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

Gram-negative Bacterial Protein Secretion Systems01:17

Gram-negative Bacterial Protein Secretion Systems

748
Gram-negative bacteria utilize sophisticated protein secretion systems to transport proteins across their double-membrane envelope into the extracellular environment or host cells. Based on their mechanism of action, these systems are classified into one-step and two-step pathways.One-Step Secretion Systems (Types I, III, IV, and VI)One-step secretion systems bypass the periplasm entirely, forming a continuous channel that spans both the inner and outer membranes:Type I Secretion System (T1SS):...
748
Bacterial Translocation and Protein Secretion01:26

Bacterial Translocation and Protein Secretion

501
Bacterial protein secretion involves translocation systems to ensure proteins reach their designated locations, including the plasma membrane, periplasm, outer membrane, or the external environment. These translocation systems are vital for bacterial physiology, supporting processes like membrane assembly, enzymatic activity in the periplasm, and interactions with the external environment. The division of labor between Sec and Tat pathways ensures efficiency in handling proteins with diverse...
501
Global Regulatory Systems01:28

Global Regulatory Systems

585
Global regulatory systems in bacteria enable rapid and coordinated responses to environmental changes by integrating sensory inputs with gene expression, ensuring efficient adaptation to fluctuating conditions. Key global regulatory mechanisms include regulons, two-component systems, sigma factors, and secondary messengers.Regulons and Global RegulatorsA regulon is a collection of genes and operons controlled by a common global regulator. These regulators enable bacteria to prioritize resource...
585
Bacterial Signaling01:30

Bacterial Signaling

40.0K
Bacterial signaling can occur within bacteria (intracellular) or between bacteria (intercellular). At times, a group of bacteria behaves like a community. To achieve this, they engage in quorum sensing, the perception of higher cell density that causes changes in gene expression. Quorum sensing involves both extracellular and intracellular signaling. The signaling cascade starts with a molecule called an autoinducer (AI). Individual bacteria produce AIs that move out of the bacterial cell...
40.0K
Stringent Response in E. coli01:23

Stringent Response in E. coli

285
Bacterial growth is closely tied to nutrient availability, with cells proliferating exponentially under favorable conditions and entering a stationary phase when resources become scarce. This transition is mediated by a regulatory mechanism known as the stringent response, which allows bacteria to adapt to nutrient deprivation by modulating gene expression and metabolic activity.During nutrient scarcity, intracellular amino acid levels decline. It results in the accumulation of uncharged tRNAs...
285
Gene Regulation in Microbial Communities: Quorum Sensing01:28

Gene Regulation in Microbial Communities: Quorum Sensing

497
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,...
497

You might also read

Related Articles

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

Sort by
Same author

PepAnno: A structure-aware deep learning framework for bioactive peptide prediction, structural visualization, and physicochemical profiling.

PLoS computational biology·2026
Same author

AWmeta Empowers Adaptively Weighted Transcriptomic Meta-Analysis.

Current issues in molecular biology·2026
Same author

Freeze-thaw strength regulates carbon density through microbial assembly processes and network clustering.

mSystems·2026
Same author

T2T-Hub: a central platform for analyzing plant and animal telomere-to-telomere genomes.

Nucleic acids research·2026
Same author

Retentive Network promotes efficient RNA language modeling of long sequences.

Communications biology·2026
Same author

Divergent Responses of Bacterial Communities to Permafrost Degradation and Their Associations With Carbon Across Vertical Profiles.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)·2026
Same journal

Development of CypriSSR: a genome-wide, chromosome-level microsatellite database for multiple cyprinidae species.

Database : the journal of biological databases and curation·2026
Same journal

KitBase Expanded: An Integrated Genomic and Phenotypic Resource for 3,268 Fast-Neutron-Irradiated Rice Mutants.

Database : the journal of biological databases and curation·2026
Same journal

PhaLP 2.0: extending the community-oriented phage lysin database with a SUBLYME pipeline for metagenomic discovery.

Database : the journal of biological databases and curation·2026
Same journal

A similarity metric, rubric, and unified hierarchy for biomedical publication types and study designs.

Database : the journal of biological databases and curation·2026
Same journal

GUTAID: a curated database linking gut microbial antigens to autoimmune mechanisms.

