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Cis-regulatory Sequences

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...

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Related Experiment Video

Updated: Apr 7, 2026

High Resolution Whole Mount In Situ Hybridization within Zebrafish Embryos to Study Gene Expression and Function

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Published on: October 19, 2013

Conserved Noncoding Sequences Regulate lhx5 Expression in the Zebrafish Forebrain.

Liu Sun¹, Fengjiao Chen¹, Gang Peng¹

¹Institutes of Brain Science, State Key Laboratory of Medical Neurobiology and Collaborative Innovation Center for Brain Science, Fudan University, Shanghai, China.

|July 7, 2015

Summary

This summary is machine-generated.

Researchers identified specific DNA elements controlling the LIM homeobox 5 (lhx5) gene during vertebrate forebrain development. These enhancers regulate lhx5 expression in distinct forebrain regions, clarifying its complex developmental roles.

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Area of Science:

Developmental Biology
Neuroscience
Genetics

Background:

The LIM homeobox 5 (lhx5) gene is crucial for vertebrate forebrain development.
Understanding the transcriptional regulation of lhx5 is essential due to its complex expression patterns.

Purpose of the Study:

To identify and characterize regulatory elements controlling lhx5 expression in the zebrafish forebrain.
To elucidate the mechanisms underlying lhx5 gene regulation during early development.

Main Methods:

Comparative genomic analysis to identify conserved non-coding sequences in five teleost species.
Tol2 transposon-mediated transgenesis in zebrafish to test enhancer activity.
Reporter gene expression analysis (EGFP) to visualize regulatory element function.

Main Results:

Identified 10 conserved non-coding sequences with potential enhancer activity.
A proximal enhancer drives robust lhx5 expression in forebrain regions.
An enhancer approximately 50 kb upstream regulates hypothalamic expression.
An enhancer approximately 40 kb upstream controls prethalamic expression.

Conclusions:

Discrete enhancer elements precisely control lhx5 expression in different forebrain subdivisions.
These findings provide insights into the genetic mechanisms governing forebrain patterning.
The study highlights the utility of zebrafish transgenesis for dissecting gene regulation.