Tag Archives: Research

Autonomous Underwater Robot Decides on Experiment Options

the autonomous underwater vehicle (AUV) used a piece of software called “T rex”, which operates in a similar way to the software used to control Nasa’s Mars Exploration Rovers – helping them to avoid obstacles on the surface of the Red Planet.

One main difference between the two pieces of software is that for the Mars rovers, the software ran in the control centre on Earth. With this marine vehicle, it runs onboard the robotic vehicle.
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“We tell it, ‘here’s the range of tasks that we want you to perform’, and it goes off and assesses what is happening in the ocean, making decisions about how much of the range it will cover to get back the data we want.”

Researchers at MBARI used the Gulper AUV to monitor potentially harmful algal blooms.

Kim Fulton-Bennett from MBARI explained: “We used to send out a ship for a full day every few weeks to manually take these measurements. Now we just take the AUV outside the harbour and send it on its way.

“About 24 hours later, it comes back, we hoist it on board, and download the data.”

Researchers Explain How Rotifers Thrive Despite Forgoing Sex

Bdelloid rotifers haven’t had sex for at least thirty million years. Most asexual animals are doomed to extinction. The excellent show, Science Friday, looks at the extraordinary adaptations that allow rotifers to thrive sex-free.

For millions of years, the rotifers have reproduced asexually, flying in the face of an idea known as the Red Queen Hypothesis, which states that without the advantage of sexual reproduction, more-rapidly evolving parasites and predators will eventually doom the asexual species. Now, the researchers studying the tiny organism say that its ability to dry up and blow away to greener pastures may have given the rotifers a hidden tactical edge in this evolutionary war.

The webcast provides a nice overview of the research. Every week Science Friday provides many such interesting reviews of recent scientific research.

What Are Rotifers?

Rotifers are small, mostly freshwater animals, and are amongst the smallest members of the Metazoa — that group of multicellular animals which includes humans, and whose bodies are organized into systems of organs.
Most rotifers are about 0.5mm in length or less, and their bodies have a total of around a thousand cells. This means that their organ systems are a greatly simplified distillation of the organ systems found in the bodies of the higher animals.

A typical rotifer might have a brain of perhaps fifteen cells with associated nerves and ganglia, a stomach of much the same number, an excretory system of only a dozen or so cells, and a similarly fundamental reproductive system. They have no circulatory system. It is an anomaly that despite their complexity, many rotifers are much smaller than common single-celled organisms whose world they share.
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they are able to survive long periods — even perhaps hundreds of years — in a dried or frozen state, and will resume normal behaviour when rehydrated or thawed.
Secondly, they exhibit what biologists call cell constancy — they grow in size not by cell division, but by increase in the size of the cells which they already have.

Prion Proteins, Without Genes, Can Evolve

‘Lifeless’ prion proteins are ‘capable of evolution’

scientists transferred prion populations from brain cells to other cells in culture and observed the prions that adapted to the new cellular environment out-competed their brain-adapted counterparts. When returned to the brain cells, the brain-adapted prions again took over the population.

Charles Weissmann, head of Scripps Florida’s department of infectology who led the study, said: “On the face of it, you have exactly the same process of mutation and adaptive change in prions as you see in viruses.

“This means that this pattern of Darwinian evolution appears to be universally active. “In viruses, mutation is linked to changes in nucleic acid sequence that leads to resistance.

“Now, this adaptability has moved one level down- to prions and protein folding – and it’s clear that you do not need nucleic acid (DNA or RNA) for the process of evolution.”
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He said: “The prion protein is not a clone, it is a quasi-species that can create different protein strains even in the same animal. “The abnormal prion proteins multiply by converting normal prion proteins.

“The implication of Charles Weissmann’s work is that it would be better to cut off that supply of normal prion proteins rather than risk the abnormal prion adapting to a drug and evolving into a new more virulent form.

Microcosm by Carl Zimmer

cover of Microcosm by Carl Zimmer

Microcosm: E. Coli and the New Science of Life by Carl Zimmer is an excellent book. It is full of fascinating information and as usual Carl Zimmer’s writing is engaging and makes complex topics clear.

E-coli keep the level of oxygen low in the gut making the resident microbes comfortable. At any time a person will have as many as 30 strains of E. coli in their gut and it is very rare for someone ever to be free of E. coli. [page 53]

In 1943, Luria and Delbruck published the results that won them the 1969 Nobel Prize in Physiology or Medicine in which they showed that bacteria and viruses pass down their traits using genes (though it took quite some time for the scientific community at large to accept this). [page 70]

during a crisis E coli’s mutation rates could soar a hundred – or even a thousandfold… Normally, natural selection favors low mutation rates, since most mutations are harmful. But in times of stress extra mutations may raise the odds that organisms will hit on a way out of their crisis… [alternatively, perhaps] In times of stress, E coli. may not be able to afford the luxury of accurate DNA repair. Instead, it turns to the cheaper lo-fi polymerases. While they may do a sloppier job, E coli. comes out ahead [page 106]
Hybridization is not the only way foreign DNA got into our cells. Some 3 billion years ago our single-celled ancestors engulfed oxygen-breathing bacteria, which became the mitochondria on which we depend. And, like E. coli, our genomes have taken in virus upon virus. Scientists have identified more than 98,000 viruses in the human genome, along with our mutant vestiges of 150,00 others… If we were to strip out all our transgenic DNA, we would become extinct.

