Navigation Links
Tagging pathogens with synthetic DNA 'barcodes'

A supermarket checkout computer can identify thousands of different items by scanning the tiny barcode printed on the package. New technology developed at Cornell University could make it just as easy to identify genes, pathogens, illegal drugs and other chemicals of interest by tagging them with color-coded probes made out of synthetic tree-shaped DNA.

A research group headed by Dan Luo, Cornell assistant professor of biological engineering, has created "nanobarcodes" that fluoresce under ultraviolet light in a combination of colors that can be read by a computer scanner or observed with a fluorescent light microscope.

Other methods of identifying biological molecules that are available or being developed mostly involve expensive equipment, Luo said. "We wanted something that could be done with inexpensive, readily available equipment," he said. Several years ago researchers created probes consisting of nanoscale bars of metal actually etched with conventional bar codes. Since then, most molecular tagging devices have been referred to as "barcodes," even though there are no bars involved.

The researchers have tested their system using samples containing various combinations of E. coli, anthrax and tularemia bacteria and ebola and SARS viruses, and have found the color codes could clearly distinguish several different pathogens simultaneously.

The research is described in a paper, "DNA fluorescence nanobarcodes for multiplexed pathogen detections," by Luo, Yougen Li, a former Cornell graduate student now at California Institute of Technology, and Yen Thi Hong Cu, a current graduate student, to be published in the July 2005 issue of the journal Nature Biotechnology and available after June 12 in the online version of the journal.

The idea is one of several applications the researchers have found for what they call "dendimer-like DNA," consisting of many short Y-shaped strands of DNA linked together in a treelike structure. The D NA that carries the genetic code in living cells consists of two complementary strands that attach to one another along their length. But Luo's research purposely and completely ignores the DNA's genetic coding properties. He uses DNA, he said, as a "generic instead of a genetic material."

By synthesizing three short strands of DNA, each of which is complementary to one of the others along half its length, the researchers can create a Y-shaped structure. Combining several of these structures creates a web with many branching ends. "While DNA is flexible, the short strands used here are quite rigid," Luo said. "A long piece of spaghetti is floppy, but a short bit of it is quite stiff."

An antibody or some other molecule that will bind to the molecule to be detected is attached to one of the loose ends of the DNA. To other ends are attached molecules of fluorescent dye in a predetermined pattern.

For example, one probe might contain four molecules of green dye and one of red. Another might have three molecules of green and two of red, and so on. If a mixture of several probes is added to a solution containing, for example, E. coli bacterial DNA, only probes with a particular color code will be programmed to bind to that DNA. The results can be seen under a fluorescent light microscope using colored filters that pass only one color at a time. A signal in which the ratio of intensity of green light is four times that of red light, for example, identifies a "4G1R" probe. The researchers say that up to 1,000 different codes can be created using only three fluorescent dyes.

To amplify the signals, the researchers attached many DNA probes to the surface of polystyrene microbeads 5.5 microns (millionths of a meter) in diameter. The results can be read in several ways. One is in a flow cytometer, in which samples move rapidly past a window where a computer reads the color codes of individual beads. Another is by dot blotting, in which the sampl e is spread on a sheet of absorbent paper and made visible to the naked eye. Or the color can be observed directly through a fluorescent light microscope, which is useful in situations where the geographic distribution of the target molecules is important, Luo said.

For convenience, a computer can convert the subtle differences in light intensity between, say 4G1R and 3G1R, into "pseudo colors," perhaps making one appear as orange and the other as pink, to make the difference clear to a human eye.

The researchers point out that the nanobarcode detection system does not require complex preparation of a sample and can be applied to living cells. The technology could be used in genomic research, clinical diagnosis, drug testing, environmental monitoring and monitoring for biological terrorism, they suggest.

Further details on "tree-shaped" DNA appear in a paper in Nature Materials (Vol. 3, Pg. 38-42, 2004).


'"/>

Source:Cornell University News Service


Related biology news :

1. A new study examines how shared pathogens affect host populations
2. New lab technique identifies high levels of pathogens in therapy pool
3. Edible bivalves as a source of human pathogens: signals between vibrios and the bivalve host.
4. Study: Plants use dual defense system to fight pathogens
5. CO2 sensing proves critical for fungal pathogens to adapt to life in air and human hosts
6. How Rickettsial pathogens break into cells
7. Ticks, flukes, and genomics: Emerging pathogens revealed
8. Gene thwarts some pathogens, gives access to others, could save crops
9. Researchers map spread of pathogens in the human body
10. Researchers develop technologies to devour food pathogens
11. GreeneChip -- New diagnostic tool that rapidly and accurately identifies multiple pathogens
Post Your Comments:
*Name:
*Comment:
*Email:


(Date:5/16/2017)... 16, 2017  Veratad Technologies, LLC ( www.veratad.com ), ... and identity verification solutions, announced today they will participate ... May 15 thru May 17, 2017, in ... Trade Center. Identity impacts the lives ... today,s quickly evolving digital world, defining identity is critical ...
(Date:4/18/2017)... a global expert in SoC-based imaging and computing solutions, has developed ... the company,s hybrid codec technology. A demonstration utilizing TeraFaces ® , ... showcased during the upcoming Medtec Japan at Tokyo Big Sight April ... Vegas Convention Center April 24-27. ... Click here for an image of the M820 ...
(Date:4/11/2017)... Research and Markets has announced the addition of the "Global ... ... at a CAGR of 30.37% during the period 2017-2021. ... based on an in-depth market analysis with inputs from industry experts. ... the coming years. The report also includes a discussion of the ...
Breaking Biology News(10 mins):
(Date:9/22/2017)... ... September 22, 2017 , ... ... is now being assessed in clinical trials in the United States. (clinicaltrials.gov : ... your nurse or physician or find your nearest participating clinic here https://factor-therapeutics.com/clinical-trials/ ...
(Date:9/21/2017)... , ... September 21, 2017 , ... Dr. Greg Leyer, ... Vegas, NV on September 27th. His presentation is at 12:10pm in the Probiotics Resource ... to present at SupplySide West and discuss how probiotics have shown impressive data in ...
(Date:9/21/2017)... ... September 21, 2017 , ... Colpitts Clinical has launched the ... includes new features that facilitate streamlined and compliant communication, file sharing and document ... forefront of medical advancements, they rely on efficiencies to help them address the ...
(Date:9/21/2017)... New Jersey (PRWEB) , ... September 21, 2017 ... ... highly-regulated pharmaceutical and clinical research sector professionals, has announced the addition of 5 ... Part 11 training - Compliance with Regulation 21 CFR Part 11 on ...
Breaking Biology Technology: