December 23, 2012

New storage nanoparticle could make hydrogen a practical fuel

University of New South Wales researchers have demonstrated that hydrogen can be released and reabsorbed from sodium borohydride, a promising storage material, overcoming a major hurdle to i

A diagram of the nanoparticle, with sodium borohydride encased in nickel, and a TEM image of the particles (credit: University of New South Wales)

ts use as an alternative fuel source.

Considered a major a fuel of the future, hydrogen could be used to power buildings, portable electronics and vehicles — but this application hinges on practical storage technology.

The researchers synthesized nanoparticles of sodium borohydride and encased these inside nickel shells.

Their unique “core-shell” nanostructure demonstrated remarkable hydrogen storage properties, including the release of energy at much lower temperatures than previously observed.

“No one has ever tried to synthesize these particles at the nanoscale because they thought it was too difficult, and couldn’t be done. We’re the first to do so, and demonstrate that energy in the form of hydrogen can be stored with sodium borohydride at practical temperatures and pressures,” says Dr Kondo-Francois Aguey-Zinsou from the School of Chemical Engineering at UNSW.

Lightweight compounds known as borohydrides (including lithium and sodium compounds) are known to be effective storage materials, but it was believed that once the energy was released it could not be reabsorbed — a critical limitation. This perceived “irreversibility” means there has been little focus on sodium borohydride.

“By controlling the size and architecture of these structures we can tune their properties and make them reversible — this means they can release and reabsorb hydrogen,” says Aguey-Zinsou. “We now have a way to tap into all these borohydride materials, which are particularly exciting for application on vehicles because of their high hydrogen storage capacity.”

In its bulk form, sodium borohydride requires temperatures above 550 degrees Celsius just to release hydrogen. However, with the core-shell nanostructure, the researchers saw initial energy release happening at just 50 °C, and significant release at 350 °C.

“The new materials that could be generated by this exciting strategy could provide practical solutions to meet many of the energy targets set by the U.S. Department of Energy,” says Aguey-Zinsou.

First ever computer model of a living organism performed

In what can only be described as a milestone in biological and genetic engineering, scientists at Stanford University have, for the first time ever, simulated a complete bacterium. With the organism completely in virtual form, the scientists can perform any kind of modification on its genome and observe extremely quickly what kind of changes would occur in the organism. This means that in the future, current lab research that takes extremely long to perform or is hazardous in nature (dealing with lethal strains of viruses for instance), could be moved almost exclusively to a computer.

The researchers chose a pathogen called Mycoplasma genitalium as their target for modeling, out of practical reasons. For one, the bacterium is implicated in a number of urethral and vaginal infections, like its name might imply as well, however this is of little importance. The bacterium distinguishes itself by having the smallest genome of any free-living organism, with just 525 genes. In comparison, the ever popular lab pathogen, E. coli has 4288 genes.

Don’t be fooled, however. Even though this bacterium has the smallest amount of genetic data that we know of, it still required a tremendous amount of research work from behalf of the team. For one, data from more than 900 scientific papers and 1,900 experiments concerning the pathogen’s behavior, genetics, molecular interactions and so on, were incorporated in the software simulation. Then, the 525 genes were described by 28 algorithms, each governing the behaviour of a software module modelling a different biological process.

“These modules then communicated with each other after every time step, making for a unified whole that closely matched M. genitalium‘s real-world behaviour,” claims the Stanford team in a statement.

Thus, even for an organism of its size, it takes that much information to account for every interaction it will undergo in its lifespan. The simulation work was made using a 128-node computing cluster, and, even so, a single cell division takes about 10 hours to simulate, and generates half a gigabyte of data. By adding more computing power, the computing process can be shortened, however its pretty clear that for more complex organisms, much more resources might be required.

“You don’t really understand how something works until you can reproduce it yourself,” says graduate student and team member Jayodita Sanghvi.

BIG LEAP FORWARD FOR GENETIC ENGINEERING AND CAD

Emulating for the first time a living organisms is fantastic by itself, and is sure to set the ground for the development of Bio-CAD (computer-aided-design). CAD is primarily used in engineering, be it aeronautic, civil, mechanical, electrical and so on, and along the years has become indispensable, not only in the design process, but more importantly in the innovation process. For instance, by replacing the insulating material for a boiler in CAD, the software will imediately tell the engineer how this will affect its performance, all without having to actually build and test it. Similarly, scientists hope to achieve a similar amount of control from bio-CAD as well. The problem is that biological organisms need to be fully described into the software for bio-CAD to become lucrative and accurate.

“If you use a model to guide your experiments, you’re going to discover things faster. We’ve shown that time and time again,” said team leader and Stanford professor Markus Covert.

We’d love to see this research expanded forward, which most likely will happen, but we’re still a long way from modeling a human – about 20,000 genes short.

The findings were presented in the journal Cell.

