Science News Updates

date-rape-analysisMy latest science news updates are now available on SpectroscopyNOW.com and ChemWeb.com, covering a wide range topics from date rape drug analysis to DNA that behaves parasitically and could underpin speciation and evolution:

Date rape analysis – Raman spectroscopy can be used to identify the date rape drug GHB and its precursor GBL in spiked drinks even if they’re in different types of drink or containers included coloured glass, plastic beakers, and polythene sample bags.

Parasitic genetic mobility – A stretch of DNA behaves like a parasite in the genome causes health problems but could explain certain aspects of evolution and speciation. The crystal structure of its protein reveals much about our ancient past and our possible futures

Nano MRI – Researchers at IBM working with a team at Stanford University have demonstrated MRI with a volume resolution 100 million times better than possible conventional systems. The technology could herald single-cell MRI and even allow protein interactions to be imaged clearly.

Getting inside bacteria with spectroscopy – Solid-state spectroscopy has been used for the first time to investigate large membrane proteins in bacteria, allowing researchers to investigate exactly how the sensory organs of these single-celled organisms function.

Ammonia caught on film – A sensor based on a composite plastic that conducts electricity (related to the materials used in OLED displays) can detect the poisonous gas ammonia very selectively and be ready to use again within seconds, unlike similar devices.

Taking the lead – Magnetic nanoparticles that can soak up lead from aqueous solutions, or even a blood sample, might be used to treat lead poisoning, but could have more immediate applications in diagnostics, biomedical research and environmental science.

The Alchemist discovers how to improve analytical chemistry by keeping things cool, how to improve anticancer therapy by lowering the dose and increasing frequency, and how to reduce lime scale in hot water appliances. Also this week a fall in air pollution has improved the life expectancy of Americans, melamine sentences have been passed in China, and pioneering global warming research earns geochemist Wallace Broecker one of the biggest cash prizes in science.

Autism Saliva Test

autismI recently reported on the spit test being developed for autism spectrum disorder (ASD). It’s in the very early stages of development (this is not an antenatal test), but the details were certainly of interest to the target audience on the SpecNOW site.

Of course, the mainstream media picked up on the news of the possibility of such a simple test for autism too and the publication also coincided with literary revelations about Paul Dirac, the twentieth century physicist often labelled the British Einstein, and a debate in The Guardian newspaper concerning the possibility of antenatal testing and independent research by Cambridge University’s Simon Baron-Cohen. Although Baron-Cohen’s work is not looking for an antenatal test for autism, it has certainly led to a call for a public debate on the ethics of such a test.

Obviously, in the course of writing my SpecNOW item I contacted Massimo Castagnola of the Università Cattolica in Rome, Italy, whose team is behind the saliva test and asked him about its potential.

“The analysis of saliva, at least at the moment of the research, cannot detect a subject with autism spectrum disorder (ASD),” he told me, “Diagnosis of ASD is always a task of complex neuropsychiatric tests, made by a specialist in infant neuropsychiatry.” Indeed, Baron-Cohen is on record as saying: “Autistic traits are also normal – it is just a matter of how many of these you have.”

Castagnola explained how his team had discovered that a specific modification of salivary peptides (known as hypo-phosphorylation) is present in the saliva of a small subgroup of ASD patients. Nevertheless, the presence of these abnormal peptides, which suggest a biochemical history of failed protein activation in the patients has high statistical significance).

He pointed out that, “The analysis of a larger group of patients and controls will be necessary in order to confirm the results. Interestingly, low levels of phosphorylation of salivary peptides were observed by us in a previous study performed on saliva of pre-term newborns.”

Phosphorylation, a metabolic process that activates many proteins is under the control of an enzyme known as Golgi-casein kinase. This is a pleiotropic enzyme, which is expressed in several tissues other than salivary glands, including the brain.

“Our hypothesis is that the observed hypo-phosphorylation could be connected to a defect of the kinase, and the defect could reflect not only in hypo-phosphorylation of salivary peptides [which has no effects on the mouth], but also in the hypo-phosphorylation of proteins involved in brain development either during foetal growth or in the first months of life. This is a clue for the molecular basis of disease, at least for a subgroup of patients,” Castagnola told me.

