cylonlover writes "Australian scientists have successfully revived and reactivated the genome of an extinct frog. The 'Lazarus Project' team implanted cell nuclei from tissues collected in the 1970s and kept in a conventional deep freezer for 40 years into donor eggs from a distantly-related frog. Some of the eggs spontaneously began to divide and grow to early embryo stage with tests confirming the dividing cells contained genetic material from the extinct frog. The extinct frog in question is the Rheobatrachus silus, one of only two species of gastric-brooding frogs, or Platypus frogs, native to Queensland, Australia. Both species became extinct in the mid-1980s and were unique amongst frog species for the way in which they incubated their offspring."

ananyo writes "The research world's most famous human cell has had its genome decoded, and it's a mess. German researchers this week report the genome sequence of the HeLa cell line, which originates from a deadly cervical tumor taken from a patient named Henrietta Lacks (Slashdot has previously noted a film made about the cells and there's a recent mutli-award winning book on Lacks). Established the same year that Lacks died in 1951, HeLa cells were the first human cells to grow well in the laboratory. The cells have contributed to more than 60,000 research papers, the development of a polio vaccine in the 1950s and, most recently, an international effort to characterize the genome, known as ENCODE. The team's work shows that HeLa cells contain one extra version of most chromosomes, with up to five copies of some, and raises further questions over the widespread use of HeLa cells as models for human cell biology."

Nerval's Lobster writes "Former vice president Al Gore sat down with Wall Street Journal columnist Walt Mossberg at this year's SXSW conference to talk about the future — specifically, what Gore sees as the dangers and opportunities awaiting the planet for the next few years. Gore drilled down into what he referred to as the "stalker economy." The rise of apps such as SnapChat, which allows smartphone users to control how long friends can view messages, is emblematic of people reaching the "gag point" with pervasive recording and surveillance by government and business. "Our democracy has been hacked," Gore also told his audience, referring to the U.S. Constitution as "our operating system." While there's never been a "golden age" of American Democracy, he added, the perils emerging today are new. "If a Congressman or Senator has to spend five hours a day begging special interests or rich people for money," he said, they'll be more concerned about how what they're saying will appeal to those interests—rather than their constituents. In yet another tangent, Gore railed against genetic engineering, including Spider Goats, which are goats with spliced spider DNA that allows them to secrete spider silk along with their milk. The goats breed, extending that trait to future generations. Gore sees such things as a case of science run amok, alternately creepy and scary."

ananyo writes "The incidence of autoimmune diseases, such as multiple sclerosis and type 1 diabetes, has spiked in developed countries in recent decades. In three studies published today, researchers describe the molecular pathways that can lead to autoimmune disease and identify one possible culprit that has been right under our noses — and on our tables — the entire time: salt. Some forms of autoimmunity have been linked to overproduction of TH17 cells, a type of helper T cell that produces an inflammatory protein called interleukin-17. Now scientists have found sodium chloride turns on the production of these cells (abstract). They also showed that in a mouse model of multiple sclerosis, a high-salt diet accelerated the disease's progression (abstract)."

MTorrice writes "Some biologists would like to train patients' own immune systems to treat diseases such as cancer and autoimmune disorders. They envision isolating a person's immune cells and then programming the cells to destroy tumors or to stop other parts of the immune system from attacking healthy tissue. Now a team of German researchers reports a method that traps immune cells in microscopic water droplets and exposes the cells to chemical signals that could teach them the difference between friend and foe (abstract). The droplets mimic the cellular environments in which immune cells typically trade information about what to attack."

the_newsbeagle writes "This year, a biotech company called Ion Torrent will introduce a new chip for its genome sequencing machine, which should enable researchers and doctors to scan a complete human genome for $1000 and in just a couple of hours. Compare that to the effort required to complete the first human genome: $3 billion and 13 years. Ion Torrent has nearly reached the $1000-genome milestone by virtue of a process called 'semiconductor sequencing,' and the company's founder says his chip-based sequencing machine benefits from all the efficiencies of the computer industry. At a price point of $1000, genome scans could become a routine part of medicine. And the price could keep dropping. To test out the technology, and to investigate just how useful genome scans are these days for your typical, reasonably healthy person, the IEEE Spectrum reporter got her own genome scanned and analyzed."

