Monthly Archives: October 2015

Nature magazine wants to know: Can science be trusted?

I received an invitation from Nature Publishing Group to participate in an online survey, Can science be trusted? (aka, the Reproducibility Study). This seems to be a response to issues raised over the last few years in Nature, Science and other journals about the ability to reproduce scientific research and get the same results as the original study. Writing for Forbes magazine, Henry I. Miller (a physician and molecular biologist, is the Robert Wesson Fellow in Scientific Philosophy and Public Policy at Stanford University’s Hoover Institution; he was the founding director of the FDA’s Office of Biotechnology) co-wrote with  S. Stanley Young (Assistant Director for Bioinformatics at the National Institute of Statistical Sciences (NISS) in Research Triangle Park, North Carolina and an adjunct professor of statistics at North Carolina State University, the University of Waterloo and the University of British Columbia) a Jan. 8, 2014 article , The Trouble With ‘Scientific’ Research Today: A Lot That’s Published Is Junk, where he reviews some recent articles about ‘science’ and the lack of reproducibility. The Economist also covered the reproducibility issue in an Oct. 19, 2013 article, Trouble at the lab.

Getting back to Nature’s survey, which is for scientists only, from the Oct. 13, 2015 email notice,

Dear nature.com user,

The news team at Nature is conducting a survey to gauge scientists’ attitudes towards the ‘reproducibility crisis’ – the idea that many scientific results cannot be reproduced. We would like to find out your views on it, and how it might be tackled.

To take part in the survey please click here.

The survey will take less than 15 minutes to complete. To show our appreciation in your participation, once you complete the survey you will have the chance to enter a prize draw to win a $500 American Express Gift Card, or an equivalent charitable donation of your choice.

As members of the Market Research Society (MRS) we ensure the highest standards of professional research and privacy in using the information that our audience provides (Visit the MRS Code of Conduct page for more information).

Please contact us at audienceresearch@nature.com if you have any further questions about the survey itself or the on-going research programme.

A link to the survey can also be found on Nature’s Challenges in Reproducible Research webpage where you’ll also find links to an editorial and various features on the topic.

The sense of touch via artificial skin

Scientists have been working for years to allow artificial skin to transmit what the brain would recognize as the sense of touch. For anyone who has lost a limb and gotten a prosthetic replacement, the loss of touch is reputedly one of the more difficult losses to accept. The sense of touch is also vital in robotics if the field is to expand and include activities reliant on the sense of touch, e.g., how much pressure do you use to grasp a cup; how much strength  do you apply when moving an object from one place to another?

For anyone interested in the ‘electronic skin and pursuit of touch’ story, I have a Nov. 15, 2013 posting which highlights the evolution of the research into e-skin and what was then some of the latest work.

This posting is a 2015 update of sorts featuring the latest e-skin research from Stanford University and Xerox PARC. (Dexter Johnson in an Oct. 15, 2015 posting on his Nanoclast blog (on the IEEE [Institute of Electrical and Electronics Engineering] site) provides a good research summary.) For anyone with an appetite for more, there’s this from an Oct. 15, 2015 American Association for the Advancement of Science (AAAS) news release on EurekAlert,

Using flexible organic circuits and specialized pressure sensors, researchers have created an artificial “skin” that can sense the force of static objects. Furthermore, they were able to transfer these sensory signals to the brain cells of mice in vitro using optogenetics. For the many people around the world living with prosthetics, such a system could one day allow them to feel sensation in their artificial limbs. To create the artificial skin, Benjamin Tee et al. developed a specialized circuit out of flexible, organic materials. It translates static pressure into digital signals that depend on how much mechanical force is applied. A particular challenge was creating sensors that can “feel” the same range of pressure that humans can. Thus, on the sensors, the team used carbon nanotubes molded into pyramidal microstructures, which are particularly effective at tunneling the signals from the electric field of nearby objects to the receiving electrode in a way that maximizes sensitivity. Transferring the digital signal from the artificial skin system to the cortical neurons of mice proved to be another challenge, since conventional light-sensitive proteins used in optogenetics do not stimulate neural spikes for sufficient durations for these digital signals to be sensed. Tee et al. therefore engineered new optogenetic proteins able to accommodate longer intervals of stimulation. Applying these newly engineered optogenic proteins to fast-spiking interneurons of the somatosensory cortex of mice in vitro sufficiently prolonged the stimulation interval, allowing the neurons to fire in accordance with the digital stimulation pulse. These results indicate that the system may be compatible with other fast-spiking neurons, including peripheral nerves.

And, there’s an Oct. 15, 2015 Stanford University news release on EurkeAlert describing this work from another perspective,

The heart of the technique is a two-ply plastic construct: the top layer creates a sensing mechanism and the bottom layer acts as the circuit to transport electrical signals and translate them into biochemical stimuli compatible with nerve cells. The top layer in the new work featured a sensor that can detect pressure over the same range as human skin, from a light finger tap to a firm handshake.

Five years ago, Bao’s [Zhenan Bao, a professor of chemical engineering at Stanford,] team members first described how to use plastics and rubbers as pressure sensors by measuring the natural springiness of their molecular structures. They then increased this natural pressure sensitivity by indenting a waffle pattern into the thin plastic, which further compresses the plastic’s molecular springs.

To exploit this pressure-sensing capability electronically, the team scattered billions of carbon nanotubes through the waffled plastic. Putting pressure on the plastic squeezes the nanotubes closer together and enables them to conduct electricity.

This allowed the plastic sensor to mimic human skin, which transmits pressure information as short pulses of electricity, similar to Morse code, to the brain. Increasing pressure on the waffled nanotubes squeezes them even closer together, allowing more electricity to flow through the sensor, and those varied impulses are sent as short pulses to the sensing mechanism. Remove pressure, and the flow of pulses relaxes, indicating light touch. Remove all pressure and the pulses cease entirely.

