Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Genomics

Genomics

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...

Evolutionary Relationships through Genome Comparisons

Evolutionary Relationships through Genome Comparisons

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...

Export of Mitochondrial and Chloroplast Genes

Export of Mitochondrial and Chloroplast Genes

A eukaryotic cell can have up to three different types of genetic systems: nuclear, mitochondrial, and chloroplast. During evolution, organelles have exported many genes to the nucleus; this transfer is still ongoing in some plant species. Approximately 18% of the Arabidopsis thaliana nuclear genome is thought to be derived from the chloroplast’s cyanobacterial ancestor, and around 75% of the yeast genome derived from the mitochondria’s bacterial ancestor. This export has occurred irrespective...

Gene Duplication and Divergence

Gene Duplication and Divergence

The seminal work of Ohno in 1970 popularized the idea of gene duplication and divergence. DNA sequence comparison studies reveal that a large portion of the genes in bacteria, archaebacteria, and eukaryotes was generated by gene duplication and divergence, indicating its critical role in evolution.
The duplicated copies of the gene are called Paralogs. Paralogs with similar sequences and functions form a gene family. Across several species, a large number of gene families are characterized.

Multi-species Conserved Sequences

Multi-species Conserved Sequences

Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved DNA...

Vesicular Tubular Clusters

Vesicular Tubular Clusters

After budding out from the ER membrane, some COPII vesicles lose their coat and fuse with one another to form larger vesicles and interconnected tubules called vesicular tubular clusters or VTCs. These clusters constitute a compartment at the ER-Golgi interface known as ERGIC (Endoplasmic Reticulum Golgi Intermediate Compartment). The ERGIC is a mobile membrane-bound cargo transport system that sorts proteins secreted from ER and delivers them to the Golgi.
With the help of motor proteins such...

You might also read

Related Articles

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

Sort by

Same author

Improving hit discovery by integrating activity cliff sensitivity into active learning.

Bioinformatics (Oxford, England)·2026

Same author

Validation of a 2-Gene Blood Test for Kawasaki Disease in Febrile Children.

JAMA network open·2026

Same author

Deep learning for predicting patient drug response by transferring gene-level and cell-level knowledge to tumors.

NPJ precision oncology·2026

Same author

Self-Contemplating In-Context Learning Enhances T Cell Receptor Generation for Novel Epitopes.

Proceedings of machine learning research·2026

Same author

Effects of Maternal Tetramethyl Bisphenol F Exposure on Neurodevelopment and Behavior in Mouse Offspring.

International journal of molecular sciences·2026

Same author

Enacted practices and developmental experiences of senior medical student tutors in a structured peer tutoring program.

Korean journal of medical education·2026

Search research articles

Related Experiment Video

Updated: May 23, 2026

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Published on: December 22, 2017

GeneclusterViz: a tool for conserved gene cluster visualization, exploration and analysis.

Vikas R Pejaver¹, Jaehyun An, Sungmin Rhee

¹School of Informatics and Computing, Indiana University Bloomington, IN 47404, USA.

Bioinformatics (Oxford, England)

|April 13, 2012

Summary

GeneclusterViz is a new software tool for visualizing and analyzing conserved gene clusters across bacterial genomes. This tool aids researchers in understanding gene cluster evolution and function.

More Related Videos

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Published on: April 8, 2017

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data

Published on: January 16, 2019

Related Experiment Videos

Last Updated: May 23, 2026

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine

Published on: December 22, 2017

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Published on: April 8, 2017

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data

Published on: January 16, 2019

Area of Science:

Microbial genomics
Bioinformatics
Evolutionary biology

Background:

Gene clusters, functionally related genes on chromosomes, are conserved in bacteria due to evolutionary advantages.
Visualizing conserved gene clusters across genomes offers insights into evolutionary history.
A dedicated software tool is needed for gene cluster visualization and functional analysis.

Purpose of the Study:

To develop a software tool for visualizing, exploring, and analyzing conserved gene clusters across multiple bacterial genomes.
To provide researchers with an integrated platform for understanding gene cluster evolution and function.

Main Methods:

Developed GeneclusterViz, a Java-based software application.
Integrated visualization, exploration, multiple sequence alignment, phylogenetic analysis, and KEGG pathway database functionality.

Main Results:

GeneclusterViz enables visualization and exploration of conserved gene clusters.
The tool supports downstream analyses including multiple sequence alignments and phylogenetic analyses.
Integration with the KEGG pathway database facilitates functional analysis of gene clusters.

Conclusions:

GeneclusterViz is a valuable asset for the biological research community.
The software facilitates deeper insights into the evolutionary dynamics and functional significance of bacterial gene clusters.