Skip Ribbon Commands
Skip to main content
Translate
Donations
<a href="/"><img alt="UC San Diego Health"  oncontextmenu="return false;" style="position:relative;top:10px" src="data:image/png;base64,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" /></a>
menu iconMenu
search iconSearch

In Epigenomics, Location is Everything

 

January 03, 2013  |  

Researchers exploit gene position to test “histone code”

In a novel use of gene knockout technology, researchers at the University of California, San Diego School of Medicine tested the same gene inserted into 90 different locations in a yeast chromosome – and discovered that while the inserted gene never altered its surrounding chromatin landscape, differences in that immediate landscape measurably affected gene activity. 

The findings, published online in the Jan. 3 issue of Cell Reports, demonstrate that regulation of chromatin – the combination of DNA and proteins that comprise a cell’s nucleus – is not governed by a uniform “histone code” but by specific interactions between chromatin and genetic factors.

S. cerevisiae 

An x-ray micrograph of a yeast cell, Saccharomyces cerevisiae, as it buds before dividing. Courtesy of Carolyn Larabell, UC San Francisco, Lawrence Berkeley National Laboratory and the National Institute of General Medical Sciences.

“One of the main challenges of epigenetics has been to get a handle on how the position of a gene in chromatin affects its expression,” said senior author Trey Ideker, PhD, chief of the Division of Genetics in the School of Medicine and professor of bioengineering in UC San Diego’s Jacobs School of Engineering. “And one of the major elements of that research has been to look for a histone code, a general set of rules by which histones (proteins that fold and structure DNA inside the nucleus) bind to and affect genes.”

The Cell Reports findings indicate that there is no singular universal code, according to Ideker. Rather, the effect of epigenetics on gene expression or activity depends not only on the particular mix of histones and other epigenetic material, but also on the identity of the gene being expressed.

To show this, the researchers exploited an overlooked feature of an existing resource. The widely-used gene knockout library for yeast, originally created to see what happens when a particular gene is missing, was built by systematically inserting the same reporter gene into different locations. Ideker and colleagues focused on this reporter gene and observed what happens to gene expression at different locations along yeast chromosome 1.

“If epigenetics didn’t matter – the state of histones and DNA surrounding the gene – the expression of a gene would be the same regardless of where on the chromosome that gene is positioned,” said Ideker. But in every case, gene expression was measurably influenced by interaction with nearby epigenetic players.

Ideker said the work provides a new tool for more deeply exploring how and why genes function, particularly in relation to their location.

Co-authors are first author Menzies Chen, UCSD Department of Bioengineering; Katherine Licon, UCSD Department of Medicine and UCSD Institute for Genomic Medicine; Rei Otsuka and Lorraine Pillus, UCSD Department of Molecular Biology and UCSD Moores Cancer Center.

Funding for this research came, in part, from NIH grants R21HG005232, R01GM084279, P50GM085764 and P30CA023100.

# # #

Media Contact: Scott LaFee, 619-543-6163, slafee@ucsd.edu




Media Contact

Related News

8/28/2015
Four University of California, San Diego School of Medicine researchers have been selected to receive the newly established National Cancer Institute (NCI) Outstanding Investigator Award. The multi-mi ...
8/27/2015
Degenerating neurons in patients with Alzheimer’s disease (AD) measurably responded to an experimental gene therapy in which nerve growth factor (NGF) was injected into their brains, report researcher ...
8/24/2015
Patty Maysent, MPH, MBA, has been appointed interim Chief Executive Officer of UC San Diego Health, bringing to the role more than 25 years of exceptional executive experience in hospital leadership a ...
8/18/2015
The Clinical and Translational Research Institute (CTRI) at University of California, San Diego has received a five-year Clinical and Translational Science Award (CTSA) for approximately $52 million f ...


Share This Article



Follow Us