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

Bacterial Transcription01:53

Bacterial Transcription

36.6K
RNA polymerase (RNAP) carries out DNA-dependent RNA synthesis in both bacteria and eukaryotes. Bacteria do not have a membrane-bound nucleus. So, transcription and translation occur simultaneously, on the same DNA template.
Transcription can be divided into three main stages, each involving distinct DNA sequences to guide the polymerase. These are:
36.6K
Transcription01:10

Transcription

156.6K
Overview
Transcription is the process of synthesizing RNA from a DNA sequence by RNA polymerase. It is the first step in producing a protein from a gene sequence. Additionally, many other proteins and regulatory sequences are involved in the proper synthesis of messenger RNA (mRNA). Regulation of transcription is responsible for the differentiation of all the different types of cells and often for the proper cellular response to environmental signals.
Transcription Can Produce Different Kinds...
156.6K
Bacterial RNA Polymerase00:43

Bacterial RNA Polymerase

32.8K
Unlike eukaryotes, bacteria use a single RNA Polymerase (RNAP) to transcribe all genes. The different subunits of bacterial RNAPhave distinct functions. The multisubunit structure of the bacterial RNAP helps the enzyme to maintain catalytic function, facilitate assembly, interact with DNA and RNA, and self-regulate its activity.
In most genes, the transcription site is a single base present upstream of the coding sequence. Though RNAP is a catalytically efficient enzyme, it does not recognize...
32.8K
Transcription Attenuation in Prokaryotes02:42

Transcription Attenuation in Prokaryotes

18.5K
Transcriptional attenuation occurs when RNA transcription is prematurely terminated due to the formation of a terminator mRNA hairpin structure.  Bacteria use these hairpins to regulate the transcription process and control the synthesis of several amino acids including histidine, lysine, threonine, and phenylalanine. Transcription attenuation takes place in the non-coding regions of mRNA.
There are several different mechanisms used to attenuate transcription. In ribosome mediated...
18.5K
Eukaryotic Transcription Activators02:42

Eukaryotic Transcription Activators

12.8K
Transcription activators are proteins that promote the transcription of genes from DNA to RNA. In most cases, these proteins contain two separate domains ‒ a domain that binds to DNA and a domain for activating transcription; however, in some cases, a single domain is responsible for both binding and activation of transcription, as seen in the glucocorticoid receptor and MyoD.
The binding domains are capable of recognizing and interacting with regulatory sequences on the DNA. These...
12.8K
Termination of Translation01:44

Termination of Translation

27.7K
The large ribosomal subunit has several important structures essential to translation. These include the peptidyl transferase center (PTC) - which is the site where the peptide bond is formed - and a large, internal, water-filled tube through which the nascent polypeptide moves. This latter structure is called the Peptide Exit Tunnel, and it begins at the PTC and spans the body of the large ribosomal subunit. During translation, as the nascent polypeptide chain is synthesized, it passes through...
27.7K

You might also read

Related Articles

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

Sort by
Same author

PPD: A Manually Curated Database for Experimentally Verified Prokaryotic Promoters.

Journal of molecular biology·2021
Same author

Generation of an induced pluripotent stem cell line from a Chinese Han infant with floating-harbor syndrome accompanied with dilated cardiomyopathy.

Stem cell research·2021
Same author

Identification of Key Histone Modifications and Their Regulatory Regions on Gene Expression Level Changes in Chronic Myelogenous Leukemia.

Frontiers in cell and developmental biology·2021
Same author

DM3Loc: multi-label mRNA subcellular localization prediction and analysis based on multi-head self-attention mechanism.

Nucleic acids research·2021
Same author

Label-free exonuclease I-assisted signal amplification colorimetric sensor for highly sensitive detection of kanamycin.

Food chemistry·2021
Same author

A computational framework for identifying the transcription factors involved in enhancer-promoter loop formation.

Molecular therapy. Nucleic acids·2021

Related Experiment Video

Updated: Feb 4, 2026

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation
16:02

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

Published on: February 10, 2023

3.3K

iTerm-PseKNC: a sequence-based tool for predicting bacterial transcriptional terminators.

Chao-Qin Feng1, Zhao-Yue Zhang1, Xiao-Juan Zhu1

  • 1Key Laboratory for Neuro-Information of Ministry of Education, School of Life Science and Technology, Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu, China.

Bioinformatics (Oxford, England)
|September 25, 2018
PubMed
Summary

Accurately identifying transcription terminators is crucial for understanding gene expression and bacterial genome annotation. A new predictor, iTerm-PseKNC, achieves 95% accuracy in recognizing these essential DNA sequences.

More Related Videos

Prediction of HIV-1 Coreceptor Usage Tropism by Sequence Analysis using a Genotypic Approach
07:06

Prediction of HIV-1 Coreceptor Usage Tropism by Sequence Analysis using a Genotypic Approach

Published on: December 1, 2011

13.7K
Analysis of Termination of Transcription Using BrUTP-strand-specific Transcription Run-on TRO Approach
12:12

Analysis of Termination of Transcription Using BrUTP-strand-specific Transcription Run-on TRO Approach

Published on: March 12, 2017

10.2K

Related Experiment Videos

Last Updated: Feb 4, 2026

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation
16:02

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

Published on: February 10, 2023

3.3K
Prediction of HIV-1 Coreceptor Usage Tropism by Sequence Analysis using a Genotypic Approach
07:06

Prediction of HIV-1 Coreceptor Usage Tropism by Sequence Analysis using a Genotypic Approach

Published on: December 1, 2011

13.7K
Analysis of Termination of Transcription Using BrUTP-strand-specific Transcription Run-on TRO Approach
12:12

Analysis of Termination of Transcription Using BrUTP-strand-specific Transcription Run-on TRO Approach

Published on: March 12, 2017

10.2K

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Transcription termination is a critical regulatory mechanism in gene expression.
  • Incorrect termination leads to abnormal gene expression and impacts genome annotation.
  • Identifying terminators aids in understanding bacterial operon structures.

Purpose of the Study:

  • To develop a computational tool for accurate identification of transcription terminators.
  • To improve the process of bacterial genome annotation and operon structure determination.

Main Methods:

  • Development of a predictor 'iTerm-PseKNC' utilizing support vector machine.
  • Feature selection using binomial distribution approach on pseudo k-tuple nucleotide composition (PseKNC).
  • Validation through 5-fold cross-validation and testing on independent datasets.

Main Results:

  • The 'iTerm-PseKNC' predictor achieved 95% accuracy in identifying transcription terminators.
  • The model correctly identified all terminators in Escherichia coli and 87.5% in Bacillus subtilis.
  • High performance on independent datasets demonstrates strong generalization ability.

Conclusions:

  • 'iTerm-PseKNC' is a powerful and accurate tool for bacterial terminator recognition.
  • The predictor can significantly aid researchers in transcription regulation studies.
  • A user-friendly web server is available for easy access and application.