Sources:

https://www.zmescience.com/medicine/genetic/computer-model-simulation-bacteria-31243/

https://www.newscientist.com/blogs/onepercent/2012/07/first-organism-fully-modelled.html

https://www.cell.com/abstract/S0092-8674%2812%2900776-3

https://en.wikipedia.org/wiki/E_coli

https://en.wikipedia.org/wiki/Mycoplasma_genitalium

DNA nanorobots deliver ‘suicide’ messages to cancer cells, other diseases

By Kurzweil AI on February 17, 2012

Researchers at Harvard University’s Wyss Institute for Biologically Inspired Engineering have developed

Gated Nanorobot

Hinged nanorobot opens when target molecules are sensed

a nanorobotic device made from DNA that could potentially seek out specific cell targets within a complex mixture of cell types and deliver important molecular instructions, such as telling cancer cells to self-destruct.

Inspired by the mechanics of the body’s own immune system, the technology might one day be used to program immune responses to treat various diseases.

Using the DNA origami method (complex 3-D shapes and objects are constructed by folding strands of DNA), the researchers created a nanosize robot in the form of an open barrel whose two halves are connected by a hinge.

Recognition molecules

The nanorobot’s DNA barrel acts as a container that can hold various types of contents, including specific molecules with encoded instructions that can interact with specific signaling receptors on cell surfaces, including disease markers.

The barrel is normally held shut by special DNA latches. But when the latches find their targets, they reconfigure, causing the two halves of the barrel to swing open and expose its contents, or payload.

Programming cancer-cell suicide

The researchers used this system to deliver instructions, encoded in antibody fragments, to two different types of cancer cells — leukemia and lymphoma.

Schematic front orthographic view of DNA barrel of closed nanorobot loaded with a protein payload. Two DNA-aptamer locks fasten the front of the device on the left (boxed) and right.

In each case, the message to the cell was: activate your apoptosis or “suicide switch” — which allows aging or abnormal cells to be eliminated.

This programmable nanotherapeutic approach was modeled on the body’s own immune system, in which white blood cells patrol the bloodstream for any signs of trouble.

These infection fighters are able to home in on specific cells in distress, bind to them, and transmit comprehensible signals to direct them to self-destruct. This programmable power means the system has the potential to one day be used to treat a variety of diseases.

Integrating sensing and logical computing functions

“We can finally integrate sensing and logical computing functions via complex,

Aptamer lock mechanism, consisting of a DNA aptamer (blue) and a partially complementary strand (orange).

yet predictable, nanostructures — some of the first hybrids of structural DNA, antibodies, aptamers, and metal atomic clusters — aimed at useful, very specific targeting of human cancers and T-cells,” said George Church, a Wyss core faculty member and professor of genetics at Harvard Medical School, who is principal investigator on the project.

Because DNA is a natural biocompatible and biodegradable material, DNA nanotechnology is widely recognized for its potential as a delivery mechanism for drugs and molecular signals.

There have been significant challenges to its implementation, such as what type of structure to create; how to open, close,

and reopen that structure to insert, transport, and deliver a payload; and how to program this type of nanoscale robot.

By combining several novel elements for the first time, the new system represents a significant advance in overcoming these implementation obstacles.

For instance, because the barrel-shaped structure has no top or bottom lids, the payloads can be loaded from the side in a single step — without having to open the structure first and then re-close it.

Also, while other systems use release mechanisms that respond to DNA or RNA, the novel mechanism used here responds to proteins, which are more commonly found on cell surfaces and are largely responsible for transmembrane signaling in cells.

This is the first DNA-origami-based system that uses antibody fragments to convey molecular messages

Payloads such as gold nanoparticles (gold) and antibody fragments (magenta) can be loaded inside the nanorobot

— a feature that offers a controlled and programmable way to replicate an immune response or develop new types of targeted therapies.

“This work represents a major breakthrough in the field of nanobiotechnology as it demonstrates the ability to leverage recent advances in the field of DNA origami pioneered by researchers around the world, including the Wyss Institute’s own William Shih, to meet a real-world challenge, namely killing cancer cells with high specificity,” said Wyss Institute Founding Director Donald Ingber.

Ingber is also the Judah Folkman Professor of Vascular Biology at Harvard Medical School and the Vascular Biology Program at Children’s Hospital Boston, and professor of bioengineering at Harvard’s School of Engineering and Applied Sciences. “This focus on translating technologies from the laboratory into transformative products and therapies is what the Wyss Institute is all about.”

Ref.: Shawn M. Douglas, Ido Bachelet, George M. Church, A Logic-Gated Nanorobot for Targeted Transport of Molecular Payloads, Science, 2012 [DOI:10.1126/science.1214081]

Credit for images: Shawn M. Douglas et al./Science

Source: https://www.kurzweilai.net/dna-nanorobots-deliver-suicide-messages-to-cancer-cells-other-diseases