Database : the journal of biological databases and curation·2026
Same journal

Rosetta Statements: simplifying FAIR knowledge graph construction with a user-centred approach.

Database : the journal of biological databases and curation·2026
See all related articles

Related Experiment Video

Updated: Jan 12, 2026

Analysis of Yersinia enterocolitica Effector Translocation into Host Cells Using Beta-lactamase Effector Fusions
12:23

Analysis of Yersinia enterocolitica Effector Translocation into Host Cells Using Beta-lactamase Effector Fusions

Published on: October 13, 2015

8.9K

InTxDB: interaction data between gram-negative bacteria secreted effectors and host proteins.

Yanyan Zhu1, Liya Liu1, Yueming Hu1,2

  • 1Department of Bioinformatics, College of Life Sciences, Zhejiang University, 866 Yuhangtang Road, Xihu District, Hangzhou 310058, China.

Database : the Journal of Biological Databases and Curation
|October 31, 2025
PubMed
Summary
This summary is machine-generated.

A new database, InTxDB, catalogs 1829 interactions between bacterial type I-X secreted effectors and host proteins. This resource aids research into bacterial pathogenesis and developing new treatments for infections.

More Related Videos

Super-Resolution Imaging of Bacterial Secreted Proteins Using Genetic Code Expansion
13:11

Super-Resolution Imaging of Bacterial Secreted Proteins Using Genetic Code Expansion

Published on: February 10, 2023

1.9K
Applying Fluorescence Resonance Energy Transfer FRET to Examine Effector Translocation Efficiency by Coxiella burnetii during siRNA Silencing
10:29

Applying Fluorescence Resonance Energy Transfer FRET to Examine Effector Translocation Efficiency by Coxiella burnetii during siRNA Silencing

Published on: July 6, 2016

11.1K

Related Experiment Videos

Last Updated: Jan 12, 2026

Analysis of Yersinia enterocolitica Effector Translocation into Host Cells Using Beta-lactamase Effector Fusions
12:23

Analysis of Yersinia enterocolitica Effector Translocation into Host Cells Using Beta-lactamase Effector Fusions

Published on: October 13, 2015

8.9K
Super-Resolution Imaging of Bacterial Secreted Proteins Using Genetic Code Expansion
13:11

Super-Resolution Imaging of Bacterial Secreted Proteins Using Genetic Code Expansion

Published on: February 10, 2023

1.9K
Applying Fluorescence Resonance Energy Transfer FRET to Examine Effector Translocation Efficiency by Coxiella burnetii during siRNA Silencing
10:29

Applying Fluorescence Resonance Energy Transfer FRET to Examine Effector Translocation Efficiency by Coxiella burnetii during siRNA Silencing

Published on: July 6, 2016

11.1K

Area of Science:

  • Microbiology
  • Biochemistry
  • Bioinformatics

Background:

  • Gram-negative bacteria use secretion systems to deliver effectors into host cells, manipulating functions to promote infection.
  • Bacterial pathogenesis and host-pathogen interactions are critical public health concerns.
  • Understanding protein-protein interactions (PPIs) between effectors and host proteins is vital for deciphering infection mechanisms.

Purpose of the Study:

  • To address limitations in existing pathogen-host interaction databases.
  • To create a comprehensive resource for studying bacterial secreted effectors and their host targets.
  • To develop InTxDB, a database focused on type I-X secreted effector-host interactions.

Main Methods:

  • Development of InTxDB, a specialized database.
  • Inclusion of experimentally validated interaction pairs.
  • Detailed annotation of protein sequences, functions, localization, and structural properties.

Main Results:

  • InTxDB contains 1829 experimentally validated interaction pairs from 100 bacterial species.
  • The database provides comprehensive annotations, including protein sequences, functions, localization, secretion signals, and interaction sites.
  • InTxDB offers insights into local structural and functional properties of interacting proteins.

Conclusions:

  • InTxDB fills a critical gap in current databases for pathogen-host interactions.
  • The database serves as a well-curated and functionally enriched resource.
  • InTxDB will advance research on bacterial pathogenesis and host-pathogen interactions, aiding therapeutic strategy development.