Tag Archives: Research

Saving the World with Science and Mushrooms

Entrepreneurial mycologist Paul Stamets studies mushrooms. The focus of Stamets’ research is the Northwest’s native fungal genome, mycelium, but along the way he has filed 22 patents for mushroom-related technologies, including pesticidal fungi that trick insects into eating them, and mushrooms that can break down the neurotoxins used in nerve gas.

The webcast really gets interesting at minute 9 or so (in my opinion) with 6 specific examples.

Related: Fun Fungi – Thinking Slime Moulds – Microbe Types

Intel Science and Engineering Fair 2009 Webcasts

Tara Adiseshan, 14, of Charlottesville, Virginia; Li Boynton, 17, of Houston; and Olivia Schwob, 16, of Boston were selected from 1,563 young scientists from 56 countries, regions and territories for their commitment to innovation and science. Each received a $50,000 scholarship from the Intel Foundation.

(video removed, so the embed code has been removed)

In the webcast, Tara Adiseshan, talks about her project studying the evolutionary ties between nematodes (parasites) and sweat bees. She identified and classified the evolutionary relationships between sweat bees and the nematodes (microscopic worms) that live inside them. Tara was able to prove that because the two have such ecologically intimate relationships, they also have an evolutionary relationship. That is to say, if one species evolves, the other will follow.

Li Boynton developed a biosensor from bioluminescent bacteria (a living organism that gives off light) to detect the presence of contaminants in public water. Li’s biosensor is cheaper and easier to use than current biosensors, and she hopes it can be used in developing countries to reduce water toxicity. Li Boynton on What’s Great About Science:

Olivia Schwob isolated a gene that can be used to improve the intelligence of a worm. The results could help us better understand how humans learn and even prevent, treat and cure mental disabilities in the future.

In addition to the three $50,000 top winners, more than 500 Intel International Science and Engineering Fair participants received scholarships and prizes for their groundbreaking work. Intel awards included 19 “Best of Category” winners who each received a $5,000 Intel scholarship and a new laptop. In total, nearly $4 million is scholarships and awards were provided.

Merck and Elsevier Publish Phony Peer-Review Journal

Elsevier is one of those publishers fighting open science. They try to claim that the government publishing government funded research in an open way will tarnish science. The argument makes no sense to me. Here is another crazy action on their part: they published a “journal” funded by Merck to promote Merck products. Merck Makes Phony Peer-Review Journal:

Merck cooked up a phony, but real sounding, peer reviewed journal and published favorably looking data for its products in them. Merck paid Elsevier to publish such a tome, which neither appears in MEDLINE or has a website, according to The Scientist.
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What’s sad is that I’m sure many a primary care physician was given literature from Merck that said, “As published in Australasian Journal of Bone and Joint Medicine, Fosamax outperforms all other medications….” Said doctor, or even the average researcher wouldn’t know that the journal is bogus. In fact, knowing that the journal is published by Elsevier gives it credibility!

As I have said the journals fighting open science should have their credibility questioned. They are putting their outdated business model above science. We should not see organizations that are focused on closing science research through deceptive publicity efforts and lobbying efforts as credible.

Iron-breathing Species Isolated in Antarctic for Millions of Years

Graphic showing environment of Antarctic subglacial microbes

Graphic of Blood Falls showing microbial community environment in the Antarctic by Zina Deretsky at NSF)

A reservoir of briny liquid buried deep beneath an Antarctic glacier supports hardy microbes that have lived in isolation for millions of years, researchers report this week. The discovery of life in a place where cold, darkness, and lack of oxygen would previously have led scientists to believe nothing could survive comes from a team led by researchers at Harvard University and Dartmouth College.

Despite their profound isolation, the microbes are remarkably similar to species found in modern marine environments, suggesting that the organisms now under the glacier are the remnants of a larger population that once occupied an open fjord or sea.

“It’s a bit like finding a forest that nobody has seen for 1.5 million years,” says Ann Pearson, Thomas D. Cabot Associate Professor of Earth and Planetary Sciences in Harvard’s Faculty of Arts and Sciences. “Intriguingly, the species living there are similar to contemporary organisms, and yet quite different — a result, no doubt, of having lived in such an inhospitable environment for so long.”

“This briny pond is a unique sort of time capsule from a period in Earth’s history,” says lead author Jill Mikucki, now a research associate in the Department of Earth Sciences at Dartmouth and visiting fellow at Dartmouth’s Dickey Center for International Understanding and its Institute of Arctic Studies. “I don’t know of any other environment quite like this on Earth.”

Chemical analysis of effluent from the inaccessible subglacial pool suggests that its inhabitants have eked out a living by breathing iron leached from bedrock with the help of a sulfur catalyst. Lacking any light to support photosynthesis, the microbes have presumably survived by feeding on the organic matter trapped with them when the massive Taylor Glacier sealed off their habitat an estimated 1.5 to 2 million years ago.
Continue reading →

Artificial Intelligence Finds Ancient Indus Script Matches Spoken Language

Artificial Intelligence Cracks 4,000-Year-Old Mystery by Brandon Keim

An ancient script that’s defied generations of archaeologists has yielded some of its secrets to artificially intelligent computers.
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The Indus script, used between 2,600 and 1,900 B.C. in what is now eastern Pakistan and northwest India, belonged to a civilization as sophisticated as its Mesopotamian and Egyptian contemporaries. However, it left fewer linguistic remains. Archaeologists have uncovered about 1,500 unique inscriptions from fragments of pottery, tablets and seals. The longest inscription is just 27 signs long.
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They fed the program sequences of four spoken languages: ancient Sumerian, Sanskrit and Old Tamil, as well as modern English. Then they gave it samples of four non-spoken communication systems: human DNA, Fortran, bacterial protein sequences and an artificial language.

The program calculated the level of order present in each language. Non-spoken languages were either highly ordered, with symbols and structures following each other in unvarying ways, or utterly chaotic. Spoken languages fell in the middle.

When they seeded the program with fragments of Indus script, it returned with grammatical rules based on patterns of symbol arrangement. These proved to be moderately ordered, just like spoken languages.

Nanoparticles With Scorpion Venom Slow Cancer Spread

In a, chlorotoxin molecules, colored blue and green, attach themselves to a central nanoparticle. In b, each nanoprobe offers many chlorotoxin molecules that can simultaneously latch on to many MMP-2s, depicted here in yellow, which are thought to help tumor cells travel through the body. In c, over time nanoprobes draw more and more of the MMP-2 surface proteins into the cell, slowing the tumor’s spread. Image from the University of Washington.

University of Washington researchers found they could cut the spread of cancerous cells by 98 percent, compared to 45 percent for the scorpion venom alone, by combining nanoparticles with a scorpion venom compound already being investigated for treating brain cancer.

For more than a decade scientists have looked at using chlorotoxin, a small peptide isolated from scorpion venom, to target and treat cancer cells. Chlorotoxin binds to a surface protein overexpressed by many types of tumors, including brain cancer. Previous research by Miqin Zhang‘s group combined chlorotoxin with nanometer-scale particles of iron oxide, which fluoresce at that size, for both magnetic resonance and optical imaging.

Chlorotoxin also disrupts the spread of invasive tumors — specifically, it slows cell invasion, the ability of the cancerous cell to penetrate the protective matrix surrounding the cell and travel to a different area of the body to start a new cancer. The MMP-2 on the cell’s surface, which is the binding site for chlorotoxin, is hyperactive in highly invasive tumors such as brain cancer. Researchers believe MMP-2 helps the cancerous cell break through the protective matrix to invade new regions of the body. But when chlorotoxin binds to MMP-2, both get drawn into the cancerous cell.

Research showed that the cells containing nanoparticles plus chlorotoxin were unable to elongate, whereas cells containing only nanoparticles or only chlorotoxin could stretch out. This suggests that the nanoparticle-plus-chlorotoxin disabled the machinery on the cell’s surface that allows cells to change shape, yet another step required for a tumor cell to slip through the body.

So far most cancer research has combined nanoparticles either with chemotherapy that kills cancer cells, or therapy seeking to disrupt the genetic activity of a cancerous cell. This is the first time that nanoparticles have been combined with a therapy that physically stops cancer’s spread.