Importantly, hypo-phosphorylation of salivary peptides is not necessarily indicative of ASD, as I mention in my SpecNOW article. Only 18 out of 27 had this characteristic of their salivary peptides. But, hypo-phosphorylation might be present because of another medical problem that may have neurological and/or multifactorial origin.

“Diagnosis of ASD is complex, and ASD is almost certainly a multi-factorial disease,” Castagnola adds, “It would be important to have an early biochemical marker, able to discriminate between different groups of ASD patients.”

There are, however, no practical therapeutic consequences of the Italian research at the moment. “If future research provides further information, we hope that salivary analysis could be useful in order to address a subgroup of ASD patients toward specific therapies,” Castagnola says. “In principle, the non-invasiveness of the test should allow its wide use.”

However, even if such a test were demonstrated to have clinical efficacy, there is currently no therapy that could be applied to follow up detection of salivary hypo-phosphorylation state. Perhaps also of concern is that some ASD patients tend not to be cooperative, have a delicate neuropsychiatric asset, and using the test could disturb the patient. “The test, at least at the moment, should be performed only in very specialistic centres that would go in deep on the molecular basis of the disease,” adds Castagnola.

In the Guardian discussion, which is not related directly to the saliva test work, piece, Michael Fitzpatrick suggests that worrying about antenatal testing is premature, because there are dangerous procedures being performed on children now. Apparently, the anti-vaccine lobby and others claim that autism in boys is associated with premature puberty and with toxic levels of mercury, from vaccines and environmental pollution (Baron-Cohen’s research has not yet proven a connection between exposure to high levels of testosterone during foetal development). These testosterone and toxic metal theories have led to the emergence of some very dangerous quackery including chelation therapy to remove heavy metals from the body (of course chelates will also mop up vital trace elements too) and the use of testosterone inhibitors. The claims of at least one advocate, Mark Geier, have been dismissed as intellectually dishonest in a 2006, court case, reports Fitzpatrick.

Indeed, Baron-Cohen has written to The Guardian in an effort to rebalance what he sees as problems with the reporting in The Guardian of his research. His study, published in the British Journal of Psychiatry was not, he says, about prenatal screening for autism, and indeed did not test children with autism. “The aim of the study was simply to understand the basic mechanisms causing individual differences in autistic traits in an otherwise typical sample,” he says. But, maybe he protests too much, the BPS press release quotes him as saying such a test would require thousands not hundreds of subjects and then adds, “Our ongoing collaboration with the Biobank in Denmark will enable us to test that link in the future.” So it certainly looks like his team is working towards an antenatal test for autism.

Moreover, a BBC article by Baron-Cohen published before The Guardian reports and discussion certainly makes that clear. From his introduction: “The prospect of a prenatal test for autism, allowing couples to choose whether to have a baby with the condition, is coming closer. And with it also comes the possibility of a prenatal drug treatment being developed.” In that article Baron-Cohen warns that “caution is needed to ensure associated talents, like numerical abilities, are not lost if the test or a ‘cure’ become available.”

Research Blogging IconMassimo Castagnola, Irene Messana, Rosanna Inzitari, Chiara Fanali, Tiziana Cabras, Alessandra Morelli, Anna Maria Pecoraro, Giovanni Neri, Maria Giulia Torrioli, Fiorella Gurrieri (2008). Hypo-Phosphorylation of Salivary Peptidome as a Clue to the Molecular Pathogenesis of Autism Spectrum Disorders Journal of Proteome Research, 7 (12), 5327-5332 DOI: 10.1021/pr8004088

Full Metal Alchemist

Full Metal AlchemistFirst story to fall under the gaze of The Alchemist this week is synthetic HDL, a potential alternative therapy for cholesterol problems wrought through gold nanotechnology. Next, we hear of atomic ink that avoids the push and shove of microscopic manipulation by introducing the metallic nano swap meet.

Bed bugs, are apparently evolving resistance to second-generation pesticides, an international team has revealed the channel-swapping mechanism, which could help chemists design alternatives. Mass spectrometry of salivary secretions, surprisingly enough, may one day offer a chemical test for autism spectrum disorders (ASD) while functional magnetic resonance imaging (fMRI) is revealing how the female brain responds to the odour of male sweat. Oh, okay confession it wasn’t full metal.

Meanwhile, in additional news in my SpectroscopyNOW column:

Wine, rum and lead – Sailors and wine buffs beware. A novel method for the direct determination of lead in rum and wine could reveal their favourite tipple to be contaminated with potentially harmful quantities of the toxic heavy metal. The technique uses a flow injection hydride generation system coupled to an atomic absorption spectrometer with flame-quartz atomizer (FI-HG-AAS).

Bilious NMR – High-field NMR spectroscopy has been used for the first time to analyse human liver bile, as opposed to gall bladder bile, with a view to improving liver transplant success. I discussed this SpecNOW post in more detail on Sciencebase.

Drugs get heavy – Deuterated, “heavy”, pyridine adopts a different crystalline form from that of pyridine with a natural distribution of isotopes. The effect might be exploited in creating novel, more effective, versions of pharmaceutical products, according to researchers in Germany, as well as opening up studies into crystal morphology.

Transplant Spectroscopy

=Yellow and black bile were considered by the ancients as two of the four vital humours of the human body along with phlegm and blood. Ancient and mediaeval Greco-Roman alternative medicine. Imbalances in these humours caused illness. The Greek names for the terms gave rise to the words “choler” (bile) [the prefix in cholesterol, of course] and “melancholia” (black bile). Excessive bile was supposed to produce an aggressive temperament, known as “choleric” and cause “biliousness.” Depression and other mental illnesses (melancholia) were ascribed to a bodily surplus of black bile.

We now know that bile is far more complex than that. The liver secretes bile into the gall bladder, which concentrates it and releases it into the duodenum. It is mainly composed of bile acids, which are an essential component of the digestive juices needed to absorb fats, proteins and fat-soluble vitamins. Bile also plays an excretory role in getting rid of cholesterol, bilirubin and worn out proteins, eliminating drugs, metabolites, toxins and heavy metals.

Bile also contains phospholipids (predominantly phosphatidylcholine), proteins, amino acids, nucleotides, vitamins, bilirubin and other organic anions and various inorganic substances. The overall composition is regulated by the liver but liver disease and malignancy of the biliary system can disrupt its chemical makeup. Now, researchers are looking at the NMR spectra of bile and other bodily fluids to help them diagnose and monitor illness and potentially to improve the outcome for liver transplant surgery.

I report details of the study in the new issue of SpectroscopyNOW’s NMR ezine.

The study is just a small part of a much bigger project where we are examining the usefulness of metabonomics to monitor the outcome of liver transplants,” team member John Lindon of Imperial College London told me. “We have already published a paper on using NMR spectroscopy of intact human liver tissue biopsies in Analytical Chemistry (using high resolution magic-angle-spinning proton NMR) and we have several more publications submitted and in preparation,” he added.

The bile research is part of a collaboration between Lindon’s team at IC, Elaine Holmes and her team and the Liver Transplant team at King’s College Hospital, London. Colleagues from Portugal, with funding from the British Council, visited IC and also worked on the project there, as well as doing some of the analysis back in Portugal.

This particular study provides a baseline so that researchers know precisely what constitutes bile. “We plan to look for differences between biles from livers before transplantation and after transplantation,” adds Lindon, “knowing clinically what the liver status is.” This work could reveal biomarkers that could be used to distinguish between good graft function and poor function.

The metabolic profile of any biofluid is very complex and changes in this can be used for disease diagnosis or for looking at the beneficial effects of drugs or the detrimental effects of toxins. The changes can be subtle and complex and so the researchers use cheminformatics, in the form of multivariate statistics, to tease out the most significant effects. They are also studying the liver tissue itself and blood plasma.

Research Blogging IconIola F. Duarte, Cristina Legido-Quigley, David A. Parker, Jonathan R. Swann, Manfred Spraul, Ulrich Braumann, Ana M. Gil, Elaine Holmes, Jeremy K. Nicholson, Gerard M. Murphy, Hector Vilca-Melendez, Nigel Heaton, John C. Lindon (2009). Identification of metabolites in human hepatic bile using 800 MHz 1H NMR spectroscopy, HPLC-NMR/MS and UPLC-MS Molecular BioSystems DOI: 10.1039/b814426e

Physical Spotlight

The January issue of my Intute Spotlight column is now live

3D astrophysics – Astrophysicists are using a novel 3D computer visualization technique to help them understand the role of gravity in the formation of vast, stellar nurseries, also known as molecular clouds. …

Cosmic nanodiamonds – Tiny particles of crystalline carbon found in sediments at six sites in North America dating back almost 13000 years, suggest that a swarm of carbon-and-water-rich comets …

Microbial power – New insights into the workings of a metal-munching bacteria and how it exploits semiconducting nanominerals could provide a new approach to making biological fuel cells …

Alchemical Start to the Year

The Alchemist took a seasonable tipple over the holiday period but discovered that he needn’t have splashed out on all that expensive wine thanks to the field effect. He also discovers that all those spent coffee grounds he produces could be harvested to make biodiesel and hears of plans to rejuvenate the Baltic Sea with a giant fish-tank oxygenator. Drug users could soon be spotted by their glowing fingerprints, thanks to the latest development in forensic chemistry while a detector for melamine could help prevent future food scandals where this compound has been used illicitly to artificially inflate protein readings on baby milk and pet food. Finally, this week’s award could help boost European research in nanomedicine.

You can read all the headlines and straplines in the current issue of The Alchemist on ChemWeb.com

Leukemia Tweezers

stained-leukemia-cellsThe first 2009 issue of SpectroscopyNOW is now available:

Tweezing out leukemia spectra – US researchers have used laser tweezers Raman spectroscopy (LTRS) to help them characterize the effects of different chemical fixation procedures on the spectra of healthy cells and leukemia cells and to avoid the misinterpretation of data.

Crime and punishment – A truly interdisciplinary collaboration between biology, law and neuroscience at Vanderbilt University has used functional magnetic resonance imaging, fMRI, to watch how the brain changes when a person thinks about crime and punishment.

Folding issues – NMR spectroscopy is helping US chemists work out shorter and simpler routes to protein-based drugs for treating a wide range of illnesses including diabetes, cancer, and hepatitis.

By Jove, it’s hot and steamy – In 2007, astronomers discovered that a scorching-hot gas planet beyond 63 light years from our solar system is steaming with water vapour, now, it seems the planet, a hot Jupiters, also suffers from high carbon dioxide levels in its atmosphere.

Opal reversal – Electrochemically oxidizing and reducing an inverse polymer-gel opal causes it to swell and shrink, which alters the wavelength of the light it diffracts brightly, from ultraviolet through the visible to the near infrared, the material could pave the way to new display and monitor technologies.

X-rayed dinobird – Researchers at the SLAC National Accelerator Laboratory used the Stanford Synchrotron Radiation Lightsource (SSRL) to shine intense X-ray beams on the so-called “dinobird” to reveal chemical secrets that have been hidden from view for millions of years.

K Barry Sharpless Live

A recent live Webcast gave Professor K. Barry Sharpless, the 2001 Nobel Prize Winner in Chemistry, the opportunity to explore the intricacies of scientific discovery and how it is that when observation is concerned, good luck favours only the prepared mind.

Video no longer available, sorry.

Neither the video nor the sound quality were great anyway. The organisers also ran a one-on-one interview with Sharpless. You might have also watched student reactions to the Sharpless lecture.

Alchemy Under the Spotlight

atlantic-bathymetryThis week, The Alchemist is digging in the dirt to find out about the carbon cycle and climate change, taking his whisky (or is it whiskey) with or without water, and discovering how to juggle molecules, on the other hand. Also in biochemical news this week, the crystal structure of a plant hormone receptor is revealed while researchers in Israel focus on blocking the protein misfolding that occurs in Alzheimer’s disease.

And, under the December physical sciences Spotlight

It’s all in the marine mix – Mixing of surface waters in the Atlantic Ocean seems to have reverted in the winter of 2007/2008 to “normal” levels for the first time in almost a decade…

Well, wooden you know? – New materials that look and behave like plastics can be produced from a renewable raw material known as liquid wood. The bioplastics promise to displace petroleum as a feedstock for certain applications…

Running with knives – Stabbing is the most common form of murder in the UK and Ireland. However, while forensic scientists understand the basics of the process…

Rx Reviews Redux

A new(ish) website has launched that aims to provide unbiased patient-generated data on the benefits of 7000 prescription medications and their side-effects.

Rateadrug.com hopes to do for pharma products what dooyoo and ciao do for gadgets by bringing the crowd to the debate. Patients can anonymously rate and review any of the prescription drugs they take and view other people’s experiences for free.

“All information on this site is unique, community data that is not biased by pharmaceutical or corporate objectives,” says spokesman Jack Dowd. He adds that, “The site provides patients with truly independent survey results about the risks and benefits of their medications. The more people that start using the site to rate their prescription medications (a quick 5-minute survey), the greater this resource will become.”

Using a prescription drug appropriate to your condition and your genetics can have significant, and often life-saving benefits, but with physicians particularly in the UK and a few other places emphasising how patients should help manage their own illness it is important to know what problems may arise or whether asking for a different prescription might actually be better for them.

Not all medications hit everyone in the same way, because of various factors including your SNPs (single nucleotide polymorphisms), that affect your body’s enzyme and receptor activity. “What’s effective and side-effect free for one person might not be the best drug for someone else, yet most harried doctors prescribe the same drug for 90% of their patients with similar conditions – regardless of individual sensitivities,” the site’s developers say. They hope that Rateadrug will prevent the next Vioxx from happening.

A side project of Rateadrug is involving pre-med students through the PreMed Prescription Rating and Experience Program (PREPP) where the students help senior citizens become more proactive with their drug intake by reporting their experiences through Rateadrug.com.

The site blurb suggests you use the reviews together with your doctor’s advice and FDA disclosures to achieve the best possible outcome for your (or your loved ones) medical condition. Of course, spammers and corporate shills will be readying themselves to distort the results in their favour, unless preventative measures are put in place. “To prevent spam and ensure a real person is taking each survey we require email verification where the user has to click on a link that we email to them,” Dowd told Sciencebase, “We also flag accounts that submit more than one rating for a specific drug. We’re committed to providing quality, real-user data and will continue to ensure that our results are not skewed by spam or anyone trying to influence the results of a specific drug.”

The site also drops a cookie on to your machine so that it knows how many people log in from a specific computer or IP address. If it looks like there are a lot of ratings for the same drug from the same IP address, they will flag those ratings for manual checking.

I asked Dowd to expand on how they are addressing security and validity issues. “At the moment we receive 20 or fewer ratings per day, and carefully review each one,” adds Dowd, “As the volume increases significantly it will become more difficult to impact and distort results – real ratings should outweigh any attempts to skew ratings. But, we will do our best to prevent this type of tampering.”

“Right now, we have a database of over 7000 drugs, but only about 300 have been rated and reviewed by users/patients,” he adds. Dowd and his colleagues hope that as more people find out about this site, the numbers will grow. “Our intention is to provide real ratings by real people and will do everything we can to assure this as we progress,” he told me.

According to CEO Mark Deuitch, RateADrug is currently hoping to get large numbers of patients to review the cholesterol-lowering statin drugs Lipitor, Lescol, Mevacor, Pravachol, and Zocar, anti-depressants such as Lexapro, Prozac, Effexor, Paxil, Zoloft, and Pristiq, and drugs used to treat insomnia including Ambien, Lunesta, Sonata, Rozerem, and Benzodiazepines.

In related news from the UK’s National Health Service: Drug reference information in the British National Formulary will become a key element of the new NHS Evidence portal due to be launched in April 2009. As a result, responsibility for provision of this information for the NHS will transfer from the Department of Health to the National Institute for Health and Clinical Excellence (NICE), as part of the development of NHS Evidence.