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Synteny and Evolution

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John H. Renwick first coined the term “synteny” in 1971, which refers to the genes present on the same chromosomes, even if they are not genetically linked. The species with common ancestry tend to show conserved syntenic regions. Therefore, the concept of synteny is nowadays used to describe the evolutionary relationship between species.
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Related Experiment Video

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Genome-wide Snapshot of Chromatin Regulators and States in Xenopus Embryos by ChIP-Seq

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Using the Generic Synteny Browser (GBrowse_syn).

Sheldon J McKay¹, Ismael A Vergara, Jason E Stajich

¹Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA.

Current Protocols in Bioinformatics

|September 14, 2010

Summary

This summary is machine-generated.

The Generic Synteny Browser (GBrowse_syn) enables comparative genomics by visualizing and comparing multiple genomes. This open-source tool, built on the Generic Genome Browser (GBrowse) framework, facilitates the analysis of colinear genomic regions.

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Area of Science:

Genomics
Bioinformatics
Comparative Genomics

Background:

Genome browsers are essential tools for visualizing genomic data.
The increasing number of sequenced genomes necessitates advanced comparative genomics methods.
Existing tools like Generic Genome Browser (GBrowse) provide a framework for genome annotation visualization.

Purpose of the Study:

To introduce the Generic Synteny Browser (GBrowse_syn) for comparing multiple genomes.
To leverage the GBrowse software framework for synteny analysis.
To provide a user-friendly web-based interface for comparative genomics.

Main Methods:

Utilizing the GBrowse software framework to develop GBrowse_syn.
Implementing a web page interface for displaying and comparing colinear genome regions.
Configuring GBrowse_syn for diverse organisms, including model organisms like C. elegans and Arabidopsis.

Main Results:

GBrowse_syn allows for the comparison of colinear regions across multiple genomes.
The software is adaptable for any organism and is currently used for model organisms.
GBrowse_syn is available as part of the GBrowse package for Unix-like operating systems.

Conclusions:

GBrowse_syn offers a valuable solution for comparative genomics by enabling multi-genome visualization.
The tool integrates seamlessly with the established GBrowse framework.
GBrowse_syn is under active development and provides installation and configuration guidance for version 1.71.