Author Archives: curiouscat

All present-day Life on Earth Has A Single Ancestor

All present-day life arose from a single ancestor

All life on Earth shares a single common ancestor, a new statistical analysis confirms.
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Because microorganisms of different species often swap genes, some scientists have proposed that multiple primordial life forms could have tossed their genetic material into life’s mix, creating a web, rather than a tree of life.
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A universal common ancestor is at least 10^2,860 times more probable than having multiple ancestors, Theobald calculates.
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For his analysis, Theobald selected 23 proteins that are found across the taxonomic spectrum but have structures that differ from one species to another. He looked at those proteins in 12 species – four each from the bacterial, archaeal and eukaryotic domains of life.

Then he performed computer simulations to evaluate how likely various evolutionary scenarios were to produce the observed array of proteins. Theobald found that scenarios featuring a universal common ancestor won hands down against even the best-performing multi-ancestor models.

Very interesting. Surprising too. As the article points out this doesn’t mean all life ever on Earth evolved from the single ancestor – life that has gone extinct could be from outside this single “tree.”

Droid Incredible

The Droid Incredible really is a great gadget. I am too cheap to get it but if I were to use a cell phone much I think this is the one I would get. I personally prefer more open software like Android (which the Droid Incredible uses) to Apple (though Apple’s user experience is great, I admit).

The Droid Incredible by HTC features a body design that measures 4.63 x 2.3 x 0.47 inches (HxWxD), making it easy to slip into your pocket. A large, 3.7-inch HD screen with 480×800 resolution graces the front of the device. The responsive OLED touch screen features rich colors and is easy to use.

With a 1 GHz Snapdragon processor, 512 MB of RAM, and 8 GB of internal flash memory, the Droid Incredible delivers incredible performance, letting you run multiple applications. It includes an 8-megapixel camera with auto focus and 2x power LED flash, and also Google Maps Navigation, which provides GPS-based turn-by-turn voice guidance to get you where you need to go.

New Server Uses 75% Less Power and Space

SeaMicro drops an atom bomb on the server industry

[SeaMicro] has created a server with 512 Intel Atom chips that gets supercomputer performance but uses 75 percent less power and space than current servers.
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Today’s servers are so inefficient when it comes to being properly utilized,” Feldman said. “This misalignment between the server and the work load is the root of the power consumption problem.”

So SeaMicro guessed that servers could benefit instead by using lots of smaller processors, and it got lucky when Intel started promoting its low-power, low-cost Atom chip for netbooks. That lowered power consumption, since Atom processors deliver three times the performance per watt versus Intel’s server chips.
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But SeaMicro also attacked the power consumption in the rest of the system, which accounts for about two thirds of the power consumed by a server.
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it applied the concept of virtualization to the inside of a server. Feldman designed custom chips that could take the tasks that were handled by everything beyond the Intel microprocessor and its chip set. The custom chips virtualize all of those other components so that it finds the resource when it’s needed. It essentially tricks the microprocessor into thinking that the rest of the system is there when it needs it.

SeaMicro virtualized a lot of functions that took up a lot of space inside each server in a rack. It also did the same with functions such as storage, networking, server management and load balancing. Full told, SeaMicro eliminates 90 percent of the components from a system board. SeaMicro calls this CPU/IO virtualization. With it, SeaMicro shrinks the size of the system board from a pizza box to the size of a credit card.
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This advance is coming just in time. Google said recently that if current power trends continue, the cost of energy consumed by a server during its three-year life span could surpass the initial purchase cost for the hardware. The Environmental Protection Agency reports that volume servers consume more than 1 percent of the total electricity in the US—representing billions of dollars in wasted operating expense each year.

Variation in Human DNA

Variation on the order of thousands to hundreds of thousands of DNA’s smallest pieces – large swaths varying in length or location or even showing up in reverse order – appeared 4,205 times in a comparison of DNA from just four people.

Those structural differences popped into clear view through computer analysis of more than 500 linear feet of DNA molecules analyzed by the powerful genome mapping system developed over nearly two decades by David C. Schwartz, professor of chemistry and genetics at UW-Madison.

“We probably have the most comprehensive view of the human genome ever,” Schwartz says. “And the variation we’re seeing in the human genome is something we’ve known was there and important for many years, but we haven’t been able to fully study it.”

