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Adolescent male chimps in large community strive to be alphas

Written By empapat on Kamis, 20 September 2012 | 07.43

ScienceDaily (Sep. 19, 2012) — An Ohio University anthropologist reports the first observation of dominance relationships among adolescent male chimpanzees, which he attributes to the composition of their community. Hogan Sherrow spent eight years studying the Ngogo community of chimpanzees in Kibale National Park in western Uganda. Ngogo is the biggest chimpanzee community on record, with more than 150 members and about twice as many males as found in other chimp communities across Africa.

Unlike their adult male counterparts, which have a well-documented dominance hierarchy, adolescent males have not been known to establish dominance relationships. During four field seasons between 2000 and 2004, however, Sherrow found that some adolescent males pant grunted to other adolescent males on a consistent basis. Research by Jane Goodall established that pant grunts are made by subordinate individuals to dominant ones, Sherrow explained.

"It calms hostilities. It means, 'I know that you're stronger than me, so don't beat me up.' It's like they're sending up the white flag," said Sherrow, an assistant professor of anthropology who published his recent findings in the journal Folia Primatologica.

After ranking the 17 adolescent males in order of dominance, Sherrow concluded that the biggest and oldest animals were at the top of the hierarchy. There were only two exceptions, males that appeared to act in a subordinate manner due to physical injuries.

Sherrow suggests that he observed dominance relationships in the adolescent males of this chimpanzee community due to its size and heightened competition for females. Each male in Ngogo must contend with 35 to 40 others, whereas most communities contain 10 to 15 competitors for mating. Adolescent male chimps also may vie for access to high-ranking adult males as a competitive strategy.

Adult male chimpanzees have clear and defined dominance relationships that depend on size, strength and the ability to form alliances in the community. The most dominant males have priority access to resources and potential mates and usually father more offspring.

"We should not be surprised that adolescent males can form these dominance relationships. Adults males form them, and adolescent males need to learn them at some point," Sherrow said.

Studies of other immature males in primate, mammal and even human communities with intense competition for resources also have found adolescent dominance hierarchies, he added.

Because the Ngogo community is unusually large, Sherrow noted that scientists should seek to observe this behavior in another neighboring community of this size to determine if a similar hierarchy can be documented. The Ngogo study site, located in the Ugandan rain forest, was established in 1995 and has been observed daily by researchers.

The recent study not only offers a new view of chimpanzee behavior, but could shed light on human power and dominance as well, Sherrow suggested.

"Because chimpanzees, along with bonobos, are our closest living relatives, understanding things like how and why they form dominance relationships helps us understand the drive for status and prestige in humans," he said.

The L.S.B. Leakey Foundation, the American Society of Primatologists, the Sigma Xi Foundation, the John F. Enders Foundation and Yale University provided support for the research.

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The above story is reprinted from materials provided by Ohio University.

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Journal Reference:

  1. Hogan M. Sherrow. Adolescent Male Chimpanzees at Ngogo, Kibale National Park, Uganda, Have Decided Dominance Relationships. Folia Primatologica, 2012; 83 (2): 67 DOI: 10.1159/000341168

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20 Sep, 2012


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Invisible plastic particles in seawater damaging to sea animals

ScienceDaily (Sep. 20, 2012) — Plastic nanoparticles in seawater can have an adverse effect on sea organisms. Particles measuring about a thirty millionth of a millimetre, and therefore invisible to the naked eye, are responsible. Mussels that have been exposed to such particles eat less, and thus grow less well, according to research carried out by scientists and students at Wageningen University and IMARES, both part of Wageningen UR. They wrote about their research in the most recent issue of Environmental Toxicology and Chemistry.

The presence of 'plastic soup' in the oceans is regarded as a big problem. Tiny plastic particles enter the sea when plastic debris decomposes. Such particles are probably also released from cosmetics and from clothes in the wash, subsequently entering the sewage system and surface waters and eventually reaching the sea.

The EU and the Dutch government recognise the problem and the need to monitor the existence of plastics in the seas in order to learn more about present and future concentrations of plastic micro- and nanoparticles in marine environments. Very little is known about the effects plastic nanoparticles have on sea life. The effects now discovered do not yet prove that plastic in the North Sea is a big problem, but they do suggest that further research is extremely important, the researchers remark.

Professor Bart Koelmans' research team, from Wageningen University and IMARES, exposed mussels to various concentrations of nanoplastic in order to discover the concentration at which an effect was noticeable. The team also varied the quantity of algae -- the normal food source for mussels. By giving the plastic nanoparticles colour, and by measuring them using dynamic light scattering, it was possible to determine the particle concentration that exerted an effect. The researchers described in their publication that the extent to which the tiny plastic particles clump together is also extremely important for understanding particle uptake and the resulting effects in marine organisms. "It means that those effects are not easy to predict because the biological availability of the particles can differ enormously from one organism to another, and because variation in water quality also plays a role," says Prof. Koelmans.

Four research studies

This publication is the first of four by Wageningen University and IMARES into the effects of plastic in the North Sea. The other studies will be published in the near future. The first of these is research into the effect of plastic on lugworms, which lose weight due to uptake of plastic particles. The worms, as a result, take in more toxic substances such as polychlorinated biphenyls (PCBs), which bind to plastics.

The researchers believe this indicates the need for good research into other toxic substances that bind to plastic -- an additional consequence of the presence of microplastics. In order to analyse the interaction of plastic and other toxic substances in the food web, Koelmans' group has made a detailed computer model. This type of model is crucial for estimating the risks plastics impose in the sea. The last piece of research is into plastic debris in the stomachs of fish. An analysis of hundreds of fish has shown that 12% of them have debris in their stomachs. Around half of that debris is plastic.

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The above story is reprinted from materials provided by Wageningen University and Research Centre.

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Journal Reference:

  1. A. Wegner, E. Besseling, E.M. Foekema, P. Kamermans, A.A. Koelmans. Effects of nanopolystyrene on the feeding behavior of the blue mussel (Mytilus edulis L.). Environmental Toxicology and Chemistry, 2012; DOI: 10.1002/etc.1984

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20 Sep, 2012


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Humans were already recycling 13,000 years ago, burnt artifacts show

ScienceDaily (Sep. 20, 2012) — A study at the Universitat Rovira i Virgili and the Catalan Institute of Human Paleoecology and Social Evolution (IPHES) reveals that humans from the Upper Palaeolithic Age recycled their stone artefacts to be put to other uses. The study is based on burnt artefacts found in the Molí del Salt site in Tarragona, Spain.

The recycling of stone tools during Prehistoric times has hardly been dealt with due to the difficulties in verifying such practices in archaeological records. Nonetheless, it is possible to find some evidence, as demonstrated in a study published in the 'Journal of Archaeological Science'.

"In order to identify the recycling, it is necessary to differentiate the two stages of the manipulation sequence of an object: the moment before it is altered and the moment after. The two are separated by an interval in which the artefact has undergone some form of alteration. This is the first time a systematic study of this type has been performed," as explained to SINC by Manuel Vaquero, researcher at the Universitat Rovira i Virgili.

The archaeologists found a high percentage of burnt remains in the Molí del Salt site (Tarragona), which date back to the end of the Upper Palaeolithic Age some 13,000 years ago. The expert ensures that "we chose these burnt artefacts because they can tell us in a very simple way whether they have been modified after being exposed to fire."

The results indicate that the recycling of tools was normal during the Upper Palaeolithic Age. However, this practice is not documented in the same way as other types of artefacts. The use of recycled tools was more common for domestic activities and seems to be associated with immediate needs.

Recycling domestic tools

Recycling is linked to expedited behaviour, which means simply shaped and quickly available tools as and when the need arises. Tools used for hunting, like projectile points for instance, were almost never made from recycled artefacts. In contrast, double artefacts (those that combine two tools within the same item) were recycled more often.

"This indicates that a large part of these tools were not conceived from the outset as double artefacts but a single tool was made first and a second was added later when the artefact was recycled," outlines the researcher. The history of the artefacts and the sequence of changes that they have undergone over time are fundamental in understanding their final morphology.

According to Vaquero, "in terms of the objects, this is mostly important from a cultural value point of view, especially in periods like the Upper Palaeolithic Age, in which it is thought that the sharper the object the sharper the mind."

Sustainable practices with natural resources

Recycling could have been determinant in hunter-gatherer populations during the Palaeolithic Age if we consider the behaviour of current indigenous populations nowadays.

"It bears economic importance too, since it would have increased the availability of lithic resources, especially during times of scarcity. In addition, it is a relevant factor for interpreting sites because they become not just places to live but also places of resource provision," states the researcher.

Reusing resources meant that these humans did not have to move around to find raw materials to make their tools, a task that could have taken them far away from camp. "They would simply take an artefact abandoned by those groups who previously inhabited the site."

Vaquero and the team believe that this practice needs to be borne in mind when analysing the site. "Those populating these areas could have moved objects from where they were originally located. They even could have dug up or removed sediments in search of tools," highlights the researcher.

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The above story is reprinted from materials provided by Plataforma SINC, via AlphaGalileo.

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Journal Reference:

  1. Manuel Vaquero, Susana Alonso, Sergio García-Catalán, Angélica García-Hernández, Bruno Gómez de Soler, David Rettig, María Soto. Temporal nature and recycling of Upper Paleolithic artifacts: the burned tools from the Molí del Salt site (Vimbodí i Poblet, northeastern Spain). Journal of Archaeological Science, 2012; 39 (8): 2785 DOI: 10.1016/j.jas.2012.04.024

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20 Sep, 2012


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Invasive 'Rasberry Crazy Ant' in Texas now identified species

ScienceDaily (Sep. 19, 2012) — The Rasberry Crazy Ant is an invasive ant that was first noticed infesting areas around Houston, Texas ten years ago, but its species identity has remained undetermined until now.

In a paper published Sept. 19 in the open access journal PLOS ONE, a research team led by John LaPolla from Towson University in Maryland identifies the species as Nylanderia fulva. Identifying the species should help control this emerging pest, the authors write.

They also conclude that the species, whose common name comes from exterminator Tom Rasberry who first noticed the ants, is distributed more widely than previously thought and has likely invaded all Gulf Coast states.

"This study demonstrates the invaluable role that taxonomy, an often underappreciated discipline, plays in our understanding of emerging pests. Now that we know just what species the Rasberry Crazy Ant really is, we can better understand its biology to improve control of this invasive species," says LaPolla.

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  1. Dietrich Gotzek, Seán G. Brady, Robert J. Kallal, John S. LaPolla. The Importance of Using Multiple Approaches for Identifying Emerging Invasive Species: The Case of the Rasberry Crazy Ant in the United States. PLoS ONE, 2012; 7 (9): e45314 DOI: 10.1371/journal.pone.0045314

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20 Sep, 2012


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New way proposed to save Africa's beleaguered soils

Written By empapat on Rabu, 19 September 2012 | 18.23

ScienceDaily (Sep. 19, 2012) — A Washington State University researcher and colleagues make a case in the journal Nature for a new type of agriculture that could restore the beleaguered soils of Africa and help the continent feed itself in the coming decades.

Their system, which they call "perenniation," mixes food crops with trees and perennial plants, which live for two years or more. Thousands of farmers are already trying variations of perenniation, which reduces the need for artificial inputs while improving soil and in some cases dramatically increasing yields. One woman quadrupled her corn crop, letting her raise pigs and goats and sell surplus grain for essentials and her grandchildren's school fees.

John Reganold, a WSU soil scientist, wrote the article with Jerry Glover of the USAID Bureau for Food Security and Cindy Cox of the International Food Policy Research Institute. The article, "Plant perennials to save Africa's soils," appears in the Sept. 20 issue of Nature.

The authors argue that perenniation offers a powerful option as the world's growing population poses new challenges for people struggling to eat. Already, one-fourth of the world's undernourished population lives in sub-Saharan Africa, where nutrient-poor soils have yields that are one-tenth of the U.S. Midwest. Farmers often make these lands worse by adding conventional mineral fertilizers without organic inputs.

"Of the various factors needing urgent attention to increase agricultural productivity, scientists from the region have identified soil quality as a top priority," the researchers write. "We believe that perenniation should be used much more widely to help farmers to meet the challenge of improving soils while increasing food production."

Several efforts to increase perenniation are already underway, including perennial grain research at WSU and millions of plantings across sub-Saharan Africa in the Trees for Food Security project. But the researchers argue for elevating perenniation research to the levels of support given mineral fertilizers and seed development.

The cost could run to tens of millions of dollars.

"Yet such numbers pale in comparison to the losses of nitrogen, phosphorus and potassium from sub-Saharan farm fields each year," the researchers say. Such losses, they add, are the equivalent of billions of dollars of fertilizer.

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The above story is reprinted from materials provided by Washington State University, via EurekAlert!, a service of AAAS.

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Journal Reference:

  1. Jerry D. Glover, John P. Reganold, Cindy M. Cox. Agriculture: Plant perennials to save Africa's soils. Nature, 2012; 489 (7416): 359 DOI: 10.1038/489359a

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20 Sep, 2012


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Oyster genome uncover the stress adaptation and complexity of shell formation

ScienceDaily (Sep. 19, 2012) — An international research team, led by Institute of Oceanology of Chinese Academy of Sciences and BGI, has completed the sequencing, assembly and analysis of Pacific oyster (Crassostrea gigas) genome -- the first mollusk genome to be sequenced -- that will help to fill a void in our understanding of the species-rich but poorly explored mollusc family. The study, published online September 19 in Nature, reveals the unique adaptations of oysters to highly stressful environment and the complexity mechanism of shell formation.

"The accomplishment is a major breakthrough in the international Conchological research, with great advancement in the fields of Conchology and Marine Biology." said, Professor Fusui Zhang, Academician of Chinese Academy of Sciences, and a well-known Chinese Scientist of Conchology, "The study will provide valuable resources for studying the biology and genetic improvement of molluscs and other marine species. "

Oysters are a soft-bodied invertebrate with a double-hinged shell, which make up an essential part of many aquatic ecosystems. They have a global distribution and for many years they have much higher annual production than any other freshwater or marine organisms. In addition to its economic and ecological importance, the unique biological characteristics of oyster make it an important model for studying marine adaptations, inducing a great deal of biological and genomics research. The completed sequencing of oyster genome will provide a new horizon into understanding its natural mechanisms such as the adaptations to environmental stresses and shell formation, better exploration of marine gene resource, , among others.

Unlike many mammals and social insects, oyster as well as many other marine invertebrates is known to be highly polymorphism, which is a challenge for de novo assembling based on current strategies. In this study, researchers sequenced and assembled the Pacific oyster genome using a combination of short reads and a "Divide and Conquer" fosmid-pooling strategy. This is a novel approach developed by BGI, which can be used to study the genomes with high level of heterozygosity and/or repetitive sequences. After data process, the assembled oyster genome size is about 559 Mb, with a total of ~28,000 genes.

Based on the genomic and transcriptomic analysis results, researchers uncovered an extensive set of genes that allow oysters to adapt and cope with environmental stresses, such as temperature variation and changes in salinity, air exposure and heavy metals. For example, the expansion of heat shock protein 70 (HSP 70) may help explain why Pacific oyster can tolerate high temperatures as HSP family is expanded and highly expressed when in high temperature. The expansion of inhibitors of apoptosis proteins (IAPs), along with other findings, suggested that a powerful anti-apoptosis system exists and may be critical for oyster's amazing endurance to air exposure and other stresses. One notable finding on development is that the oyster Hox gene cluster was broken, and there are unusual gene losses and expansions of the TALE and PRD classes. Hox genes are essential and play critical important role in body plan, the Hox clusters are found to be more conserved in many organisms.

Researchers found paralogs might have the function to change the gene expression for better coping with the stresses. This result suggested that expansion and selective retention of duplicated defense-related genes are probably important to oyster's adaptation. Moreover, many immune-related genes were highly expressed in the digestive gland of the oyster, which indicated its digestive system was an important first-line defense organ against pathogens for the filter-feeder. The shell provides a strong protection against predation and desiccation in sessile marine animals such as oysters. At present, two models have been proposed for molluscan shell formation, but neither of them is accurate enough.

In this study, by sequencing the peptides in the shell, researchers identified 259 shell proteins, and further analysis revealed that shell formation was a far more complex process than previously thought. They found many diverse proteins may play important roles in matrix construction and modification. The typical ECM proteins such as Laminin and some collagens were highly expressed in shells, suggesting that shell matrix has similarities to the ECM of animal connective tissues and basal lamina. Hemocytes may mediate fibronectin (FN)-like fibril formation in the shell matrix as they do in ECM. Furthermore, the functional diversity of proteins showed that the cells and exosome may participate in the shell formation.

Xiaodong Fang, Primary Investigator of this project at BGI, said, "The assembly approach of Oyster genome opens a new way for researchers to better crack the genomes with high-heterozygosity and high-polymorphism. The Oyster genome sheds insights into the comprehensive understanding of mollusc genomes or even lophotrochozoa genomes at the whole genome-wide level, with focuses on the studies of diversity, evolutionary adaptive mechanisms, developmental biology as well as genomics-assisted breeding. "

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The above story is reprinted from materials provided by BGI Shenzhen, via EurekAlert!, a service of AAAS.

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Journal Reference:

  1. Guofan Zhang, Xiaodong Fang, Ximing Guo, Li Li, Ruibang Luo, Fei Xu, Pengcheng Yang, Linlin Zhang, Xiaotong Wang, Haigang Qi, Zhiqiang Xiong, Huayong Que, Yinlong Xie, Peter W. H. Holland, Jordi Paps, Yabing Zhu, Fucun Wu, Yuanxin Chen, Jiafeng Wang, Chunfang Peng, Jie Meng, Lan Yang, Jun Liu, Bo Wen, Na Zhang, Zhiyong Huang, Qihui Zhu, Yue Feng, Andrew Mount, Dennis Hedgecock, Zhe Xu, Yunjie Liu, Tomislav Domazet-Lošo, Yishuai Du, Xiaoqing Sun, Shoudu Zhang, Binghang Liu, Peizhou Cheng, Xuanting Jiang, Juan Li, Dingding Fan, Wei Wang, Wenjing Fu, Tong Wang, Bo Wang, Jibiao Zhang, Zhiyu Peng, Yingxiang Li, Na Li, Jinpeng Wang, Maoshan Chen, Yan He, Fengji Tan, Xiaorui Song, Qiumei Zheng, Ronglian Huang, Hailong Yang, Xuedi Du, Li Chen, Mei Yang, Patrick M. Gaffney, Shan Wang, Longhai Luo, Zhicai She, Yao Ming, Wen Huang, Shu Zhang, Baoyu Huang, Yong Zhang, Tao Qu, Peixiang Ni, Guoying Miao, Junyi Wang, Qiang Wang, Christian E. W. Steinberg, Haiyan Wang, Ning Li, Lumin Qian, Guojie Zhang, Yingrui Li, Huanming Yang, Xiao Liu, Jian Wang, Ye Yin, Jun Wang. The oyster genome reveals stress adaptation and complexity of shell formation. Nature, 2012; DOI: 10.1038/nature11413

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20 Sep, 2012


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Climate change to fuel northern spread of avian malaria: Malaria already found in birds in Alaska

ScienceDaily (Sep. 19, 2012) — Malaria has been found in birds in parts of Alaska, and global climate change will drive it even farther north, according to a new study published September 19 in the journal PLoS ONE.

The spread could prove devastating to arctic bird species that have never encountered the disease and thus have no resistance to it, said San Francisco State University Associate Professor of Biology Ravinder Sehgal, one of the study's co-authors. It may also help scientists understand the effects of climate change on the spread of human malaria, which is caused by a similar parasite.

Researchers examined blood samples from birds collected at four sites of varying latitude, with Anchorage as a southern point, Denali and Fairbanks as middle points and Coldfoot as a northern point, roughly 600 miles north of Anchorage. They found infected birds in Anchorage and Fairbanks but not in Coldfoot.

Using satellite imagery and other data, researchers were able to predict how environments will change due to global warming -- and where malaria parasites will be able to survive in the future. They found that by 2080, the disease will have spread north to Coldfoot and beyond.

"Right now, there's no avian malaria above latitude 64 degrees, but in the future, with global warming, that will certainly change," Sehgal said. The northerly spread is alarming, he added, because there are species in the North American arctic that have never been exposed to the disease and may be highly susceptible to it.

"For example, penguins in zoos die when they get malaria, because far southern birds have not been exposed to malaria and thus have not developed any resistance to it," he said. "There are birds in the north, such as snowy owls or gyrfalcons, that could experience the same thing."

The study's lead author is Claire Loiseau, a former postdoctoral fellow in Sehgal's laboratory at SF State. Ryan Harrigan, a postdoctoral scholar at the University of California, Los Angeles, provided data modeling for the project. The research was funded by grants from the AXA Foundation and National Geographic.

Researchers are still unsure how the disease is being spread in Alaska and are currently collecting additional data to determine which mosquito species are transmitting the Plasmodium parasites that cause malaria.

The data may also indicate if and how malaria in humans will spread northward. Modern medicine makes it difficult to track the natural spread of the disease, Sehgal said, but monitoring birds may provide clues as to how global climate change may effect the spread of human malaria.

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Journal Reference:

  1. Claire Loiseau, Ryan J. Harrigan, Anthony J. Cornel, Sue L. Guers, Molly Dodge, Timothy Marzec, Jenny S. Carlson, Bruce Seppi, Ravinder N. M. Sehgal. First Evidence and Predictions of Plasmodium Transmission in Alaskan Bird Populations. PLoS ONE, 2012; 7 (9): e44729 DOI: 10.1371/journal.pone.0044729

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Disclaimer: This article is not intended to provide medical advice, diagnosis or treatment. Views expressed here do not necessarily reflect those of ScienceDaily or its staff.

20 Sep, 2012


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Genetic mutation may have allowed early humans to migrate throughout Africa

ScienceDaily (Sep. 19, 2012) — A genetic mutation that occurred thousands of years ago might be the answer to how early humans were able to move from central Africa and across the continent in what has been called "the great expansion," according to new research from Wake Forest Baptist Medical Center.

By analyzing genetic sequence variation patterns in different populations around the world, three teams of scientists from Wake Forest Baptist, Johns Hopkins University School of Medicine and the University of Washington School of Medicine, Seattle, demonstrated that a critical genetic variant arose in a key gene cluster on chromosome 11, known as the fatty acid desaturase cluster or FADS, more than 85,000 years ago. This variation would have allowed early humans to convert plant-based polyunsaturated fatty acids (PUFAs) to brain PUFAs necessary for increased brain size, complexity and function. The FADS cluster plays a critical role in determining how effectively medium-chain PUFAs found in plants are converted to the long-chain PUFAs found in the brain.

This research is published online today in PLOS ONE.

Archeological and genetic studies suggest that homo sapiens appeared approximately 180,000 years ago, but stayed in one location around bodies of water in central Africa for almost 100,000 years. Senior author Floyd H. "Ski" Chilton, Ph.D., professor of physiology and pharmacology and director of the Center for Botanical Lipids and Inflammatory Disease Prevention at Wake Forest Baptist, and others have hypothesized that this location was critical, in part, because early humans needed large amounts of the long-chain PUFA docosahexaenoic acid (DHA), which is found in shellfish and fish, to support complex brain function.

"This may have kept early humans tethered to the water in central Africa where there was a constant food source of DHA," Chilton said. "There has been considerable debate on how early humans were able to obtain sufficient DHA necessary to maintain brain size and complexity. It's amazing to think we may have uncovered the region of genetic variation that arose about the time that early humans moved out of this central region in what has been called the 'great expansion.'"