I highly recommend Microcosm, just as I highly recommend Parasite Rex, by Carl Zimmer.

Cuts for British Science

Cuts mark ‘sad day for British science’

Britain’s physics community is reeling from a “disastrous” day of funding cuts that will force scientists to withdraw from major research facilities and see PhD studentships fall by a quarter. Space missions and projects across astronomy, nuclear and particle physics are being cancelled to save at least Â£115m, the Science and Technology Facilities Council (STFC) said today.

Fellowships and student grants for PhD projects will be cut by 25% from next year. The announcement has appalled senior physicists who warn the cuts threaten Britain’s future as a leading player in science.
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In February, Gordon Brown delivered his first speech on science in Oxford and stated: “The downturn is no time to slow down our investment in science but to build more vigorously for the future.”

Politicians like to talk about funding science investment. And they do so to some extent. However, they are more reluctant to actually spend money than to talk about the wonders of science. Several countries in Asia are not just talking, they continue to invest, large amounts of money. The USA seems to be willing to put some money (not the kind of funds paid to protect bankers bonuses but significant amounts). Still the amounts the USA is investing is, I believe, falling as a percentage of global investment.

Soft Morphing Robot Future

This webcast shows iRobot’s (Romba maker) prototypes for soft flexible robots. The robot uses “jamming” to morph the body which allows animal like locomotion and the ability to reshape the body to squeeze through small and difficult to navigate locations.

Energy Secretary Steve Chu Speaks On Funding Science Research

Energy Secretary Steve Chu (and Nobel Laureate) speaks with Google CEO Eric Schmidt about science research. One of the things Steve Chu is doing is funding high risk experiments that have great potential. This is something that is often said should be done but then people resort to safe investments in research. Taking these risks is a very good idea.

This is another example the remarkable way Google operates. The CEO actually understands science and the public good. Google also provides a huge amount of great material online in the form of webcasts of those speaking at Google. Google behaves like a company run by engineers. Other companies have engineers in positions of power but behave like companies run by any MBAs (whether they are lawyers, accountants, marketers or engineers).

Dennis Bray Podcast on Microbes As Computers

Carl Zimmer interviews Dennis Bray in an interesting podcast:

Dennis Bray is an active professor emeritus in both the Department of Physiology and Department of Neuroscience at the University of Cambridge. He studies the behavior of microbes–how they “decide” where to swim, when to divide, and how best to manage the millions of chemical reactions taking place inside their membranes. For Bray, microbes are tiny, living computers, with genes and proteins serving the roles of microprocessors.

Friday Fun: Dancing Parrot

Birds show off their dance moves

Footage revealed that some parrots have a near-perfect sense of rhythm; swaying their bodies, bobbing their heads and tapping their feet in time to a beat. Previously, it was thought that only humans had the ability to groove. The researchers believe the findings could help shed light on how our relationship with music and the capacity to dance came about.
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Dr Patel told the BBC: “We analysed these videos frame by frame, and we found he did synchronise – he did slow down and speed up in time with the music. “It was really surprising that he had this flexibility.”

The Nobel Prize in Physics 2009

The 2009 Nobel Prize in Physics honors three scientists, who have had important roles in shaping modern information technology, with one half to Charles Kuen Kao and with Willard Sterling Boyle and George Elwood Smith sharing the other half. Kao’s discoveries have paved the way for optical fiber technology, which today is used for almost all telephony and data communication. Boyle and Smith have invented a digital image sensor – CCD, or charge-coupled device – which today has become an electronic eye in almost all areas of photography. The Nobel prize site includes great information on the science behind the research that has been honored:

The first ideas of applications of light guiding in glass fibers (i.e. small glass rods) date from the late 1920’s. They were all about image transmission through a bundle of fibers. The motivation was medicine (gastroscope), defense (flexible periscope, image scrambler) and even early television. Bare glass fibers were, however, quite leaky and did not transmit much light. Each time the fibers were touching each other, or when the surface of the fibers was scratched, light was led away from the fibers. A breakthrough happened in the beginning of the 1950’s with the idea and demonstration that cladding the fibers would help light transmission, by facilitating total internal reflection.
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Optical communication of today has reached its present status thanks to a number of breakthroughs. Light emitting diodes (LEDs) and especially diode lasers, first based on GaAs (800-900 nm) and later on InGaAsP (1-1.7 ïm), have been essential. The optical communication window has evolved from 870 nm to 1.3 ïm and, finally, to 1.55 ïm where fiber losses are lowest. Gradient-index fibers were used in the first optical communication lines. However, when moving towards longer wavelengths and longer communication distances, single-mode fibers have become more advantageous.

Nowadays, long-distance optical communication uses single mode fibers almost exclusively, following Kao’s vision. The first such systems used frequent electronic repeaters to compensate for the remaining losses. Most of these repeaters have now been replaced by optical amplifiers, in particular erbium-doped fiber amplifiers. Optical communication uses wavelength division multiplexing with different wavelengths to carry different signals in the same fiber, thus multiplying the transmission rate. The first non-experimental optical fiber links were installed in 1975 in UK, and soon after in the US and in Japan. The first transatlantic fiber-optic cable was installed in 1988.