Sunday, February 26, 2012

USB key DNA sequence may, in seconds

The UK firm Oxford Nanopore built tool called the Minion, and claims that it can easily sequence genomes like those of some viruses and bacteria A in a matter of seconds. Complex genomes would take longer, but Minion might even be useful in quickly obtaining search ends in the sequencing of DNA from cells in a biopsy for cancer, for example, or to choose the genetic identity of bone fragments in an archaeological excavation.
usb | dna

It may look like an ordinary USB memory stick, but a little gadget that plugged in while, to your laptop computer, DNA sequence could have far-reaching implications for medicine and genetic research.

This is just a proof of principle รข "Phi-X was the first DNA-genome sequenced at all," Nick Loman, a bioinformatician at the Pallen Research Group says the University of Birmingham, UK, and author of the blog-organisms: gene and genomes. But it's the first time that this expertise is working shows, she says. "If you should order the genome you are able to more genome sequence."

The company demonstrated today with the advances in Genome Biology & know-how (AGBT) conference in Iceland Marco, Florida, the Minion a simple virus called phi X, which contains 5000 base pairs was sequenced genes.
Proof of principle

Within each recess is a modified version of the protein alpha hemolysin (AHL) having a hollow tube tens of nanometers wide at its core. Because the DNA pulled to the pore, the enzyme is attaches itself to the AHL and begins extract the DNA, threading to strand of the double helix through the pore. The unique electrical properties of each base disrupt the flow of current through each pore, to decide which of the bases it is over. Any disruption will be read by the tool, like a ticker-reader.

Oxford Nanopore is also building a larger tool, GridION for laboratory applications. Both GridION & Minion work on the same know-how: The DNA is a solution, the enzymes added to the end of each tie line. When a current is applied through the solution for these enzymes and DNA to hundreds of wells in a membrane on the underside of the solution drawn ten micrometers in diameter.

Long strands, and simple

Second, the devices can sequence DNA strands as long as ten,000 bases continuously, whereas most other techniques need the DNA to be sheared in to smaller fragments of at most a few hundred bases. This means that one time they have been read they must be painstakingly reassembled by application like pieces of a jigsaw. "We read the whole thing in go," as with Phi X, says Clive Brown, Oxford Nanopore's chief know-how officer.

This approach has key advantages over other sequencing techniques: first, the DNA does not need to be amplified - a time-consuming method that replicates the DNA in a sample to make it ample to make a reliable measurement.

This tool will be able to sequencing a human genome in two hours for around $1000, Rothberg claims. Nanopores are an "elegant" know-how, he says, but Ion Torrent already has a foot in the door. "As they saw last summer with the E. coli outbreak in France, people are already now using it," he says.

But Oxford Nanopore will face stiff competition. Jonathan Rothberg, a scientist & entrepreneur who founded rival firm 454 Life Sciences, also announced at the AGBT conference that his start-up company, Ion Torrent, will be launching a desktop sequencing machine. Dubbed the Ion Proton, it identifies bases by using transistors to detect hydrogen ions as they are given off in the coursework of the polymerisation of DNA.


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