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Posts tagged "research"

Scientists Report First Success in Cloning Human Stem Cells

It’s been 17 years since Dolly the sheep was cloned from a mammary cell. And now scientists applied the same technique to make the first embryonic stem cell lines from human skin cells.

Ever since Ian Wilmut, an unassuming embryologist working at the Roslin Institute just outside of Edinburgh stunned the world by cloning the first mammal, Dolly, scientists have been asking – could humans be cloned in the same way? Putting aside the ethical challenges the question raised, the query turned out to involve more wishful thinking than scientific success. Despite the fact that dozens of other species have been cloned using the technique, called nuclear transfer, human cells have remained stubbornly resistant to the process.

Until now. Shoukhrat Mitalipov, a professor at Oregon Health & Science University and his colleagues report in the journal Cell that they have successfully reprogrammed human skin cells back to their embryonic state. The purpose of the study, however, was not to generate human clones but to produce lines of embryonic stem cells. These can develop into muscle, nerve, or other cells that make up the body’s tissues. The process, he says, took only a few months, a surprisingly short period to reach such an important milestone.

Nuclear transfer involves inserting a fully developed cell – in Mitalipov’s study, the cells came from the skin of fetuses – into the nucleus of an egg, and then manipulating the egg to start dividing, a process that normally only occurs after it has been fertilized by a sperm. After several days, the ball of cells that results contains a blanket of embryonic stem cells endowed with the genetic material of the donor skin cell, which have the ability to generate every cell type from that donor. In Dolly’s case, those cells were allowed to continue developing into an embryo that was then transferred to a ewe to produce a cloned sheep. But Mitalipov says his process with the human cells isn’t designed to generate a human clone, but rather just to create the embryonic stem cells. These could then be manipulated to create heart, nerve or other cells that can repair or treat disease.

“I think this is a really important advance,” says Dieter Egli, an investigator at the New York Stem Cell Foundation. “I have a very high confidence that versions of this technique will work very well; it’s something that the field has been waiting for.” Egli is among the handful of scientists who have been working to perfect the technique with human cells and in 2011, succeeded in producing human stem cells, but with double the number of chromosomes. In 2004, Woo Suk Hwang, a veterinary scientist at Seoul National University, claimed to have succeeded in achieving the feat, but later admitted to faking the data. Instead of generating embryonic stem cell lines via nuclear transfer, Hwang’s group produced the stem cells from days-old embryos, a technique that had already been established by James Thomson at University of Wisconsin in 1998.

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ucresearch:

Some beautiful night shots on our visit to Hastings Natural Reserve.   While we only got to see this one night, seasonal researchers who live on the reserve get to see these views for several months of the year!

ucresearch:

The Acorn Woodpecker stores acorns in oak trees for food.  They’re constantly pecking holes in trees and have a system where as the acorn dries and shrinks they move it to a smaller hole higher up the tree.

On our visit to Hastings Natural Reserve one of the things that we noticed is that our cabin had metal plates on it and this was to protect the structure from damage from these birds. 

We met researchers there who have been studying these woodpeckers as part of a multi-decade study that focuses on their cooperative breeding habits.  They had setup posts on trees to track the acorns since this is an important food source and plays a role in the bird’s ability to find mates.

[top image via sea25bill on flickr]

ucresearch:

Seastars are the canaries in the coal mine for climate change

At the Bodega Marine Lab, Eric Sanford studies sea stars and mussels to determine how climate change will affect ecosystems along the California coast.

“Our results suggest that if during the summertime there are more warm events, then this can have a really big effect on marine ecosystems.  What we found is that sea stars are actually really sensitive to small changes in temperature, they get really stressed out and they consume fewer mussels and end up growing a lot less.”

PhD Comics has a great video about the research process… all explained in 2 minutes…

“I’m not trying to solve a puzzle, I’m trying to open the box and find the pieces.”

jtotheizzoe:

Overly Honest Methods: Uncovering the hilarious truth behind how science actually gets done


Earlier this week, in a fit of comedic inspiration, a postdoc named Leigh tweeted a funny lab confession and included the hashtag #overlyhonestmethods. By the end of the day, dozens of scientists had joined in, and the result is nothing short of hilarious.

Science is an incredibly painstaking and difficult process, and in addition to being quite funny, these tweets pull back the curtain on just how human a process research really is. Some of them had me raising my eyebrows right after I finished giggling, because please tell me you didn’t actually do that. Others had me nodding sagely in agreement, because sometimes you drop a tube or run out of a chemical and the world has to keep on turning, man.

Check out this collection of 75 of the best, and Robert Gonzalez has picked quite a few gems at io9. What are your favorites? Got any confessions?

fuckyeah-chemistry:

Electrons are known to possess both particle and wave proprieties; and are able to surpass classically forbidden barriers as a result of their wavelike characteristics. This phenomenon is a quantum mechanical effect known as ‘tunneling.’ Scanning tunneling microscopy (STM) is an analytical technique that uses a piezoelectric tip to produce a tunneling current between a conducting or semi-conducting material and the tip; and ultimately results in a topographic map of the surface at a near-atomic level. An STM image of graphite is shown. The dark spots represent the centers of the 6-membered carbon rings. Using this technique, the lattice constant and bond length between adjacent carbon atoms can be calculated.

fuckyeah-chemistry:

Electrons are known to possess both particle and wave proprieties; and are able to surpass classically forbidden barriers as a result of their wavelike characteristics. This phenomenon is a quantum mechanical effect known as ‘tunneling.’ Scanning tunneling microscopy (STM) is an analytical technique that uses a piezoelectric tip to produce a tunneling current between a conducting or semi-conducting material and the tip; and ultimately results in a topographic map of the surface at a near-atomic level. An STM image of graphite is shown. The dark spots represent the centers of the 6-membered carbon rings. Using this technique, the lattice constant and bond length between adjacent carbon atoms can be calculated.

frontal-cortex:

Fig. 7. Effect of PDGF-BB on microfilament reorganization, as revealed by phalloidin staining. Quiescent mesonephric mesenchymal cells (A) were stimulated for 15 minutes (B) with PDGF-BB (10 ng/ml). Note that treated cells exhibit a rapid change in microfilament reorganization and in cellular morphology (phalloidin staining at the leading edge of the cell and extensions of lamellipodia). Bar, 20 μm.

Antonella Puglianiello et al, Expression and role of PDGF-BB and PDGFR-β during testis morphogenesis in the mouse embryo; Journal of Cell Science, March 1, 2004 vol. 117 no. 7 1151-1160

The role played by PDGF in testis morphogenesis is still incompletely understood. The present study investigates the expression and potential role of platelet-derived growth factor-BB (PDGF-BB) and its receptor, PDGF receptor β (PDGFR-β), during mouse testis cord formation, and the possibility that the growth factor may be involved in the migration to the gonad of mesenchymal cells of mesonephric origin.

ikenbot:

Green Bean Galaxies: New Kind of Galaxy Identified

A new galaxy class has been identified using observations from ESO’s Very Large Telescope (VLT), the Gemini South telescope, and the Canada-France-Hawaii Telescope (CFHT). Nicknamed “green bean galaxies” because of their unusual appearance, these galaxies glow in the intense light emitted from the surroundings of monster black holes and are amongst the rarest objects in the Universe.

Many galaxies have a giant black hole at their centre that causes the gas around it to glow. However, in the case of green bean galaxies, the entire galaxy is glowing, not just the centre. These new observations reveal the largest and brightest glowing regions ever found, thought to be powered by central black holes that were formerly very active but are now switching off.

Astronomer Mischa Schirmer of the Gemini Observatory had looked at many images of the distant Universe, searching for clusters of galaxies, but when he came across one object in an image from the Canada-France-Hawaii Telescope he was stunned — it looked like a galaxy, but it was bright green. It was unlike any galaxy he had ever seen before, something totally unexpected. He quickly applied to use ESO’s Very Large Telescope to find out what was creating the unusual green glow.