Once this trait arose, the study shows that it was under intense selective pressure and thus rapidly spread throughout the population of the entire African continent. "The power of genetics continually impresses me, and I find it remarkable that we can make inferences about things that happened tens of thousands of years ago by studying patterns of genetic variation that exist in contemporary populations," said Joshua M. Akey, Ph.D., lead scientist at the University of Washington.

This conversion meant that early humans didn't have to rely on just one food source, fish, for brain growth and development. This may have been particularly important because the genetic variant arose before organized hunting and fishing could have provided more reliable sources of long-chain PUFAs, Akey said.

To investigate the evolutionary forces shaping patterns of variation in the FADS gene cluster in geographically diverse populations, the researchers analyzed 1,092 individuals representing 15 different human populations that were sequenced as part of the 1000 Genome Project and 1,043 individuals from 52 populations from the Human Genome Diversity Panel database. They focused on the FADS cluster because they knew those genes code for the enzymatic steps in long-chain PUFA synthesis that are the least efficient.

Chilton said the findings were possible because of the collaboration of internationally recognized scientists from three distinct and diverse disciplines -- fatty acid biochemistry (Wake Forest Baptist), statistical genetics (Johns Hopkins) and population genetics (University of Washington). This new information builds on Chilton's 2011 research findings published in BMC Genetics that showed how people of African descent have a much higher frequency of the gene variants that convert plant-based medium-chain omega-6 PUFAs found in cooking oils and processed foods to long-chain PUFAs that cause inflammation. Compared to Caucasians, African Americans in the United States have much higher rates of hypertension, type 2 diabetes, stroke, coronary heart disease and certain types of cancer. "The current observation provides another important clue as to why diverse racial and ethnic populations likely respond differently to the modern western diet," Chilton said.

This research was supported by National Institutes of Health grants, P50 AT002782 and a Clinical and Translational Science Award grant to The Johns Hopkins Medical Institutions. Additional support was received from the Wake Forest Health Sciences Center for Public Health Genomics. Additional support came from the Mary Beryl Patch Turnbull Scholar Program and the MOSAIC initiative of Johns Hopkins University.

Chilton has a financial interest in and is a consultant for Gene Smart Health. His potential conflict of interest is being institutionally managed by Wake Forest Baptist and outside sponsors, as appropriate. No other authors have a conflict of interest.

First author is Rasika Mathias, Sc.D, assistant professor of medicine and epidemiology, Johns Hopkins; contributing authors include Hannah C. Ainsworth and Susan Sergeant, both of Wake Forest Baptist; Wenqing Fu, U of W; Dara G. Torgerson, University of California San Francisco; and Ingo Ruczinski and Kathleen C. Barnes of Johns Hopkins.

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  1. Rasika A. Mathias, Wenqing Fu, Joshua M. Akey, Hannah C. Ainsworth, Dara G. Torgerson, Ingo Ruczinski, Susan Sergeant, Kathleen C. Barnes, Floyd H. Chilton. Adaptive Evolution of the FADS Gene Cluster within Africa. PLoS ONE, 2012; 7 (9): e44926 DOI: 10.1371/journal.pone.0044926

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20 Sep, 2012


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Climate scientists put predictions to the test

ScienceDaily (Sep. 19, 2012) — Climate-prediction models show skills in forecasting climate trends over time spans of greater than 30 years and at the geographical scale of continents, but they deteriorate when applied to shorter time frames and smaller geographical regions, a new study has found.

Published in the Journal of Geophysical Research-Atmospheres, the study is one of the first to systematically address a longstanding, fundamental question asked not only by climate scientists and weather forecasters, but the public as well: How good are Earth system models at predicting the surface air temperature trend at different geographical and time scales?

Xubin Zeng, a professor in the University of Arizona department of atmospheric sciences who leads a research group evaluating and developing climate models, said the goal of the study was to bridge the communities of climate scientists and weather forecasters, who sometimes disagree with respect to climate change.

According to Zeng, who directs the UA Climate Dynamics and Hydrometeorology Center, the weather forecasting community has demonstrated skill and progress in predicting the weather up to about two weeks into the future, whereas the track record has remained less clear in the climate science community tasked with identifying long-term trends for the global climate.

"Without such a track record, how can the community trust the climate projections we make for the future?" said Zeng, who serves on the Board on Atmospheric Sciences and Climate of the National Academies and the Executive Committee of the American Meteorological Society. "Our results show that actually both sides' arguments are valid to a certain degree."

"Climate scientists are correct because we do show that on the continental scale, and for time scales of three decades or more, climate models indeed show predictive skills. But when it comes to predicting the climate for a certain area over the next 10 or 20 years, our models can't do it."

To test how accurately various computer-based climate prediction models can turn data into predictions, Zeng's group used the "hindcast" approach.

"Ideally, you would use the models to make predictions now, and then come back in say, 40 years and see how the predictions compare to the actual climate at that time," said Zeng. "But obviously we can't wait that long. Policymakers need information to make decisions now, which in turn will affect the climate 40 years from now."

Zeng's group evaluated seven computer simulation models used to compile the reports that the Intergovernmental Panel on Climate Change, or IPCC, issues every six years. The researchers fed them historical climate records and compared their results to the actual climate change observed between then and now.

"We wanted to know at what scales are the climate models the IPCC uses reliable," said Koichi Sakaguchi, a doctoral student in Zeng's group who led the study. "These models considered the interactions between the Earth's surface and atmosphere in both hemispheres, across all continents and oceans and how they are coupled."

Zeng said the study should help the community establish a track record whose accuracy in predicting future climate trends can be assessed as more comprehensive climate data become available.

"Our goal was to provide climate modeling centers across the world with a baseline they can use every year as they go forward," Zeng added. "It is important to keep in mind that we talk about climate hindcast starting from 1880. Today, we have much more observational data. If you start your prediction from today for the next 30 years, you might have a higher prediction skill, even though that hasn't been proven yet."

The skill of a climate model depends on three criteria at a minimum, Zeng explained. The model has to use reliable data, its prediction must be better than a prediction based on chance, and its prediction must be closer to reality than a prediction that only considers the internal climate variability of the Earth system and ignores processes such as variations in solar activity, volcanic eruptions, greenhouse gas emissions from fossil fuel burning and land-use change, for example urbanization and deforestation.

"If a model doesn't meet those three criteria, it can still predict something but it cannot claim to have skill," Zeng said.

According to Zeng, global temperatures have increased in the past century by about 1.4 degrees Fahrenheit or 0.8 degrees Celsius on average. Barring any efforts to curb global warming from greenhouse gas emissions, the temperatures could further increase by about 4.5 degrees Fahrenheit (2.5 degrees Celsius) or more by the end of the 21st century based on these climate models.

"The scientific community is pushing policymakers to avoid the increase of temperatures by more than 2 degrees Celsius because we feel that once this threshold is crossed, global warming could be damaging to many regions," he said.

Zeng said that climate models represent the current understanding of the factors influencing climate, and then translate those factors into computer code and integrate their interactions into the future.

"The models include most of the things we know," he explained, "such as wind, solar radiation, turbulence mixing in the atmosphere, clouds, precipitation and aerosols, which are tiny particles suspended in the air, surface moisture and ocean currents."

Zeng described how the group did the analysis: "With any given model, we evaluated climate predictions from 1900 into the future -- 10 years, 20 years, 30 years, 40 years, 50 years. Then we did the same starting in 1901, then 1902 and so forth, and applied statistics to the results."

Climate models divide the Earth into grid boxes whose size determines its spatial resolution. According to Zeng, state of the art is about one degree, equaling about 60 miles (100 kilometers).

"There has to be a simplification because if you look outside the window, you realize you don't typically have a cloud cover that measures 60 miles by 60 miles. The models cannot reflect that kind of resolution. That's why we have all those uncertainties in climate prediction."

"Our analysis confirmed what we expected from last IPCC report in 2007," said Sakaguchi. "Those climate models are believed to be of good skill on large scales, for example predicting temperature trends over several decades, and we confirmed that by showing that the models work well for time spans longer than 30 years and across geographical scales spanning 30 degrees or more."

The scientists pointed out that although the IPCC issues a new report every six years, they didn't see much change with regard to the prediction skill of the different models.

"The IPCC process is driven by international agreements and politics," Zeng said. "But in science, we are not expected to make major progress in just six years. We have made a lot of progress in understanding certain processes, for example airborne dust and other small particles emitted from surface, either through human activity or through natural sources into the air. But climate and the Earth system still are extremely complex. Better understanding doesn't necessarily translate into better skill in a short time."

"Once you go into details, you realize that for some decades, models are doing a much better job than for some other decades. That is because our models are only as good as our understanding of the natural processes, and there is a lot we don't understand."

Michael Brunke, a graduate student in Zeng's group who focused on ocean-atmosphere interactions, co-authored the study, which is titled "The Hindcast Skill of the CMIP Ensembles for the Surface Air Temperature Trend."

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The above story is reprinted from materials provided by University of Arizona, via EurekAlert!, a service of AAAS.

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Journal Reference:

  1. Koichi Sakaguchi, Xubin Zeng, Michael A. Brunke. The hindcast skill of the CMIP ensembles for the surface air temperature trend. Journal of Geophysical Research, 2012; 117 (D16) DOI: 10.1029/2012JD017765

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20 Sep, 2012


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Ancient tooth may provide evidence of early human dentistry

ScienceDaily (Sep. 19, 2012) — Researchers may have uncovered new evidence of ancient dentistry in the form of a 6,500-year-old human jaw bone with a tooth showing traces of beeswax filling, as reported Sept. 19 in the open access journal PLOS ONE.

The researchers, led by Federico Bernardini and Claudio Tuniz of the Abdus Salam International Centre for Theoretical Physics in Italy in cooperation with Sincrotrone Trieste and other institutions, write that the beeswax was applied around the time of the individual's death, but cannot confirm whether it was shortly before or after. If it was before death, however, they write that it was likely intended to reduce pain and sensitivity from a vertical crack in the enamel and dentin layers of the tooth.

According to Tuniz, the severe wear of the tooth "is probably also due to its use in non-alimentary activities, possibly such as weaving, generally performed by Neolithic females."

Evidence of prehistoric dentistry is sparse, so this new specimen, found in Slovenia near Trieste, may help provide insight into early dental practices.

"This finding is perhaps the most ancient evidence of pre-historic dentistry in Europe and the earliest known direct example of therapeutic-palliative dental filling so far," says Bernardini.

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Journal Reference:

  1. Federico Bernardini, Claudio Tuniz, Alfredo Coppa, Lucia Mancini, Diego Dreossi, Diane Eichert, Gianluca Turco, Matteo Biasotto, Filippo Terrasi, Nicola De Cesare, Quan Hua, Vladimir Levchenko. Beeswax as Dental Filling on a Neolithic Human Tooth. PLoS ONE, 2012; 7 (9): e44904 DOI: 10.1371/journal.pone.0044904

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20 Sep, 2012


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Arctic sea ice hits smallest extent in satellite era

ScienceDaily (Sep. 19, 2012) — The frozen cap of the Arctic Ocean appears to have reached its annual summertime minimum extent and broken a new record low on Sept. 16, the National Snow and Ice Data Center (NSIDC) has reported. Analysis of satellite data by NASA and the NASA-supported NSIDC at the University of Colorado in Boulder showed that the sea ice extent shrunk to 1.32 million square miles (3.41 million square kilometers).

The new record minimum measures almost 300,000 square miles less than the previous lowest extent in the satellite record, set in mid-September 2007, of 1.61 million square miles (4.17 million square kilometers). For comparison, the state of Texas measures around 268,600 square miles.

NSIDC cautioned that, although Sept. 16 seems to be the annual minimum, there's still time for winds to change and compact the ice floes, potentially reducing the sea ice extent further. NASA and NSIDC will release a complete analysis of the 2012 melt season next month, once all data for September are available.

Arctic sea ice cover naturally grows during the dark Arctic winters and retreats when the sun re-appears in the spring. But the sea ice minimum summertime extent, which is normally reached in September, has been decreasing over the last three decades as Arctic ocean and air temperatures have increased. This year's minimum extent is approximately half the size of the average extent from 1979 to 2000. This year's minimum extent also marks the first time Arctic sea ice has dipped below 4 million square kilometers.

"Climate models have predicted a retreat of the Arctic sea ice; but the actual retreat has proven to be much more rapid than the predictions," said Claire Parkinson, a climate scientist at NASA Goddard Space Flight Center, Greenbelt, Md. "There continues to be considerable inter-annual variability in the sea ice cover, but the long-term retreat is quite apparent."

The thickness of the ice cover is also in decline.

"The core of the ice cap is the perennial ice, which normally survived the summer because it was so thick," said Joey Comiso, senior scientist with NASA Goddard. "But because it's been thinning year after year, it has now become vulnerable to melt."

The disappearing older ice gets replaced in winter with thinner seasonal ice that usually melts completely in the summer.

This year, a powerful cyclone formed off the coast of Alaska and moved on Aug. 5 to the center of the Arctic Ocean, where it churned the weakened ice cover for several days. The storm cut off a large section of sea ice north of the Chukchi Sea and pushed it south to warmer waters that made it melt entirely. It also broke vast extensions of ice into smaller pieces more likely to melt.

"The storm definitely seems to have played a role in this year's unusually large retreat of the ice," Parkinson said. "But that exact same storm, had it occurred decades ago when the ice was thicker and more extensive, likely wouldn't have had as prominent an impact, because the ice wasn't as vulnerable then as it is now."

NASA scientists derive 2012 sea ice concentration data from microwave instruments aboard Defense Meteorological Satellite Program satellites. The wind data in the visualization is from the National Centers for Environmental Prediction.

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20 Sep, 2012


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Odorant shape and vibration likely lead to olfaction satisfaction

ScienceDaily (Sep. 19, 2012) — A new study of the sense of smell lends support to a controversial theory of olfaction: Our noses can distinguish both the shape and the vibrational characteristics of odorant molecules.

The study, in the journal Physical Chemistry Chemical Physics, demonstrates the feasibility of the theory -- first proposed decades ago -- that the vibration of an odorant molecule's chemical bonds -- the wagging, stretching and rocking of the links between atoms -- contributes to our ability to distinguish one smelly thing from another.

"The theory goes that when the right odorant binds to its receptor, the odorant's molecular vibration allows electrons to transfer from one part of the receptor to another," said University of Illinois physics and Beckman Institute professor Klaus Schulten, who conducted the analysis with postdoctoral researcher Ilia Solov'yov and graduate student Po-Yao Chang. "This electron transfer appears to fine-tune the signal the receptor receives."

Many who study olfaction maintain that odorant receptors recognize only an odorant's shape and surface characteristics. They dismiss the idea that molecular vibration has anything to do with it, Schulten said. Likewise, some proponents of the vibrational theory think that molecular vibration only, and not shape, guides the sense of smell. Schulten and his colleagues belong to a "third camp" that sees evidence for both, he said.

The vibrational theory of olfaction is supported by studies showing that insects, humans and other animals can tell the difference between two versions of the same odorant molecule -- a normal one and an identical one with deuterium atoms substituted for each of the hydrogens. The deuterated and normal versions of the odorant have the same shape and surface characteristics, and yet humans and other animals can smell the difference, Schulten said.

"The question then is of course, for scientists, how does this happen?" he said.

To answer this question, Schulten turned to the work of a former colleague at Illinois, Rudolph Marcus, a chemist (now at the California Institute of Technology) who received the Nobel Prize in Chemistry in 1992 for his insights into electron transfer, one of the most basic forms of a chemical reaction.

"Marcus realized that when electrons are being exchanged between molecules the process is coupled to the vibrations of the molecules involved," Schulten said. Marcus focused primarily on the low-frequency "rumblings" that occur as a result of molecular vibration in large molecules, Schulten said.

Odorant molecules are generally quite small, however, with a lot of high-frequency, high-energy vibrations, Schulten said. Some scientists have theorized that these high-frequency vibrations can, when an odorant binds to the right receptor, enhance the likelihood that an electron will transfer from one part of the receptor to another, sending an electrical signal that contributes to the detection of that odor.

Prior to the new study, no one had analyzed the energetics of the system to see if the vibrations of the odorant molecules -- in the context of all the background vibrations that are part of the system -- could actually promote electron transfer within the receptor. Schulten and his colleagues are the first to conduct such an analysis, he said.

"You can actually carry out quantum chemical calculations that determine very precisely the vibration of the molecule as well as the ability to couple it to electron transfer," Schulten said. The calculations indicate that such an interaction is energetically feasible, he said.

Odorant receptors are embedded in membranes and so are more difficult to study than other proteins. But previous research indicates that some receptors are metalloproteins, and "the metals in the proteins are predesigned to transfer electrons," Schulten said. "We also see that there are other amino acid side groups that can accept an electron, so the electron can be transferred through the protein."

Like others before them, Schulten and his colleagues suggest that the odorant receptor contains both an electron donor and an electron acceptor, but that electron transfer occurs only when a specific odorant is bound to the receptor. The new calculations offer the first quantitative evidence that the odorant can in fact promote electron transfer.

Those who suggested that molecular vibration played a role in odorant recognition in previous studies "didn't know about Marcus' theory and they didn't do quantum chemical calculations," Schulten said. "They argued very much on principle (that it was possible). So we are saying now, yes, it is really possible even when you do the most complete and reliable calculations."

Video: http://www.youtube.com/watch?v=Oe5PW2KqImI

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Journal Reference:

  1. Ilia A. Solov'yov, Po-Yao Chang, Klaus Schulten. Vibrationally assisted electron transfer mechanism of olfaction: myth or reality? Physical Chemistry Chemical Physics, 2012; DOI: 10.1039/C2CP41436H

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20 Sep, 2012


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Carbon dioxide from water pollution, as well as air pollution, may adversely impact oceans

ScienceDaily (Sep. 19, 2012) — Carbon dioxide (CO2) released into the oceans as a result of water pollution by nutrients -- a major source of this greenhouse gas that gets little public attention -- is enhancing the unwanted changes in ocean acidity due to atmospheric increases in CO2. The changes may already be impacting commercial fish and shellfish populations, according to new data and model predictions published September 19 in ACS's journal, Environmental Science & Technology.

William G. Sunda and Wei-Jun Cai point out that atmospheric levels of CO2, the main greenhouse gas, have increased by about 40 percent since the Industrial Revolution due to the burning of fossil fuels and land-use changes. The oceans absorb about one-third of that CO2, which results in acidification from the formation of carbonic acid. However, pollution of ocean water with nutrient runoff from fertilizer, human and animal waste, and other sources also is adding CO2 via the biological breakdown of organic matter formed during algal blooms, which also depletes oxygen from the water.

Sunda and Cai developed a computer model to project the likely consequences of ocean acidification from this process both currently and with future increases in atmospheric CO2. The model predicted that this process will interact synergistically with the acidification of seawater from rising atmospheric CO2 in seawater at intermediate to higher temperatures. Together, the two ocean processes are predicted to substantially increase the acidity of ocean waters, enough to potentially impact commercial fisheries in coastal regions receiving nutrient inputs, such as the northern Gulf of Mexico and Baltic Sea. Clams, oysters, scallops and mussels could be the most heavily impacted, the report indicates.

The authors acknowledge funding from the National Science Foundation, the National Aeronautics and Space Administration and the National Oceanic and Atmospheric Administration.

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Journal Reference:

  1. William G. Sunda, Wei-Jun Cai. Eutrophication Induced CO2-Acidification of Subsurface Coastal Waters: Interactive Effects of Temperature, Salinity, and AtmosphericPCO2. Environmental Science & Technology, 2012; : 120919060032001 DOI: 10.1021/es300626f

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20 Sep, 2012


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Thermoelectric material is the best at converting heat waste to electricity

ScienceDaily (Sep. 19, 2012) — Northwestern University scientists have developed a thermoelectric material that is the best in the world at converting waste heat to electricity. This is very good news once you realize nearly two-thirds of energy input is lost as waste heat.

The material could signify a paradigm shift. The inefficiency of current thermoelectric materials has limited their commercial use. Now, with a very environmentally stable material that is expected to convert 15 to 20 percent of waste heat to useful electricity, thermoelectrics could see more widespread adoption by industry.

Possible areas of application include the automobile industry (much of gasoline's potential energy goes out a vehicle's tailpipe), heavy manufacturing industries (such as glass and brick making, refineries, coal- and gas-fired power plants) and places were large combustion engines operate continuously (such as in large ships and tankers).

Waste heat temperatures in these areas can range from 400 to 600 degrees Celsius (750 to 1,100 degrees Fahrenheit), the sweet spot for thermoelectrics use.

The new material, based on the common semiconductor lead telluride, is the most efficient thermoelectric material known. It exhibits a thermoelectric figure of merit (so-called "ZT") of 2.2, the highest reported to date. Chemists, physicists, material scientists and mechanical engineers at Northwestern and Michigan State University collaborated to develop the material.

The study will be published Sept. 20 by the journal Nature.

"Our system is the top-performing thermoelectric system at any temperature," said Mercouri G. Kanatzidis, who led the research and is a senior author of the paper. "The material can convert heat to electricity at the highest possible efficiency. At this level, there are realistic prospects for recovering high-temperature waste heat and turning it into useful energy."

Kanatzidis is Charles E. and Emma H. Morrison Professor of Chemistry in Northwestern's Weinberg College of Arts and Sciences. He also holds a joint appointment at Argonne National Laboratory.

"People often ask, what is the energy solution?" said Vinayak P. Dravid, one of Kanatzidis' close collaborators. "But there is no unique solution -- it's going to be a distributed solution. Thermoelectrics is not the answer to all our energy problems, but it is an important part of the equation."

Dravid is the Abraham Harris Professor of Materials Science and Engineering at the McCormick School of Engineering and Applied Science and a senior author of the paper.

Other members of the team and authors of the Nature paper include Kanishka Biswas, a postdoctoral fellow in Kanatzidis' group; Jiaqing He, a postdoctoral member in Dravid's group; David N. Seidman, Walter P. Murphy Professor of Materials Science and Engineering at Northwestern; and Timothy P. Hogan, professor of electrical and computer engineering, at Michigan State University.

Even before the Northwestern record-setting material, thermoelectric materials were starting to get better and being tested in more applications. The Mars rover Curiosity is powered by lead telluride thermoelectrics (although it's system has a ZT of only 1, making it half as efficient as Northwestern's system), and BMW is testing thermoelectrics in its cars by harvesting heat from the exhaust system.

"Now, having a material with a ZT greater than two, we are allowed to really think big, to think outside the box," Dravid said. "This is an intellectual breakthrough."

"Improving the ZT never stops -- the higher the ZT, the better," Kanatzidis said. "We would like to design even better materials and reach 2.5 or 3. We continue to have new ideas and are working to better understand the material we have."

The efficiency of waste heat conversion in thermoelectrics is governed by its figure of merit, or ZT. This number represents a ratio of electrical conductivity and thermoelectric power in the numerator (which need to be high) and thermal conductivity in the denominator (which needs to be low).

"It is hard to increase one without compromising the other," Dravid said. These contradictory requirements stalled the progress towards a higher ZT for many years, where it was stagnant at a nominal value of 1.

Kanatzidis and Dravid have pushed the ZT higher and higher in recent years by introducing nanostructures in bulk thermoelectrics. In January 2011, they published a report in Nature Chemistry of a thermoelectric material with a ZT of 1.7 at 800 degrees Kelvin. This was the first example of using nanostructures (nanocrystals of rock-salt structured strontium telluride) in lead telluride to reduce electron scattering and increase the energy conversion efficiency of the material.

The performance of the new material reported now in Nature is nearly 30 percent more efficient than its predecessor. The researchers achieved this by scattering a wider spectrum of phonons, across all wavelengths, which is important in reducing thermal conductivity.

"Every time a phonon is scattered the thermal conductivity gets lower, which is what we want for increased efficiency," Kanatzidis said.

A phonon is a quantum of vibrational energy, and each has a different wavelength. When heat flows through a material, a spectrum of phonons needs to be scattered at different wavelengths (short, intermediate and long).

In this work, the researchers show that all length scales can be optimized for maximum phonon scattering with minor change in electrical conductivity. "We combined three techniques to scatter short, medium and long wavelengths all together in one material, and they all work simultaneously," Kanatzidis said. "We are the first to scatter all three at once and at the widest spectrum known. We call this a panoscopic approach that goes beyond nanostructuring."

"It's a very elegant design," Dravid said.

In particular, the researchers improved the long-wavelength scattering of phonons by controlling and tailoring the mesoscale architecture of the nanostructured thermoelectric materials. This resulted in the world record of a ZT of 2.2.

The successful approach of integrated all-length-scale scattering of phonons is applicable to all bulk thermoelectric materials, the researchers said.

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Journal Reference:

  1. Kanishka Biswas, Jiaqing He, Ivan D. Blum, Chun-I Wu, Timothy P. Hogan, David N. Seidman, Vinayak P. Dravid, Mercouri G. Kanatzidis. High-performance bulk thermoelectrics with all-scale hierarchical architectures. Nature, 2012; 489 (7416): 414 DOI: 10.1038/nature11439

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20 Sep, 2012


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The 'slippery slope to slime': Overgrown algae causing coral reef declines

ScienceDaily (Sep. 19, 2012) — Researchers at Oregon State University for the first time have confirmed some of the mechanisms by which overfishing and nitrate pollution can help destroy coral reefs -- it appears they allow an overgrowth of algae that can bring with it unwanted pathogens, choke off oxygen and disrupt helpful bacteria.

These "macroalgae," or large algal species, are big enough to essentially smother corals. They can get out of control when sewage increases nitrate levels, feeds the algae, and some of the large fish that are most effective at reducing the algal buildup are removed by fishing.

Scientists found that macroalgal competition decreased coral growth rates by about 37 percent and had other detrimental effects. Other research has documented some persistent states of hypoxia.

Researchers call this process "the slippery slope to slime."

Findings on the research were just published in PLoS One, a professional journal.

"There is evidence that coral reefs around the world are becoming more and more dominated by algae," said Rebecca Vega-Thurber, an OSU assistant professor of microbiology. "Some reefs are literally covered up in green slime, and we wanted to determine more precisely how this can affect coral health."

The new study found that higher levels of algae cause both a decrease in coral growth rate and an altered bacterial community. The algae can introduce some detrimental pathogens to the coral and at the same time reduce levels of helpful bacteria. The useful bacteria are needed to feed the corals in a symbiotic relationship, and also produce antibiotics that can help protect the corals from other pathogens.

One algae in particular, Sargassum, was found to vector, or introduce a microbe to corals, a direct mechanism that might allow introduction of foreign pathogens.

There are thousands of species of algae, and coral reefs have evolved with them in a relationship that often benefits the entire tropical marine ecosystem. When in balance, some algae grow on the reefs, providing food to both small and large fish that nibble at the algal growth. But the algal growth is normally limited by the availability of certain nutrients, especially nitrogen and phosphorus, and some large fish such as parrot fish help eat substantial amounts of algae and keep it under control.

All of those processes can be disrupted when algal growth is significantly increased by the nutrients and pollution from coastal waste water, and overfishing reduces algae consumption at the same time.

"This shows that some human actions, such as terrestrial pollution or overfishing, can affect everything in marine ecosystems right down to the microbes found on corals," Vega-Thurber said. "We've suspected before that increased algal growth can bring new diseases to corals, and now for the first time have demonstrated in experiments these shifts in microbial communities."

Some mitigation of the problem is already being done on high-value coral reefs by mechanically removing algae, Vega-Thurber said, but the best long-term solution is to reduce pollution and overfishing so that a natural balance can restore itself.

Corals are one of Earth's oldest animal life forms, evolving around 500 million years ago. They host thousands of species of fish and other animals, are a major component of marine biodiversity in the tropics, and are now in decline around the world. Reefs in the Caribbean Sea have declined more than 80 percent in recent decades.

The work was supported by the National Science Foundation.

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Journal Reference:

  1. Rebecca Vega Thurber, Deron E. Burkepile, Adrienne M. S. Correa, Andrew R. Thurber, Andrew A. Shantz, Rory Welsh, Catharine Pritchard, Stephanie Rosales. Macroalgae Decrease Growth and Alter Microbial Community Structure of the Reef-Building Coral, Porites astreoides. PLoS ONE, 2012; 7 (9): e44246 DOI: 10.1371/journal.pone.0044246

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20 Sep, 2012


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Source: http://feeds.sciencedaily.com/~r/sciencedaily/top_news/top_environment/~3/YkT3zCcdVb8/120919135421.htm
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How organisms evolve new functions: Evolution is as complicated as 1-2-3

ScienceDaily (Sep. 19, 2012) — A team of researchers at Michigan State University has documented the step-by-step process in which organisms evolve new functions.

The results, published in the current issue of Nature, are revealed through an in-depth, genomics-based analysis that decodes how E. coli bacteria figured out how to supplement a traditional diet of glucose with an extra course of citrate.

"It's pretty nifty to see a new biological function evolve," said Zachary Blount, postdoctoral researcher in MSU's BEACON Center for the Study of Evolution in Action. "The first citrate-eaters were just barely able to grow on the citrate, but they got much better over time. We wanted to understand the changes that allowed the bacteria to evolve this new ability. We were lucky to have a system that allowed us to do so."

Normal E. coli can't digest citrate when oxygen is present. In fact, it's a distinct hallmark of E. coli. They can't eat citrate because E. coli don't express the right protein to absorb citrate molecules.

To decipher the responsible mutations, Blount worked with Richard Lenski, MSU Hannah Distinguished Professor of Microbiology and Molecular Genetics. Lenski's long-term experiment, cultivating cultures of fast-growing E. coli, was launched in 1988 and has allowed him and his teammates to study more than more than 56,000 generations of bacterial evolution.

The experiment demonstrates natural selection at work. And because samples are frozen and available for later study, when something new emerges scientists can go back to earlier generations to look for the steps that happened along the way.

"We first saw the citrate-using bacteria around 33,000 generations," Lenski explained. "But Zack was able to show that some of the important mutations had already occurred before then by replaying evolution from different intermediate stages. He showed you could re-evolve the citrate-eaters, but only after some of the other pieces of the puzzle were in place."

In the Nature paper, Blount and his teammates analyzed 29 genomes from different generations to find the mutational pieces of the puzzle. They uncovered a three-step process in which the bacteria developed this new ability.

The first stage was potentiation, when the E. coli accumulated at least two mutations that set the stage for later events. The second step, actualization, is when the bacteria first began eating citrate, but only just barely nibbling at it. The final stage, refinement, involved mutations that greatly improved the initially weak function. This allowed the citrate eaters to wolf down their new food source and to become dominant in the population.

"We were particularly excited about the actualization stage," Blount said. "The actual mutation involved is quite complex. It re-arranged part of the bacteria's DNA, making a new regulatory module that had not existed before. This new module causes the production of a protein that allows the bacteria to bring citrate into the cell when oxygen is present. That is a new trick for E. coli."

The change was far from normal, Lenski said.

"It wasn't a typical mutation at all, where just one base-pair, one letter, in the genome is changed," he said. "Instead, part of the genome was copied so that two chunks of DNA were stitched together in a new way. One chunk encoded a protein to get citrate into the cell, and the other chunk caused that protein to be expressed."

Additional co-authors include Jeff Barrick, University of Texas, and Carla Davidson, University of Calgary.

The research was funded in part by the National Science Foundation.

