Jove
Visualize
Contact Us

Related Concept Videos

Genomic DNA in Prokaryotes00:46

Genomic DNA in Prokaryotes

43.9K
The genome of most prokaryotic organisms consists of double-stranded DNA organized into one circular chromosome in a region of cytoplasm called the nucleoid. The chromosome is tightly wound, or supercoiled, for efficient storage. Prokaryotes also contain other circular pieces of DNA called plasmids. These plasmids are smaller than the chromosome and often carry genes that confer adaptive functions, such as antibiotic resistance.
Genomic Diversity in Bacteria
Although bacterial genomes are much...
43.9K
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
Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

15.1K
A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
15.1K
Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

3.9K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
3.9K
Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes02:16

Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes

12.5K
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...
12.5K
Next-generation Sequencing03:00

Next-generation Sequencing

88.8K
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....
88.8K

You might also read

Related Articles

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

Sort by
Same author

Seqwin: ultrafast identification of signature sequences in microbial genomes.

Bioinformatics (Oxford, England)·2026
Same author

Kente: A Graph-based Pangenomic Approach for Horizontal Gene Transfer Detection in Microbiomes.

bioRxiv : the preprint server for biology·2026
Same author

The Vertebrate Genomes Project Phase I: A global reference genome resource.

bioRxiv : the preprint server for biology·2026
Same author

Harmonizing standards and resources for the medical genome.

Nature·2026
Same author

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

bioRxiv : the preprint server for biology·2026
Same author

Min-frame transformation enables more sensitive viral genome alignment.

bioRxiv : the preprint server for biology·2026
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: Jul 3, 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

2.2K

Parsnp 2.0: Scalable Core-Genome Alignment for Massive Microbial Datasets.

Bryce Kille, Michael G Nute, Victor Huang

    Biorxiv : the Preprint Server for Biology
    |February 14, 2024
    PubMed
    Summary

    Parsnp v2 enhances microbial genome alignment by introducing a partitioning option. This significantly reduces memory usage and runtime while maintaining alignment precision for large genomic datasets.

    More Related Videos

    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

    5.1K
    Metagenomic Analysis of Silage
    08:43

    Metagenomic Analysis of Silage

    Published on: January 13, 2017

    18.3K

    Related Experiment Videos

    Last Updated: Jul 3, 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

    2.2K
    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

    5.1K
    Metagenomic Analysis of Silage
    08:43

    Metagenomic Analysis of Silage

    Published on: January 13, 2017

    18.3K

    Area of Science:

    • Genomics
    • Bioinformatics
    • Computational Biology

    Background:

    • The number of available microbial reference genomes has rapidly increased since 2016.
    • Multiple genome alignment is crucial for downstream comparative genomic analyses.
    • Parsnp, a scalable multiple genome alignment tool, has not had a major release since 2014.

    Approach:

    • Developed Parsnp v2, an improved version of the original Parsnp tool.
    • Introduced a partitioning option for parallel processing of genome alignments.
    • Evaluated performance on large datasets of bacterial and viral genomes.

    Key Points:

    • Parsnp v2 offers enhanced user control for tailored alignments.
    • The partitioning feature reduces memory usage by over 4x and runtime by over 2x.
    • Partitioning improves robustness against assembly artifacts and minor variations.

    Conclusions:

    • Parsnp v2 addresses the need for scalable and efficient multiple genome alignment.
    • The new partitioning strategy enhances performance and precision for large-scale genomic studies.
    • Parsnp v2 is available for use in comparative genomic analyses.