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New protein regulator identified in Alzheimer's disease brain

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A new study from the Scripps Institute in Florida has identified regulator of BACE1, a protein that has been implicated in progression of Alzheimer’s disease (AD). The study, published in an advance online edition of the Journal of Biological Chemistry showed that a protein called Rheb (ras homolog enriched in brain) can reduce levels of BACE1 and may hold the key to future drug targets for Alzheimer’s disease.

BACE1 (β-site amyloid precursor protein (APP)-cleaving enzyme 1) is an enzyme that has been shown to kick off amyloid β (Aβ) production via amyloidogenic processing of amyloid precursor protein (APP). Aβ generation from neurons and deposition is widely accepted to be pivotal to development of Alzheimer’s disease. BACE1 protein levels are raised in AD brain; however this does not appear to be regulated via up-regulation of transcription of the gene that encodes BACE1 to messenger RNA (mRNA), the intermediary between gene and protein, but to be a direct effect on protein production. Rheb is a protein belonging to a family called GTPases and has recently been shown to protect neurons in Parkinson’s disease and may be important in neural plasticity. It is known to be important in regulating turnover of proteins via pathway known as mTOR, which is involved in many human diseases including neurodegenerative disorders. However, Rheb also has some mTOR-independent effects.

Given the known effects of Rheb on protein turnover and its potential role in neural plasticity, it seemed reasonable to enquire whether Rheb could influence expression of BACE1 protein. In a combination of in vitro cell line studies and in vivo mouse studies, the researchers showed that Rheb could down-regulate expression of BACE1. This down-regulation was not mediated via any change in mRNA levels but instead was due to a direct physical interaction between Rheb and BACE1 proteins which resulted in a reduction of BACE1 half-life and accelerated degradation of BACE1 protein. This Rheb-mediated degradation of BACE1 was independent of mTOR but dependent on GTP. It was mediated via both lysosomal and proteosomal pathways. Intriguingly, protein expression studies on AD post-mortem brains revealed significant loss of Rheb levels compared to non-AD brains. This reduction in Rheb correlated with increased BACE1.

Thus this study identifies Rheb as an inhibitor of BACE1 via a number of mechanisms in a pathway that may have profound implications for ageing brain biology and disease. A lot more research lies ahead to clarify the mechanisms at work, but this research holds promise for effective drug therapies in the future for AD.

Sources
Shahani N, Pryor W, Swarnkar S, Kholodilov N, Thinakaran G, Burke RE, et al. Rheb GTPase Regulates β-Secretase Levels and Amyloid β Generation. Journal of Biological Chemistry. 2013 Dec; Available from: http://dx.doi.org/10.1074/jbc.m113.532713.

Press release: http://www.scripps.edu/news/press/2014/2...aniam.html

Bioinformatics - M.Sc. after B.Sc

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After 4 months I'm going to complete my studies (B.Sc. BIOINFORMATICS ) but now I'm confused. I want to know, is it better to do M.Sc. Bioinformatics after B.Sc.?? Is there any scope (jobs) in this field??

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MicroRNA as Biomarkers and Diagnostics | March 17-18 2014 | Boston MA

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MicroRNA as Biomarkers and Diagnostics Conference

Organisers: Cambridge Healthtech Institute

Dates: March 17th-18th 2014

Location: Omni Parker House, Boston, Massachusetts, USA

Website: http://www.healthtech.com/microRNA/
The website gives all the necessary information on conference agenda, dates, registration, fees, hotel, exhibitions and other important facts.

Purpose of the conference
Researchers will gather on St. Patrick’s Day in Boston Massachusetts for the 10th Annual MicroRNA as Biomarkers and Diagnostics Conference organised by Cambridge Healthtech Institute. The conference will focus on recent research showing the potential of microRNAs as “non-invasive biomarkers for the diagnosis and prognosis of disease, monitoring of treatment, and patient stratification, with exosome-derived microRNAs of particular interest”. The conference “will cover the latest developments in the use of microRNA in the early detection of disease for more effective treatment, monitoring tumour growth and disease progression, issues associated with microRNA measurement, and the potential for personalized medicine based on microRNA profile.” Delegates will have the opportunity to hear, among others, the following invited speakers:

Invited speakers

Robert J. Lee, Ph.D., Professor, Pharmaceutics, OSU College of Pharmacy, The Ohio State University (Keynote speaker)
Pavan Kumar, Senior Scientist, Biomarkers and Personalized Medicine, Eisai
Omar Laterza, Director, Clinical Development Laboratory, Merck
Rounak Nassirpour, Principal Scientist, Drug Safety R&D, Pfizer
James G. Falls, Manager, Discovery and Molecular Toxicology, GlaxoSmithKline

Topics
• microRNA Biomarkers in Drug Development
• microRNA Biomarkers as Cancer Diagnostics
• microRNA as Disease Biomarkers

Courses (separate registration required)

Pre-conference course: Long Non-Coding RNAs as Biomarkers , March 17, 2014
Dinner course: Exosomal microRNAs as Non-Invasive Biomarkers, March 17, 2014

Important dates

Advance Registration Deadline by February 7, 2014
Registrations after and on-site after February 7, 2014
Poster abstracts due by February 14, 2014

Sponsorship
Sponsors of the conference can avail of the following advantages:
• Podium Presentations
• Invitation-Only VIP Dinner/Hospitality Suite
• Focus Groups
• User Group Meeting/Custom Event
• Exhibit
• Additional branding and promotional opportunities

pka of DNA

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Hello...I m in my second year of biotechnology. It would be nice if anyone tell me about what is the pka of Dna and why it has that pka??Thank you..

All Things Cyanobacteria

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Have recently returned to my background in molecular biology/biochemistry.
Specifically, I have interest in the marine cyanobacteria that produce oxygen, ethylene and both. Seeking the top producers and would like to know which members cultivate these
Some of the culture labs did not answer virtually any of my emailed queries.

Guidance sought

New mechanism for pulmonary fibrosis

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An international research collaboraration between the laboratory of Prof. Padraic Fallon in Trinity College Dublin, Ireland with researchers in the University of Edinburgh and the University of Erlangen has uncovered a potential new mechanism behind development of idiopathic pulmonary fibrosis (IPF). The study, published recently in the Proceedings of the National Academy of Sciences (PNAS) has identified the cytokine IL-25 and the novel immune cell type, the type 2 innate lymphoid cell (ILC2) as previously unsuspected players in development of IPF.

IPF is a distressing condition whereby lungs of patients become irreversibly scarred, leading to difficulty in breathing. The condition is chronic and progressive with a poor prognosis due to the lack of understanding of the underlying mechanisms and hence lack of effective therapies. Thus research efforts to advance understanding of this condition are all the more important. The disease has been linked to factors such as cigarette smoking and occupational exposure to substances such as gases and dust. It can also arise as a complication of other pulmonary diseases such as asthma. Current hypotheses suggest that the scarring is a result of repeated injuries to the alveolar epithelial cells resulting in release of pro-fibrotic regulators including transforming growth factor β (TGF β), which results in a knock-on effect on fibroblasts, which produce collagen, leading to the scarring.

The PNAS study used both in vivo mouse models and lung samples from patients with IPF in order to examine the mechanisms of IPF. The murine models implicated IL-25 as a major player in IPF generation. The mechanism identified involved IL-25 mediated release of IL-13 from ILC2 cells directly resulting in collagen deposition in the lungs of the challenged mice. In order to link the findings to human disease, lung samples were collected from IPF patients. Interestingly, these samples had increased expression of IL-25 when compared to control samples and also featured a population of ILC2 cells that was missing from control samples. The authors of the study concluded that their findings suggest an innate, T-cell independent mechanism for IPF generation that opens up previously unsuspected therapeutic avenues targeting IL-25 and ILC2.

IPF is not the only disease identified by Prof. Fallon’s research group to potentially feature ILC2 cells and IL-25. In a collaboration with researchers in the University of Oxford, UK and LMB Cambridge, UK, they published a recent study in The Journal of Experimental Medicine implicating ILC2 and IL-25 in the development of atopic dermatitis (eczema) while the first author of the PNAS paper, Dr. Emily Hams, is also examining their role in regulation of obesity. Thus targeting of IL-25 and ILC2 may have far-reaching implications for new therapies for a wide range of diseases.

Sources

Press release:http://www.sfi.ie/news-resources/press-releases/scientists-discover-new-cellular-process-leading-to-lung-fibrosis.html [Accessed 10 February 2014].

HAMS, E., ARMSTRONG, M., BARLOW, J., SAUNDERS, S., SCHWARTZ, C., COOKE, G., FAHY, R.J., CROTTY, T.B., HIRANI, N., FLYNN, R.J., VOEHRINGER, D., MCKENZIE, A.N., DONNELLY, S.C. and FALLON, P. (2014). IL-25 and type 2 innate lymphoid cells induce pulmonary fibrosis. Proceedings Of The National Academy Of Sciences Of The United States Of America, 111(1), 367-372. doi:10.1073/pnas.1315854111

SALIMI, M., BARLOW, J., SAUNDERS, S., XUE, L., GUTOWSKA-OWSIAK, D., WANG, X., HUANG, L., JOHNSON, D., SCANLON, S., MCKENZIE, A., FALLON, P., and OGG, G 2013, A role for IL-25 and IL-33-driven type-2 innate lymphoid cells in atopic dermatitis. The Journal Of Experimental Medicine, 210, 13, pp. 2939-2950

Genetic adaptation to high altitudes in Tibet

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A new genomic study on people living in the Tibetan plateau has identified a novel mechanism of population adaptation to local environments, in this case specifically to high altitudes. The study, in Nature Communications, found that genetic adaptations beneficial for survival at high altitudes arose approximately 30,000 years ago in ancestors of contemporary Sherpas. Admixture then allowed these genes to be passed on to more recent migrants originating at lower elevations. These advantageous genetic adaptations were amplified by natural selection in the gene pool of modern Tibetans.

The study was carried out by researchers in the University of Chicago, Oxford University Clinical Research Unit in Kathmandu, Nepal, the Mountain Medicine Society of Nepal, Howard Hughes Medical Institute, Maryland and Case Western Reserve University in Ohio. It examined genome-wide data from 69 Nepalese Sherpa, an ethnic group related to Tibetans compared to 96 unrelated individuals from high-altitude regions of the Tibetan plateau. Comparisons were also performed to genomes derived from HapMap3 and the Human Genome Diversity Panel and from Indian, Central Asian and two Siberian populations.

Modern Tibetans have physiological traits that make them well equipped to cope with high altitudes. This includes relatively low haemoglobin levels. Two of the genes which were already to be known to be variant in this population were EGLN1 and EPAS1, which are key to oxygen homeostasis. Previous studies had hypothesised that variants in these genes arose approximately 3000 years ago, but this was at odds with archaeological evidence as well as studies on mitochondrial DNA and Y chromosome evidence. In the current study, the researchers were able to confirm that high-altitude adaptations in the EGLN1 and EPAS1 genes, associated with lower haemoglobin concentration, arose approximately 30,000 years ago and that these adaptations are enriched in the modern Tibetan genome. This suggests that the more recent migrants from lower altitudes acquired the advantageous high altitude variations upon interbreeding with highlanders via admixture. This is a novel mechanism of adaptation of a population to local environment which is independent of selection of new mutations. On a genomic level, modern Tibetans have traits in common with modern Sherpas and with Han Chinese. Apart from the already recognised EGLN1 and EPAS1 genes, the researchers identified other genes not previously known to be associated with high altitude adaptation, including HYOU1, which is enhanced in response to low oxygen and HMBS, which is involved in the production of haem. Dr Anna Di Rienzo, the lead author on the study, concluded that "There is a strong possibility that these genes are adaptations to high altitude…They represent an example of how the ancestry-based approach used in this study will help make new discoveries about genetic adaptations."

Sources

http://www.eurekalert.org/pub_releases/2...020714.php

JEONG, C., ALKORTA-ARANBURU, G., BASNYAT, B., NEUPANE, M., WITONSKY, D.B., PRITCHARD, J.K., BEALL, C.M. AND DI RIENZO, A., 2014. Admixture facilitates genetic adaptations to high altitude in Tibet. Nature Communications 5, Article number: 3281; doi:10.1038/ncomms4281

Practical cell cuture workshops | 9-15 March & 6-12 April 2014 | Pune, India

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1-Week Hands-on Workshop on Human/Cancer Cell Culture Techniques & MTT Assay

Organisers: Prof. Dr. Sheo Mohan Singh, Director, International Centre for Stem Cells, Cancer and Biotechnology (ICSCCB)

Dates: March 9th – 15th and April 6th-12th 2014

Location: ICSCCB, Pune, India

Website: http://icsccb.org/workshops/cellcultureworkshop/
The website gives all the necessary information on registration, programme, accommodation, fees and other important details.

Who should attend?
UG/PG/PhD students, faculty, scientists as well as people working in industry in the field of Biotechnology, Bioinformatics, Life Sciences, Medical Sciences, Pharmaceutical Sciences, Chemical Sciences and related subject areas

Purpose of the workshop
There will be a series of 1-Week workshops in which practical hands-on training on the basic cell culture techniques will be provided. These include; media preparation; genomic DNA isolation, estimation and agarose gel electrophoresis; RNA extraction, cDNA preparation, PCR and agarose gel electrophoresis; protein extraction, estimation, SDS-PAGE and Coomassie staining of proteins; freezing and thawing of cells; and MTT Assay for proliferation/cytotoxicity.

The workshop is aimed at beginners to teach and train them in animal cell culture and molecular techniques using human/cancer cell lines. It will be supported by some theoretical classes on basic cell culture techniques, media preparation, gene/protein expression and interaction networks in hematopoietic stem cells (HSCs) and cancer cells.

Flu vaccine reduces severity of the illness

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The efficacy of vaccination against the influenza virus has been sharply demonstrated in a report published online today in the American Journal of Respiratory and Critical Care Medicine. The report shows that of flu patients presenting for care at Duke University Hospital, patients who had not been vaccinated were most severely affected and required the most intensive treatment. The study was carried out between November 2013 and early January 2104 on 55 patients. Of these 22 required intensive care, however only two of these had been vaccinated. The majority of the 55 patients were infected with the H1N1 virus that caused the 2009 pandemic. Young, previously healthy adults were particularly hard-hit by the flu outbreak.