The team then hooked this pressure-sensing mechanism to the second ply of their artificial skin, a flexible electronic circuit that could carry pulses of electricity to nerve cells.

Importing the signal

Bao’s team has been developing flexible electronics that can bend without breaking. For this project, team members worked with researchers from PARC, a Xerox company, which has a technology that uses an inkjet printer to deposit flexible circuits onto plastic. Covering a large surface is important to making artificial skin practical, and the PARC collaboration offered that prospect.

Finally the team had to prove that the electronic signal could be recognized by a biological neuron. It did this by adapting a technique developed by Karl Deisseroth, a fellow professor of bioengineering at Stanford who pioneered a field that combines genetics and optics, called optogenetics. Researchers bioengineer cells to make them sensitive to specific frequencies of light, then use light pulses to switch cells, or the processes being carried on inside them, on and off.

For this experiment the team members engineered a line of neurons to simulate a portion of the human nervous system. They translated the electronic pressure signals from the artificial skin into light pulses, which activated the neurons, proving that the artificial skin could generate a sensory output compatible with nerve cells.

Optogenetics was only used as an experimental proof of concept, Bao said, and other methods of stimulating nerves are likely to be used in real prosthetic devices. Bao’s team has already worked with Bianxiao Cui, an associate professor of chemistry at Stanford, to show that direct stimulation of neurons with electrical pulses is possible.

Bao’s team envisions developing different sensors to replicate, for instance, the ability to distinguish corduroy versus silk, or a cold glass of water from a hot cup of coffee. This will take time. There are six types of biological sensing mechanisms in the human hand, and the experiment described in Science reports success in just one of them.

But the current two-ply approach means the team can add sensations as it develops new mechanisms. And the inkjet printing fabrication process suggests how a network of sensors could be deposited over a flexible layer and folded over a prosthetic hand.

“We have a lot of work to take this from experimental to practical applications,” Bao said. “But after spending many years in this work, I now see a clear path where we can take our artificial skin.”

Here’s a link to and a citation for the paper,

A skin-inspired organic digital mechanoreceptor by Benjamin C.-K. Tee, Alex Chortos, Andre Berndt, Amanda Kim Nguyen, Ariane Tom, Allister McGuire, Ziliang Carter Lin, Kevin Tien, Won-Gyu Bae, Huiliang Wang, Ping Mei, Ho-Hsiu Chou, Bianxiao Cui, Karl Deisseroth, Tse Nga Ng, & Zhenan Bao. Science 16 October 2015 Vol. 350 no. 6258 pp. 313-316 DOI: 10.1126/science.aaa9306

This paper is behind a paywall.

Superconducting graphene from Saint Jean Carbon (a Canadian company)

An announcement from Saint Jean Carbon helps to paint a picture of one Canadian graphene research and commercialization effort. From an Oct. 26, 2015 news item on Azonano,

Saint Jean Carbon Inc., a carbon sciences company engaged in the development of natural graphite properties and related carbon products is pleased to announce that it has completed an initial phase of research and development (R&D) work on the development of superconducting graphene.

An Oct. 22, 2015 Saint Jean Carbon news release, (also on Marketwired) which originated the news item, explains the company’s interest in superconducting graphene,

The result of the work has produced graphene that possibly may have magnetic properties; Magnetic properties are what is needed if the material is used in superconducting applications. This is believed to be a first. The encouraging result is just the very first step with many more tests to complete. Hopefully, this puts the project on the path towards the development of a low-temperature superconductor that leverages key properties of graphene.

Superconductivity is defined as a quantum mechanical phenomenon that offers the potential for zero electrical resistance. The ability to operate with no electrical resistance at or near room temperature holds significant potential in a wide range of product and technology applications. This include high-performance smart grids, electric power transmission, transformers, power storage devices, electric motors used in vehicle propulsion as in maglev trains, magnetic levitation devices, spintronic devices and superconducting magnetic refrigeration. Solving this puzzle; would have enormous technological importance.

The work has been based on the identification of the growing understanding of the magnetic properties (the ability to repel magnetic fields) of graphene. These properties could play a crucial role in enhancing superconductivity and therefore make it a good candidate for continued efforts to realize its potential. To truly understand the magnetic properties, the material has been sent to a third party for full magnetometer temperature testing; this is believed to be the only way to get accurate nano material measurements. The tests are very complex and time consuming but will provide us with absolute definitive measurements and a clear path forward for possible applications. Upon completion of the tests (estimated to be completed by October 28th 2015), the company will release the results. [emphases mine] Elements of the research work have relied on a patented (nanoparticle ultrasound separation) system designed to isolate and create large quantities of graphene cost effectively.

Company management must feel quite confident about the results of their testing to issue this ‘preview’ news release which goes on to highlight the advantages of using Canadian graphite for producing graphene,

The base graphite used in the research program was very pure, which minimized the need for costly and environmentally harsh purification. In addition, the graphene that was produced has excellent electrical/thermal connectivity; large high surface area, very good wettability, and had some promise of magnetic properties.

The production method has been initially shown to be less aggressive and significantly more cost effective than other processes such as the Hummers Method. This should further improve the overall ability to produce base material for many other needed applications for graphene today. The process may greatly shorten the time to market, and we are encouraged that there are already real needs for the material in all sorts of applications including polymers, epoxies and other coatings. The company plans to work with industry partners to develop a solution based application that can be developed today and be in use in a short time frame.