“ESO granted me special observing time at very short notice and just a few days after I submitted my proposal, this bizarre object was observed using the VLT,” says Schirmer. “Ten minutes after the data were taken in Chile, I had them on my computer in Germany. I soon refocused my research activities entirely as it became apparent that I had come across something really new.”

The new object has been labelled J224024.1−092748 or J2240. It lies in the constellation of Aquarius (The Water Bearer) and its light has taken about 3.7 billion years to reach Earth.

After the discovery, Schirmer’s team searched through a list of nearly a billion other galaxies and found 16 more with similar properties, which were confirmed by observations made at the Gemini South telescope. These galaxies are so rare that there is on average only one in a cube about 1.3 billion light-years across. This new class of galaxies has been nicknamed green bean galaxies because of their colour and because they are superficially similar to, but larger than, green pea galaxies.

In many galaxies the material around the supermassive black hole at the centre gives off intense radiation and ionises the surrounding gas so that it glows strongly. These glowing regions in typical active galaxies are usually small, up to 10% of the diameter of the galaxy. However, the team’s observations showed that in the case of J2240, and other green beans spotted since, it is truly huge, spanning the entire object. J2240 displays one of the biggest and brightest such regions ever found. Ionised oxygen glows bright green, which explains the strange colour that originally caught Schirmer’s attention.

“These glowing regions are fantastic probes to try to understand the physics of galaxies — it’s like sticking a medical thermometer into a galaxy far, far away,” says Schirmer. “Usually, these regions are neither very large nor very bright, and can only be seen well in nearby galaxies. However, in these newly discovered galaxies they are so huge and bright that they can be observed in great detail, despite their large distances.”Astronomer Mischa Schirmer of the Gemini Observatory

ikenbot:

Artificial Brain Mimics Human Abilities and Flaws

Side Note: I recommend this fascinating article for anyone who’s been as interested in developments of the brain in the past couple of weeks or in general and the refreshing data about how our pattern recognition works and how it can lead to not only a better understanding of our own minds but also a better understanding into building more accurate artificial intelligence in robots. The accuracy and how natural the intelligence comes off is important if we are to have robots that work for and aid us, if we are to have extensions of what our technology can do with what we know about the human body and brain I think robotics is one way to go about it. It’s like using technology as a canvas and expressing our own biological makeup through it. In this article LS gets into a new software model that accurately replicates certain human-like mistakes with a very limited amount of virtual pattern recognizers. Excuse me for leaving the whole bit of the article I just found it too interesting to leave anything out.

Spaun, a new software model of a human brain, is able to play simple pattern games, draw what it sees and do a little mental arithmetic. It powers everything it does with 2.5 million virtual neurons, compared with a human brain’s 100 billion. But its mistakes, not its abilities, are what surprised its makers the most, said Chris Eliasmith, an engineer and neuroscientist at the University of Waterloo in Canada.

Ask Spaun a question, and it hesitates a moment before answering, pausing for about as long as humans do. Give Spaun a list of numbers to memorize, and it falters when the list gets too long. And Spaun is better at remembering the numbers at the beginning and end of a list than at recalling numbers in the middle, just like people are.

“There are some fairly subtle details of human behavior that the model does capture,” said Eliasmith, who led the development of Spaun, or the Semantic Pointer Architecture Unified Network. “It’s definitely not on the same scale [as a human brain],” he told TechNewsdaily. “It gives a flavor of a lot of different things brains can do.”

Eliasmith and his team of Waterloo neuroscientists say Spaun is the first model of a biological brain that performs tasks and has behaviors. Because it is able to do such a variety of things, Spaun could help scientists understand how humans do the same, Eliasmith said. In addition, other scientists could run simplified simulations of certain brain disorders or psychiatric drugs using Spaun, he said.

A brain with thought and action

Researchers have made several brain models that are more powerful than Spaun. The Blue Brain model at the Ecole Polytechnique Fédérale de Lausanne in France has 1 million neurons. IBM’s SyNAPSE project has 1 billion neurons. Those models aren’t built to perform a variety of tasks, however, Eliasmith said.

Spaun is programmed to respond to eight types of requests, including copying what it sees, recognizing numbers written with different handwriting, answering questions about a series of numbers and finishing a pattern after seeing examples.

Spaun’s myriad skills could shed light on the flexible, variable human brain, which is able to use the same equipment to control typing, biking, driving, flying airplanes and countless other tasks, Eliasmith said. That knowledge, in turn, could help scientists add flexibility to robots or artificial intelligence, he said. Artificial intelligence now usually specializes in doing only one thing, such as tagging photos or playing chess. “It can’t figure out to switch between those things,” he said.

In addition, artificial intelligence isn’t built to mimic the cellular structure of human brains as closely as Spaun and other brain models do. Because Spaun runs more like a human brain, other researchers could use it to run health experiments that would be unethical in human study volunteers, Eliasmith said. He recently ran a test in which he killed off the neurons in a brain model at the same rate that neurons die in people as they age, to see how the dying off affected the model’s performance on an intelligence test.

Such tests would have to be just first steps in a longer experiment, Eliasmith said. The human brain is so much more complex than models that there’s a limit to how much models are able to tell researchers. As scientists continue to improve brain models, the models will become better proxies for health studies, he said.

Next up: a brain in real time

There’s one major way Spaun differs from a human brain. It takes a lot of computingpower to perform its little tasks. Spaun runs on a supercomputer at the University of Waterloo, and it takes the computer two hours to run just one second of a Spaun simulation, Eliasmith said.

So Eliasmith’s next major step for improving Spaun is developing hardware that lets the model work in real time. He’ll cooperate with researchers at the University of Manchester in the U.K. and hopes to have something ready in six months, he said.

In the far future, people may find Spaun’s humanlike flaws deliberately built into robot assistants, Eliasmith said. “Those kinds of features are important in a way because if we’re interacting with an agent and it has a kind of memory that we’re familiar with, it’ll more natural to interact with,” he added.

Eliasmith and his colleagues published their latest paper about Spaun today (Nov. 29) in the journal Science.

DNA ‘LEGOs’ Build a Mini Space Shuttle

A tiny space shuttle made out of DNA “LEGO bricks” shows how scientists could someday build new technologies on the smallest scales.

Image: DNA ‘bricks’ can self-assemble into complex 3D shapes such as a miniature space shuttle. Credit:Kurt V. Gothelf | Yonggang Ke et al

Single DNA strands became “LEGO bricks” that could assemble together by themselves into 102 individual 3D shapes. Harvard researchers manipulated the DNA coding of the bricks so that they could form solid shapes such as the tiny shuttle, honeycomb structures, and even “written” features on a solid base such as numbers and letters of the English alphabet.

“Once we know how to compile the correct code of complex shapes and add it to the synthetic DNA strands, everything else is simple and natural,” said Yonggang Ke, a chemist at Harvard University. “Those DNA strands are like smart LEGO bricks that know exactly where to go by themselves.”

Citizen Science Time: Help Scientists by Sending Them Some Poop.. No Seriously

Stool Samples for Science: For Jack Gilbert’s next research project, he’ll be exploring a dark, mysterious place where thousands of unique species live, many of them unknown to science. He’ll be collecting samples of those species, cataloging them and trying to understand how they live.

Image: Enterococcus faecalis, a bacterium species that lives in the human gut. A new project is looking for volunteers to donate stool, skin and mouth samples for a study about the bacteria that live in human intestines. Credit: USDA

He’s not heading out on an expedition to the seafloor, a deep cave or anywhere else to do it, however. The specimens will be coming to him, by mail, in the form of thousands of scrapings from people’s skin, mouths and stools.

