Navigation Links
Nanotech tools yield DNA transcription breakthrough

Rutgers researcher Richard H. Ebright and his collaborators have resolved key questions regarding transcription, the fundamental life process that was the subject of the 2006 Nobel Prize in Chemistry.

Transcription is the first step in the process cells employ to read and carry out the out instructions contained in genes. Transcription is carried out by a molecular machine known as RNA polymerase, which synthesizes an RNA copy of the information in DNA.

Two papers by Ebright and collaborators in the Nov. 17 issue of the journal Science define for the first time the mechanisms by which the machine begins synthesis of RNA and then breaks free from its initial binding site to move along DNA to continue synthesizing RNA.

The results establish that during transcription initiation the machine remains stationary at its initial binding site and "reels in" adjacent DNA segments, unwinding these segments and pulling the unwound DNA strands into itself. This remarkable mechanism, termed "DNA scrunching," enables the machine to acquire and accumulate the energy it needs to break its binding interactions with the initial binding site, and to begin to move down the gene.

"Our findings were made possible by newly developed, single-molecule methods," said Ebright, a Howard Hughes Medical Institute investigator and professor of chemistry and chemical biology at Rutgers, The State University of New Jersey. "These methods enabled us to analyze and manipulate individual molecules of the machine, one-by-one, as they carried out reactions."

The discoveries significantly advance our understanding of the structure and function of the molecular machine that carries out transcription, setting the stage for new opportunities in combating the bacterial diseases that kill 13 million persons each year worldwide.

"For six decades, antibiotics have been our bulwark against bacterial infectious diseases, but this bulwark now is collapsin g," said Ebright. "For all major bacterial pathogens, including tuberculosis, strains such as XDR-TB that are resistant to current antibiotics have emerged."

In addition, bacterial pathogens that may be used in bioterrorism can be engineered, and, in the former Soviet Union, were intentionally engineered to be resistant to current antibiotics.

Ebright explained that his laboratory at Rutgers' Waksman Institute of Microbiology has two parts: One part seeks a fundamental understanding of the machine; the other uses that understanding to develop new classes of antibacterial agents that function by inhibiting the bacterial version of the machine. "There is a direct information flow from our basic research to our applied research," he said. "Our basic research identifies new vulnerabilities within the bacterial version of the machine; our applied research exploits those vulnerabilities."

One of the studies reported in Science was conducted by Ebright's laboratory in conjunction with Shimon Weiss' laboratory at the California NanoSystems Institute of the University of California-Los Angeles (UCLA). The study by the Rutgers/UCLA team used single-molecule fluorescence spectroscopy. The researchers attached pairs of fluorescent "tags" to key structural elements of the machine and then monitored changes in distance between tags in single molecules as transcription occurred. The researchers showed that, during initial transcription, the machine does not move to reach adjacent DNA segments; nor does it stretch to reach adjacent DNA segments (as had been proposed two decades ago in models termed "transient excursions" and "inchworming"). Instead, the researchers showed that the machine remains stationary and pulls adjacent DNA segments into itself.

"The study of molecular machines and the dynamics of their moving parts hold great interest for nanotechnologists," said Weiss, leader of the UCLA group. "Beyond furthering the understanding o f transcription, the novel methods and findings of this work will aid future studies of other molecular machines involved in cell replication, transcription and protein synthesis."

The other study reported in Science was conducted by Ebright's laboratory in collaboration with Terence Strick's laboratory at the Institut Jacques Monod in Paris. The study by the Rutgers/Paris team used single-molecule nanomanipulation. The researchers used an instrument referred to as "magnetic tweezers" to hold, stretch and twist a single molecule of DNA having a single start site for transcription. They then read out changes in the conformation of the DNA molecule in real time as transcription occurred. The researchers showed that the molecular machine responsible for transcription unwinds adjacent DNA segments and pulls unwound DNA into itself during initial transcription ("scrunching").