The lead author on the paper, Dr Cameron Wolfe, commented that: "Our observations are important because they reinforce a growing body of evidence that the influenza vaccine provides protection from severe illness requiring hospitalizations….The public health implications are important, because not only could a potentially deadly infection be avoided with a $30 shot, but costly hospitalizations could also be reduced."
Previously on this site we have described a flu forecasting website for the United States set up by infectious disease experts at Columbia's Mailman School of Public Health (http://www.biotechnologyforums.com/thread-2914.html). Dr Jeffrey Shaman, who led the development of this forecasting website commented that it may help “foster greater awareness of influenza activity and risk around the country, and motivate individuals to take measures, such as vaccination, to protect themselves against the virus". Studies such as today’s American Journal of Respiratory and Critical Care Medicine paper would seem to support a strategy whereby flu outbreaks are predicted and vaccination programmes initiated in a timely manner. The study also highlighted problems associated with false negative results obtained with a rapid test for influenza which resulted in some patients not receiving anti-virals at an early stage in their illness.

Dr Wolfe concluded that: "Together, our observations during this influenza season support a high prevalence of the H1N1 virus affecting young adults and requiring ICU care, high false negative rates of rapid flu tests, and delay in starting antiviral treatment……Added to the finding of very low vaccination rates among both hospitalized and ICU admissions, our observations support previous findings that vaccination reduces the severity of disease and vaccinations should be encouraged as recommended by the U.S. Centers for Disease Control and Prevention."

Sources

http://www.eurekalert.org/pub_releases/2...021014.php [Accessed 10 February 2014].

Catania, J., Que, L.G., Govert, J.A., Hollingsworth, J.W. and Wolfe, C.R., 2014. High ICU admission rate for 2013-2014 Influenza is associated with a low rate of vaccination. American Journal of Respiratory and Critical Care Medicine, Feb. 10, 2014. http://www.atsjournals.org/doi/abs/10.11...vlM57avnIU [Accessed 10 February 2014].

GATE BT 2014

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hello,has anyone given gate 2014 biotechnology?
if so,please give the reviews.

Tamoxifen targets fungal infections: a new use for an old drug?

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A new use for the breast cancer drug tamoxifen could bring new hope for HIV/AIDS patients affected by the fungus Cryptococcosis. This fungus causes either pneumonia or the brain infection meningoencephalitis and manifests mainly in HIV/AIDS patients due to their immunosuppressed status. It causes more deaths in this population than, for example, tuberculosis. Overall, it is responsible for approximately 620,000 deaths internationally each year. The study, led by researchers in the laboratory of Dr Damian Krysan in the University of Rochester in the USA, was a response to the fact that therapies for this disease have not substantially advanced since the 1950s and that the gold standard treatment of amphotericin B and 5-flucytosine is not readily available in areas like sub-Saharan Africa where it is most needed. In these areas, fluconazole is standardly used for treatment of Cryptococcosis, being cheaper and more readily available, but unfortunately it is also much less effective.

The current study, to be published in mBio®, the online open-access journal of the American Society for Microbiology (ASM.), follows a growing trend of re-examining old drugs to see if they are effective against targets different from their normal uses. Tamoxifen is a breast cancer drug, but in clinical microbiological tests Dr Krysan’s group discovered that it was effective in killing Cryptococcus. Importantly, it acted synergistically with fluconazole; combining the drugs resulted in four-times greater effectiveness than using either alone. The study also showed that tamoxifen uses a different strategy in killing Cryptococcus compared to how it works against breast cancer. It targets calmodulin-related proteins. This offers an important clue as to the types of strategies that may be important developing newer drugs to target Cryptococcus; the researchers found that if tamoxifen was modified to be more effective in interfering with calmodulin, it also became more effective in killing the fungus.

Dr Krysan concluded that: "This work sets the stage for additional animal studies to see if tamoxifen can be used as a drug in people and will allow us to design new drugs related to tamoxifen that are better antifungals".

Sources

http://www.eurekalert.org/pub_releases/2...020614.php

Creatine slows progression of Huntington's disease in clinical trial

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In the first clinical trial of a drug intended to slow onset of Huntington’s disease (HD) symptoms, a study from Massachusetts General Hospital has provided evidence that the nutritional supplement creatine slows progression of brain atrophy in Huntington’s disease (HD) patients as well we being safe and well-tolerated by most study participants. The phase II PRECREST trial also pioneered a novel design that allowed participants- who were recruited as they were at potential genetic risk of HD due to family history- to enrol in the study without having to find out whether or not they were carriers of the HD mutation.

HD is a devastating a hereditary neurological disorder that causes brain cell degeneration. It is caused by an autosomal dominant mutation in the Huntingtin gene, resulting in a mutated form of the huntingtin protein. The disease causes physical, cognitive and emotional decline and can typically be associated with symptoms such as involuntary movements and speech impairment. Symptoms are most commonly first noticed between the ages of 30 and 45. The corresponding author of the study, Dr H. Diana Rosas, pointed out that: "More than 90 percent of those in the United States who know they are at risk for HD because of their family history have abstained from genetic testing, often because they fear discrimination or don't want to face the stress and anxiety of knowing they are destined to develop such a devastating disease." Thus the option offered in the trial of not finding out their HD status while still gaining access to a potentially helpful drug was attractive to many participants.

One mode of action of mutated huntingtin protein in HD is interference with brain cell energy production. This leads to depletion of ATP. This is where the creatine comes in, as it is known to help restore ATP and hence maintain cellular energy. Animal studies had previously shown that creatine can increase brain ATP and ward off neurodegeneration. However, previous human trials in HD patients had been limited as the daily dosage was low at only 10 g or less and did not indicate potential clinical efficacy. The PRECREST trial, by contrast, used daily dosages of up to 30 g. The researchers recruited sixty-four eligible consenting participants. These were randomly allocated to 15 g twice daily of creatine monohydrate or placebo for a 6-month double-blind phase followed by a 12-month open-label extension. Of the study subjects, 19 already knew they carried the HD mutation. The other 45 were at risk due to family history; of these 26 were found to be pre-symptomatic carriers of the mutated gene. Thus the final tally for the study was a total of 47 participants with pre-symptomatic HD and 17 controls. Primary outcomes for the trial were safety and tolerability of the creatine. Exploratory endpoints included fine motor, visuospatial, and memory performance, MRI brain scans and selected blood markers; these were measured at the beginning of the trial, at the end of the six month first phase and at the end of the trial.

Participants were regularly monitored for adverse events throughout the trial, with dosage levels being modified as necessary. The majority of the participants (more than two-thirds) tolerated the 30 g dosage. A total of fifteen participants stopped creatine because of factors including, gastrointestinal discomfort, the taste of the drug, inconvenience, or the stress of being constantly reminded of their HD risk. The most common adverse events were gastrointestinal. However, MRI neuroimaging demonstrated treatment-related slowing of cortical and striatal atrophy at 6 months in the creatine-treated participants versus the placebo-treated. At the 18 months trial endpoint, the rate of brain atrophy had also slowed in pre-symptomatic participants that started taking creatine after 6 months on placebo.

These results suggest both that creatine could slow the progression of HD and that neuroimaging may provide a useful biomarker of disease modification in studies of other potential treatments. A note of caution may be sounded by the fact that during the time period covered by the trial, there was no evidence of creatine having a positive effect on cognitive tests. The researchers noted that this may possibly be because the tests were not sensitive enough to detect subtle changes that might occur during such a brief time period. Senior author on the study, Dr Steven Hersch, concluded that: "The results of this trial suggest that the prevention or delay of HD symptoms is feasible, that at-risk individuals can participate in clinical trials – even if they do not want to learn their genetic status – and that useful biomarkers can be developed to help assess therapeutic benefits.”

Sources

http://www.eurekalert.org/pub_releases/2...020514.php [Accessed 11 February 2014].

ROSAS, H. D., DOROS, G., GEVORKIAN, S., MALARICK, K., REUTER, M., COUTU, J.-P., TRIGGS, T. D., WILKENS, P. J., MATSON, W., SALAT, D. H. and HERSCH. S. M., 2014. PRECREST: A phase II prevention and biomarker trial of creatine in at-risk Huntington disease. Neurology, 2014; DOI: 10.1212/WNL.0000000000000187

http://www.huntingtons.ie/ [Accessed 11 February 2014].

Gene variation affecting grey matter thickness influences intelligence

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Agatha Christie’s famous fictional detective Hercule Poirot was fond of ascribing his formidable intelligence to his ‘little grey cells’. A new study from an international team of scientists, led by a group in King’s College London, UK, suggests that he may have been partly right. These researchers have identified a gene which links thickness of the ‘grey matter’, i.e. the cerebral cortex which forms the outermost layer of the human brain, to intelligence. The study, published in today’s Molecular Psychiatry may shed light on the biological mechanisms underlying some forms of intellectual impairment.

The study describes the results of analysis of DNA samples and MRI brain scans from 1,583 healthy 14 year old teenagers, part of the IMAGEN cohort. The MRI and DNA results were correlated with the results of tests to determine their verbal and non-verbal intelligence. According to Dr Sylvane Desrivières, from King's College London's Institute of Psychiatry and lead author of the study, the object was to "find out how structural differences in the brain relate to differences in intellectual ability. The genetic variation we identified is linked to synaptic plasticity – how neurons communicate. This may help us understand what happens at a neuronal level in certain forms of intellectual impairments, where the ability of the neurons to communicate effectively is somehow compromised." Dr Desrivières cautioned that the gene identified in the study “explains a tiny proportion of the differences in intellectual ability, so it's by no means a 'gene for intelligence'."

The gene variation identified, from a genetic detective exercise involving examination of over 54,000 genetic variants possibly involved in brain development, was in the NPTN gene. This gene encodes the synaptic cell adhesion glycoprotein neuroplastin, which filled the criterion of influencing how neurons communicate. The study results showed that in participants who carried the particular gene variant, there was a thinner cortex in the left cerebral hemisphere, particularly in the frontal and temporal lobes. Importantly, these participants also had lower performance on the intelligence tests.

To extend and confirm these findings, the researchers carried out analysis of the NPTN gene both in mouse and human brain cells. Results indicated differential NPTN activity in the left versus the right brain hemispheres. The impact of these differences would result in the left hemisphere being more sensitive to NPTN mutation than the right. The findings suggest that reduction of NPTN function in the left hemisphere of the brain may contribute to compromising of intellectual ability. While this NPTN variation would account for no more than approximately 0.5% of variation in intelligence, it could still have major implications for beginning to tease out the biological mechanisms behind diseases featuring cognitive impairment, including schizophrenia and autism.

Sources
http://www.eurekalert.org/pub_releases/2...021014.php [Accessed 11 February 2014].

Desrivières, S. et al., 2014. Single nucleotide polymorphism in the neuroplastin locus associates with cortical thickness and intellectual ability in adolescents. Molecular Psychiatry advance online publication 11 February 2014; doi: 10.1038/mp.2013.197

A new Twist in the tale of triple-negative breast cancer

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A new study published in the journal Cancer Cell suggests that a nuclear protein known as Twist may point to a potential way forward in treatment of the clinically aggressive triple-negative form of breast cancer. Triple-negative breast cancer is characterised by an activated programme of epithelial-mesenchymal transition (EMT), a process that allows cells to adapt to stressful environments. This is positive when contributing to processes such as embryonic development and wound healing but is unfortunately ‘hijacked’ by tumour cells to facilitate metastasis to secondary sites. It also makes tumour cells resemble stem cells, effectively ‘hiding’ them from therapeutic interventions. Twist is an accelerant of EMT, prompting the interest of researchers in the University of Kentucky Markey Cancer Centre to study it with respect to triple-negative breast cancer.

Triple-negative breast cancer is a particularly unpleasant form of this cancer, featuring high incidence of recurrence and metastasis to sites such as the brain and lung, factors which impact negatively on five year survival statistics. There is a lack of effective therapies for this form of breast cancer, making studies to elucidate its mechanisms even more important.

While Twist was known to be a transcriptional activator of EMT, the mechanism by which Twist exerts this activation was unclear. The Cancer Cell study revealed that Twist acts in an analogous manner to DNA viruses such as papillomaviruses. When these viruses enter the cell, they hijack host cell machinery for their own purposes to allow them to replicate and synthesis their viral DNA and proteins. A favourite target of DNA viruses is a nuclear transcriptional regulator called BRD4. Results of the Cancer Cell study showed that Twist similarly targets BRD4. Twist contains a histone H4-like domain which can bind to a bromodomain of BRD4. This creates a transcription-activating complex (Twist/BRD4/P-TEFb/RNA-Pol II) which targets transcription of the gene WNT5A. This in turn directs production of the protein Wnt-5a, which is implicated in oncogenesis. This process enhanced invasion and stem cell properties of triple-negative cancer cells. Pharmacological inhibition of BRD4 using the known inhibitors JQ1 and MS417 suppressed invasion, stem cell properties and tumourigenicity of these cells. Thus this study identifies a previously unrecognised interaction with BRD4 in directing oncogenic function of Twist in triple-negative breast cancer cells and provides a potential avenue for future drug development to treat this devastating disease. Dr Peter Zhou, the senior author of this paper, concluded that: "This finding has significant clinical ramification, because drugs that can target the Twist-BRD4 interaction provide a new hope for treating life-threatening triple-negative breast cancer."

Sources

University of Kentucky Markey Cancer Center: http://uknow.uky.edu/content/new-uk-stud...st-cancers [Accessed 12 February 2014].

Shi, J. et al, 2014. Disrupting the Interaction of BRD4 with Diacetylated Twist Suppresses Tumorigenesis in Basal-like Breast Cancer. Cancer Cell, 25 (2) 10 February 2014, Pages 210–225

Prostaglandin the key to liver versus pancreatic stem cell differentiation?

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Scientists from Harvard University have discovered that prostaglandin E2 (PGE2) is the key that unlocks stem cells to differentiate into either liver or pancreas cells. Both these cell types are derived from a common endodermal stem cell progenitor and the trigger that decides which cell fate is followed has been poorly understood up until now. This study, published in the journal Developmental Cell, may help in making it easier to generate liver and pancreas cells in the lab, with benefits for transplant patients and/or future cell therapies.