Full press release

Amazonian Ant Species is All Female, Reproduces By Cloning

Ants inhabit ‘world without sex’

The ants reproduce via cloning – the queen ants copy themselves to produce genetically identical daughters. This species – the first ever to be shown to reproduce entirely without sex – cultivates a garden of fungus, which also reproduces asexually.
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Dr Himler’s interest in Mycocepurus smithii was originally sparked not by their unusually biased sex ratio, but by their ability to cultivate crops. “Ants discovered farming long before we did – they have been cultivating fungus gardens for an estimated 80 million years.

“They collect plant material, insect faeces and even dead insects from the forest floor and feed it to their crops,” she said.

New Yorkers Help Robot Find Its Way in the Big City

Tweenbots by Kacie Kinzer

I wondered: could a human-like object traverse sidewalks and streets along with us, and in so doing, create a narrative about our relationship to space and our willingness to interact with what we find in it? More importantly, how could our actions be seen within a larger context of human connection that emerges from the complexity of the city itself? To answer these questions, I built robots.
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Tweenbots are human-dependent robots that navigate the city with the help of pedestrians they encounter. Rolling at a constant speed, in a straight line, Tweenbots have a destination displayed on a flag, and rely on people they meet to read this flag and to aim them in the right direction to reach their goal.
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The results were unexpected. Over the course of the following months, throughout numerous missions, the Tweenbots were successful in rolling from their start point to their far-away destination assisted only by strangers. Every time the robot got caught under a park bench, ground futilely against a curb, or became trapped in a pothole, some passerby would always rescue it and send it toward its goal. Never once was a Tweenbot lost or damaged. Often, people would ignore the instructions to aim the Tweenbot in the “right” direction, if that direction meant sending the robot into a perilous situation. One man turned the robot back in the direction from which it had just come, saying out loud to the Tweenbot, “You can’t go that way, it’s toward the road.”

Very cool, fun and interesting. Cute integration of technology, psychology and an inquisitive scientific mind.

Robot with Biological Brain

The Living Robot by Joe Kloc

Life for Warwick’s robot began when his team at the University of Reading spread rat neurons onto an array of electrodes. After about 20 minutes, the neurons began to form connections with one another. “It’s an innate response of the neurons,” says Warwick, “they try to link up and start communicating.”

For the next week the team fed the developing brain a liquid containing nutrients and minerals. And once the neurons established a network sufficiently capable of responding to electrical inputs from the electrode array, they connected the newly formed brain to a simple robot body consisting of two wheels and a sonar sensor.
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At first, the young robot spent a lot of time crashing into things. But after a few weeks of practice, its performance began to improve as the connections between the active neurons in its brain strengthened. “This is a specific type of learning, called Hebbian learning,” says Warwick, “where, by doing something habitually, you get better at doing it.”
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“It’s fun just looking at it as a robot life form, but I think it may also contribute to a better understanding of how our brain works,” he says. Studying the ways in which his robot learns and stores memories in its brain may provide new insights into neurological disorders like Alzheimer’s disease.

CDC: Reduce Salt in Your Diet

USA Center for Disease Control: Application of Lower Sodium Intake Recommendations for Adults, 1999-2006 study

In 2005-2006, an estimated 29% of U.S. adults had hypertension (i.e., high blood pressure), and another 28% had prehypertension. The estimated average intake of sodium for those in the United States over 2 years old was 3,436 mg/day while the U.S. Department of Health and Human Services and U.S. Department of Agriculture recommended adults should consume no more than 2,300 mg/day of sodium (equal to approximately 1 tsp of salt), but those in specific groups (i.e., all persons with hypertension, all middle-aged and older adults, and all blacks) should consume no more than 1,500 mg/day of sodium (69% of U.S. adults should consume no more than !,500 mg/day). There is substantial evidence linking greater sodium intake to higher blood pressure.

Sodium reduction is recommended for persons with hypertension and as a first line of intervention for persons with prehypertension. Public health actions to reduce sodium intake likely will include reducing the sodium content of processed foods; encouraging consumption of more low-sodium foods, such as fruits and vegetables; and providing more relevant information about sodium in food labeling.

The current daily percentage value for sodium in the nutrition facts panel of packaged foods is based on a previous federal guideline of 2,400 mg/day and is likely to mislead the majority of consumers, for whom the 1,500 mg/day limit is applicable.