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

Genomic DNA in Prokaryotes00:46

Genomic DNA in Prokaryotes

48.1K
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...
48.1K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

6.8K
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...
6.8K
Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

536
Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
536
DNA Bacteriophages01:26

DNA Bacteriophages

726
Bacteriophages, or phages, are viruses that specifically infect bacteria, utilizing their genetic material to hijack host cellular machinery for replication. DNA bacteriophages employ single-stranded DNA (ssDNA) or double-stranded DNA (dsDNA) genomes. These phages exhibit diverse replication strategies and host interactions, influencing their ecological roles and applications in biotechnology and medicine.ssDNA BacteriophagesssDNA phages, with their small genomes, utilize unique strategies to...
726
Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes02:16

Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes

15.0K
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...
15.0K
Genome Size and the Evolution of New Genes03:21

Genome Size and the Evolution of New Genes

8.9K
While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
8.9K

You might also read

Related Articles

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

Sort by
Same author

Comparative assessment of different traps performance for capturing the New World screwworm fly.

Journal of medical entomology·2026
Same author

Characterization of ovine abortion in Uruguay reveals extensive non-clonal diversity and multiple evolutionary origins of Toxoplasma gondii.

Scientific reports·2026
Same author

Impact of timely vaccination and genomic surveillance on controlling consecutive waves of SARS-CoV-2 variants.

Scientific reports·2026
Same author

Field evaluation of Nzi and modified Nzi traps for sampling of Stomoxys calcitrans at dairy farms in Uruguay.

Medical and veterinary entomology·2026
Same author

A Latin American perspective on microbiome research.

Nature communications·2025
Same author

A novel real-time PCR for New World screwworm fly (Cochliomyia hominivorax) and its application in a non-destructive multiplex for efficient detection of screwworm flies.

Medical and veterinary entomology·2025

Related Experiment Video

Updated: Jan 6, 2026

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

2.7K

simurg: simulate bacterial pangenomes in R.

Ignacio Ferrés1, Pablo Fresia1,2, Gregorio Iraola1,3,4

  • 1Microbial Genomics Laboratory, Institut Pasteur Montevideo, Uruguay.

Bioinformatics (Oxford, England)
|October 5, 2019
PubMed
Summary

Researchers developed simurg, an R package to simulate bacterial pangenome variability. This tool aids in analyzing genetic diversity and evolutionary hypotheses using gene gain, loss, and mutation models.

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

5.7K
Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins
09:40

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

Published on: June 11, 2015

12.7K

Related Experiment Videos

Last Updated: Jan 6, 2026

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

2.7K
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

5.7K
Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins
09:40

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

Published on: June 11, 2015

12.7K

Area of Science:

  • Microbial genomics
  • Bioinformatics
  • Evolutionary biology

Background:

  • The pangenome concept is crucial for bacterial population comparative analysis, representing the union of genes across multiple genomes.
  • Current limitations exist in tools for simulating pangenome variability and structure under defined evolutionary models.

Purpose of the Study:

  • To develop a computational tool for simulating bacterial pangenomes.
  • To enable the study of pangenome variability using defined evolutionary constraints.

Main Methods:

  • Development of simurg, an R package.
  • Implementation of simulation parameters including gene gain, gene loss, and mutation rates.
  • Utilizes real sequence data for simulation.

Main Results:

  • simurg allows straightforward and reproducible simulation of bacterial pangenomes.
  • The package facilitates benchmarking of pangenome software.
  • Enables comparison of different evolutionary hypotheses.

Conclusions:

  • simurg provides a valuable resource for researchers studying bacterial population genetics.
  • The tool supports the investigation of evolutionary processes shaping bacterial genomes.