“Of course it’s gross, but science and helping people is more important than our sensibilities,” Gilbert, who normally studies marine bacteria at the University of Chicago, told TechNewsDaily.

Want to send Gilbert a bit of you? Simply visit his study’s crowd-funding page and order a $99 kit to participate.

It’s a project whose time has come, says Lita Proctor, who coordinates the Human Mircobiome Project for the National Institutes of Health. She said DNA-analyzing technology — and social media — are finally ready to handle the task, which is being called the American Gut Project.

Ultimately, Gilbert and 28 other U.S. university researchers participating in the American Gut Project hope they can persuade 10,000 people to send scrapings. From those submissions, the researchers hope to learn more about how bacteria, health and diet are related. “How does the Atkins diet affect gut bacteria populations?” and “What bacteria do thinner people tend to have?” are the kinds of questions they should be able to answer, Gilbert said.

As long as they can gather enough volunteers, they plan to publish their first results sometime in 2014, he added.

ikenbot:

The Other Red Planet: Soviet Union Scored an Interplanetary First at Venus 45 Years Ago

Illustration: A piloted flyby spacecraft releases a robotic probe (Venera 4) into the cloudy atmosphere of Venus. / NASA

The U.S.S.R.’s Venera 4 was the first spacecraft to return data from inside another planet’s atmosphere

If Venus’s pass across the sun earlier this week yields a bounty of information for hunters of transiting worlds in other planetary systems, it’s because Venus is a known entity. Studying the June 5 Venus transit as if it were a faraway exoplanet “gives us a reality check,” says planetary physicist Colin Wilson of the University of Oxford. “We can check on all those exoplanet techniques to see how accurate they really are.” Such data may enhance NASA’s Kepler mission as well as the many ground-based campaigns using planetary transits to identify distant worlds, a method that has led to the discovery or characterization of more than 200 exoplanets.

That reality check would not be possible without the data planetary scientists already have about Venus. And humanity’s up-close exploration of Earth’s cloud-shrouded closest neighbor began in earnest 45 years ago, when the Soviet probe Venera 4 launched on June 12, 1967.

The first two Veneras had failed after launch. Venera 3, launched in 1965, is thought to have crashed on Venus but returned no data.

At last, on October 18, 1967, Venera 4 became the first man-made object to enter another planet’s atmosphere and send back data. “It was before any Mars landers or anything,” Wilson says. And it changed our view of Earth’s sister planet forever.

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sciencenote:

Did anyone else have this problem as a child?

sciencenote:

Quantum mechanics is defined as, “[a] framework of laws governing the universe whose unfamiliar features such as uncertainty, quantum fluctuation, and wave-particle duality become most apparent on microscopic scales of atoms and subnuclear [sic] particles” (NOVA – The Elegant Universe); this is the mechanism by which quantum physics operates. Quantum physics, as a “discovery,” as well as a discipline, has its roots in the early 1900s. “In 1905, the accepted and proven theory of light was the light was a wave phenomenon.” However, “In spite of this, Einstein published his famous paper proposing that light was a particle phenomenon” (Zukav 133). And so, the wave-particle duality existent in modern physics, as we know it, is born. Zukav goes on to say, “Einstein’s thesis led to the wave-particle duality from which quantum mechanics emerged and [brought] with it, [ … ] a way of looking at reality and ourselves that is vastly different from that to which we were accustomed” (134). This “discovery” of existent duality was not alone in the realm of physics. For example, the duality of bourgeoisie/proletariat was beginning to rise in the consciousness of the masses during this time – along with the duality existent in socio-political spheres in the form of collectivism vs. individualism: the “greater” duality which essentially caused socialist (and inevitably communist) uprising (symbolic of the rise of post-modern thought, creating the “greatest” duality existent during this time: modern vs. post-modern). These various events were part of a “collective consciousness,” which the Chinese would consider to be similar to the “Western” notion of the soul.