To get a better picture of those structural variations, Schwartz and his team developed the Optical Mapping System, a wholly new type of genome analysis that directly examines millions of individual DNA molecules.

“Our newer genome analysis systems, if commercialized, promise genome analysis in one hour, at under $1,000,” Schwartz says. “And we require that high speed and low cost to power the new field of personal genomics.”

Read full press release

NASA to Launch GM Co-Developed Robot to International Space Station

NASA will launch the first human-like robot to space later this year to become a permanent resident of the International Space Station. Robonaut 2, or R2, was developed jointly by NASA and General Motors under a cooperative agreement to develop a robotic assistant that can work alongside humans, whether they be astronauts in space or workers at GM manufacturing plants on Earth.

The 300-pound R2 consists of a head and a torso with two arms and two hands and will launch on space shuttle Discovery as part of the STS-133 mission planned for September. Once aboard the station, engineers will monitor how the robot operates in weightlessness. R2 joins another station robot, known as Dextre. That robot, built by the Canadian Space Agency, consists of two, long arms to perform tasks that normally require spacewalking astronauts to complete.

While Dextre is located on the station’s exterior, R2 will be confined to operations in the station’s Destiny laboratory. However, future enhancements could allow it to move more freely around the station’s interior, and it could one day be modified to operate outside the complex.

“The use of R2 on the space station is just the beginning of a quickening pace between human and robotic exploration of space,” said John Olson, director of NASA’s Exploration Systems Integration Office. “The partnership of humans and robots will be critical to opening up the solar system and will allow us to go farther and achieve more than we can probably even imagine today.”

The dexterous humanoid robot not only looks like a human, it is designed to work like one. With human-like hands and arms, R2 is able to use the same tools that station crew members use. In the future, the greatest benefit of humanoid robots in space may be as an assistant or stand-in for astronauts during spacewalks or for tasks too difficult or dangerous for humans. For now, R2 is still a prototype and lacks adequate protection needed to exist outside the space station in the extreme temperatures of space.

Whales Evolved in the Blink of an Eye, Only 5 Million Years

Whales Evolved in the Blink of an Eye

Whales’ sizes stretch the imagination from the 100-foot (30-meter) long blue whale – the largest animal to have ever existed – to a small species about the size of a dog.
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Around 35 million years ago, when modern whales began to appear in the ocean, whale evolution ignited. Whales began as basically similar body types and evolved into everything from porpoises to blue whales over the next 5 million years, said study lead author Graham Slater of UCLA. “Five million years is like the blink of an eye,” Slater told LiveScience.

The finding supports what’s known as the explosive radiation hypothesis. The idea is that a few key traits allowed the earliest ancestors of modern cetaceans – marine mammals, including whales, dolphins and porpoises – to explore new ways of living. Once these ancestors branched out into a new body form, they stayed the course.

The key traits credited with the explosive evolution include sonar, large brains, baleen (the stringy looking stuff across some whales’ mouths that filters small animals from sea water), and complex sociality.

Updated Black and Decker Codeless Lawn Mower Review

Update: Less than 2 years old the battery can’t even mow 1/2 of what the old lawn mower battery could mow after it was much older. Unfortunately it seem that even my pessimistic expectations were too high. They managed to provide worse battery product after years of breakthroughs in improving batteries. I would recommend avoiding Black and Decker.

Better options: Toro 20360 e-Cycler 20-Inch 36-Volt Cordless Electric Lawn Mower – Earthwise 60120 20-Inch 24-Volt Cordless Electric Lawn Mower

The bag is indeed much better than the old version but it is the only improvement. The other problems I mentioned do indeed continue to annoy as it is used.

My old version of this mower just stopped working and the repair guy said it would cost $250 for a new starter, new battery… So I bought a new one: Black & Decker 19-Inch 24-Volt Cordless Electric Mulching Lawn Mower #CMM1200. He said that the new ones were not as well manufactured. I couldn’t imagine how you could make things worse (it is a simple product and just adopting improvement over the years should be really easy).

But, the starter on this model is horrible. You have to tun this incredibly cheap key in a very poorly designed socket. Fails over 80% of the time. The old model started easily essentially every time. The design was just as you would expect, foolproof. Whatever pointy haired boss approved this design needs to go into another line of work.

The ability of the mower to cope with high grass is very poor – much worse than the previous model. I had a good test at first given the time between my mower breaking and getting the new one. Not often an issue, but still not a good thing.