The study was initiated in zebrafish embryos, where it was observed that there was a gradient of PGE2 in the area where stem cells differentiate into the internal organs. Studies were expanded to include mouse endodermal progenitor cells. It was found that both the PGE2 synthetic enzyme cox2a and one of its receptors, ep2a, are arranged in such a way that cells closest to PGE2 synthesis become liver cells, whereas more distant cells become pancreatic. It cooperates with another cell signalling pathway, the bmp2b pathway, to favour liver versus pancreatic fate. Further experiments in mouse cells showed that PGE2 could also enhance liver growth and regeneration of liver cells. At later developmental stages, PGE2 acting via another of its receptors, the ep4a receptor, to promote both liver and pancreatic outgrowth.

Dr Wolfram Goessling, senior author on the study, said that: “This is the first time that prostaglandin is being reported as a factor that can lead this fate switch and essentially instruct what kind of identity a cell is going to be….Prostaglandin might be a master regulator of cell growth in different organs.” The researchers now plan to develop knowledge in the laboratory as to how PGE2 instructs induced pluripotent stem cells—mature cells that have been reprogrammed into a stem-like state—to become liver or pancreas cells in order to benefit transplant patients and/or future cell therapies.

Sources

NISSIM, S. et al., 2014. Prostaglandin E2 Regulates Liver versus Pancreas Cell-Fate Decisions and Endodermal Outgrowth. Developmental Cell - 13 February 2014; 10.1016/j.devcel.2014.01.006

http://www.hsci.harvard.edu/newsroom/har...r-pancreas [Accessed 17 February 2014].

Small nuclear RNAs: new tool for cancer prediction?

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Small non-coding RNAs, long dismissed as 'transcriptional noise' due to their apparently random distribution and lack of any discernible link to known functions, may actually be predictive of individuals who may develop breast cancer. That’s according to a study published today in EMBO Reports from researchers who contribute to The Cancer Genome Atlas project. This project is one of the largest available resources for small non-coding RNAs. The researchers are from the BC Cancer Agency, Simon Fraser University and the University of British Columbia, all in Vancouver, and Harvard Medical School.

Small non-coding RNAs, as the name suggests, do not give rise to protein products but may have other cellular functions. They are often found near transcriptional start sites but their function is often unclear. In the current study, the researchers were interested in distinguishing between the many different small non-coding RNAs that are found near the transcriptional start sites of genes in healthy individuals versus patients with breast invasive carcinoma. They used a computational technique to filter away some of the ‘transcriptional noise’ and arrived at a subset of small non-coding RNAs which were rich in CpG islands, i.e. in cytosine and guanine residues. They were also negatively correlated with methylation status. These small non-coding RNAs were mapped to specific DNA sequence locations and the researchers then looked to see if there was any relationship between strongly-expressed non-coding RNAs and the disease status of the patients from whom the tissue samples had been taken. Importantly, they used the information generated to try to predict the presence of disease in other tissue samples from breast cancer patients and found that they could efficiently predict the correct disease status for these samples. Thus these RNAs could potentially be used to classify cancer patients according to different survival outcomes.

Dr Steven Jones, the senior author on the study concluded that: "This is the first time that small non-coding RNAs near the transcription start site of genes have been associated with disease….Further work is required but based on our data we believe there is considerable diagnostic potential for these small non-coding RNAs as a predictive tool for cancer. In addition, they may help us understand better the mechanisms underlying oncogenesis at the epigenetic level and lead to potential new drugs employing small non-coding RNAs."

Sources

ZOVOILIS, A., MUNGALL, A.J., MOORE, R., VARHOL, R., CHU, A., WONG, T., MARRA, M. and JONES, S.J.M., 2014. The expression level of small non‐coding RNAs derived from the first exon of protein‐coding genes is predictive of cancer status. EMBO Reports, 2014. DOI: 10.1002/embr.201337950 |Published 17.02.2014

http://www.eurekalert.org/pub_releases/2...021314.php [Accessed 17 February 2014].

EMBO Tumour Microenvironment conference | 7-10 May 2014 | Heidelberg

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Organisers: European Molecular Biology Laboratory (EMBL):
Scientific Organisers: A. Berns, P. Pandolfi, B. Pauly

Dates: 7th May - 10th May 2014

Location: EMBL Heidelberg, Germany

Website: http://www.embo-embl-symposia.org/sympos...index.html

The website gives all the necessary information on abstract submission, fees, registration, conference agenda, hotel, exhibitions and other important facts. Although the abstract submission date has officially passed, the organisers request that if you still wish to submit an abstract please contact events@embl.de. Registration and payment deadline is 27th March 2014.

Purpose of the conference

This symposium brings together researchers from complementary fields to enhance understanding of the communication between cancer cells and their microenvironment. Important open questions are: Which signals do cancer cells transmit to and receive from the stroma and how do these signals promote malignant growth? What roles does the extracellular matrix play during neoplastic transformation? What is the contribution of immune cells to tumor progression? How is the inflammatory response of the tumour microenvironment regulated by the microbiota?

