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

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

5.7K
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...
5.7K
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

18.8K
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.
18.8K
Karyotyping01:17

Karyotyping

58.3K
Overview
58.3K
Genomics02:02

Genomics

36.1K
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...
36.1K
Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes02:16

Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes

12.0K
The present-day mitochondrial and chloroplast genomes have retained some of the characteristics of their ancestral prokaryotes and also have acquired new attributes during their evolution within eukaryotic cells. Like prokaryotic genomes, mitochondrial and chloroplast genomes neither bind with histone-like proteins nor show complex packaging into chromosome-like structures, as observed in eukaryotes. Unlike mitotic cell divisions observed in eukaryotic cells, mitochondria and chloroplasts...
12.0K
Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

12.6K
Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...
12.6K

You might also read

Related Articles

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

Sort by
Same author

Tandem repeat variation within and between species reveals signatures of selection in humans and chimpanzees.

bioRxiv : the preprint server for biology·2026
Same author

Phylo-mobilome Analysis Provide Insights into Transposon Dynamics, Adaptation and Impact on Host Genomes in Solanaceae.

Plant physiology·2026
Same author

A Pan-pangenome illuminates complex structural variation and selection in humans, chimpanzees, and bonobos.

bioRxiv : the preprint server for biology·2026
Same author

Biosynthetic gene clusters in <i>Pseudomonas viridiflava</i> have a fitness cost during <i>Arabidopsis thaliana</i> infection.

mSystems·2026
Same author

Population-scale Y chromosome assemblies reveal recurrent remodeling within constrained architectures.

bioRxiv : the preprint server for biology·2026
Same author

Teosinte alleles enhance nitrogen assimilation and seed protein in maize.

Nature·2026
Same journal

RNAbpFlow: base pair-augmented SE(3) flow matching for conditional RNA 3D structure generation.

Nature methods·2026
Same journal

Spatio-DARLIN enables robust and efficient in situ lineage tracing in mice at single-cell resolution.

Nature methods·2026
Same journal

EasyGrid: a versatile platform for automated cryo-EM sample preparation and quality control.

Nature methods·2026
Same journal

Cloud-based microscope enables live neuroimaging for 24 h and beyond with worldwide access.

Nature methods·2026
Same journal

Deep molecular profiling in three dimensions.

Nature methods·2026
Same journal

3D pathology-guided microdissection.

Nature methods·2026
See all related articles

Related Experiment Video

Updated: Jun 9, 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

2.1K

Building pangenome graphs.

Erik Garrison1, Andrea Guarracino2,3, Simon Heumos4,5,6

  • 1Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA. egarris5@uthsc.edu.

Nature Methods
|October 21, 2024
PubMed
Summary
This summary is machine-generated.

We created a new pipeline to build pangenome graphs, overcoming limitations of previous methods. This tool represents all genomic variation without bias, enabling better analysis of complex sequences and evolutionary relationships.

More Related Videos

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

11.6K
Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

5.0K

Related Experiment Videos

Last Updated: Jun 9, 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

2.1K
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

11.6K
Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

5.0K

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Pangenome graphs are crucial for representing genomic diversity across multiple species.
  • Existing pangenome graph construction methods often exclude complex genomic regions or rely on a single reference genome, limiting their comprehensive representation of variation.

Purpose of the Study:

  • To develop a novel pipeline, the PanGenome Graph Builder, for constructing unbiased and inclusive pangenome graphs.
  • To overcome the limitations of current pangenome graph approaches that exclude complex sequences or are reference-genome-dependent.

Main Methods:

  • The PanGenome Graph Builder pipeline was developed for constructing pangenome graphs.
  • It utilizes all-to-all sequence alignments to build a comprehensive variation graph.
  • This approach facilitates the identification of genetic variations and conserved regions.

Main Results:

  • The developed pipeline successfully constructs pangenome graphs without bias or exclusion of complex sequences.
  • The resulting variation graph allows for detailed analysis, including variation identification and conservation measurement.
  • The pipeline also enables the detection of recombination events and inference of phylogenetic relationships.

Conclusions:

  • The PanGenome Graph Builder provides a robust method for creating comprehensive pangenome graphs.
  • This tool enhances the ability to analyze genomic variation, conservation, and evolutionary history across multiple genomes.
  • It represents a significant advancement in pangenome graph construction for genomic research.