Navigation Links
Powerful sequencing technology decodes DNA folding pattern

New York, NY, April 11, 2012 Chromosomes are strands of DNA that contain the blueprint of all living organisms. Humans have 23 pairs of chromosomes that instruct how genes are regulated during development of the human body. While scientists have developed an understanding of the one-dimensional structure of DNA, until today, little was known about how different parts of DNA are folded next to each other inside the nucleus.

Using a powerful DNA sequencing methodology, researchers at the Ludwig Institute for Cancer Research have now investigated the three-dimensional structure of DNA folds in the nucleus of a chromosome. The findings published in the April 11 issue of Nature provide scientists with a greater understanding about the basic principles of DNA folding and its role in gene regulation.

"In any biology textbook, when you look at a diagram of how genes are depicted, it is invariably a one-dimensional line. In reality, genes are arranged in such a way that two parts of the gene may be distal to each other linearly, but very close in 3-D," said Dr. Bing Ren, Member of the Ludwig Institute for Cancer Research and Professor of Cellular and Molecular Medicine at the University of California, San Diego. "With the knowledge of how DNA folds inside the nucleus, we now have a more complete picture of the regulatory process of genes. That is the primary reason we sought to tackle this problem." The spatial organization is intimately linked to its role in the body.

Ludwig researchers used a sequencing-based method called Hi-C to examine the 3-D structure of chromosomes. "With this technology, we were able to build a map of pair-wise interactions from each chromosome, and from that, extrapolate the basic folding pattern of the DNA. What we learned is that they fold into many local domains termed topological domains, which are on average one million base pairs in size. By way of comparison, the whole human genome is just over three billion base pairs in size," explained lead researcher, Jesse Dixon, a graduate student in Dr. Ren's lab.

In examining the interaction map, Dr. Ren's team discovered that topological domains are the basic unit of folding. The team confirmed their findings by comparing it among different cell types. In each type, the folding of DNA into topological domains was constant.

A parallel study by researchers at Institut Curie and the University of Massachusetts Medical School support Ludwig researchers' findings. By focusing on the mouse X chromosome segment in embryonic stem cells, as well as neuronal cells and fibroblasts, researchers showed that this segment adhered to similar folding patterns as the ones found by Ren's team. They further showed that this organization could be linked to gene regulation.

"This is just the beginning of a very exciting area of research focused on the understanding of nuclear processes from a three-dimensional point of view. We know that some cancers, including many leukemias, are caused by the translocation of two genes. It's not clear how these translocations are regulated or whether they result from random events. It's possible that the spatial structure of the chromosome can provide clues about how these translocations occur and, more importantly, how we can prevent them or at least mitigate their effect," concluded Dr. Ren.

Contact: Rachel Steinhardt
Ludwig Institute for Cancer Research

Related biology news :

1. Apelin hormone injections powerfully lower blood sugar
2. Powerful online tool for protein analysis provided pro bono by Stanford geneticist
3. Newly identified gene powerful predictor of colon cancer metastasis
4. Biologists learn structure, mechanism of powerful molecular motor in virus
5. Cancer Genomics Browser gives cancer researchers a powerful new tool
6. Collaboration leads to success: Most powerful computer of its kind in western N.Y. available worldwide
7. InVitria to Unveil Powerful Cell Culture Media Component ZAP-CHO
8. Changing climate likely to make super weed even more powerful
9. Powerful nutrient cocktail can put kids with Crohns into remission
10. Powerful new molecular GPS helps probe aging and disease processes
11. Innovative Document Security Technology Proves Powerful in Avoiding Counterfeit Products
Post Your Comments:
(Date:10/29/2015)... 29, 2015 Today, LifeBEAM , ... with 2XU, a global leader in technical performance ... hat with advanced bio-sensing technology. The hat will ... monitor key biometrics to improve overall training performance. ... two companies will bring together the most advanced technology, ...
(Date:10/27/2015)... -- Munich, Germany , October ... automatically maps data from mobile eye tracking videos created ... that they can be quantitatively analyzed with SMI,s analysis ... , October 28-29, 2015. SMI,s Automated Semantic Gaze ... tracking videos created with SMI,s Eye Tracking Glasses ...
(Date:10/26/2015)... India , October 26, 2015 ... --> adds ... 2015 to 2021 as well as ... 2015-2019 research reports to its collection ... . --> ...
Breaking Biology News(10 mins):
(Date:11/24/2015)... ... November 24, 2015 , ... This fall, global software solutions ... in five states to develop and pitch their BIG ideas to improve health and ... are competing for votes to win the title of SAP's Teen Innovator, an all-expenses ...
(Date:11/24/2015)... 2015 --> ... released by Transparency Market Research, the global non-invasive prenatal ... of 17.5% during the period between 2014 and 2022. ... Industry Analysis, Size, Volume, Share, Growth, Trends and Forecast ... market to reach a valuation of US$2.38 bn by ...
(Date:11/24/2015)... Nov. 24, 2015  Twist Bioscience, a company ... Leproust, Ph.D., Twist Bioscience chief executive officer, will ... on December 1, 2015 at 3:10 p.m. Eastern ... City. --> --> ... Twist Bioscience is on Twitter. Sign up to ...
(Date:11/24/2015)... ... November 24, 2015 , ... Creation Technologies ... being named to Deloitte's 2015 Technology Fast 500 list of the fastest growing ... a FDA-cleared, Class II medical device that speeds up orthodontic tooth movement by ...
Breaking Biology Technology: