Monday, January 5, 2009

The Gold Standard: Nanoparticles Used To Make 3-D DNA Nanotubes

[Source: ScienceDaily ] - Arizona State University researchers Hao Yan and Yan Liu imagine and assemble intricate structures on a scale almost unfathomably small. Their medium is the double-helical DNA molecule, a versatile building material offering near limitless construction potential.

In the January 2, 2009 issue of Science, Yan and Liu, researchers at ASU's Biodesign Institute and faculty in the Department of Chemistry and Biochemistry, reveal for the first time the three-dimensional character of DNA nanotubules, rings and spirals, each a few hundred thousandths the diameter of a human hair. These DNA nanotubes and other synthetic nanostructures may soon find their way into a new generation of ultra-tiny electronic and biomedical innovations.

Yan and Liu are working in the rapidly proliferating field of structural DNA nanotechnology. By copying a page from nature's guidebook, they capitalize on the DNA molecule's remarkable properties of self-assembly. When ribbonlike strands of the molecule are brought together, they fasten to each other like strips of Velcro, according to simple rules governing the pairing of their four chemical bases, (labeled A, C, T and G). From this meager alphabet, nature has wrung a mind-bending multiplicity of forms. DNA accomplishes this through the cellular synthesis of structural proteins, coded for by specific sequences of the bases. Such proteins are fundamental constituents of living matter, forming cell walls, vessels, tissues and organs. But DNA itself can also form stable architectural structures, and may be artificially cajoled into doing so.

In his research, Yan has been much inspired by nanoscale ingenuity in the natural world: "Unicellular creatures like oceanic diatoms," he points out, "contain self-assembled protein architectures." These diverse forms of enormous delicacy and organismic practicality are frequently the result of the orchestrated self-assembly of both organic and inorganic material.
Scientists in the field of structural DNA nanotechnology, including Dr. Yan's team, have previously demonstrated that pre-fab DNA elements could be induced to self-assemble, forming useful nanostructural platforms or "tiles." Such tiles are able to snap together—with jigsaw puzzle-piece specificity—through base pairing, forming larger arrays.

Yan and Liu's work in Science responds to one of the fundamental challenges in nanotechnology and materials science, the construction of molecular-level forms in three dimensions. To do so, the team uses gold nanoparticles, which can be placed on single-stranded DNA, compelling these flexible molecular tile arrays to bend away from the nanoparticles, curling into closed loops or forming spring-like spirals or nested rings, roughly 30 to 180 nanometers in diameter.

The gold nanoparticles, which coerce DNA strands to arc back on themselves, produce a force known as "steric hindrance," whose magnitude depends on the size of particle used. Using this steric hindrance, Yan and Liu have shown for the first time that DNA nanotubules can be specifically directed to curl into closed rings with high yield.

When 5 nanometer gold particles were used, a milder steric hindrance directed the DNA tiles to curl up and join complementary neighboring segments, often forming spirals of varying diameter in addition to closed rings. A 10 nanometer gold particle however, exerted greater steric hindrance, directing a more tightly constrained curling which, produced mostly closed tubules. Yan stresses that the particle not only participates in the self-assembly process as the directed material, but also as an active agent, inducing and guiding formation of the nanotube.

With the assistance of Anchi Cheng and Jonanthan Brownell at the Scripps Research Institute, they have used an imaging technique known as electron cryotomography to provide the first glimpses of the elusive 3-D architecture of DNA nanotubules. "You quickly freeze the sample in vitreous ice," he explains, describing the process. "This will preserve the native conformation of the structure." Subsequent imaging at various tilted angles allows the reconstruction of the three-dimensional nanostructure, with the gold particles providing enough electron density for crisp visualization.

DNA nanotubules will soon be ready to join their carbon nanotube cousins, providing flexible, resilient and manipulatable structures at the molecular level. Extending control over 3-D architectures will lay the foundation for future applications in photometry, photovoltaics, touch screen and flexible displays, as well as for far-reaching biomedical advancements.

"The ability to build three-dimensional structures through self-assembly is really exciting, " Yan says. "It's massively parallel. You can simultaneously produce millions or trillions of copies."
Yan and Liu believe that controlled tubular nanostructures bearing nanoparticles may be applied to the design of electrical channels for cell-cell communication or used in the construction of various nanoelectrical devices.

Arizona Health Query Uses SAS® to Create a Unique Community Health Data System

[Source: Business Wire] - A model collaboration between academia and the healthcare community is benefiting Arizona communities and citizens, thanks to advanced analytics software from business analytics leader SAS. The Arizona Health Query database (AZHQ) is using SAS® software to integrate and analyze millions of anonymized healthcare records. Analyzing data over time and across health systems, researchers identify specific community health needs, inform public policy and, ultimately, lower costs.

Created by Arizona State University’s Center for Health Information and Research (CHiR), AZHQ consolidates health information from dozens of healthcare organizations in Arizona to form a community health data system. Previously, patient data was spread across different healthcare providers, which hindered effective research of community health issues. With more than 40 data partners, including the Arizona Health Care Cost Containment System (AHCCCS) – the state’s Medicaid system – that is no longer an issue.

“With the participation of many public and private healthcare data partners, we’re able to apply SAS data integration and analytics capabilities to track patients over time and location, and identify trends and patterns in healthcare within and across communities,” said Wade Bannister, creator of the AZHQ database and Associate Director for CHiR.

Researchers have also used AZHQ to analyze health disparities in Hispanic and non-Hispanic children, the evolution of Valley fever, asthma patterns in Arizona, and the efficacy of hospitals in serving the needy. It has also been used to conduct community health assessments.

A good example of how AZHQ is affecting community health is the program’s study of MRSA (Methicillin-Resistant Staphylococcus aureus), a staph infection that is resistant to antibiotics. By tracking the disease’s spread by zip code, researchers were able to postulate how and why it was spreading.

Since its inception, AZHQ has consolidated data on 9 million people and 200 million healthcare encounters, pulling data from more than 60 healthcare delivery institutions, including hospitals, insurers and employers. Patient privacy is paramount; AZHQ complies with HIPAA regulations and is regularly audited to ensure continuing compliance. AZHQ received the university’s President’s Medal for Social Embeddedness in 2005 and 2008.

SAS predictive analytics present an opportunity for cost savings, according to William Johnson, who founded AZHQ and directs CHiR. Using SAS, he and fellow researchers analyzed AHCCCS data to develop a model that predicts risk associated with future high-cost Medicaid users.
“By assessing risk factors and predicting costs of patient care years in advance, steps can be taken to alleviate costs through intervention and more informed budget decisions,” said Johnson.

“The breadth of data in the system makes it unique in the US,” said Johnson. “With the advanced research capabilities we have, we’re confident our partnership with the community impacts Arizona healthcare in a very positive way.”

Blind man "sees," cruising through obstacle course without a hitch

[Source Scientific American, Coco Ballantyne ] - A man left totally blind by a massive stroke navigated a complex maze of boxes, chairs and other objects without stumbling or colliding into any of the obstacles.

Brain scans showed that after suffering two consecutive strokes, the man, 56, lost all function in his visual cortex, the brain's primary vision-processing center. But despite the loss, an international research team (from the U.S. and five other countries) reports in the journal Current Biology that "he could successfully navigate down the extent of a long corridor in which various barriers were placed."

Neuroscientists call this ability blindsight. People with blindsight, "usually tell you that they cannot see a thing…. They cannot consciously see but they have some type of awareness," says Susana Martinez-Conde, a neuroscientist at the Barrow Neurological Institute in Phoenix, Ariz. For instance, she notes, they will correctly guess the number on flashcards more than 50 percent of the time even though their eyesight is shot.

In a person with normal vision, information is passed from the retina (light sensitive area at the back of the eyes) to the visual cortex (the brain's vision center), which relays it to other brain processing areas such as the posterior parietal cortex. In this man's case, the retinas worked perfectly well, but the information highway to the brain was blocked at the visual cortex.

This means that the man must have been using alternative pathways (that bypassed the visual cortex) to connect to the other brain processing regions, Martinez-Conde says, noting that most people likely have these alternate routes but don't rely on them because the dominant visual cortex pathway functions properly.

This study is not the first to document blightsightness, but it is first to describe the phenomenon in a patient who had suffered destruction of the visual cortex in both hemispheres of the brain, according to Nature News.

Over the past several years, scientists have identified brain circuits that may serve as alternative routes, but have yet to pinpoint which ones enable blindsightness, and exactly how they function. But Martinez-Conde says that a combo of electroencephalography (EEG), which measures electrical activity in the brain over time, and functional magnetic resonance imaging (fMRI), which shows blood flow to areas of the brain that are active, may shed light on these circuits.

Tuesday, December 23, 2008

8 ASU faculty elected as AAAS Fellows

[Source ASU, Skip Derra] - Eight Arizona State University faculty members are among the 486 newly elected Fellows of the American Association for the Advancement of Science (AAAS), a prestigious international scientific society. AAAS is the world's largest general scientific society.

Brad Allenby, Richard Creath, James Elser, Patricia Gober, Nancy Grimm, Sudhir Kumar, Thomas Moore and John Spence will be recognized Feb. 14 at the Fellows forum, during the 2009 AAAS annual meeting in Chicago.

This year's election brings the total number of AAAS Fellows at Arizona State University to 54.
Becoming a Fellow is in recognition of efforts toward advancing science applications that are deemed scientifically or socially distinguished. Within that general framework, each awardee is honored for contributions to a specific field.

Braden Allenby is cited by the AAAS for "distinguished contributions to earth systems engineering and management, design for environment, industrial ecology and science and technology policy." He is a professor in ASU's Department of Civil and Environmental Engineering, as well as a professor of law and of engineering and ethics with the Joan and David Lincoln Center for Applied Ethics. Recognized as a pioneer of modern industrial ecology, Allenby is co-director of the Center for Sustainable Engineering and is helping establish a new Center of Earth Systems Engineering and Management. He recently was named as one of the U.S. Professors of the Year for 2008 by the Carnegie Foundation for the Advancement of Teaching and the Council for Advancement and Support of Higher Education.

Richard Creath is cited by AAAS for "achievements in archiving and interpreting key documents in the historical development of scientific philosophy and demonstrating their relevance to current problems." Creath, a professor in the School of Life Sciences, is a philosopher of science and epistemologist who uses historical methods to illuminate fundamental questions about the nature of scientific reasoning and knowledge. He is one of the world's foremost authorities on philosophers Rudolf Carnap and W.V.O. Quine. As general editor of the multi-volume Carnap Project, he leads an international team of two dozen leading researchers.

James Elser is cited by AAAS for "pioneering work in developing the theories of ecological and biological stoichiometry to integrate levels of biology from the genome to the biosphere and thereby improve our management of renewable resources." Elser, a professor in the School of Life Sciences, has built a career asking questions about evolutionary biology and energy and material flows in ecosystems, traveling from Antarctica to alpine lakes of Norway and Colorado to the Mongolian grasslands of China, to find answers. Understanding the balance of carbon, nitrogen and phosphorus in systems forms the backbone of Elser's worldview, known as "stoichiometric theory." He has taught more than 10,000 students and his pioneering studies have shaped young minds and jumpstarted new research approaches, as well as provided insights into nutrient limitation, trophic dynamics, and biogeochemical cycling, evolution and integrated levels of organization from molecules to cells to ecosystems.

Patricia Gober, a human geographer and demographer, is co-director of the National Science Foundation's Decision Center for a Desert City, part of ASU's Global Institute of Sustainability, and a professor in the School of Geographical Sciences. A former president of the Association of American Geographers, Gober's research focuses on the use of science and visualization for real-world decision-making, particularly in tackling the difficult water management decisions necessary in the face of growing climatic uncertainty in metropolitan Phoenix. Gober is cited by AAAS for her "outstanding record of scholarship and disciplinary leadership" and because she "clearly established herself as a leader within the discipline and has left a permanent mark within American geography."

Nancy Grimm is cited by AAAS for "pioneering studies of urban social-ecological systems that conceptually expand urban resource management, and for innovative contributions in stream ecology and biogeochemistry that have stimulated decades of research." Grimm, a professor in ASU's School of Life Sciences, has for the past 10 years led the Central Arizona-Phoenix Long-Term Ecological Research project. CAP-LTER is centered on the analysis of urban-semi-arid ecosystem relationships. Through her collaborative work, Grimm has established a conceptual basis for including human choice and action in theory of urban ecosystem dynamics. The work on biogeochemistry, species distribution and abundance, and designed aquatic ecosystems in cities has revealed that many ecological features are best explained by combinations of social and biophysical drivers.

Sudhir Kumar directs the Center for Evolutionary Functional Genomics in ASU's Biodesign Institute and is a professor of biology in the School of Life Sciences. He is cited by AAAS for "exemplary contributions in evolutionary bioinformatics, particularly in developing high-impact comparative analysis software for biologists and in illuminating the evolutionary dynamics of mutations and species through comparative genomics." Among his pioneering efforts was the software analysis of gene expression patterns from early gene expression patterns of fruit fly development, advanced work using protein molecular clocks to illuminate the Evolutionary Timescale of Life and the Molecular Evolutionary Genetics Analysis (MEGA) software package that makes useful methods of comparative sequence analysis easily accessible to the scientific community for research and education. Kumar also has received an Innovation Award in Functional Genomics from the Burroughs Wellcome Fund in 2000.

