Semi-automated ‘pathwalking’ to build a protein model

In a report that appears online in the journal Structure, the BCM team describes the development of the semi-automated protocol that enables researchers to "rapidly generate an ensemble of initial models for individual proteins, which can later be optimized to produce full atomic models."

Taking the 3-D images generated through the process of electron cryo-microscopy and X-ray crystallography, the team developed this computational approach to produce these first-generation models of the proteins' structure or fold without prior knowledge of the protein's sequence or other information.

"This is important in working with big complexes made up of 10 to 30 proteins," said Dr. Matthew Baker, instructor in biochemistry and molecular biology at BCM and the paper's corresponding author. "You might know the structure of one or two proteins, but you want to know how all of those proteins interact with each other. As long as you can separate one protein from another, you can use this technique to make a model of each of the proteins in the complex."

"We borrowed from a classic computer science problem called the 'traveling salesman problem,'" said Dr. Mariah Baker, the paper's first author and a postdoctoral fellow at BCM. "It is in effect a connect-the-dots puzzle without the numbers."

In the traveling salesman problem, computer programmers are asked to figure the best route for a salesman who wants to visits all the cities where he sells just once while minimizing the distance traveled. Pathwalking solves a similar problem for proteins by looking for the optimal path through a 3-D image that connects C-alpha atoms, rather than cities, to form the protein's structure.

The tool is the answer to the dilemma presented by the near-atomic structures that are in the "middle" not of the highest resolution or the lowest resolution, said Matthew Baker.

As many as 25 percent of all structures imaged by electron cryo-microscopy and one-third of large protein complexes solved by X-ray crystallography are in the 3 to 10 angstroms range, said Matthew Baker.

Until now, the methodology used to annotate or trace the structure of protein from these density maps was usually tailored to specific cases, said Mariah Baker.

"They involved a lot of user intervention and the possibility to include bias," she said. That sparked a determination to automate the process with better routines that required less specific information.

"The question we asked was, can we trace a protein fold in a density map without a priori knowledge," she said. "The answer is that we can."

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Semi-automated 'pathwalking' to build a protein model

University associate research scientist arrested with root beer flavored vodka in front seat (w/Documents)

A University associate research scientist in the Department of Biochemistry and Molecular Biology was arrested Saturday night and charged with driving under the influence of alcohol, failure to maintain lane and open container, according to an Athens-Clarke County police report.

Irina Kataeva, 55, was pulled over by an officer on West Broad Street after he noticed her vehicle cross into the left lane and go across the fog line, according to the report.

Kataeva reportedly told the officer she had difficulty seeing at night, and the officer then noticed her eyes were extremely red and watery and there was the smell of alcohol on her breath.

The officer then asked her how much she had to drink, and she said she had one beer, according to the report.

While the officer was speaking to Kataeva, another officer noticed an open container of alcohol in the passenger seat.

When she exited the car, the officer noticed she was swaying when she walked and asked her if she had any alcohol in the car.

Kataeva reportedly said she did not have any alcohol in the vehicle. But when the officer asked to search her car, she said she did mind and had a bottle of liquor in the front seat.

An officer recovered an opened bottle of root beer flavored vodka from the car, according to the report.

Kataeva declined to perform field sobriety tests, and she reportedly asked the officer to just let her go and told him she was not far away from her house.

Her breath tested positive for alcohol, and she was placed under arrest and taken to the ACC Police Substation on Baxter Street, according to the report.

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University associate research scientist arrested with root beer flavored vodka in front seat (w/Documents)

Penn Biochemist Receives Hodgkin Award from The Protein Society

PHILADELPHIA Mark A. Lemmon, PhD, chair of the Department of Biochemistry and Biophysics at the Perelman School of Medicine, University of Pennsylvania, is the 2012 recipient of the Dorothy Crowfoot Hodgkin Award by The Protein Society. The award will be presented at the 26th Annual Symposium of The Protein Society in August, during the Plenary Awards Session.

The Dorothy Crowfoot Hodgkin Award, is given in recognition of exceptional contributions in protein science, which profoundly influence our understanding of biology. Dr. Lemmon is being recognized for major contributions to the field of signal transduction and transmembrane signaling mechanisms of receptor tyrosine kinases. Crystallographic, biochemical, and genetic studies from his laboratory have provided sophisticated understanding of EGFR cell signaling. His discoveries of the mechanisms for the epidermal growth factor receptor family offer new ideas for developing therapies targeting cancer and other human diseases.

"Of course, it's not really my work that this award honors, but really that of several fantastic Penn postdocs and students," says Lemmon. "First, I'd particularly like to single out Diego Alvarado, Daryl Klein, Sung Hee Choi, Jeannine Mendrola and Fumin Shi for the EGF receptor work that the award cites. They are all great examples of the superb scientists that Penn Medicine attracts and reasons why it's so great to be here.

"Second, Dorothy Crowfoot Hodgkin has always been a hero of mine. She did much of her secondary education in the part of England where I grew up and was already a legend at Oxford when I went there. Her crystallographic studies of insulin -- well after her 1964 Nobel Prize -- inspired much of our structural work in EGF signaling. I always found it interesting too given her politics - that Margaret Thatcher was one of Professor Hodgkin's most famous students."

###

Penn Medicine is one of the world's leading academic medical centers, dedicated to the related missions of medical education, biomedical research, and excellence in patient care. Penn Medicine consists of the Raymond and Ruth Perelman School of Medicine at the University of Pennsylvania (founded in 1765 as the nation's first medical school) and the University of Pennsylvania Health System, which together form a $4 billion enterprise.

Penn's Perelman School of Medicine is currently ranked #2 in U.S. News & World Report's survey of research-oriented medical schools and among the top 10 schools for primary care. The School is consistently among the nation's top recipients of funding from the National Institutes of Health, with $507.6 million awarded in the 2010 fiscal year.

The University of Pennsylvania Health System's patient care facilities include: The Hospital of the University of Pennsylvania -- recognized as one of the nation's top 10 hospitals by U.S. News & World Report; Penn Presbyterian Medical Center; and Pennsylvania Hospital the nation's first hospital, founded in 1751. Penn Medicine also includes additional patient care facilities and services throughout the Philadelphia region.

Penn Medicine is committed to improving lives and health through a variety of community-based programs and activities. In fiscal year 2010, Penn Medicine provided $788 million to benefit our community.

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Nobel Laureate Explores Proteins, Surgery

Nobel Laureate in Chemistry Roger Tsien discussed current research on fluorescent proteins, or proteins that emit bright colors when exposed to ultraviolet blue light, and their uses in surgery at Emory on Thursday.

The Department of Biochemistry held the lecture, titled Breeding and Building molecules to Spy on Cells and Disease Processes, at the Woodruff Health Sciences building as part of the Department of Biochemistrys annual Donald B. McCormick Lecture. The annual lecture honors McCormick, who served as the chair of the department from 1979 to 1994 and is currently professor emeritus at Emorys School of Medicine.

McCormick is recognized for his many achievements including the publication of more than 500 papers, leading expertise in nutritional biochemistry, and membership in notable committees such as the National Institutes of Health (NIH).

In 2008, Tsien received the Nobel Prize in Chemistry for his discovery of the green fluorescent protein (GFP) with his colleagues Osamu Shimomura and Martin Chalfie. He is a Howard Hughes Medical Institute Investigator and professor at the University of California-San Diego.

He focused on proteins called miniSOGs, which are single oxygen-generating miniproteins and genetic tags used in electron microscopy (EM). He said electrons are beamed at an object to produce a highly magnified image. These miniSOGs are sequences of amino acids that can be attached to proteins, Tsien noted. When miniSOGs are exposed to blue light, they produce a type of molecular oxygen that is visible in EM. The use of EM creates an amplified image under the microscope which is of a greater resolution than the image produced by light microscopy.

It is really amazing how many different applications there are for the tag, James Roed, post doctorate fellow at the School of Medicine noted. The design is simple yet so complex and is really going to revolutionize cancer treatment but has potential in being used to tether probes to drugs as well.

Tsien explained the clinical applications of fluorescent dyes in cancer research and treatment. This is a very nonselective process. Tsien explained. When you try to do this with a fluorescent tag IV injection into a mouse, you get a fluorescent tail, because it sticks to the epithelia, which is the skin of the animal, at the site of the injection.

It then travels to different regions of the body but practically never reaches the tumor that you care about, Tsien said.

We decided in our lab that what was necessary was a way of making this process selective, not just indiscriminate, he said.

He then showed images of tumors in mice and explained the difficulty the human eye experiences in differentiating a tumor from the surrounding flesh. When the tissue was exposed via fluorescent illumination, the boundaries of the tumor became easily distinguishable as the fluorescent light blue mass stood out.

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Nobel Laureate Explores Proteins, Surgery

Nick Denis trades in laboratory for the octagon

darren yourk From Friday's Globe and Mail Published Thursday, Mar. 01, 2012 8:23PM EST Last updated Friday, Mar. 02, 2012 8:42AM EST

Nick Denis can tell you what it feels like to knock a man out cold while thousands of fans roar their approval. He can also talk at length about proteomics the study of proteins and what it takes to finish a master degree in biochemistry.

Not a lot attention is paid to what goes on between the cauliflower ears of mixed martial arts fighters, but Denis, who walked away from the research lab one year short of getting his PhD from the University of Ottawa to focus on the octagon, is proof theres a lot more to the sport than power and toughness.

To be able to out-think an opponent is a huge advantage in a fight, Denis said. You have to understand how to react to situations and be analytical. It looks like just brute force in there, but theres actually technique and skill.

The Ottawa native roared into the bantamweight division of the Ultimate Fighting Championship in January, knocking out Joseph Sandoval with a series of elbow strikes just 22 seconds into the first round of his debut bout in Nashville an effort that earned him a $45,000 bonus cheque for knockout of the night. Hes now aiming to cement his status as an emerging talent when he returns to the octagon to face Johnny Bedford May 5 in East Rutherford, N.J.

After studying karate and tae kwon do in his youth, it was boredom with weightlifting workouts that got Denis started down the path to the UFC. He enrolled in a jiu-jitsu class with a friend as a new way to stay in shape and was hooked immediately. It wasnt long before he decided to train toward competing as an MMA fighter.

At the same time, Denis enrolled at the University of Ottawa, balancing a busy academic schedule in the world of analytical biochemistry with morning and evening training sessions.

Jeffrey Smith, a professor in the chemistry department at Carleton University who shared an office with Denis for almost three years at the University of Ottawa, calls him a gifted scientist.

He is really good with his hands, which is a big skill in the lab, Smith said. A lot of people have book smarts, but at the end of the day you have to have the manual dexterity to use the equipment and do things accurately. He was good at it, but Im not sure he enjoyed it all that much. MMA is really what hes passionate about.

While Denis showed up to the lab some days with a lumpy face and black eyes from training, Smith said it was his big personality that really made him stand out.

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Nick Denis trades in laboratory for the octagon

Nationwide Children’s Hospital neuromuscular disorder podcasts now available on iTunes

Public release date: 1-Mar-2012 [ | E-mail | Share ]

Contact: Erin Pope Erin.Pope@NationwideChildrens.org 614-355-0495 Nationwide Children's Hospital

In 2010, the Center for Gene Therapy at Nationwide Children's Hospital launched a monthly podcast entitled, "This Month in Muscular Dystrophy," featuring internationally known scientists discussing the latest research in muscular dystrophy and other neuromuscular disorders. Now, these podcasts will be available for users on iTunes and at http://www.NationwideChildrens.org/muscular-dystrophy-podcast.

The podcasts are geared toward patients, their families and primary care physicians who take care of patients with neuromuscular diseases. Hosted by Kevin Flanigan, MD, an attending physician in Neurology at Nationwide Children's Hospital, and a principal investigator in the Center for Gene Therapy in The Research Institute at Nationwide Children's, the programs include interviews with authors of recent scientific publications discussing how their work improves understanding of inherited neuromuscular diseases and what their findings might mean for treatment.

New programs available for download on iTunes include:

Podcasts from previous months have also been uploaded to iTunes and are available for download.

"There is a lot of exciting work going on in the field of neuromuscular disease, and for patients and their families, it may be hard to get access to information about new results," said Dr. Flanigan, also a professor of Pediatrics and Neurology at The Ohio State University College of Medicine. "Our goal in offering this monthly podcast is to provide a way for people affected by the muscular dystrophies and related disorders to hear directly from top researchers about their latest results. It's my job to converse in understandable terms with these researchers about what is useful or exciting in their work."

Patients and their families are eager to find reliable information, especially about what new therapies are entering trials. With these podcasts available on iTunes, patients and their families have access to this information at their fingertips. These monthly podcasts provide reliable information directly from leading scientists and physicians in the field to empower patients to take the information they learn into their own clinics to discuss with their doctors. The podcasts also serve to provide reliable information to primary care physicians who often have the most contact with patients who have neuromuscular disorders.

"Through these podcasts, I think we can reinforce the hope shared by all families, and let them know that many pathways that may lead to meaningful treatments are being explored," Dr. Flanigan added.

Dr. Flanigan's primary research interest is in the genetic and molecular characterization of inherited neuromuscular diseases particularly muscular dystrophies and in the development of therapies directed toward these diseases.

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Nationwide Children's Hospital neuromuscular disorder podcasts now available on iTunes

USU professor wins research award

Story Created: Feb 28, 2012 at 11:23 AM MST

Story Updated: Feb 28, 2012 at 11:36 AM MST

Lance Seefeldt, a professor of chemistry and biochemistry at USU, said he became "addicted" to research as a graduate student at the University of California. Now, 25 years later, he has been named the recipient of USU's D. Wynne Thorne Career Research Award.

Named for the first vice president for research at USU, the D. Wynne Thorne Award is the highest honor awarded to faculty researchers.

"This is really a career-topper," said Mark McLellan, vice president for research and dean of the School of Graduate Studies. "This is to recognize the cumulative effort of a researcher that has really gone all out and really produced a very special effort and received national and international recognition — someone who has really knocked it out of the ballpark."

Seefeldt said the biggest feeling that comes from receiving the award is humility.

"It's very humbling to be selected, especially knowing the legacy of D. Wynne Thorne, as well as the people who have received the award in the past," he said. "It's humbling to be a part of them, especially knowing the quality of the science that goes on at USU. To be selected among my peers is an incredible honor."

Each year, every department on campus has the opportunity to nominate a faculty member for the award. After the nominations are completed, a board of faculty peers meets to select the winner, McLellan said. After someone has been selected, he or she must be approved by both McLellan and USU President Stan Albrecht.

"You're looking for someone who is really engaged, who has met the expectations of their job and then gone well beyond," McLellan said. "They are recognized by their peers for extraordinary contributions — making groundbreaking discoveries or very insightful interpretations of the science."

Seefeldt said his research focuses on ways to retrieve nitrogen from the air.

To read the rest of this story on the Utah Statesman website, click here.

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USU professor wins research award

Georgia Research Alliance Names First Eminent Scholar in Nanomedicine

ATLANTA--(BUSINESS WIRE)--

Younan Xia, Ph.D., an internationally recognized leader in the field of nanotechnology, recently joined the Georgia Institute of Technology as the first Georgia Research Alliance (GRA) Eminent Scholar in Nanomedicine.

Dr. Xia is the Brock Family Chair and GRA Eminent Scholar in Nanomedicine in the Wallace H. Coulter Department of Biomedical Engineering at Georgia Tech and Emory University, with a joint appointment in the School of Chemistry and Biochemistry. His research focuses on nanocrystals -- a novel class of materials with features smaller than 100 nanometers -- as well as the development of innovative technologies enabled by nanocrystals. One nanometer is equal to one billionth of a meter. These technologies span the fields of molecular imaging, early cancer diagnosis, targeted drug delivery, biomaterials, regenerative medicine and catalysis.

“The possible applications of nanotechnology in medicine have only begun to be explored,” said Michael Cassidy, president and CEO of the Georgia Research Alliance. “Dr. Xia’s expertise and collaborative vision will lead to vital new scientific discoveries that can be transformed into new tools to help people live healthier lives.”

Dr. Xia is an international leader in the synthesis of nanomaterials designed to improve the way we live. He has been ranked as one of the top 10 chemists in the world, as well as the second most cited scientist in the fields of nanomedicine and materials science.

“Dr. Xia is a world-renowned teacher and leader at the forefront of nanomedicine and materials science,” said Larry McIntire, the Wallace H. Coulter Chair of Biomedical Engineering. “His reputation and innovative research in these areas will clearly strengthen our expanding efforts in nanomedicine and biomaterials. We are honored to welcome him to the Department and to the Institute.”

Regents' Professor and Chair of Chemistry and Biochemistry Charles Liotta said, “Dr. Xia is an outstanding addition to our faculty in the School of Chemistry and Biochemistry. His research in nanomedicine and biomaterials lies at the interface between chemistry and engineering and fits in so well with the interdisciplinary culture at Georgia Tech. Dr. Xia’s presence will clearly enhance our efforts in these critical research areas.”

Dr. Xia received his Ph.D. in physical chemistry from Harvard University (with Professor George M. Whitesides) in 1996, his M.S. in inorganic chemistry from University of Pennsylvania (with the late Professor Alan G. MacDiarmid, a Nobel Laureate in Chemistry, 2000) in 1993. He has received a number of prestigious awards, including AIMBE Fellow (2011), MRS Fellow (2009), NIH Director's Pioneer Award (2006), Leo Hendrik Baekeland Award (2005), Camille Dreyfus Teacher Scholar (2002), David and Lucile Packard Fellowship in Science and Engineering (2000), Alfred P. Sloan Research Fellow (2000), NSF Early Career Development Award (2000) and the ACS Victor K. LaMer Award (1999).

About GRA

A model public-private partnership between Georgia universities, business and state government, the Georgia Research Alliance helps build Georgia’s technology-rich economy in three major ways: through attracting Eminent Scholars to Georgia’s research universities; through investing in sophisticated research tools; and through converting research into products, services and jobs that drive the economy. To learn more about GRA, visit http://www.gra.org.

About Georgia Tech

The Georgia Institute of Technology is one of the world's premier research universities. Ranked seventh among U.S. News & World Report's top public universities, the Institute enrolls more than 20,000 students within its six colleges. Georgia Tech is the nation's leading producer of engineers as well as a leading producer of female and minority engineering Ph.D. graduates. Holding more than 780 patents and receiving approximately $570 million in sponsored awards, Georgia Tech ranks among the nation's top universities in research expenditures. Visit www.gatech.edu for more information.

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Georgia Research Alliance Names First Eminent Scholar in Nanomedicine

See restored Curry murals at Wednesday Night @ the Lab

Feb. 28, 2012

A remarkable University of Wisconsin-Madison research triumph and artful renderings depicting the importance of biochemistry are the subject of a rare occurrence of the popular Wednesday Night @ the Lab series.

Held for one night only — maybe, as there won't be another Wednesday night on a Leap Day until 2040 — on Feb. 29 and in Room 1125 of the remodeled Biochemistry Building, 420 Henry Mall, this edition of the long-running science speaker series will give the audience an early public view of restored murals painted in the 1940s by John Steuart Curry.

Lauren Kroiz, a UW-Madison art history professor, will talk about Curry's work as the first official artist-in-residence in the United States and the art he intended to enrich farmers' lives and encourage experimental agriculture. Curry's paintings in the Biochemistry Building were meticulously stabilized, cleaned and restored by conservators from the Midwest Art Conservation Center as the building was gutted and rebuilt.

David Nelson, biochemistry professor and lecturer in a course on historic research breakthroughs at UW-Madison, will discuss the discovery of vitamins by the likes of Stephen Babcock, E.B. Hart, Harry Steenbock, and E.V. McCollum (all depicted in Curry's murals) in UW-Madison's agricultural chemistry department.

Wednesday Night @ the Lab — which is sponsored by BioTrek, the Science Alliance, the Wisconsin Alumni Association and the Osher Lifelong Learning Institute — is free and open to the public. There will be free parking in Lot 20, located nearby at 1390 University Ave.

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See restored Curry murals at Wednesday Night @ the Lab

New Biochemistry, Food and Inorganics Resources Published at ScienceIndex.com

The Biochemistry, Food and Inorganics Sciences are three new key categories covered by the Sciences Social Network ScienceIndex.com. The users of the website monitor over 130 scientific Biochemistry, Food and Inorganics journals and submit the most significant scientific results of these journals for inclusion in ScienceIndex.com. ScienceIndex.com was established in 1998 to index the very latest news, headlines, references and resources from science journals, books and websites worldwide. The site covers news in all fields of biology, business, chemistry, engineering, geography, health, mathematics and society.

Mannheim, Germany (PRWEB) February 27, 2012

ScienceIndex.com is a Web 2.0 sciences social network established in 1998 to index the very latest news, headlines, references and resources from science journals, books and websites worldwide. The site covers news in all fields of biology, business, chemistry, engineering, geography, health, mathematics and society. In the field of Chemistry, the site has now included the three new categories Biochemistry, Food and Inorganics. While the Biochemistry category covers the chemical substances and vital processes in living organisms, the Food category covers production of materials of plant or animal origin, that are ingested and assimilated by an organism to produce energy, stimulate growth, and maintain life, and the Inorganics category covers chemical reactions and properties of all elements in the periodic table and their compounds, except element carbon.

ScienceIndex.com's Chemistry Sciences Category covers the composition, structure, properties, and reactions of substances. Its seven subsections include Biochemistry, Food, Inorganics, Materials, Organics, Physics and Toxicology.

ScienceIndex.com's Biochemistry Sciences Category covers covers the chemical substances and vital processes in living organisms. It currently contains over 18,500 articles partly derived from over 40 scientific journals. One of the latest additions covers novel oxidative stress transcription factor. Hypochlorite is a powerful oxidant produced by neutrophils to kill invading microorganisms. Despite this important physiological role of hypochlorite in fighting bacterial infections, no hypochlorite-specific stress response has been identified yet. The authors identified a hypochlorite-responsive transcription factor, YjiE, which is conserved in proteobacteria and eukaryotes. To their knowledge, YjiE is the first described hypochlorite-specific transcription factor specifically conferring hypochlorite resistance to E. coli cells.

ScienceIndex.com's Food Sciences category covers production of materials of plant or animal origin, that are ingested and assimilated by an organism to produce energy, stimulate growth, and maintain life. It currently contains nearly 11,800 articles partly derived from almost 50 scientific journals. One recently included article in this category covers a review of osmotic dehydration of fruits and vegetables. Osmotic dehydration is one of the best and suitable method to increase the shelf life of fruits and vegetables since this process retains vitamin and minerals, color, flavor and taste in fruits and vegetables. The authors review different methods, treatments, optimization and effects of osmotic dehydration. Their results show that combination of different osmotic agents are more effective than sucrose alone due to combination of properties of solutes.

ScienceIndex.com's Inorganics Sciences Category covers chemical reactions and properties of all elements in the periodic table and their compounds, except element carbon. It currently contains nearly 6,200 articles partly derived from over 40 scientific journals. One of the latest additions characterizes work hardening mechanisms in Fe–Mn based TWIP steels. When strained in tension, high-manganese austenitic twinning induced plasticity (TWIP) steels achieve very high strength and elongation before necking. The authors show that the Fe–Mn–C grade exhibits the best properties, together with a Portevin–Le Châtelier effect which could result in supplementary hardening. Furthermore, TEM analyses show that twins in the Fe–Mn–C steel are thinner and without dislocation activity, which could lead to a composite effect and increase the work hardening.

###

ScienceIndex.com currently contains over 1.38 million stories distributed among 75 categories. 75,291 users monitor nearly 8,400 journals covering the broad spectrum of sciences. They share circa 2,500 new articles every day. Since new science content is discovered in real-time, the delay between original publication and appearance at ScienceIndex.com is no more than two days. ScienceIndex.com provides an advanced search feature which suggests up to ten closely related articles for a search and also for a selected story. Other features include a "Life Traffic Feed", a "Top Content" sidebar, Google Translate functionality, and RSS feeds for every category. ScienceIndex.com also maintains the new Twitter account @ScienceIndex_ .

George Maine
ScienceIndex.com
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New Biochemistry, Food and Inorganics Resources Published at ScienceIndex.com

Names and changes – www.roanoke.com

EDUCATION

Pablo Sobrado, assistant professor of biochemistry at Virginia Tech, has been awarded Costa Rica's 2011 National Technology Prize, administered by the Ministry of Science and Technology.

Deborah Robinson has been appointed vice president for advancement at Radford University.

Two Washington and Lee University professors received state Outstanding Faculty Awards for excellence in teaching, research and public service: James Kahn, professor of economics and director of the Environmental Studies Program, and Lesley Wheeler, professor of English.

Panos Diplas, professor of civil and environmental engineering at Virginia Tech, is the 2012 recipient of the Hans Albert Einstein Award, presented by the American Society of Civil Engineers. He is also part of a team receiving the 2012 Karl Emil Hilgard Hydraulic Prize, presented by the same society.

Keith Gilbertson has joined University Libraries at Virginia Tech as digital technologies development librarian.

Emory & Henry College has announced the following: David Haney has been named vice president of academic affairs and Joseph Taylor has been named vice president of institutional advancement.

Lee Todd Jr. has joined Virginia Tech's Engagement Academy for University Leaders as a faculty member.

Mark Stremler, a Virginia Tech engineering faculty member, is one of 60 young engineers selected to attend the 2012 Indo-American Frontiers of Engineering Symposium.

GOVERNMENT

Frances Coles and Jason Horne were re-appointed to serve four-year terms on the City Planning Commission of Bedford.

MEDICAL

Benjamin Bowman, a chiropractor for Tuck Chiropractic Clinic in Fairlawn, has been named a full partner in the Tuck Chiropractic Clinic organization.

ORGANIZATIONS

Ken Ferris has been named moderator of the new VT KnowledgeWorks Roanoke President's Council.

Mary Carlin has joined the staff of the Roanoke Valley SPCA as director of finance.

Leslie Hager-Smith was recently hired as the director of development of the New River Land Trust.

The Roanoke Valley Horsemen's Association Inc. announced its newly elected officers and board of directors for 2012. Officers: Mark Hartberger, president; Donnis Honeywell, vice president; Lorrie McCloskey, recording secretary; Brenda Greene, corresponding secretary; and Ray Eades, treasurer. Board members: Jack Richards Jr., Rebecca Tobey, Amy Wentzel, David Levine, Leah Wilson and Linda Humphries

OTHER

Susan Snyder of D'Ardenne Associates has been certified as an aerospace auditor.

Three employees of American Door & Glass of Southwest Virginia Inc. recently received promotions: Doug Kirsch is the new executive vice president, Jay Finkle is the new vice president of estimating and Tim Camper is the new vice president of field installation.

Mark Sorrentino has joined CMR Institute's board of directors.

Lisa Thaxton and Todd Bryant have joined Blue Ridge Copier as junior account managers.

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Florida State Chemist to Receive Prestigious Award for Rising Faculty Stars

Newswise — Michael Shatruk, an assistant professor in Florida State University’s Department of Chemistry and Biochemistry who is working to develop new magnetic materials, has been awarded the prestigious ExxonMobil Solid State Chemistry Faculty Fellowship for 2012 by the American Chemical Society’s Division of Inorganic Chemistry.

Each year since 1979, the American Chemical Society has awarded the fellowship to a young scientist who has made substantial contributions to the discipline of solid-state chemistry and has the potential to emerge as a leader in the field.

“It is wonderful to see a younger faculty member like Dr. Shatruk receiving national recognition for his research,” said Kirby Kemper, vice president for Research at Florida State. “He is a credit to Florida State University and is our first faculty member to receive this distinction.”

In his research, Shatruk manipulates the atomic and electronic structures of materials to induce a desired magnetic behavior. His work could one day aid in the development of a new generation of energy-efficient devices, such as electric vehicles and magnetic refrigerators.

“In part, this award was given to Dr. Shatruk based on these research implications, but primarily for the deep chemical and physical insights that he brings to the field of magnetic materials development,” said Timothy Logan, chairman of Florida State’s Department of Chemistry and Biochemistry. “This award places him in the same class as some of the leading scientists in this field nationwide. We are extremely proud of his accomplishments and look forward to many more exciting developments from this research.”

The award also will raise the profile of Florida State’s entire solid-state chemistry group, Logan said.

Shatruk will receive the fellowship, which includes a $10,000 stipend, during the American Chemical Society’s fall 2012 national meeting in Philadelphia.

“I am very honored to receive the ExxonMobil Award from the ACS Division of Inorganic Chemistry and to join the ranks of previous winners, many of whom were my inspiration to become a chemistry professor,” Shatruk said. “It is one of the most highly coveted distinctions for a junior faculty member working on solid-state chemistry, and I’ve dreamt of this fellowship ever since I began my independent research here at Florida State. It is very rewarding to realize that my peers recognized the importance of our work and the value of contributions made by my research group to the field of solid-state chemistry.”

Shatruk joined the faculty of Florida State after two post-doctoral fellowships, one at Texas A&M University from 2003 to 2007, and the other at Cornell University from 2001 to 2003. Shatruk earned a doctorate from Lomonosov Moscow State University, Russia, in 2000.

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Research and Markets: Essentials of Medical Biochemistry. With Clinical Cases

DUBLIN--(BUSINESS WIRE)--

Research and Markets (http://www.researchandmarkets.com/research/fc33c1/essentials_of_medi) has announced the addition of Elsevier Science and Technology's new report "Essentials of Medical Biochemistry. With Clinical Cases" to their offering.

Expert biochemist R.V. Bhagavan's new work condenses his successful Medical Biochemistry texts along with numerous case studies, to act as an extensive review and reference guide for both students and experts alike. The research-driven content includes four-color illustrations throughout to develop an understanding of the events and processes that are occurring at both the molecular and macrolecular levels of physiologic regulation, clinical effects, and interactions. Using thorough introductions, end of chapter reviews, fact-filled tables, and related multiple-choice questions, Bhagavan provides the reader with the most condensed yet detailed biochemistry overview available. More than a quick survey, this comprehensive text includes USMLE sample exams from Bhagavan himself, a previous coauthor.

Clinical focus emphasizing relevant physiologic and pathophysiologic biochemical concepts Interactive multiple-choice questions to prep for USMLE exams Clinical case studies for understanding basic science, diagnosis, and treatment of human diseases Instructional overview figures, flowcharts, and tables to enhance understanding

Key Topics Covered:

1. Cells - Structures and Functions

2. Water, Acids, Bases, and Buffers

3. Amino Acids

4. Three-Dimensional Structure of Proteins

5. Energetics of Biological Systems

6. Enzymes and Enzyme Regulation

7. Clinical Enzymology and Biomarkers of Tissue Injury

8. Simple Carbohydrates

9. Heteropolysaccharides I: Glycoconjugates, Glycoproteins and Glycolipids

10. Connective Tissue: Fibrous and Non-Fibrous Proteins and Proteoglycans

11. Gastroentestinal Digestion and Absorption

12. Carbohydrate Metabolism I: Glycolysis and TCA Cycle

13. Electron Transport Chain, Oxidative Phosphorylation, and Other Oxygen-consuming Systems

14. Carbohydrate Metabolism II: Gluconeogenesis, Glycogen Synthesis and Breakdown, and Alternative Pathways

15. Protein and Amino Acid Metabolism

16. Lipids I: Fatty Acids and Eicosanoids

17. Lipids II: Phospholipids, Glycosphingolipids, and Cholesterol

18. Lipids III: Plasma Lipoproteins

19. Contractile Systems

20. Perturbations of Energy Metabolism: Obesity and Diabetes Mellitus

21. Structure and properties of DNA

22. DNA Replication, Repair, and Mutagenesis

23. RNA and Protein Synthesis

24. Regulation of Gene Expression

25. Nucleotide Metabolism

26. Hemoglobin

27. Metabolism of Iron and Heme

28. Endocrine Metabolism I: Introduction and Signal Transduction

29. Endocrine Metabolism II: Hypothalamus and Pituitary

30. Endocrine Metabolism III: Adrenal Glands

31. Endocrine Metabolism IV: Thyroid Gland

32. Endocrine Metabolism V: Reproductive System

33. Immunology

34. Biochemistry of Hemostasis

35. Mineral Metabolism

36. Vitamin Metabolism

37. Water, Electrolytes, and Acid-Base Balance

38. Case Studies

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Research and Markets: Essentials of Medical Biochemistry. With Clinical Cases

Chemistry Professor Tao Xu receives CAREER Grant from National Science Foundation

DeKALB (NIU) -- NIU Professor Tao Xu, who has developed a promising nanoscience research program in solar energy conversion, is now getting a big boost from the National Science Foundation.

NSF has awarded the chemistry and biochemistry professor with a prestigious Faculty Early Career Development (CAREER) grant of $400,000 over the next five years in support of his research and teaching efforts.

CAREER awards support junior faculty who exemplify the role of teacher-scholars through outstanding research, excellent education and the integration of education and research.

“This award is a tribute to the quality and productivity of Dr. Xu and his research group,” said Jon Carnahan, chair of the Department of Chemistry and Biochemistry. “We’re very proud of Tao’s accomplishment.”

Xu also is affiliated with NIU’s Institute for Nano Science, Engineering, and Technology. His research group is working to develop potential solar cells of the future.

“Because of environmental concerns related to nuclear and fossil-fuel-based energy, people are demanding clean alternative energies that can help build up our power grids,” Xu said. “Solar cells are quite safe, but we need to enhance their overall efficiency and affordability. To accomplish this, our group is trying to gain a better understanding of the fundamental processes at work in solar cells.”

The trick is to create cells that are good at both trapping light and generating electricity.

Thick solar cells have properties that are beneficial for capturing light but are inefficient for extraction of electricity and cost more for materials. Thin cells use fewer materials and efficiently generate electricity but are less effective at catching light. Through a nanotechnology process of folding material within the cell, Xu is hoping to create thin cells that are also excellent light catchers.

Xu’s group also is developing novel, environmentally friendly materials that use sunlight as an energy source to burn away organic pollutants from wastewater. The scientists have published a number of journal articles on the topic. Xu hopes the technique could be used for purification of sewage or even oil-contaminated water.

“The CAREER award is a big encouragement for my entire research group, which includes graduate students, undergraduates and research scholars who have been working so hard and intelligently on this project in the past years,” Xu said.

With the new funding, Xu hopes to expand his ongoing research collaboration with Argonne National Laboratory to include more NIU students.

“Energy science is Argonne’s core research area, and I see broadening the collaboration as an effective way to train the next generation of scientists,” Xu said. “NIU students will be exposed to Argonne’s world-class research environment and involved in frontline research projects at a young age. They will also benefit from exposure to scientific teamwork, cutting-edge facilities, cross-disciplinary knowledge and critical-thinking and problem-solving methodologies.”

Xu is the second faculty member in the chemistry and biochemistry department to win a CAREER award from NSF in recent years. Professor James Horn was awarded the grant in 2010 for his research on proteins.

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Chemistry Professor Tao Xu receives CAREER Grant from National Science Foundation

Gareth Denyer wins Life Technologies Education Award

23 February 2012

Associate Professor Gareth Denyer, from the School of Molecular Bioscience, has won the 2012 Invitrogen Life Technologies Education Award from the Australian Society for Biochemistry and Molecular Biology.

TheInvitrogenLife Technologies Education Award recognises outstanding achievement in education in biochemistry or molecular biology, especially innovation and creativity in education.

Associate Professor Denyerwill receive his award at theComBio conferenceto be held on 23-27 September 2012 at the Adelaide Convention Centre. As part of the award, he will give the main presentation of the Education Symposium at ComBio.

"I'm very humbled to win the Life Technologies Education Award and feel somewhat guilty to get the award because I think that there are several people in my School who are better teachers than me!" said Associate Professor Denyer.

"The buzz that I get from teaching comes from helping students who are struggling. To be the person that enables a student to finally understand a concept that has troubled them for perhaps years is an amazing thing."

Winning the award for his excellent teaching based on his philosophy of focusing on practical teaching outcomes and a minimum of teaching jargon, Associate Professor Denyer is passionate about being creative and experimenting with his teaching. He shows leadership in designing courses, administration and, most recently, the introduction of electronic lab notebooks and student portfolios.

"My teaching philosophy has been shaped by several people who have inspired me and provided guidance along the way in my career, including academics at the University of Oxford where I completed my undergraduate and postgraduate degrees, and here at the University of Sydney, where I have worked for more than 20 years," said Associate Professor Denyer.

"I've been inspired by the various ways that these academics provide a sensitive and inspiring education, so I find the modern trend of judging teachers largely by scholarship and pedagogic research unfortunate. I am passionate about judging teachers by how well they teach.

"Therefore, I am really grateful to theAustralian Society for Biochemistry and Molecular Biologyfor choosing me for the Education Award and I hope it will encourage others who want to enjoy and be effective in their teaching to do so through creativity, experimentation and reflection."

In his presentation at the Education Symposium at ComBio, Associate Professor Denyer will present on his most recent teaching innovations, including the ePortolio/eNotebook, the classes that he and colleagues have set up to build students' confidence in criticising the research literature, the anti-plagiarism solutions that they use in exams and the narrated meta-lectures which provide commentaries on lectures similar to the producer commentaries that come with a movie DVD.

As part of the Invitrogen Life Technologies Education Award, he will also be sent to an international conference of his choice with a significant focus on education.

"I am hoping to attend the conference associated with the ePortfolio system that we are using as a surrogate electronic Lab Notebook. I hope to be able to convince the authors of that software to make changes that will enable the ePortolio system to work as a modern eNotebook which can be used in many other disciplines and even in the real research lab environment."

Read moreabout the Invitrogen Life Technologies Education Award and other Australian Society for Biochemistry and Molecular Biology awards on the Australian Society for Biochemistry and Molecular Biology website.

Media enquiries: Katynna Gill, 02 9351 6997, katynna.gill@sydney.edu.au

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Gareth Denyer wins Life Technologies Education Award

Research and Markets: Pathophysiology, Pharmacology and Biochemistry of Dyskinesia

DUBLIN--(BUSINESS WIRE)--

Research and Markets (http://www.researchandmarkets.com/research/ad0c22/pathophysiology_p) has announced the addition of Elsevier Science and Technology's new report "Pathophysiology, pharmacology and biochemistry of dyskinesia" to their offering.

Published since 1959, International Review of Neurobiology is a well-known series appealing to neuroscientists, clinicians, psychologists, physiologists, and pharmacologists. Led by an internationally renowned editorial board, this important serial publishes both eclectic volumes made up of timely reviews and thematic volumes that focus on recent progress in a specific area of neurobiology research. This volume reviews existing theories and current research surrounding the movement disorder Dyskinesia. Key Features

Leading authors review state-of-the-art in their field of investigation and provide their views and perspectives for future research Chapters are extensively referenced to provide readers with a comprehensive list of resources on the topics covered All chapters include comprehensive background information and are written in a clear form that is also accessible to the non-specialist

Topics Covered:

An introduction to dyskinesia: the clinical spectrum L-dopa induced dyskinesia - clinical presentation, genetics and treatment Experimental models of LID Mechanisms underlying LID Novel approaches to therapy Surgical approaches to LID Tardive dyskinesia - clinical presentation and treatment Epidemiology and risk factors for TD Genetics of TD Heon Experimental models of TD Surgical approaches to TD Huntington's chorea - clinical presentation and treatment Genetics and pathology of HD Pathogenic mechanisms in HD Experimental models of HD and novel therapeutic approaches Cell based treatments for HD Clinical phenomenology of dystonia Genetics and pharmacological treatment of dystonia Experimental models of dystonia Surgical treatment of dystonia

For more information visit http://www.researchandmarkets.com/research/ad0c22/pathophysiology_p

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Research and Markets: Pathophysiology, Pharmacology and Biochemistry of Dyskinesia

New research on origins of life credits long-dead Canadian

An international team of researchers advancing a new theory about the primordial soup that gave rise to life has paid homage to the "brilliance" of a long-dead Canadian scientist whose insights in the 1920s presciently framed this century's search for the ultimate origin of species.

German biochemist Armen Mulkidjanian led a group of Russian and American researchers that presents evidence in the latest issue of the journal Proceedings of the National Academy of Sciences that life began in shallow pools of condensed vapour near active volcanoes — an idea that runs counter to the prevailing view of an oceanic origin for organic matter, but echoes 19th-century scientist Charles Darwin's famous notion that "some warm little pond" was probably the wellspring of all living things.

However, the new study specifically credits another scientific legend — Ontario-born biochemist Archibald Macallum, founding chairman of the National Research Council of Canada — for a landmark 1926 paper in which he argued that a potassium-rich pool of water would have been crucial in generating those first stirrings of life.

Researchers know that somehow, about 3.7 billion years ago, lifeless minerals became fortuitously mixed in a fluid environment just as some unidentified but necessary energy source — perhaps lightning or the sun, perhaps hydrothermal vents in the sea or volcanic heat on the land — triggered chemical reactions that led to the formation of elemental fatty acids and then to the primitive, unicellular organisms from which all plants and animals eventually evolved.

Mulkidjanian and his team built their research on the premise that the cells of all living things today — by virtue of what they call the "chemistry conservation principle" — preserve vital information about the geological conditions in which life began near the dawn of Earth's history.

As it happens, the same concept was articulated eloquently by Macallum more than 85 years ago, in an article he published in the April 1926 edition of the journal Physiological Reviews.

"The cell," Macallum wrote at the time, "has endowments transmitted from a past almost as remote as the origin of life on earth." The existence of such "paleochemical" traces within living cells, he added, could give biologists — like their colleagues in the field of geology — a window into the primeval conditions on the planet, and foster a new understanding that the "serried ages of the earth's history do not sleep in stone alone."

The paper on cell origins was just one of many highlights in Macallum's stellar scientific career. Born near London, Ont., in 1858, he was not only the founding chair of the NRC — the Canadian government's main science agency — he also served as the inaugural chair in biochemistry for both the University of Toronto and McGill University before his death in 1934.