The next phase of the joint research effort is to prepare a bench scale system capable of producing larger quantities of high purity graphene samples for potential industry partners. Mr. Ogilvie commented, “We believe our working relationship with the university teams is an excellent opportunity to leverage Saint Jean’s graphite experience and assets while simultaneously expanding our focus on critical new carbon-based opportunities such as graphene superconductors. As one of the next steps in our go-forward plan is to quickly advance the product applications by working with a number of companies and potential strategic partners. Given the potential of graphene in everything from quantum computing to energy storage, Saint Jean has been encouraged by the breadth and depth of these preliminary discussions. As the work unfolds we look forward to keeping our shareholders actively informed on our continued efforts and results.” Dr. Don MacIntyre, the Company’s geologist, P. Geo., and Qualified Person, reviewed and approved the technical and scientific information in this release.

While the company’s executive offices are in Ontario with a second office in Alberta (company contact page), the graphite mines are in Québec (from  the news release),

About Saint Jean

Saint Jean is a publicly traded carbon sciences company with interest graphite mining claims on five 100% Company owned properties located in the province of Quebec in Canada. The five properties include the Walker property, a past producing mine, the Wallingford property, the St. Jovite property, East Miller and Clot property. For information on Saint Jean’s other properties and the latest news please go to the website: www.saintjeancarbon.com

Saint Jean Carbon’s chief executive officer (CEO) has an interesting carbon background (from the Management page),

Mr. Ogilvie brings a wealth of knowledge to the graphite sector. Mr. Ogilvie has been extensively involved in several start-ups, including emerging graphite companies, for over 33 years. He most recently served as Chief Executive Officer and Director for both Mega Graphite Inc. and Canada Carbon. Prior to this, in 2007 Mr. Ogilvie led a private investment group in the redevelopment and turnaround of Industrial Minerals Inc. (now known as Northern Graphite [emphasis mine] Corporation (NGC-TSX.V), a junior mining company that is presently developing one of the largest large-flake natural graphite deposits in the world. Mr. Ogilvie has direct experience in the development of technologies related to the production of graphite ores and the operation of global graphite markets for base and high purity graphite products.

Northern Graphite was last mentioned here in a March 9, 2015 post (scroll down about 50% of the way) featuring a report about the worldwide graphite market. In a Feb. 6, 2012 post, the first one about Northern Graphite, the focus is on the flakes.

Final comment: It seems like quite the month for Canadian graphene efforts of all stripes; I wrote an October 19, 2015 post featuring a new international graphene foundation (GO Foundation for graphene commercialization) being launched in Canada.

At the root of nanotechnology: advances in dentistry

I couldn’t resist the dental wordplay in my headline. Strictly speaking this posting features a research paper that is looking into dentistry’s nanotechnology-enabled future. From an Oct. 19, 2015 news item on phys.org,

Have a cavity? Ask your dentist about filling it with a mixture of nanoparticles including silica and zirconia. These white fillings (known as nano-composite resins) resemble teeth better than their metal alternatives and are less likely to come loose or fracture teeth. This is just the beginning argue Brazilian scientists in a review of “nanodentistry,” published October 19 [2015] in Trends in Biotechnology. Next-generation dental materials incorporating nanotechnology aim to help teeth self-heal, rebuild enamel, and protect against bacterial infections.

An Oct. 19, 2015 Cell Press news release on EurekAlert, which originated the news item, expands on the theme,

“Nanotechnology can be faced sometimes as a paradigm that promised a lot and delivered very little,” says senior author Nelson Durán of the Universidade Estadual de Campinas. “The evolution of dental materials though nanotechnology is real and remarkable, reflecting on a billionaire market. In this way, dentistry was in fact one of the most benefited areas from the development of nanotechnology.”

Since the introduction of nano-composite resins a decade ago, engineers have been exploring how else nanotechnology can safely be used in the dentist’s office. Products could include antimicrobial adhesives made up of carbon nanotubes–creating a kind of wearable toothpaste–or quantum dots combined with cancer-specific antibodies that can be applied inside the mouth, emitting light if they detect any troublesome cells.

“The remineralization of enamel and dentin with the use of nanoparticles (incorporated in different vehicles), a key issue for improving the quality and longevity of resin restorations, is being currently investigated,” says co-author Amauri Jardim de Paula of Universidade Federal do Ceará. “A future perspective is that nanoparticles incorporated in dental materials will prevent and/or control oral diseases through their long-term release and action.”

Although nanodental technologies have evolved quickly, safety and cost will be barriers to getting them on the market. Some nanomaterials might be toxic to healthy cells, so any new nanomaterials to be used for dentistry would need formal pre-clinical and clinical trials before they can receive approval. Patients will also need to be told that a treatment will use materials in the nanometer size range and should be aware of any possible side effects. This new technology could also be expensive, and insurance companies may not want to foot the bill if treatments could be considered cosmetic; composite resins, for example, are still an out-of-pocket cost.

The review authors believe these hurdles can be overcome, however, and that new nanodental products should be available within a few years.

The research has been illustrated,

Caption: This schematic represents the current use and perspectives on the use of nanomaterials on therapeutic dentistry. Credit: Padovania et al./Trends in Biotechnology 2015

Caption: This schematic represents the current use and perspectives on the use of nanomaterials on therapeutic dentistry.
Credit: Padovania et al./Trends in Biotechnology 2015

Here’s a link to and a citation for the paper,

Advances in Dental Materials through Nanotechnology: Facts, Perspectives and Toxicological Aspects by Gislaine C. Padovani, Victor P. Feitosa, Salvatore Sauro, Franklin R. Tay, Gabriela Durán, Amauri J. Paula, & Nelson Durán. Trends in Biotechnology – Cell DOI: http://dx.doi.org/10.1016/j.tibtech.2015.09.005 Publication stage: In Press Corrected Proof Published online Oct. 19, 2015

The paper appears to be open access.

100 percent efficiency transporting the energy of sunlight from receptors to reaction centers

Genetic engineering has been combined with elements of quantum physics to find a better way of transferring the energy derived from sunlight from the receptors to the reaction centers (i.e., photosynthesis). From an Oct. 15, 2015 news item on Nanowerk,

Nature has had billions of years to perfect photosynthesis, which directly or indirectly supports virtually all life on Earth. In that time, the process has achieved almost 100 percent efficiency in transporting the energy of sunlight from receptors to reaction centers where it can be harnessed — a performance vastly better than even the best solar cells.

One way plants achieve this efficiency is by making use of the exotic effects of quantum mechanics — effects sometimes known as “quantum weirdness.” These effects, which include the ability of a particle to exist in more than one place at a time [superposition], have now been used by engineers at MIT to achieve a significant efficiency boost in a light-harvesting system.

Surprisingly, the MIT [Massachusetts Institute of Technology] researchers achieved this new approach to solar energy not with high-tech materials or microchips — but by using genetically engineered viruses.

An Oct. 15, 2015 MIT news release (also on EurekAlert), which originated the news item, recounts an exciting tale of interdisciplinary work and an international collaboration,

This achievement in coupling quantum research and genetic manipulation, described this week in the journal Nature Materials, was the work of MIT professors Angela Belcher, an expert on engineering viruses to carry out energy-related tasks, and Seth Lloyd, an expert on quantum theory and its potential applications; research associate Heechul Park; and 14 collaborators at MIT and in Italy.

Lloyd, a professor of mechanical engineering, explains that in photosynthesis, a photon hits a receptor called a chromophore, which in turn produces an exciton — a quantum particle of energy. This exciton jumps from one chromophore to another until it reaches a reaction center, where that energy is harnessed to build the molecules that support life.

But the hopping pathway is random and inefficient unless it takes advantage of quantum effects that allow it, in effect, to take multiple pathways at once and select the best ones, behaving more like a wave than a particle.

This efficient movement of excitons has one key requirement: The chromophores have to be arranged just right, with exactly the right amount of space between them. This, Lloyd explains, is known as the “Quantum Goldilocks Effect.”

That’s where the virus comes in. By engineering a virus that Belcher has worked with for years, the team was able to get it to bond with multiple synthetic chromophores — or, in this case, organic dyes. The researchers were then able to produce many varieties of the virus, with slightly different spacings between those synthetic chromophores, and select the ones that performed best.

In the end, they were able to more than double excitons’ speed, increasing the distance they traveled before dissipating — a significant improvement in the efficiency of the process.

The project started from a chance meeting at a conference in Italy. Lloyd and Belcher, a professor of biological engineering, were reporting on different projects they had worked on, and began discussing the possibility of a project encompassing their very different expertise. Lloyd, whose work is mostly theoretical, pointed out that the viruses Belcher works with have the right length scales to potentially support quantum effects.

In 2008, Lloyd had published a paper demonstrating that photosynthetic organisms transmit light energy efficiently because of these quantum effects. When he saw Belcher’s report on her work with engineered viruses, he wondered if that might provide a way to artificially induce a similar effect, in an effort to approach nature’s efficiency.

“I had been talking about potential systems you could use to demonstrate this effect, and Angela said, ‘We’re already making those,'” Lloyd recalls. Eventually, after much analysis, “We came up with design principles to redesign how the virus is capturing light, and get it to this quantum regime.”

Within two weeks, Belcher’s team had created their first test version of the engineered virus. Many months of work then went into perfecting the receptors and the spacings.

Once the team engineered the viruses, they were able to use laser spectroscopy and dynamical modeling to watch the light-harvesting process in action, and to demonstrate that the new viruses were indeed making use of quantum coherence to enhance the transport of excitons.

“It was really fun,” Belcher says. “A group of us who spoke different [scientific] languages worked closely together, to both make this class of organisms, and analyze the data. That’s why I’m so excited by this.”

While this initial result is essentially a proof of concept rather than a practical system, it points the way toward an approach that could lead to inexpensive and efficient solar cells or light-driven catalysis, the team says. So far, the engineered viruses collect and transport energy from incoming light, but do not yet harness it to produce power (as in solar cells) or molecules (as in photosynthesis). But this could be done by adding a reaction center, where such processing takes place, to the end of the virus where the excitons end up.

MIT has produced a video explanation of the work,

Here’s a link to and a citation for the paper,

Enhanced energy transport in genetically engineered excitonic networks by Heechul Park, Nimrod Heldman, Patrick Rebentrost, Luigi Abbondanza, Alessandro Iagatti, Andrea Alessi, Barbara Patrizi, Mario Salvalaggio, Laura Bussotti, Masoud Mohseni, Filippo Caruso, Hannah C. Johnsen, Roberto Fusco, Paolo Foggi, Petra F. Scudo, Seth Lloyd, & Angela M. Belcher. Nature Materials (2015) doi:10.1038/nmat4448 Published online 12 October 2015

This paper is behind a paywall.

Café Scientifique (Vancouver, Canada) and noise on Oct. 27, 2015

On Tuesday, October 27, 2015  Café Scientifique, in the back room of The Railway Club (2nd floor of 579 Dunsmuir St. [at Seymour St.]), will be hosting a talk on the history of noise (from the Oct. 13, 2015 announcement),

Our speaker for the evening will be Dr. Shawn Bullock.  The title of his talk is:

The History of Noise: Perspectives from Physics and Engineering

The word “noise” is often synonymous with “nuisance,” which implies something to be avoided as much as possible. We label blaring sirens, the space between stations on the radio dial and the din of a busy street as “noise.” Is noise simply a sound we don’t like? We will consider the evolution of how scientists and engineers have thought about noise, beginning in the 19th-century and continuing to the present day. We will explore the idea of noise both as a social construction and as a technological necessity. We’ll also touch on critical developments in the study of sound, the history of physics and engineering, and the development of communications technology.

