Tag: Brandon Keim

Food for Thought: Weekly Wrap-Up

The EHEC epidemic in Germany with 4,300 patients and 50 deaths has changed the way public health institutions will deal with future epidemics, writes Christina Hucklenbroich in Frankfurter Allgemeine Zeitung (FAZ). She cites microbiologists involved in the rapid sequencing of the EHEC strain who think that the epidemic gave birth to the new discipline of “prospective genomic epidemiology”. To date, sequencing has been performed retrospectively only. However, using the novel Ion Torrent PGM HGS platform, scientists from the University of Münster were able to sequence the EHEC strain responsible for the outbreak within 62 hours. The scientists now think of a software generating a plain language report interpreting the genome and analyzing for toxins and antibiotics resistances of the germ in question so that immediate therapeutic and prophylactic consequences are possible.

Gas, electricity and hydrogen from algae are in the focus of a story by Susanne Kutter in Wirtschaftswoche. She features Sven Kerzenmacher and Johannes Gescher from the University of Freiburg and their efforts to produce electrical current directly from bacteria. The technology is based on the Shewanella bacterium which can transfer electrons generated by breakdown of sugar or other nutrients from the cell surface to conductive materials. Shewanella lives in fresh-, brack- and seawater and thrives on organic waste. The researchers are now trying to design a Shewanella-based mini-powerplant the size of a refrigerator which is able to produce 5-10 Watts of electricity per day – sufficient to meet the demand of a four-person household. Among others, Kutter also features a dual-chamber solar module developed by researchers from Leipzig, Karlsruhe and Bremen. In the first chamber, algae are forced by an excess of oxygen to produce hydrocarbons (“photorespiration”). The hydrocarbons enter the second chamber via a membrane and are used by bacteria to produce methane under anaerobic conditions. Readers interested in learning more about Shewanella may find regular updates on Shewanella Blogger.

While algae seem to be an ideal biofuel replacement for gasoline in the first place, it has turned out that the economics is a problem, writes Erica Gies in Forbes. Gies revisits former biofuel-from-algae startups that are now turning to more profitable products, using “green” chemistry to replace petrochemicals or unsustainable bio-based oils.

Also in Forbes, Matthew Herper deals with an op-ed in Nature Reviews Drug Discovery by John L. LaMattina, ex-CEO of Pfizer, Inc. LaMattina writes the pharma’s M&A activities have had a “devastating” effect of research and development efforts which will impact the industry over the next decade. The comment is all the more telling as LaMattina was pivotal in Pfizer’s acquisitions of Warner-Lambert, Pharmacia, Wyeth and many other companies. LaMattina summarizes that the consolidation by M&A led to fewer companies pursuing novel ideas and disruptions in research processes. Friction is caused, among others, by the need to streamline computer systems, procedures to track side-effects and others. Usually, a merger delays the start of any new research project by nine months. LaMattina’s comment can be accessed here.

Brandon Keim in Wired explains that most genetic differences in people are not caused by mutations but by variations in the genome’s architecture. At present, sequencing is designed to identify SNPs and as every sequencing method is breaking down the DNA in smaller pieces most genomic studies a blind to larger variations. First sequencing studies looking at larger DNA pieces now revealed that individuals seem to be distinguished less by their SNPs than by their structural variations, i.e. wholesale duplications and reversals, or unexpected additions and omissions of long DNA sequences.

Finally, Catherine de Lange in the New Scientist features the first car plugging into the driver’s brain to cut response times in case the car needs to stop suddenly. The invention of Stefan Haufe from the Berlin Institute of Technology uses an EEG headset and sensors on the leg to detect neuronal patterns and muscle tension to find out that the driver intends to apply the brakes. The system improves response times by 130 milliseconds which translates into the length of a small car when stopping from a speed of 100 km/h.

Food for Thought: Weekly Wrap-Up

Andreas Menn in Wirtschaftswoche introduces the latest medical applications of smartphones for monitoring physical functions, ranging from the heartbeats of unborn children to blood sugar, blood pressure and pulse rates of elderly people to even pacers and other implants. According to Menn, the Mobile Health sector has a 19% market growth. In the US, patients are joining movements like The Quantified Self to collect health data for research purposes (and, as an example, to determine the ideal moment for wake-up). Contact lenses measure and report blood sugar levels, while tests strips or clothes with in-built wearable electronics control breathrate, wound swelling and urine for dangerous deviations. The field is still littered with startups, but big players like Siemens, Philips, sanofi aventis and Deutsche Telekom also have stepped in already.

Joachim Müller-Jung in Frankfurter Allgemeine Zeitung (FAZ) reports from the recent meeting of the Stem Cell Network North Rhine Westphalia. The debates focused on quality control of induced stem cells and the ability to derive motor neurons from such stem cells.

In The New York Times, Nicholas Wade reports on a recently discovered bundle of genes regulating the growth of heart muscles cells. The study published in Science will be of great interest for the development of novel therapeutics. It is known today that heart muscle cells are replaced in humans – however, the growth rate is too slow to replace the loss of many cells, e.g. in a heart attack. By modulating these genes, it might one day be possible to regenerate heart muscle in a targeted manner.

In Wired, Brandon Keim features a proposal by theoretical physicists that bacteria might transmit electromagnetic signals by using their DNA chromosomes as an antenna. The proposal is likely to trigger controversy as many biologists doubt that bacteria emit electric signals. French nobelist Luc Montagnier had already claimed in 2009 that bacteria do transmit radio signals in the 1 kHz range.

In the New Scientist, Ferris Jabr introduces a super twisty beam of laser light that is able to tell left-hand molecules from right-hand ones, with potential applications in drug development. Rowan Hooper reports on successful attempts to cure certain forms of blindness by introducing genes from algae into the eyes. The genes are encoding for channelrhodopsin-2 (ChR2), a photosensitive protein used by unicellular algae to orient towards light. The mice carrying a hereditary form of blindness were treated with subretinal injections of viruses carrying the algal gene and subsequently were able to use light beams for orientation in a maze. Trials in humans, the article states, might begin in two years. Finally, Andy Coghlan features findings that humans can be grouped by one of three gut ecosystems. These three “enterotypes” – dominated by three different species each – have been found all over the world and have a bias towards degradation of certain nutrients and production of certain vitamins.

And finally, for those of you who loved the Get a Mac ads by Apple (“I’m a Mac, I’m a PC”), please have a look at the ad campaign of Ion Torrent comparing its PGM sequencer to competitors such as MiSeq.