% of the total rice genome, enabling initial conclusions on sequence redundancy.
  • Contig assembly and anchoring revealed robust contigs and provided insights into rice genome organization.
  • Integration of BAC end sequence data with anchored contigs offered unexpected revelations on chromosomal-level sequence organization.

Conclusions:

  • The project has generated significant genomic data and insights into rice genome structure.
  • Findings have substantial implications for the ongoing international rice genome sequencing effort.
  • The study highlights the utility of BAC libraries and contig mapping for understanding complex plant genomes.