This description is almost identical to the description Bullock gave for a November 2014 talk he titled: Snap, Crackle, Pop!: A Short History of Noise which he summarizes this way after delivering the talk,

I used ideas from the history of physics, the history of music, the discipline of sound studies, and the history of electrical engineering to make the point that understanding “noise” is essential to understanding advancements in physics and engineering in the last century. We began with a discussion of 19th-century attitudes toward noise (and its association with “progress” and industry) before moving on to examine the early history of recorded sound and music, early attempts to measure noise, and the noise abatement movement. I concluded with a brief overview of my recent work on the role of noise in the development of the modem during the early Cold War.

You can find out more about Dr. Bullock who is an assistant professor of science education at Simon Fraser University here at his website.

On the subject of noise, although not directly related to Bullock’s work, there’s some research suggesting that noise may be having a serious impact on marine life. From an Oct. 8, 2015 Elsevier press release on EurekAlert,

Quiet areas should be sectioned off in the oceans to give us a better picture of the impact human generated noise is having on marine animals, according to a new study published in Marine Pollution Bulletin. By assigning zones through which ships cannot travel, researchers will be able to compare the behavior of animals in these quiet zones to those living in noisier areas, helping decide the best way to protect marine life from harmful noise.

The authors of the study, from the University of St Andrews, UK, the Oceans Initiative, Cornell University, USA, and Curtin University, Australia, say focusing on protecting areas that are still quiet will give researchers a better insight into the true impact we are having on the oceans.

Almost all marine organisms, including mammals like whales and dolphins, fish and even invertebrates, use sound to find food, avoid predators, choose mates and navigate. Chronic noise from human activities such as shipping can have a big impact on these animals, since it interferes with their acoustic signaling – increased background noise can mean animals are unable to hear important signals, and they tend to swim away from sources of noise, disrupting their normal behavior.

The number of ships in the oceans has increased fourfold since 1992, increasing marine noise dramatically. Ships are also getting bigger, and therefore noisier: in 2000 the biggest cargo ships could carry 8,000 containers; today’s biggest carry 18,000.

“Marine animals, especially whales, depend on a naturally quiet ocean for survival, but humans are polluting major portions of the ocean with noise,” said Dr. Christopher Clark from the Bioacoustics Research Program, Cornell University. “We must make every effort to protect quiet ocean regions now, before they grow too noisy from the din of our activities.”

For the new study, lead author Dr. Rob Williams and the team mapped out areas of high and low noise pollution in the oceans around Canada. Using shipping route and speed data from Environment Canada, the researchers put together a model of noise based on ships’ location, size and speed, calculating the cumulative sound they produce over the course of a year. They used the maps to predict how noisy they thought a particular area ought to be.

To test their predictions, in partnership with Cornell University, they deployed 12 autonomous hydrophones – devices that can measure noise in water – and found a correlation in terms of how the areas ranked from quietest to noisiest. The quiet areas are potential noise conservation zones.

“We tend to focus on problems in conservation biology. This was a fun study to work on, because we looked for opportunities to protect species by working with existing patterns in noise and animal distribution, and found that British Colombia offers many important habitat for whales that are still quiet,” said Dr. Rob Williams, lead author of the study. “If we think of quiet, wild oceans as a natural resource, we are lucky that Canada is blessed with globally rare pockets of acoustic wilderness. It makes sense to talk about protecting acoustic sanctuaries before we lose them.”

Although it is clear that noise has an impact on marine organisms, the exact effect is still not well understood. By changing their acoustic environment, we could be inadvertently choosing winners and losers in terms of survival; researchers are still at an early stage of predicting who will win or lose under different circumstances. The quiet areas the team identified could serve as experimental control sites for research like the International Quiet Ocean Experiment to see what effects ocean noise is having on marine life.

“Sound is perceived differently by different species, and some are more affected by noise than others,” said Christine Erbe, co-author of the study and Director of the Marine Science Center, Curtin University, Australia.

So far, the researchers have focused on marine mammals – whales, dolphins, porpoises, seals and sea lions. With a Pew Fellowship in Marine Conservation, Dr. Williams now plans to look at the effects of noise on fish, which are less well understood. By starting to quantify that and let people know what the likely economic effect on fisheries or on fish that are culturally important, Dr. Williams hopes to get the attention of the people who make decisions that affect ocean noise.

“When protecting highly mobile and migratory species that are poorly studied, it may make sense to focus on threats rather than the animals themselves. Shipping patterns decided by humans are often more predictable than the movements of whales and dolphins,” said Erin Ashe, co-author of the study and co-founder of the Oceans Initiative from the University of St Andrews.

Keeping areas of the ocean quiet is easier than reducing noise in already busy zones, say the authors of the study. However, if future research that stems from noise protected zones indicates that overall marine noise should be reduced, there are several possible approaches to reducing noise. The first is speed reduction: the faster a ship goes, the noisier it gets, so slowing down would reduce overall noise. The noisiest ships could also be targeted for replacement: by reducing the noise produced by the noisiest 10% of ships in use today, overall marine noise could be reduced by more than half. The third, more long-term, option would be to build quieter ships from the outset.

I can’t help wondering why Canadian scientists aren’t involved in this research taking place off our shores. Regardless, here’s a link to and a citation for the paper,

Quiet(er) marine protected areas by Rob Williams, Christine Erbe, Erin Ashe, & Christopher W. Clark. Marine Pollution Bulletin Available online 16 September 2015 In Press, Corrected Proof doi:10.1016/j.marpolbul.2015.09.012

This is an open access paper.

