Jove
Visualize
Contact Us

Related Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

6.4K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
6.4K
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

19.5K
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.
19.5K

You might also read

Related Articles

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

Sort by
Same author

Genome-Wide Association Study: A Soybean Example.

Methods in molecular biology (Clifton, N.J.)·2025
Same author

Isolation and Sequencing of Chromosome Arm 7RS of Rye, <i>Secale cereale</i>.

International journal of molecular sciences·2022
Same author

Method for Genome-Wide Association Study: A Soybean Example.

Methods in molecular biology (Clifton, N.J.)·2020
Same journal

Mapping the 3D Chromosome Organization of a Biosynthetic Gene Cluster by Capture Hi-C (CHi-C).

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Mapping the 3D Chromosome Organization of Streptomyces by Hi-C.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

CUT&Tag Epigenomic Profiling of Biosynthetic Gene Clusters in Arabidopsis thaliana.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Rhizobium rhizogenes-Mediated Hairy Root Transformation Protocol for Lotus japonicus and Other Legumes.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Characterization of Bioactive Saponins from Sea Cucumbers.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Methods for Functional Validation of Terpenoid Metabolic Clusters in Nicotiana benthamiana and Aspergillus oryzae.

Methods in molecular biology (Clifton, N.J.)·2026
See all related articles
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 Experiment Video

Updated: Oct 6, 2025

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
08:03

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

2.5K

Making a Pangenome Using the Iterative Mapping Approach.

Cassandria Tay Fernandez1

  • 1School of Biological Sciences, The University of Western Australia, Perth, WA, Australia. cassandria.tayfernandez@research.uwa.edu.au.

Methods in Molecular Biology (Clifton, N.J.)
|January 17, 2022
PubMed
Summary
This summary is machine-generated.

Pangenomes provide a comprehensive view of species diversity, surpassing single reference genomes. This protocol details an iterative mapping method for constructing accurate pangenomes from raw genetic data.

Keywords:
BioinformaticsIterative mappingPangenomePangenomicsPlant genome

More Related Videos

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
09:10

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

9.3K
High-throughput Physical Mapping of Chromosomes using Automated in situ Hybridization
08:48

High-throughput Physical Mapping of Chromosomes using Automated in situ Hybridization

Published on: June 28, 2012

11.8K

Related Experiment Videos

Last Updated: Oct 6, 2025

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
08:03

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

2.5K
A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
09:10

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

9.3K
High-throughput Physical Mapping of Chromosomes using Automated in situ Hybridization
08:48

High-throughput Physical Mapping of Chromosomes using Automated in situ Hybridization

Published on: June 28, 2012

11.8K

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Single reference genomes limit the understanding of species diversity.
  • Pangenomes offer a more complete representation of genetic variation within a species.

Purpose of the Study:

  • To present a protocol for constructing a pangenome using an iterative mapping approach.
  • To guide researchers in utilizing pangenomes as advanced genetic references.

Main Methods:

  • Data quality assessment of raw sequencing reads.
  • Alignment of sequencing data to a reference genome.
  • Iterative assembly of pangenome components.
  • Contaminant identification and removal from the final pangenome assembly.

Main Results:

  • A robust protocol for pangenome construction.
  • Improved methods for handling genetic diversity in reference datasets.
  • Guidelines for data processing and quality control in pangenome projects.

Conclusions:

  • Pangenomes are essential for capturing the full spectrum of genetic diversity.
  • The iterative mapping approach provides a standardized method for pangenome construction.
  • This protocol facilitates the use of pangenomes in various biological and medical research areas.