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

Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

873
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...
873
Evolution of Microbial Genome01:08

Evolution of Microbial Genome

66
Microbial genome evolution is a highly dynamic process shaped by continual gene gain and loss across species and strains. This genomic flexibility allows microorganisms to adapt rapidly to environmental pressures and interactions with other organisms. Central to understanding this diversity is the distinction between the core and pan genomes.The core genome comprises the genes shared by all sampled strains of a species, representing essential functions needed for fundamental cellular processes.
66
Genomic DNA in Prokaryotes00:46

Genomic DNA in Prokaryotes

51.4K
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...
51.4K
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

22.3K
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.
22.3K
Applications of Molecular Taxonomy01:20

Applications of Molecular Taxonomy

713
Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
713
Genomics02:02

Genomics

42.0K
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...
42.0K

You might also read

Related Articles

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

Sort by
Same author

FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science.

Nature communications·2019
Same author

Axiom Microbiome Array, the next generation microarray for high-throughput pathogen and microbiome analysis.

PloS one·2019
Same author

Increased Discrimination of Treponema pallidum Strains by Subtyping With a 4-Component System Incorporating a Mononucleotide Tandem Repeat in rpsA.

Sexually transmitted diseases·2018
Same author

Pathogen surveillance in wild bottlenose dolphins Tursiops truncatus.

Diseases of aquatic organisms·2015
Same author

kSNP3.0: SNP detection and phylogenetic analysis of genomes without genome alignment or reference genome.

Bioinformatics (Oxford, England)·2015
Same author

Simulate_PCR for amplicon prediction and annotation from multiplex, degenerate primers and probes.

BMC bioinformatics·2014
Same journal

A PAT-aligned framework for installing and operating particle counting systems to detect pre-limit particle-size distribution shifts in ISO-8 (non-sterile) controlled areas.

PDA journal of pharmaceutical science and technology·2026
Same journal

Using Positive Controls to Define the Defect Detection Range for CCIT Method Development and Validation.

PDA journal of pharmaceutical science and technology·2026
Same journal

Patient-Centric Drug Delivery: Establishing Injection Hold Time Limits for Large Volume Autoinjectors.

PDA journal of pharmaceutical science and technology·2026
Same journal

Gas flow through micro-capillaries â which flow law is most suitable to predict the flow rate through micro-capillaries?

PDA journal of pharmaceutical science and technology·2026
Same journal

Peer Review.

PDA journal of pharmaceutical science and technology·2026
Same journal

In-situ Verification of Disinfection Rotation for Contamination Control.

PDA journal of pharmaceutical science and technology·2026
See all related articles

Related Experiment Video

Updated: Apr 19, 2026

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing
07:21

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing

Published on: August 25, 2018

13.6K

Bacterial genome reference databases: progress and challenges.

Tom Slezak1

  • 1Bioinformatics, Global Security Program, Lawrence Livermore National Lab, Livermore, CA. slezak@llnl.gov.

PDA Journal of Pharmaceutical Science and Technology
|December 6, 2014
PubMed
Summary
This summary is machine-generated.

Advanced molecular technologies offer enhanced microbial detection for human health safety. Establishing quality standards for genomic data and reference databases is crucial for their development and validation.

Keywords:
Broad-spectrum microarraysGenome reference databasesMetadataMultiplex-PCRNext-generation sequencing

More Related Videos

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

2.9K
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

6.1K

Related Experiment Videos

Last Updated: Apr 19, 2026

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing
07:21

Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing

Published on: August 25, 2018

13.6K
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

2.9K
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

6.1K

Area of Science:

  • Microbiology
  • Genomics
  • Bioinformatics

Background:

  • Accurate microbial detection is vital for human health, including vaccine safety, blood supply, and infectious disease diagnosis.
  • Current methods like single-target polymerase chain reaction (PCR) are insufficient for broad-spectrum microbial identification.
  • Emerging technologies like next-generation sequencing generate vast amounts of data, posing challenges for regulatory processes.

Purpose of the Study:

  • To address the need for advanced microbial detection technologies.
  • To highlight the challenges regulatory processes face with rapid technological advancements.
  • To discuss the critical requirement for quality standards in genomic data and metadata for reference databases.

Main Methods:

  • Review of current challenges in microbial detection.
  • Discussion of advanced technologies: highly-multiplexed PCR, DNA/RNA microarrays, next-generation sequencing.
  • Exploration of the data quality requirements for reference databases.

Main Results:

  • Advanced molecular techniques show promise for improved microbial detection.
  • Regulatory frameworks are lagging behind technological innovation.
  • The quality of genomic data and metadata is a key factor for database development and validation.

Conclusions:

  • High-quality reference databases are essential for the effective development and application of advanced microbial detection technologies.
  • Establishing clear quality standards is necessary to ensure the reliability of these technologies for public health.
  • Further efforts are needed to align regulatory processes with scientific advancements in microbial genomics.