A soft heart from Cornell University (US)

Caption: This is an artificial foam heart created by Rob Shepherd and his engineering team at Cornell University. Credit: Cornell University

Caption: This is an artificial foam heart created by Rob Shepherd and his engineering team at Cornell University.
Credit: Cornell University

It’s not exactly what I imagined on seeing the words “foam heart” but this is what researchers at Cornell University have produced as a ‘working concept’. From an Oct. 14, 2015 Cornell University news release (also on EurekAlert but dated Oct. 15, 2015) describes the research in more detail,

Cornell University researchers have developed a new lightweight and stretchable material with the consistency of memory foam that has potential for use in prosthetic body parts, artificial organs and soft robotics. The foam is unique because it can be formed and has connected pores that allow fluids to be pumped through it.

The polymer foam starts as a liquid that can be poured into a mold to create shapes, and because of the pathways for fluids, when air or liquid is pumped through it, the material moves and can change its length by 300 percent.

While applications for use inside the body require federal approval and testing, Cornell researchers are close to making prosthetic body parts with the so-called “elastomer foam.”

“We are currently pretty far along for making a prosthetic hand this way,” said Rob Shepherd, assistant professor of mechanical and aerospace engineering, and senior author of a paper appearing online and in an upcoming issue of the journal Advanced Materials. Benjamin Mac Murray, a graduate student in Shepherd’s lab, is the paper’s first author.

In the paper, the researchers demonstrated a pump they made into a heart, mimicking both shape and function.

The researchers used carbon fiber and silicone on the outside to fashion a structure that expands at different rates on the surface – to make a spherical shape into an egg shape, for example, that would hold its form when inflated.

“This paper was about exploring the effect of porosity on the actuator, but now we would like to make the foam actuators faster and with higher strength, so we can apply more force. We are also focusing on biocompatibility,” Shepherd said.

Cornell has made a video of researcher Rob Shepherd describing the work,

Here’s a link to and a citation for the paper,

Poroelastic Foams for Simple Fabrication of Complex Soft Robots by Benjamin C. Mac Murray, Xintong An, Sanlin S. Robinson, Ilse M. van Meerbeek, Kevin W. O’Brien, Huichan Zhao, andRobert F. Shepherd. Advanced Materials DOI: 10.1002/adma.201503464 Article first published online: 19 SEP 2015

© 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim

This paper is behind a paywall.

Siberian carbon nanotube industry

I like to focus on the Russians from time to time as I find their nanotechnology strategy quite interesting. The government created an agency, RUSNANO Corporation whose mandate has changed at least once since its beginning. Two things that have remained consistent is Anatoly Chubais who leads the organization and the nanotechnology focus. Here’s the latest news in an Oct. 16, 2015 news item in the Siberian Times,

Some 28% of total greenhouse gas emissions ste the result of  production of traditional materials, such as steel, cement, paper, aluminium and plastics, said Anatoly Chubais.

Yet the use of single-walled carbon nanotubes lower the consumption of materials in production and thus reduces emissions. Now OCSiAl, a portfolio company of Rosnano, has created the world’s first industrial production technology of single-walled carbon nanotubes, he said.

The unique technology of synthesis of single-walled carbon nanotubes, which can be used as an additive for most materials, was developed in Russia at production plant Graphetron 1.0, created and launched in Novosibirsk’s university and research satellite Akademgorodok.

… In the past year were made 200 kg of nanotubes.  This year will be about one ton, and in the next two – three years it is planned to reach an annual level of 30 – 40 tons. For reference – the global market last year, offered only two tons.’

Chubais said that ‘our calculations show that if the rate of use of materials with nano-additive grows as we expect – and we have a fairly conservative assumptions – by 2030, the volume of emission reductions from this factor will be equal to, or greater than, reducing the volume of emissions from the use of all renewable energy in the world.’

OCSiAl have published a ‘Manifesto of the Carbon Century’ where they argue  for the production of more effective materials. …

Given the scantiness of the information I get about RUSNANO and Russian nanotechnology efforts it’s difficult to infer much from this or my Sept. 12, 2014 posting (the most recent posting till now) where Chubais proposed creating a joint China-Russian nanotechnology investment fund. As for OCSiAL (I was unaware of just how close the Russian connection is), a Nov. 18, 2014 posting was the most recent one to feature the company, which proposed opening a production plant in Israel.

Copyright and patent protections and human rights

The United Nations (UN) and cultural rights don’t immediately leap to mind when the subjects of copyright and patents are discussed. A Mar. 13, 2015 posting by Tim Cushing on Techdirt and an Oct. 14, 2015 posting by Glyn Moody also on Techdirt explain the connection in the person of Farida Shaheed, the UN Special Rapporteur on cultural rights and the author of two UN reports one on copyright and one on patents.

From the Mar. 13, 2015 posting by Tim Cushing,

… Farida Shaheed, has just delivered a less-than-complimentary report on copyright to the UN’s Human Rights Council. Shaheed’s report actually examines where copyright meshes with arts and science — the two areas it’s supposed to support — and finds it runs contrary to the rosy image of incentivized creation perpetuated by the MPAAs and RIAAs of the world.

Shaheed said a “widely shared concern stems from the tendency for copyright protection to be strengthened with little consideration to human rights issues.” This is illustrated by trade negotiations conducted in secrecy, and with the participation of corporate entities, she said.

She stressed the fact that one of the key points of her report is that intellectual property rights are not human rights. “This equation is false and misleading,” she said.

The last statement fires shots over the bows of “moral rights” purveyors, as well as those who view infringement as a moral issue, rather than just a legal one.

Shaheed also points out that the protections being installed around the world at the behest of incumbent industries are not necessarily reflective of creators’ desires. …

Glyn Moody’s Oct. 14, 2015 posting features Shaheed’s latest report on patents,

… As the summary to her report puts it:

There is no human right to patent protection. The right to protection of moral and material interests cannot be used to defend patent laws that inadequately respect the right to participate in cultural life, to enjoy the benefits of scientific progress and its applications, to scientific freedoms and the right to food and health and the rights of indigenous peoples and local communities.