Session topics:

• Tumor Microenvironment
• Signalling pathways in stroma and cancer
• Therapeutical implications: from bench to bedside
• Cancer Stem Cells
• Cancer & the immune system
• Animal models in cancer

Confirmed Speakers:

• Kari Alitalo, University of Helsinki, Finland
• Frances Balkwill, Barts Cancer Institute, United Kingdom
• Mariano Barbacid, Spanish National Cancer Research Centre, Spain
• Eduard Batlle, Institute for Research in Biomedicine (IRB), Spain
• Joan Brugge, Harvard Medical School, USA
• Vincenzo Cerundolo, University of Oxford, United Kingdom
• Mike Clarke, Stanford University, USA
• Maria Pia Cosma, CRG Barcelona, Spain
• Karin de Visser, Netherlands Cancer Institute, The Netherlands
• Bruce Edgar, German Research Center (DKFZ), Gremany
• Mikala Egeblad, Cold Spring Harbor Laboratory, USA
• Rudi Grosschedl, Max Planck Institute of Immunobiology and Epigenetics, Germany
• Joerg Huelsken, Swiss Institute of Technology Lausanne (EPFL), ISREC, Switzerland
• Lisa Johnson, BC Cancer Agency, Canada
• Jos Jonkers, Netherlands Cancer Institute, The Netherlands
• Chris Marshall, The Institute of Cancer Research, United Kingdom
• Jan Paul Medema, Academic Medical Center, The Netherlands
• Luis Parada, UT Southwestern, USA
• Emmanuelle Passegué, UCSF, USA
• Catrin Pritchard, University of Leister, United Kingdom
• Andreas Trumpp, German Cancer Research Centre (DKFZ), Germany
• David Tuveson, Cold Spring Harbor Laboratory, USA
• Terry van Dyke, National Cancer Institute, USA
• Karen Vousden, The Beatson Institute for Cancer Research, United Kingdom
• Zena Werb, University of San Francisco, USA

Fertiliser over-use negatively impacts on global grassland biodiversity

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According to a new international study published online in Nature on February 16th, over-use of fertilisers is having an adverse effect on the number of species thriving in grasslands. According to one of the study’s co-authors, Johannes M.H. Knop of the University of Nebraska: "More nitrogen means more production, but it's less stable….There are more good years and more bad years. Not all years are going to be good and the bad years are going to be worse."

The three year study analysed diversity–stability relationships from 41 grasslands on five continents, in Germany, the USA, Switzerland, Tanzania and China, and looked to see how chronic fertilisation could affect these relationships. Such a concerted, long-term international effort is a relatively new development. Chronic fertilisation has been identified as one of the strongest international drivers of species loss. There were common trends observed across the range of grasslands. A process known as species asynchrony in natural, unfertilised grasslands, in which decreases in the biomass of some species are compensated for by increases in others resulted in a variety of grass species with more stability. However, use of fertiliser resulted in reduction of asynchrony and hence weakened the positive effect of diversity on stability due to the decline in the number of species.

It would not be common for farmers to directly fertilise rangeland and pastures, however grasslands would be affected by nitrogen deposition due to, for example, run-off from nearby fertilised crops and ammonia volatilization from cropland. According to Dr Knops, the effects of fertiliser overuse on species asynchrony could exacerbate the impact of events such as droughts on grasslands, such as devastated the cattle herd in Texas and Oklahoma in 2011-2013. It could also increase erosion due to reduction in plant cover, hence decreasing water filtration and carbon sequestration benefits of grasslands. This large international project emphasises the importance of a comprehensive consideration of how drivers of global change interact with each other to affect ecosystems and their diversity.

Sources

HAUTIER, Y., SEABLOOM, E.W., BORER, E.T., ADLER, P.B., HARPOLE, W.S., HILLEBRAND, H., LIND, E.M., MACDOUGALL, A.S., STEVENS, C.J., BAKKER, J.D., BUCKLEY, Y.M., CHU, C., COLLINS, S.L., DALEO, P., DAMSCHEN, E.I., DAVIES, K..F, FAY, P.A., FIRN, J., GRUNER, D.S., JIN, V.L., KLEIN, J.A., KNOPS, J.M.H., LA PIERRE, K.J., LI, W., MCCULLEY, R.L, MELBOURNE, B.A., MOORE, J.L., O’HALLORAN, L.R., PROBER, S.M., RISCH, A.C., SANKARAN, M., SCHUETZ M. and HECTOR, A., 2014. Eutrophication weakens stabilizing effects of diversity in natural grasslands. Nature (16 February 2014), doi:10.1038/nature13014

http://www.eurekalert.org/pub_releases/2...021414.php [Accessed 17 February 2014]
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