Mulkidjanian told Postmedia News that he stumbled onto Macallum's 1926 paper late in the preparation of his team's PNAS study, but quickly realized that the Canadian scientist had anticipated several of the key issues still facing 21st-century scientists engaged in origins-of-life research.

"Because of Macallum's brilliance, we have decided to give all the credits to this great scientist, although we had learned about his work in the very last moment," said Mulkidjanian.

Among the central puzzles to be solved is why — if organisms today mimic the chemical conditions of life's beginnings — there's more potassium than sodium in living cells, yet more sodium than potassium in sea water, traditionally seen as the likeliest incubator of life.

Macallum "was the first researcher to frame this question," said Mulkidjanian, adding that in order to "explain the prevalence of potassium over sodium within cells," the Canadian theorized "that the primordial ocean contained much more dissolved potassium than sodium."

Modern science, however, has discounted that possibility, creating a serious knowledge gap for those who cling to the idea that life began in the ocean.

But in their paper, Mulkidjanian and his team propose that "geothermal ponds" in which key mineral ingredients are concentrated and animated by volcanic activity would have served as ideal "hatcheries" for life — and with the required chemical predominance of potassium over sodium.

"In sum, we have addressed the same problem which Macallum had addressed first," said Mulkidjanian. "We, however, suggest a quite different solution."

The team's research is generating debate already in the scientific community, with at least one leading researcher questioning the validity of the "chemistry conservation principle" but another — Harvard Medical School professor Jack Szostak, the McGill-educated winner of the 2009 Nobel Prize for physiology — offering qualified support.

"If there is a reason that a high potassium/sodium ratio is biochemically a good thing, then a pre-biotic scenario that provided such a ratio might have been more favourable for the origin or early evolution of life," Szostak told Scientific American this week in commenting on the Mulkidjanian-led study. "But we can't rule out an origin in a low potassium environment followed by (evolutionary) selection for high internal potassium."

However, Szostak added: "I do not think the oceans were a favourable environment for the origin of life," pointing to how the lower salt content of freshwater would have been more conducive to creating the fatty-acid precursors of living cells.

"The accumulation of organic compounds in ponds is also easier to imagine than in the ocean," Szostak stated, "and geothermally active areas provide numerous advantages, as expressed by the authors."

rboswell@postmedia.com

© Copyright (c) Postmedia News

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New research on origins of life credits long-dead Canadian

Bite-Sized Biochemistry #23 – Glycolysis III/Gluconeogenesis (Carbohydrate Metabolism) – Video

03-08-2011 12:09 (11/22/10) Lecture by Kevin Ahern of Oregon State University discussing Biochemistry Basics in BB 450. See the full course at oregonstate.edu This course can be taken for credit (wherever you live) via OSU's ecampus. For details, see ecampus.oregonstate.edu Download Metabolic Melodies at http://www.davincipress.com Related courses include BB 350 - oregonstate.edu BB 450 - oregonstate.edu BB 100 - oregonstate.edu Glycolysis II/III 1. Deficiency of the enzyme lactase leads to lactose intolerance 2. Regulation of glycolysis is controlled by three enzymes - hexokinase, PFK, and pyruvate kinase. Hexokinase's regulation is a bit complicated and is controlled partly by availability of substrate. 3. PFK is very unusual in being negatively regulated by a molecule (ATP) that is also a substrate. This is possible because the enzyme has an allosteric binding site for ATP in addition to the substrate binding site and the Km for the allosteric site is higher than the substrate binding site. 4. Pyruvate kinase is regulated both allosterically and by covalent modification (phosphorylation/dephosphorylation). Phosphorylation of the enzyme by a protein kinase turns the enzyme activity down, whereas F1,6BP acts as an allosteric activator. This activation is known as feedforward activation. 5. Feed forward activation is rare in metabolism. It is a term used to describe a metabolic product (such as F1,6BP above) that ACTIVATES an enzyme that catalyzes a reaction further ahead of it in a metabolic ...

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Bite-Sized Biochemistry #23 - Glycolysis III/Gluconeogenesis (Carbohydrate Metabolism) - Video

Student to research link between heart disease in women and secondhand smoke

Senior biochemistry major Tuyen Tran recently received a $3,000 research scholarship to aid him in his studies on how exposure to secondhand smoke may increase the risk of heart disease for women.

This research project will focus primarily on heart disease among women because, according to his statistical research papers, Tran explained that women tend to have a higher rate of heart disease than men.

Tran moved to the U.S. in 2004 from Vietnam with his family, and didn't speak any English at the time.

He began studying biology during his junior year at Golden West College, and transferred to Cal State Long Beach in 2009.

Tran's desire to become a researcher started at the age of 20, when his father died of cancer.

"I want to find the reason why we have the disease and the source of the reason," Tran said.

Tran's research will be conducted with the use of recombinant plasmid, a gene in vitro, from a rat to see how the smoke affects it.

Since a plasmid is a circular piece of DNA separated from chromosomal DNA that may be used in isolated "test tube" experiments, no live rodents will be used or harmed for Tran's research.

Tran said that he learned from his readings that secondhand smoke could expose people to the same conditions as primary smokers even though they aren't inhaling it directly.

"I think the reason why is because they inhale the smoke from many people, not just one cigarette," Tran said.

Tran explained that if someone walks across campus and passes several smokers, then they could be inhaling smoke from several different types of cigarettes.

He will conduct his research with his mentor Vasanthy Narayanaswami, assistant professor of biochemistry.

Tran has also received a lot of support from his family for his research.

"Sometimes I have to spend a lot of time at the lab, but they still understand and still support me," Tran said.

He said he wants to become a researcher and medical practitioner in pathology, the study and diagnosis of a disease.

He also said this project will give him the research experience necessary to be competitive for graduate school.

"I'm very excited and look forward to working on this project," Tran said. "I really want to find out why smoke relates to heart disease — it's very interesting."

Tran was one of only 11 students awarded the Howell-CSUPERB Research Scholar Award.

CSUPERB (CSU Program for Education and Research in Biotechnology) partnered with the Doris A. Howell Foundation for Women's Health Research to fund promising undergraduate student research projects in topics related to women's health.

 

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Student to research link between heart disease in women and secondhand smoke