Patents, when properly structured, may expand the options and well-being of all people by making new possibilities available. Yet, they also give patent-holders the power to deny access to others, thereby limiting or denying the public’s right of participation to science and culture. The human rights perspective demands that patents do not extend so far as to interfere with individuals’ dignity and well-being. Where patent rights and human rights are in conflict, human rights must prevail.

The report touches on many issues previously discussed here on Techdirt. For example, how pharmaceutical patents limit access to medicines by those unable to afford the high prices monopolies allow — a particularly hot topic in the light of TPP’s rules on data exclusivity for biologics. The impact of patents on seed independence is considered, and there is a warning about corporate sovereignty chapters in trade agreements, and the chilling effects they can have on the regulatory function of states and their ability to legislate in the public interest — for example, with patent laws.

I have two Canadian examples for data exclusivity and corporate sovereignty issues, both from Techdirt. There’s an Oct. 19, 2015 posting by Glyn Moody featuring a recent Health Canada move to threaten a researcher into suppressing information from human clinical trials,

… one of the final sticking points of the TPP negotiations [Trans Pacific Partnership] was the issue of data exclusivity for the class of drugs known as biologics. We’ve pointed out that the very idea of giving any monopoly on what amounts to facts is fundamentally anti-science, but that’s a rather abstract way of looking at it. A recent case in Canada makes plain what data exclusivity means in practice. As reported by CBC [Canadian Broadcasting Corporation] News, it concerns unpublished clinical trial data about a popular morning sickness drug:

Dr. Navindra Persaud has been fighting for four years to get access to thousands of pages of drug industry documents being held by Health Canada.

He finally received the material a few weeks ago, but now he’s being prevented from revealing what he has discovered.

That’s because Health Canada required him to sign a confidentiality agreement, and has threatened him with legal action if he breaks it.

The clinical trials data is so secret that he’s been told that he must destroy the documents once he’s read them, and notify Health Canada in writing that he has done so….

For those who aren’t familiar with it, the Trans Pacific Partnership is a proposed trade agreement including 12 countries (Australia, Brunei Darussalam, Canada, Chile, Japan, Malaysia, Mexico, New Zealand, Peru, Singapore, United States, and Vietnam) from the Pacific Rim. If all the countries sign on (it looks as if they will; Canada’s new Prime Minister as of Oct. 19, 2015 seems to be in favour of the agreement although he has yet to make a definitive statement), the TPP will represent a trading block that is almost double the size of the European Union.

An Oct. 8, 2015 posting by Mike Masnick provides a description of corporate sovereignty and of the Eli Lilly suit against the Canadian government.

We’ve pointed out a few times in the past that while everyone refers to the Trans Pacific Partnership (TPP) agreement as a “free trade” agreement, the reality is that there’s very little in there that’s actually about free trade. If it were truly a free trade agreement, then there would be plenty of reasons to support it. But the details show it’s not, and yet, time and time again, we see people supporting the TPP because “well, free trade is good.” …
… it’s that “harmonizing regulatory regimes” thing where the real nastiness lies, and where you quickly discover that most of the key factors in the TPP are not at all about free trade, but the opposite. It’s about as protectionist as can be. That’s mainly because of the really nasty corprorate sovereignty clauses in the agreement (which are officially called “investor state dispute settlement” or ISDS in an attempt to make it sound so boring you’ll stop paying attention). Those clauses basically allow large incumbents to force the laws of countries to change to their will. Companies who feel that some country’s regulation somehow takes away “expected profits” can convene a tribunal, and force a country to change its laws. Yes, technically a tribunal can only issue monetary sanctions against a country, but countries who wish to avoid such monetary payments will change their laws.

Remember how Eli Lilly is demanding $500 million from Canada after Canada rejected some Eli Lilly patents, noting that the new compound didn’t actually do anything new and useful? Eli Lilly claims that using such a standard to reject patents unfairly attacks its expected future profits, and thus it can demand $500 million from Canadian taxpayers. Now, imagine that on all sorts of other systems.

Cultural rights, human rights, corporate rights. It would seem that corporate rights are going to run counter to human rights, if nothing else.

Inadvertent carbon nanotube production from your car

It’s disconcerting to find out that cars inadvertently produce carbon nanotubes which are then spilled into the air we breathe. Researchers at Rice University (US) and Paris-Saclay University (France) have examined matter from car exhausts and dust in various parts of Paris finding carbon nanotubes (CNTs). Further, they also studied the lungs of Parisian children who have asthma and found CNTs there too.

The scientists have carefully stated that CNTs have been observed in lung cells but they are not claiming causality (i.e., they don’t claim the children’s asthma was caused by CNTs).

An Oct. 20, 2015 news item on Nanotechnology Now introduces the research,

Cars appear to produce carbon nanotubes, and some of the evidence has been found in human lungs.

Rice University scientists working with colleagues in France have detected the presence of man-made carbon nanotubes in cells extracted from the airways of Parisian children under routine treatment for asthma. Further investigation found similar nanotubes in samples from the exhaust pipes of Paris vehicles and in dust gathered from various places around the city.

The researchers reported in the journal EBioMedicine this month that these samples align with what has been found elsewhere, including Rice’s home city of Houston, in spider webs in India and in ice cores.

An Oct. 19, 2015 Rice University news release (also on EurekAlert), which originated the news item, painstakingly describes the work and initial conclusions,

The research in no way ascribes the children’s conditions to the nanotubes, said Rice chemist Lon Wilson, a corresponding author of the new paper. But the nanotubes’ apparent ubiquity should be the focus of further investigation, he said.

“We know that carbon nanoparticles are found in nature,” Wilson said, noting that round fullerene molecules like those discovered at Rice are commonly produced by volcanoes, forest fires and other combustion of carbon materials. “All you need is a little catalysis to make carbon nanotubes instead of fullerenes.”