They had a poor indication of the charge left in the battery previously. They now provide no indication of the charge left. It makes you realize that a poor indication was much better than none.

Battery technology has improved a great deal, and that was one of biggest the weaknesses of the last one. Well they seem to have managed to provide worse battery performance after 5 years of improvement in that technology. Pretty sad.
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All About Circuits

All About Circuits is an online textbook covering electricity and electronics. Topics covered include: Basic Concepts of Electricity’ OHM’s Law; Electrical Safety; Series and Parallel Circuits; Physics of Conductors and Insulators; Solid-State Device Theory; Binary Arithmetic; Logic Gates; Switches; Digital Storage? It is a great resource. Enjoy.

Mycoremediation and its Applications In Oil Spills

The webcast shows a talk by mycologist Paul Stamets on Bioremediation with Fungi (an Excerpt from Mushrooms as Planetary Healers). In response he to the British Petroleum/Halliburton oil spill he posted a message, Fungi Perfecti: the petroleum problem

Various enzymes (from mushroom mycoremediation) breakdown a wide assortment of hydrocarbon toxins.
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My work with Battelle Laboratories, in collaboration with their scientists, resulted in TAH’s (Total Aromatic Hydrocarbons) in diesel contaminated soil to be reduced from 10,000 ppm to < 200 ppm in 16 weeks from a 25% inoculation rate of oyster (Pleurotus ostreatus) mycelium, allowing the remediated soil to be approved for use as landscaping soil along highways. [paper]
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Aged mycelium from oyster mushrooms (Pleurotus ostreatus) mixed in with ‘compost’ made from woodchips and yard waste (50:50 by volume) resulted in far better degradation of hydrocarbons than oyster mushroom mycelium or compost alone.
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Oyster mushrooms producing on oil contaminated soil (1–2% = 10,000–20,000 ppm)… Soil toxicity reduced in 16 weeks to less than ~ 200 ppm, allowing for plants, worms and other species to inhabit whereas control piles remained toxic to plants and worms.
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New crop of mushrooms form several weeks later [after contaminating with oil]. The spores released by these mushrooms have the potential – as a epigenetic response – to pre-select new strains more adaptive to this oil-saturated substrate.
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I proposed in 1994 that we have Mycological Response Teams (MRTs) in place to react to catastrophic events, from hurricanes to oil spills. We need to preposition composting and mycoremediation centers adjacent to population centers
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On a grand scale, I envision that we, as a people, develop a common myco-ecology of consciousness and address these common goals through the use of mycelium. To do so means we need to spread awareness and information. Please spread the word of mycelium.

A Breakthrough Cure for Ebola

A breakthrough cure for Ebola By Steven Salzberg

Last week, in what may be the biggest medical breakthrough of its kind in years, a group of scientists published results in The Lancet describing a completely new type of anti-viral treatment that appears to cure Ebola. They report a 100% success rate, although admittedly the test group was very small, just 4 rhesus monkeys.

This is a breakthrough not only because it may give us a cure for an uncurable, incredibly nasty virus, but also because the same method might work for other viruses, and because we have woefully few effective antiviral treatments. We can treat bacterial infections with antibiotics, but for most viruses, we have either a vaccine or nothing. And a vaccine, wonderful as it is, doesn’t help you after you’re already infected.

The scientists, led by Thomas Geisbert at Boston University, used a relatively new genomics technique called RNA interference to defeat the virus. Here’s how it works.
First, a little background: the Ebola virus is made of RNA, just like the influenza virus. And just like influenza, Ebola has very few genes – only 8. One of its genes, called L protein, is responsible for copying the virus itself. Two others, called VP24 and VP35, interfere with the human immune response, making it difficult for our immune system to defeat the virus.

Geisbert and his colleagues (including scientists from Tekmira Pharmaceuticals and USAMRIID) designed and synthesized RNA sequences that would stick to these 3 genes like glue. How did they do that? We know the Ebola genome’s sequence – it was sequenced way back in 1993. And we know that RNA sticks to itself using the same rules that DNA uses. This knowledge allowed Geisbert and colleagues to design a total of 10 pieces of RNA (called “small interfering RNA” or siRNA) that they knew would stick to the 3 Ebola genes. They also took care to make sure that their sticky RNA would not stick to any human genes, which might be harmful. They packaged these RNAs for delivery by inserting them into nanoparticles that were only 81-85 nanometers across.
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