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Journal Reference:

  1. Zachary D. Blount, Jeffrey E. Barrick, Carla J. Davidson, Richard E. Lenski. Genomic analysis of a key innovation in an experimental Escherichia coli population. Nature, 2012; DOI: 10.1038/nature11514

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20 Sep, 2012


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Source: http://feeds.sciencedaily.com/~r/sciencedaily/top_news/top_environment/~3/2xXlkrYCNKQ/120919135411.htm
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CT scan and 3-D print help scientists reconstruct an ancient mollusk

ScienceDaily (Sep. 19, 2012) — Using a combination of traditional and innovative model-building techniques, scientists in the U.S. and a specialist in Denmark have created a lifelike reconstruction of an ancient mollusk, offering a vivid portrait of a creature that lived about 390 million years ago, and answering questions about its place in the tree of life, as described in the Sept. 18 edition of the journal Palaeontology.

The model of the oval-shaped sea creature, called a multiplacophoran, which was covered with stiff plates and a ring of spines, resulted from a collaboration between Jakob Vinther, a postdoctoral researcher at The University of Texas at Austin's Jackson School of Geosciences, and Esben Horn, owner of the model making company 10 Tons in Copenhagen (http://www.10tons.dk), with animation help from Ryan Carney, a doctoral student at Brown University.

Working with a delicate specimen of a multiplacophoran partially covered by rock, Vinther used a micro CT scan -- a noninvasive technology similar to medical CAT scanning -- to create a three-dimensional view of the fossil. With Carney's help, the CT scan yielded an animated view of the original placement of the creature's dense spines and shells, which had splayed out and decayed prior to fossilization.

The CT scan also produced a three-dimensional cast of the specimen in its reconstructed shape. Working with the cast, the animation and information on living relatives of the multiplacophorans, Horn was able to create a multicolored, textured model in clay, resin and silicone showing how the creature looked millions of years ago, when it crawled on a single, suction-like foot over shells and rocky surfaces in ancient oceans.

The model helps address a debate about how multiplacophorans (which were only discovered in the past decade) relate to chitons, another more widely known plated mollusk that lives on seashores and is commonly eaten in the Caribbean. By dating the origin of modern chitons, Vinther could demonstrate that multiplacophorans are stem group chitons.

"We can now demonstrate that multiplacophorans are distant relatives of the modern chitons, which did not evolve until later in Earth history," said Vinther. "We can also show that they evolved a number of characteristics seen in some modern chitons convergently."

The CT scan was integral to the project, allowing the scientists to see below the surface of the fossil.

"CT scanning is an extremely powerful technique for paleontologists," said Vinther, "since we can look inside fossils without destroying them."

The original fossil was discovered 10 years ago in Ohio by private collector and co-author George Kampouris, who donated it to the Cincinnati Museum of Natural History.

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Journal Reference:

  1. Jakob Vinther, Peter Jell, George Kampouris, Ryan Carney, Rachel A. Racicot, Derek E. G. Briggs. The origin of multiplacophorans - convergent evolution in Aculiferan molluscs. Palaeontology, 2012; 55 (5): 1007 DOI: 10.1111/j.1475-4983.2012.01180.x

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20 Sep, 2012


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Source: http://feeds.sciencedaily.com/~r/sciencedaily/top_news/top_environment/~3/BRMxucD4HJ0/120919125742.htm
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Self-forming biological scaffolding

ScienceDaily (Sep. 19, 2012) — A new model system of the cellular skeletons of living cells is akin to a mini-laboratory designed to explore how the cells' functional structures assemble. A paper about to be published in EPJ E by physicist Volker Schaller and his colleagues from the Technical University Munich, Germany, presents one hypothesis concerning self-organisation. It hinges on the findings that a homogeneous protein network, once subjected to stresses generated by molecular motors, compacts into highly condensed fibres.

The contractile machinery inside cells is arguably the most prominent example of cells' ability to self-organise cellular proteins into highly ordered functional structures involved in cell division or cell migration, for example.

The authors attempt to elucidate how such highly self-organised structures emerge from a less ordered and homogeneous collection of constituent proteins. Namely, such proteins are actin filaments -- one of the main scaffold proteins in cells made of biopolymers -- and associated molecular motors. The latter exerts forces by pressing along the filament, an energy consuming process.

Schaller and colleagues reconstituted a minimal model system of the cellular skeleton consisting of actin filaments held together by cross-linking proteins and molecular motors. They found that this minimal system is sufficient to reproduce similar self-organisation processes observed in nature.

In particular, they showed that a homogeneous network of actin filaments held together by the cross-linking protein α-actinin can rapidly be reorganised by molecular motor proteins. It contracts to form a highly heterogeneous set of compact fibres consisting of millions of individual filaments, resembling scaffold structures inside the cellular skeleton.

The authors also realised that the efficiency of this reorganisation process, and therefore the length scale of the fibres created, directly depend on motor activity. Thus, the fibres can range between 5μm and up to 100μm in length for low and high motor activity, respectively.

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Journal Reference:

  1. V. Schaller, B. Hammerich, A. R. Bausch. Active compaction of crosslinked driven filament networks. The European Physical Journal E, 2012; 35 (8) DOI: 10.1140/epje/i2012-12081-2

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19 Sep, 2012


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Source: http://feeds.sciencedaily.com/~r/sciencedaily/top_news/top_environment/~3/t5aVcYmQmu0/120919103311.htm
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Major changes needed to protect Australia's species and ecosystems

ScienceDaily (Sep. 18, 2012) — A landmark study has found that climate change is likely to have a major impact on Australia's plants, animals and ecosystems that will present significant challenges to the conservation of Australia's biodiversity.

The comprehensive study by CSIRO highlights the sensitivity of Australia's species and ecosystems to climate change, and the need for new ways of thinking about biodiversity conservation.

"Climate change is likely to start to transform some of Australia's natural landscapes by 2030," lead researcher, CSIRO's Dr Michael Dunlop said.

"By 2070, the ecological impacts are likely to be very significant and widespread. Many of the environments our plants and animals currently exist in will disappear from the continent. Our grandchildren are likely to experience landscapes that are very different to the ones we have known."

Dr Dunlop said climate change will magnify existing threats to biodiversity, such as habitat clearing, water extraction and invasive species. Future climate-driven changes in other sectors, such as agriculture, water supply and electricity supply, could add yet more pressure on species and ecosystems.

"These other threats have reduced the ability of native species and ecosystems to cope with the impacts of climate change," Dr Dunlop said.

One of the challenges for policy and management will be accommodating changing ecosystems and shifting species.

The study suggests the Australian community and scientists need to start a rethink of what it means to conserve biodiversity, as managing threatened species and stopping ecological change becomes increasingly difficult.

"We need to give biodiversity the greatest opportunity to adapt naturally in a changing and variable environment rather than trying to prevent ecological change," Dr Dunlop said.

The study highlights the need to start focusing more on maintaining the health of ecosystems as they change in response to climate change, from one type of ecosystem to another.

'This could need new expectations from the community, possibly new directions in conservation policy, and new science to guide management," Dr Dunlop said.

"To be effective we also need flexible strategies that can be implemented well ahead of the large-scale ecological change. It will probably be too late to respond once the ecological change is clearly apparent and widespread."

The study found the National Reserve System will continue to be an effective conservation tool under climate change, but conserving habitat on private land will be increasingly important to help species and ecosystems adapt.

The team of researchers from CSIRO carried out modelling across the whole of Australia, as well as detailed ecological analysis of four priority biomes, together covering around 80 per cent of Australia.

The study was funded by the Australian Government Department of Sustainability, Environment, Water, Population and Communities, the Department of Climate Change and Energy Efficiency and the CSIRO Climate Adaptation Flagship.

Further information: http://www.csiro.au/Organisation-Structure/Flagships/Climate-Adaptation-Flagship/adapt-national-reserve-system.aspx

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19 Sep, 2012


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Source: http://feeds.sciencedaily.com/~r/sciencedaily/top_news/top_environment/~3/PgKQGLugFjg/120919103616.htm
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