A car’s catalytic converter, which turns toxic carbon monoxide into safer emissions, bears at least a passing resemblance to the Rice-invented high-pressure carbon monoxide, or HiPco, process to make carbon nanotubes, he said. “So it is not a big surprise, when you think about it,” Wilson said.

The team led by Wilson, Fathi Moussa of Paris-Saclay University and lead author Jelena Kolosnjaj-Tabi, a graduate student at Paris-Saclay, analyzed particulate matter found in the alveolar macrophage cells (also known as dust cells) that help stop foreign materials like particles and bacteria from entering the lungs.

The researchers wrote that their results “suggest humans are routinely exposed” to carbon nanotubes. They also suggested previous studies that link the carbon content of airway macrophages and the decline of lung function should be reconsidered in light of the new findings. Moussa confirmed his lab will continue to study the impact of man-made nanotubes on health.

The cells were taken from 69 randomly selected asthma patients aged 2 to 17 who underwent routine fiber-optic bronchoscopies as part of their treatment. For ethical reasons, no cells from healthy patients were analyzed, but because nanotubes were found in all of the samples, the study led the researchers to conclude that carbon nanotubes are likely to be found in everybody.

The study notes but does not make definitive conclusions about the controversial proposition that carbon nanotube fibers may act like asbestos, a proven carcinogen. But the authors reminded that “long carbon nanotubes and large aggregates of short ones can induce a granulomatous (inflammation) reaction.”

The study partially answers the question of what makes up the black material inside alveolar macrophages, the original focus of the study. The researchers found single-walled and multiwalled carbon nanotubes and amorphous carbon among the cells, as well as in samples swabbed from the tailpipes of cars in Paris and dust from various buildings in and around the city.

The news release goes on to detail how the research was conducted,

“The concentrations of nanotubes are so low in these samples that it’s hard to believe they would cause asthma, but you never know,” Wilson said. “What surprised me the most was that carbon nanotubes were the major component of the carbonaceous pollution we found in the samples.”

The nanotube aggregates in the cells ranged in size from 10 to 60 nanometers in diameter and up to several hundred nanometers in length, small enough that optical microscopes would not have been able to identify them in samples from former patients. The new study used more sophisticated tools, including high-resolution transmission electron microscopy, X-ray spectroscopy, Raman spectroscopy and near-infrared fluorescence microscopy to definitively identify them in the cells and in the environmental samples.

“We collected samples from the exhaust pipes of cars in Paris as well as from busy and non-busy intersections there and found the same type of structures as in the human samples,” Wilson said.

“It’s kind of ironic. In our laboratory, working with carbon nanotubes, we wear facemasks to prevent exactly what we’re seeing in these samples, yet everyone walking around out there in the world probably has at least a small concentration of carbon nanotubes in their lungs,” he said.

The researchers also suggested that the large surface areas of nanotubes and their ability to adhere to substances may make them effective carriers for other pollutants.

The study followed one released by Rice and Baylor College of Medicine earlier this month with the similar goal of analyzing the black substance found in the lungs of smokers who died of emphysema. That study found carbon black nanoparticles that were the product of the incomplete combustion of such organic material as tobacco.

Here’s an image of a sample,

 Caption: Carbon nanotubes (the long rods) and nanoparticles (the black clumps) appear in vehicle exhaust taken from the tailpipes of cars in Paris. The image is part of a study by scientists in Paris and at Rice University to analyze carbonaceous material in the lungs of asthma patients. They found that cars are a likely source of nanotubes found in the patients. Credit: Courtesy of Fathi Moussa/Paris-Saclay University

Caption: Carbon nanotubes (the long rods) and nanoparticles (the black clumps) appear in vehicle exhaust taken from the tailpipes of cars in Paris. The image is part of a study by scientists in Paris and at Rice University to analyze carbonaceous material in the lungs of asthma patients. They found that cars are a likely source of nanotubes found in the patients.
Credit: Courtesy of Fathi Moussa/Paris-Saclay University

Here’s a link to and a citation for the paper,

Anthropogenic Carbon Nanotubes Found in the Airways of Parisian Children by Jelena Kolosnjaj-Tabi, Jocelyne Just, Keith B. Hartman, Yacine Laoudi, Sabah Boudjemaa, Damien Alloyeau, Henri Szwarc, Lon J. Wilson, & Fathi Moussa. EBioMedicine doi:10.1016/j.ebiom.2015.10.012 Available online 9 October 2015

This paper is open access.

ETA Oct. 26, 2015: Dexter Johnson, along with Dr. Andrew Maynard, provides an object lesson on how to read science research in an Oct. 23, 2015 posting on his Nanoclast blog (on the IEEE [Institute of Electrical and Electronics Engineers]),

“From past studies, the conditions in combustion engines seem to favor the production of at least some CNTs (especially where there are trace metals in lubricants that can act as catalysts for CNT growth),” explained Andrew Maynard Director, Risk Innovation Lab and Professor, School for the Future of Innovation in Society at Arizona State University, in an e-mail interview. Says Maynard:

What, to my knowledge, is still not known, is the relative concentrations of CNT in ambient air that may be inhaled, the precise nature of these CNT in terms of physical and chemical structure, and the range of sources that may lead to ambient CNT. This is important, as the potential for fibrous particles to cause lung damage depends on characteristics such as their length—and many of the fibers shown in the paper appear too short to raise substantial concerns.”

Nonetheless, Maynard praises the research for establishing that these carbon nanotube-like fibers are part of the urban aerosol and therefore end up in the lungs of anyone who breathes it in. However, he cautions that the findings don’t provide information on the potential health risks associated with these exposures.

It’s a good read not only for the information but the mild snarkiness (assuming you find that kind of thing amusing) that spices up the piece.