In addition, the researchers showed that machine rewinds this unwound DNA when the machine leaves the start site and begins to move down the gene ("unscrunching"). Finally, the researchers showed that this process of scrunching and unscrunching occurs every time that transcription initiation occurs, indicating that the process is an obligatory part of transcription initiation.

Taken together, the two studies answer the longstanding question of how the machine acquires the energy required to break its interactions with, and leave, the start site. The machine acquires this energy by unwinding DNA and pulling unwound DNA during initial transcription. As DNA is unwound, energy is stored in the system, in the same manner, Ebright notes, as winding the rubber band of a rubber-band-powered airplane stores energy. Eventually, there is sufficient energy stored in the system that the machine is able to break its interactions with the start site, to shoot forward and, at the same instant, to rewind the unwound DNA.

Ebright stated that the publication of these findings is part of a long-term collaboration with the UCLA and the Institut Jacques Monod groups. "Our ties are close," he said. "Three former Rutgers graduate students have gone on from my lab to the Weiss lab, and two other Rutgers graduate students have worked in the Strick lab during their thesis studies."
'"/>

Source:Rutgers, the State University of New Jersey


Related biology news :

1. Nanotechnology to provide portable genetic risk detection
2. Nanotechnology may find disease before it starts
3. Nanotechnology being used to improve biocompatibility of human prosthetics and implants
4. Nanotechnology propels advances in regenerative medicine research
5. Nanotechnology shows promise as next wrinkle fighter
6. Nanotechnology meets biology and DNA finds its groove
7. Improved statistical tools reveal many linked loci
8. Virginia Tech group adds tools to DNA-targeted anti-cancer drugs
9. New tools used to control foodborne hepatitis A outbreaks related to green onions
10. MWG Biotech expands siMAX?siRNA portfolio with new scales, lengths and design tools
11. Nanoparticles, nanoshells, nanotubes: How tiny specks may provide powerful tools against cancer

Post Your Comments:
*Name:
*Comment:
*Email:


(Date:2/28/2017)... News solutions for biometrics, bag drop and New ADA-compliant kiosk ... At PTE 2017 ... Materna will present its complete end-to-end passenger journey, from ... benefit for passengers. To accelerate the whole passenger handling process, ... to take passengers through the complete integrated process with a ...
(Date:2/24/2017)... , Feb. 24, 2017  EyeLock LLC, a leader of ... elite iris biometric solution on the latest Qualcomm® ... at Mobile World Congress 2017 (February 27 ... in Hall 3, Stand 3E10. ... Haven™ security platform—a combination of hardware, software ...
(Date:2/16/2017)... 2017  Genos, a community for personal genetic ... received Laboratory Accreditation from the College of American ... laboratories that meet stringent requirements around quality, accuracy ... "Genos is committed to maintaining the ... honored to be receiving CAP accreditation," said ...
Breaking Biology News(10 mins):
(Date:3/29/2017)... year,s petition to the White House signed by 120,000 ... generate awareness on the importance of new organic medicines and nutritional ... place. ... this month Health Advance (OTC PINK: HADV ), ... announced its endeavors on this generally recognized as safe ...
(Date:3/29/2017)... TIKVAH, Israel , March ... (NASDAQ: BCLI), a leading developer of adult ... financial results for the year ended December ... highly successful and pivotal year for Brainstorm, with a ... made on clinical, regulatory and operational fronts," said ...
(Date:3/29/2017)... Palo Alto, CA, USA (PRWEB) , ... March 29, 2017 , ... ... experts in various regulatory subjects has announced its 3rd Annual Medical Device Summit 2017 ... 2017 at the Omni Parker House Hotel, in Boston, MA. , The Omni Parker ...
(Date:3/29/2017)... SAN DIEGO , March 29, 2017 /PRNewswire/ ... developing novel oncology and drug-delivery therapies, today announced ... U.S. Food and Drug Administration voted 11 to ... (under the skin) injection was favorable for patients ... large B-cell lymphoma and chronic lymphocytic leukemia. The ...
Breaking Biology Technology: