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

Gene Regulation in Microbial Communities: Quorum Sensing01:28

Gene Regulation in Microbial Communities: Quorum Sensing

713
Quorum sensing is a mechanism of bacterial communication that enables coordinated gene expression in response to changes in population density. This facilitates collective behaviors that enhance survival, resource acquisition, and ecological adaptation. This process relies on small signaling molecules called autoinducers that accumulate as bacterial populations grow. When a critical threshold concentration of autoinducers is reached, bacterial cells collectively modify gene expression,...
713
Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

8.2K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
8.2K
The Tree of Life - Bacteria, Archaea, Eukaryotes02:40

The Tree of Life - Bacteria, Archaea, Eukaryotes

39.5K
The “tree of life” describes the evolution of life and the evolutionary relationships between organisms. The root of the tree is the common ancestor to all life on Earth. All other species radiate from this point, much like the branches of a tree. The numerous tips of these branches on the tree of life represent every living, or extant, species. Extinct species, which are species that no longer exist, can be found towards the center of the tree. Currently, these organisms, both...
39.5K
What are Populations and Communities?00:30

What are Populations and Communities?

38.1K
Overview
38.1K
Coordination of Gene Expression Processes in Bacteria01:29

Coordination of Gene Expression Processes in Bacteria

705
The DNA replication, transcription, and translation processes are intricately coupled in bacteria, allowing efficient gene expression and rapid protein synthesis. While this physical and functional coordination is advantageous, it introduces challenges that bacteria overcome through specific regulatory mechanisms.Coupling of Replication, Transcription, and TranslationThe coupling of replication, transcription, and translation is a hallmark of bacterial gene expression. As the replisome unwinds...
705
Testing a Claim about Mean: Unknown Population SD01:21

Testing a Claim about Mean: Unknown Population SD

6.3K
A complete procedure of testing a hypothesis about a population mean when the population standard deviation is unknown is explained here.
Estimating a population mean requires the samples to be approximately normally distributed. The data should be collected from the randomly selected samples having no sampling bias. There is no specific requirement for sample size. But if the sample size is less than 30, and we don't know the population standard deviation, a different approach is used;...
6.3K

You might also read

Related Articles

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

Sort by
Same author

Tumor cell specific total mRNA expression informed neural networks predicts cancer progression.

bioRxiv : the preprint server for biology·2026
Same author

Scalable subclonal reconstruction of cancer cells in DNA sequencing data using a penalized likelihood model.

bioRxiv : the preprint server for biology·2026
Same author

The cost-effectiveness of universal hepatitis B screening in Vietnam.

International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases·2026
Same author

Analysis of error profiles of indels and structural variants in deep-sequencing data.

Cell genomics·2025
Same author

Clonal Evolution of Pediatric Acute Myeloid Leukemia and Its Contribution to Disease Relapse.

medRxiv : the preprint server for health sciences·2025
Same author

Rapidly dissolving polymeric microbubbles promote supersaturation and in-situ formation of acoustic nanobubbles capable of dynamic pressure sensing.

Ultrasonics sonochemistry·2025

Related Experiment Video

Updated: Feb 16, 2026

Guided Protocol for Fecal Microbial Characterization by 16S rRNA-Amplicon Sequencing
08:05

Guided Protocol for Fecal Microbial Characterization by 16S rRNA-Amplicon Sequencing

Published on: March 19, 2018

20.7K

Using 16S rRNA gene as marker to detect unknown bacteria in microbial communities.

Quang Tran1, Diem-Trang Pham1, Vinhthuy Phan2

  • 1Department of Computer Science, University of Memphis, Memphis, 38152, TN, USA.

BMC Bioinformatics
|January 4, 2018
PubMed
Summary

A new method uses short reads from 16S rRNA genes to detect unknown bacteria in environmental samples. This approach reduces costs and maintains accuracy for microbial genome identification.

Keywords:
Bacteria detectionMetagenomicsNGS analysis

More Related Videos

Efficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterization
12:37

Efficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterization

Published on: April 14, 2016

40.3K
Detection of Tissue-resident Bacteria in Bladder Biopsies by 16S rRNA Fluorescence In Situ Hybridization
09:50

Detection of Tissue-resident Bacteria in Bladder Biopsies by 16S rRNA Fluorescence In Situ Hybridization

Published on: October 18, 2019

10.2K

Related Experiment Videos

Last Updated: Feb 16, 2026

Guided Protocol for Fecal Microbial Characterization by 16S rRNA-Amplicon Sequencing
08:05

Guided Protocol for Fecal Microbial Characterization by 16S rRNA-Amplicon Sequencing

Published on: March 19, 2018

20.7K
Efficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterization
12:37

Efficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterization

Published on: April 14, 2016

40.3K
Detection of Tissue-resident Bacteria in Bladder Biopsies by 16S rRNA Fluorescence In Situ Hybridization
09:50

Detection of Tissue-resident Bacteria in Bladder Biopsies by 16S rRNA Fluorescence In Situ Hybridization

Published on: October 18, 2019

10.2K

Area of Science:

  • Microbiology
  • Genomics
  • Bioinformatics

Background:

  • Metagenomics faces challenges in identifying and quantifying microbial genomes from next-generation sequencing data.
  • Current methods struggle with unknown bacteria or those with unsequenced genomes.

Purpose of the Study:

  • To develop a novel method for detecting unknown bacteria in environmental samples.
  • To leverage short reads from 16S ribosomal RNA (rRNA) genes for bacterial identification.

Main Methods:

  • Utilized short reads exclusively from 16S rRNA genes, bypassing the need for whole genome data.
  • Applied the method to bacterial genomes from the Human Oral Microbiome Database.

Main Results:

  • Demonstrated that short 16S rRNA gene reads contain sufficient information for detecting unknown bacteria.
  • Achieved accurate and robust predictions across varying read coverages and proportions of unknown bacteria.

Conclusions:

  • The proposed method offers a cost-effective and computationally efficient approach to metagenomic analysis.
  • The strong conservation of the 16S rRNA gene suggests high accuracy potential across diverse environmental samples.