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How Computers Push on the Molecules They Simulate

By Guest PostJanuary 9, 2013Scienceacceleration, albert einstein, algorithm, analytical results, artifacts, atoms and molecules, behavior, Berkeley, berkeley lab, calculation, california, california institute, chemical fuel, collide, computer method, conserve energy, david sivak, digital representation, digitize time, dna repair, driving force, effective friction, energy dense, equation, error, finite time steps, fluid, french physicist, gavin crooks, john chodera, langevin dynamics, model brownian motion, modeling molecular system, modern computer, molecular machines, molecular scale motion, molecule, momentum, natural system, nonequilibrium driving force, nonequilibrium statistical mechanics, particle, passage of time, paul langevin, photosynthesis, pollen grain, qb3, quantitative biosciences, quantum mechanics, real world, simulation, source, tenacious errors, theoretical method, thermal energy, toy models, university, velocity, water, water molecules

Berkeley Lab bioscientists and their colleagues decipher a far-reaching problem in computer simulations

Because modern computers have to depict the real world with digital representations of numbers instead of physical analogues, to simulate the continuous passage of time they have to digitize time into small slices. This kind of simulation is essential in disciplines from medical and biological research, to new materials, to fundamental considerations of quantum mechanics, and the fact that it inevitably introduces errors is an ongoing problem for scientists.

Scientists at the U.S. Department of Energy’s Lawrence Berkeley National Laboratory (Berkeley Lab) have now identified and characterized the source of tenacious errors and come up with a way to separate the realistic aspects of a simulation from the artifacts of the computer method. The research was done by David Sivak and his advisor Gavin Crooks in Berkeley Lab’s Physical Biosciences Division and John Chodera, a colleague at the California Institute of Quantitative Biosciences (QB3) at the University of California at Berkeley. The three report their results in Physical Review X. (more…)

Cassini Spots Mini Nile River on Saturn Moon

By Guest PostDecember 12, 2012Sciencebedrock, caspian sea, cassini huygens mission, cassini mission, earth, equatorial regions, ethane, evaporation, extraterrestrial likeness, faulting, faults, fractures, headwaters, hydrocarbons, hydrologic cycle, infrared mapping spectrometer, jani radebaugh, jet propulsion laboratory, kraken mare, liquid hydrocarbons, mediterranean sea, methane, moon, NASA, nile river, north polar region, ontario lacus, plate tectonics, rainfall, river system, river valley, saturn, sea, southern hemisphere, spot, stable liquid, steve wall, titan, titan sea, water

PASADENA, Calif. – Scientists with NASA’s Cassini mission have spotted what appears to be a miniature, extraterrestrial likeness of Earth’s Nile River: a river valley on Saturn’s moon Titan that stretches more than 200 miles (400 kilometers) from its “headwaters” to a large sea. It is the first time images have revealed a river system this vast and in such high resolution anywhere other than Earth.

Scientists deduce that the river, which is in Titan’s north polar region, is filled with liquid hydrocarbons because it appears dark along its entire length in the high-resolution radar image, indicating a smooth surface. (more…)

NASA Mars Rover Fully Analyzes First Soil Samples

By Guest PostDecember 4, 2012Scienceanalyze, carbon organics, chemin, chemistry, chlorine, curiosity rover, gale crater, ingredient, john grotzinger, ken edgett, life, mahli camera, mars, martian organics, martian soil, mount, NASA, organic compounds, pathfinder, paul mahaffy, rock sample, rocknest, sam, sample analysis, sharp, sulfur, water, water molecules, windblown dust

PASADENA, Calif. – NASA’s Mars Curiosity rover has used its full array of instruments to analyze Martian soil for the first time, and found a complex chemistry within the Martian soil. Water and sulfur and chlorine-containing substances, among other ingredients, showed up in samples Curiosity’s arm delivered to an analytical laboratory inside the rover.

Detection of the substances during this early phase of the mission demonstrates the laboratory’s capability to analyze diverse soil and rock samples over the next two years. Scientists also have been verifying the capabilities of the rover’s instruments. (more…)

Hearty Organisms Discovered in Bitter-Cold Antarctic Brine

By Guest PostNovember 26, 2012Environmentammonia, anoxic brine, antarctic ice, aquatic environment, brine, cryo environment, earth, east antarctica, ecosystem, europa, extreme environment, frozen environment, hearty microbes, jupiter, lake vida, life, mcmurdo dry valleys, michigan state university, microbial life, microbial metabolism, model, moon, nathaniel ostrom, nitrogen, nitrous oxide, permanent darkness, subzero temperature, sulfur, supersaturated, vacation destination, water, zoologist

EAST LANSING, Mich. — Where there’s water there’s life – even in brine beneath 60 feet of Antarctic ice, in permanent darkness and subzero temperatures.

While Lake Vida, located in the northernmost of the McMurdo Dry Valleys of East Antarctica, will never be a vacation destination, it is home to some newly discovered hearty microbes. In the current issue of the Proceedings of the National Academy of Science, Nathaniel Ostrom, Michigan State University zoologist, has co-authored “Microbial Life at -13ºC in the Brine of an Ice-Sealed Antarctic Lake.” (more…)

Blind Cavefish Use Teeth to Find Their Way, New UMD Research Shows

By Guest PostSeptember 19, 2012Natureastroblepus pholeter, brain, catfish, cavefish, daphne soares, dark, darkness, denticles, dentin, ecuador, ecuadorian cave, enamel, evolutionary phenomenon, human ear, maryland, mathematical, mechanosensory part, natural sciences, navigate, neuromasts, sensory use, single cave, skin teeth, teeth, university, unknown, water, way

COLLEGE PARK, Md. — In a single cave in Ecuador, a species of cavefish has evolved to do something perhaps unique to them, navigate with their teeth.

The sensory use of these teeth, which are not in their mouths, but protrude from their skin, appears to be a previously unknown evolutionary phenomenon, one that may not exist anywhere outside this one cave, say researchers at the University of Maryland, National Institutes of Health and Pontificia Universidad Católica del Ecuador who brought to light this fascinating new adaptation to life in dark, swiftly flowing waters. (more…)

NASA Observations Point to ‘Dry Ice’ Snowfall on Mars

By Guest PostSeptember 13, 2012Sciencecarbon dioxide, data, david kass, dry ice, frozen, ice, jpl, mars, mars climate sounder, martian air, martian atmosphere, NASA, particle, paul hayne, phoenix lander, polar caps, reconnaissance orbiter, red planet, residual cap, snow, snow cloud, snowfall, solar system, water

PASADENA, Calif. — NASA’s Mars Reconnaissance Orbiter data have given scientists the clearest evidence yet of carbon-dioxide snowfalls on Mars. This reveals the only known example of carbon-dioxide snow falling anywhere in our solar system.

Frozen carbon dioxide, better known as “dry ice,” requires temperatures of about minus 193 degrees Fahrenheit (minus 125 Celsius), which is much colder than needed for freezing water. Carbon-dioxide snow reminds scientists that although some parts of Mars may look quite Earth-like, the Red Planet is very different. The report is being published in the Journal of Geophysical Research. (more…)

New Report Reveals Food, Water Disparities along U.S.-Mexico Border

By Guest PostSeptember 4, 2012Economy, General, Politicsagricultural field, american corporations, arizona, boundary, california, canning kitchen, change, colorado, daylights, disparity, food, foodshed, gary nabhan, globalized economy, human survival, hungry, jeffrey m banister, Mexico, mexico border, minnesota, multi cultural, new mexico, nicaragua, nogales, oregon, ranchlands, republic, risk, skilled labor, sonora, taco wagons, texas, united states, university, US, water

A UA study has found poverty, water scarcity, food insecurity and interdependence between the United States and Mexico along the border.

The U.S.-Mexico border is the border in the world with the greatest disparity in access to food and water needed for human survival, according to a report commissioned and published by the Southwest Center at the University of Arizona.

An endowment from the Kellogg Foundation and a UA Confluencenter for Creative Inquiry grant supported the study and its focus on assessing transborder food systems to understand water scarcity and food insecurity within the borderlands region.

The report underscores how in the globalized economy, Arizona and the rest of the United States rely on the skilled labor, water, fresh produce, fish, shellfish and livestock originating in northern Mexico; while in Mexico, the population is increasingly dependent upon frozen and processed foods originating in the United States. (more…)

Researchers Develop New, Less Expensive Nanolithography Technique

By Guest PostSeptember 3, 2012Scienceabsorb, albena ivanisevic, approach, biomedical application, chapel hill, humidity, marcus a kramer, micron, nanolithography, nanoscale, north Carolina, polymer, silicon strip, spore, state university, substrate surface, surface, technique, water

Researchers from North Carolina State University have developed a new nanolithography technique that is less expensive than other approaches and can be used to create technologies with biomedical applications.

“Among other things, this type of lithography can be used to manufacture chips for use in biological sensors that can identify target molecules, such as proteins or genetic material associated with specific medical conditions,” says Dr. Albena Ivanisevic, co-author of a paper describing the research. Ivanisevic is an associate professor of materials science and engineering at NC State and associate professor of the joint biomedical engineering program at NC State and the University of North Carolina at Chapel Hill. Nanolithography is a way of printing patterns at the nanoscale. (more…)

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