Thomas Moore, a biochemist, is cited by AAAS for "pioneering research in artificial photosynthesis including the design of artificial reaction centers, antenna and assembling an energy-converting artificial photosynthetic membrane." Moore is a professor in ASU's chemistry and biochemistry department and director of the Center for Bioenergy and Photosynthesis. Most recently, he served on the U.S. Department of Energy Basic Energy Sciences Grand Challenges Committee, which produced "Directing Matter and Energy: Five Challenges for Science and the Imagination," outlining research priorities for the foreseeable future. Moore and colleagues collaborate on research in artificial photosynthesis, which is aimed at providing a deeper understanding of natural photosynthesis and the design, synthesis and assembly of bio-inspired constructs capable of sustainable energy production and conversion for human use.

John C.H. Spence is a Regents Professor in ASU's Department of Physics. He was cited by the AAAS for "distinguished contributions to diffraction physics, especially atomic-resolution electron microscopy, electron diffraction studies of the chemical bond and diffractive (lens-less) x-ray imaging." Spence undertakes experiments in condensed matter physics based around the use of electron beams for imaging, spectroscopy and diffraction. The work requires Spence's group to build or modify advanced instruments in order to do their experiments. Spence is currently working with others to get femtosecond "snapshots" of individual proteins using the first hard x-ray laser facility in the U.S., which will begin operation next year.

UA losing major bioscience researcher

[Source: Aaron Mackey, ARizona Daily Star] - The leader of the UA's top research institute — whom colleagues hail as a key architect of the region's burgeoning bioscience industry — is leaving to head a San Francisco-based non-profit's scientific endeavors, the university announced Monday.

Vicki Chandler, director of the University of Arizona's Bio5 Institute, played a critical role in establishing the collaborative research center, which has brought tens of millions of grant dollars to the UA, including a $50 million award thought to be the largest grant in Arizona history.
The second high-profile professor with ties to Bio5 to leave the UA this year, Chandler will become chief program officer for the Gordon and Betty Moore Foundation's science efforts in February.

In July, Bio5 founder Thomas Baldwin left the UA to become dean of UC-Riverside's College of Natural and Agricultural Sciences. Baldwin founded the program, which at the time was known as the Institute for Biomedical Science and Biotechnology, in 2001.

Besides being one of the UA's premier scientists, Chandler has become a regional ambassador for bioscience research, lobbying for state money to build research facilities while striving to tell the public about the importance of the work.

"She had a vision for Bio5 that was about much more than just scientific research," said Leslie Tolbert, the UA's vice president for research. "She has an enthusiasm for outreach and the role a university can play in community development."

Taking over Bio5 in 2002, Chandler led several efforts that culminated in the UA's landing a $50 million grant in January to establish the iPlant Collaborative, a research program aimed at unlocking the secrets of plant biology. That alone accounted for roughly 10 percent of the UA's overall $500 million research budget.

The project, co-led by Chandler, was seeded by state support in research funding and new buildings — both of which Chandler lobbied for, Tolbert said.

Chandler "has been a strong spokesperson with the Legislature and with private donors as well," Tolbert said. "She gets them to see that it isn't just about the institute in the abstract, but the people doing the science and getting results."

The Bio5 Institute is the UA's most prominent interdisciplinary research center, blending researchers from five fields —agriculture, medicine, pharmacy, basic science and engineering — with industry leaders to find solutions to common problems, such as disease.

The institute has been a pipeline for grants and also has proved successful at creating a number of spin-off companies that use technologies developed in UA laboratories.

Managing the complex relationships between business leaders and researchers, Chandler was integral in convincing several bioscience companies to either expand in or move to Tucson, said Joe Snell, president and CEO of Tucson Regional Economic Opportunities Inc.

"Her leadership has been incredibly valuable in helping to position Tucson as the next bioscience hub," he said.

"I don't think we would be where we're at or where we're going without her efforts."

Chandler also has helped build interest in science among high school students and UA undergraduates. She holds summer programs that get high schoolers in laboratories with researchers and often touts how half the Bio5 researchers are undergrads.

She also has narrated the UA-produced PBS show "WaveLengths," which provides a 30-minute snapshot of some of the research produced on campus.

On top of that, Chandler maintains a full-time lab and conducts field research as a Regents Professor in both the plant science and molecular and cellular biology departments. She also holds the Weiler Endowed Chair for Excellence in Agriculture and Life Sciences.

Chandler, who has been at the UA since 1997, said she has mixed emotions about her new role.
"It's always exciting to take on a new challenge, but I poured my heart and soul into the University of Arizona and really care deeply for it," she said.

The move will take her back to her roots. She grew up in Northern California and studied at the University of California-Berkeley and UC-San Francisco while later working at Stanford after earning her Ph.D.

The foundation she is joining invests $300 million each year in projects, including science and environmental conservation research around San Francisco.

Even with her new job, Chandler will be in Tucson often. She plans to retain her endowed chair and conduct research as part of the iPlant Collaborative, a process she says will take up about 20 percent of her time.

"The university has been incredibly gracious to allow me to continue to research," she said. "By keeping my feet squarely planted in science, it will hopefully help me in my new position."

The UA will name an interim director of Bio5 early next year and plans to conduct a national search for a permanent replacement, Tolbert said.

Monday, December 22, 2008

Economic downturn hurts ASU nursing school

[Source: Jahna Berry, The Arizona Republic] - Arizona State University's nursing school capped a historic and challenging year this week, honoring a record-breaking graduating class.

"It's been an unbelievable journey," graduate Gina Dioguardi, 24, said Wednesday as she helped fellow graduate Leticia Medina, 22, put on her cap and gown. The two were part of 276 graduates from ASU's College of Nursing and Healthcare Innovation who were recognized at the Phoenix Convention Center.

Like any new degree-holder, the nurses are worried about jobs.

"Because of the economy, there aren't a lot of places that are hiring," Medina said.

Even though the state has a nursing shortage, some employers have a limited number of slots for entry-level nurses because they cost more to train, Medina added.

The economic downturn is also taking a toll on the school.

As the nursing school celebrated its 50th year, the college was one of several ASU divisions hurt by university-wide budget cuts.

Officials say enrollment will be cut from 80 students to 40 at ASU's Polytechnic campus this spring and by the same amount at the West campus next fall.

Enrollment at the downtown Phoenix campus will remain the same. ASU plans to cut enrollment because it expects to lose some state funding.

The nursing school has 1,800 students. The college is based in downtown Phoenix, but students can take nursing classes on several ASU campuses.

The nursing cuts would come at a time when Arizona is struggling with a nursing shortage.
Last year, the state had 681 registered nurses per 100,000 people, below the national average of 825 registered nurses per 100,000, according to the U.S. Department of Health and Human Services.

UA provost suggests pay cuts

[Source: AzCentral/AP] - When it comes to fixing budget shortfalls, some high earners at the University of Arizona should cut their pay.

That suggestion comes from one of the school's highest paid employees, University of Arizona Provost Meredith Hay, who earns more than $100,000 a year.

The number of employees making more than six figures at the UA has increased 45 percent since 2005 while costs of paying those workers jumped 53 percent, according to an Arizona Daily Star analysis.

Officials acknowledge there are more employees earning more than $100,000 in what they call the reality of the highly competitive academic market and a product of growth in programs such as the UA's medical school in Phoenix.

They add it's not as if those workers are getting raises at the expense of lower-paid staffers.
It costs the UA $76 million to pay 2,323 workers who earn less than $50,000 a year and account for nearly half of all state-paid employees.

It also costs about $71 million to pay the 568 employees making more than $100,000.
The idea to cut into UA employee earnings has gained steam as officials look at ways to offset what they expect to be a series of state cuts that could leave them $50 million in the red by next summer.

Cutting pay could pose potential long-term consequences that could affect the UA's ability to hire and retain employees.

"What does that do for our competitiveness? We're already below where we need to be," said Allison Vaillancourt, UA's vice president for human resources. "If we take another whack at employees, who will come to work for us? Will we be able to attract people in the future?"
Overall salary costs have increased by 18 percent since 2005, putting UA in line with other universities, she said.

Faculty members who get raises actually save the UA money in the long run because it's cheaper than advertising for an open position and training a new employee, university officials said.

"If they need lab equipment or special office space, we could be looking at several hundred thousand dollars," Vaillancourt said. "It doesn't make any sense for us to spend that money if we don't have to."