Velcroman1 writes "Biochemical engineers can now download a piece of software and with a few simple clicks, assemble the DNA for new life forms through their laptops. 'With the proper computer tools, biologists can write their own genetic code — and then turn that code into life,' said biochemist Omri Amirav-Drory, who founded Genome Compiler Corp., the company that sells the software. He demonstrated at a coffee shop early one morning by manipulating a bacteria's genes on his laptop. The synthetic biology app is still in beta; on Jan. 15, the company added an undo feature and support for new DNA file formats. Building creatures is increasingly like word processing, it would seem. But such is the strange reality in the age of cheap genome sequencing, DNA synthesizing and 'bioinformatics.'"

ananyo writes "Monsanto and other biotechnology firms could be looking to bring back 'terminator' seed technology. The seeds are genetically engineered so that crops grown from them produce sterile seed. They prompted such an outcry that, as Slashdot noted, Monsanto's chief executive pledged not to commercialize them. But a case in the U.S. Supreme Court could allow farmers to plant the progeny of GM seeds rather than buying new seeds from Monsanto, making the technology attractive to biotech companies again. Some environmentalists also see 'terminator' seeds as a way of avoiding GM crops contaminating organic/non-GM crops." Reader 9gezegen adds that Monsanto is getting support, oddly, from parts of the software industry. From the NY Times: "BSA/The Software Alliance, which represents companies like Apple and Microsoft, said in a brief that a decision against Monsanto might 'facilitate software piracy on a broad scale' because software can be easily replicated. But it also said that a decision that goes too far the other way could make nuisance software patent infringement lawsuits too easy to file." The case was heard today; here is a transcript (PDF), and a clear explanation of what the case is about.

An anonymous reader writes "In a real life Prisoner's Dilemma taking place in the French city of Marseille, twin brothers have been arrested for a string of sexual assaults. While say they are sure that one of them committed the crimes (corroborated by a standard DNA test), police were told that it would cost upwards of €1m euros (£850,000, $1.3m USD) to distinguish between them using DNA evidence."

Bulldust writes "The Federal Court in Australia has ruled in favor of U.S. biotechnology company Myriad Genetics, enabling them to continue to hold the patent over the so-called breast cancer gene BRCA1. The same patent is also being reconsidered by the U.S. Supreme Court in the current session. From the article: 'Federal court Justice John Nicholas has ruled that a private company can continue to hold a patent over the so-called breast cancer gene BRCA1, in a decision that has devastated cancer victims.The decision is the first in Australia to rule on whether isolated genes can be patented, and will set a precedent in favor of commercial ownership of genetic material.'"

ananyo writes "Synthetic biologists have developed DNA modules that perform logic operations in bacteria. These 'genetic circuits' could, for example, be used by scientists to track key moments in a cell's life or, in biotechnology, to turn on production of a drug at the flick of a chemical switch. The researchers have encoded 16 logic gates in modules of DNA and stored the results of logical operations. The different logic gates can be assembled into a wide variety of circuits."

carmendrahl writes "Emergency-room visits linked to caffeine-laden energy drinks are on the rise. This gives scientists who'd like to see caffeine regulated the jitters. But the U.S. Food and Drug Administration seems to be dragging its feet on regulating caffeine content in food and drink, because people have different sensitivities to it (abstract). Currently, caffeine-rich products like Monster Energy get around the rules because they're marketed as dietary supplements. 'Caffeine gets cleared from the body at different rates because of genetic variations, gender, and even whether a person is a smoker. For this reason, it’s difficult to set a safe limit of daily consumption on the compound. Physiological differences, as well as differences in the way people consume caffeine, have tied FDA in knots as it has debated how to regulate the substance. ... The toxic level in humans, about 10 g, is roughly the equivalent of imbibing 75 cups of brewed coffee (in 8-oz mugs) or 120 cans of Red Bull over a few hours. But that lethal limit can vary widely from person to person, experts say."

Shipud writes "We live in the post-genomic era, when DNA sequence data is growing exponentially. However, for most of the genes that we identify, we have no idea of their biological functions. They are like words in a foreign language, waiting to be deciphered. The Critical Assessment of Function Annotation, or CAFA, is a new experiment to assess the performance of the multitude of computational methods developed by research groups worldwide and help channel the flood of data from genome research to deduce the function of proteins. Thirty research groups participated in the first CAFA, presenting a total of 54 algorithms. The researchers participated in blind-test experiments in which they predicted the function of protein sequences for which the functions are already known but haven't yet been made publicly available. Independent assessors then judged their performance. The challenge organizers explain that: 'The accurate annotation of protein function is key to understanding life at the molecular level and has great biochemical and pharmaceutical implications, explain the study authors; however, with its inherent difficulty and expense, experimental characterization of function cannot scale up to accommodate the vast amount of sequence data already available. The computational annotation of protein function has therefore emerged as a problem at the forefront of computational and molecular biology.'"

Lasrick writes "This article starts with an interesting anecdote: 'In 1998, President Bill Clinton read a novel about biological warfare that deeply disturbed him. In fact, the story reportedly kept him up all night. It’s one of the reasons that Clinton became personally invested in protecting the United States from bioterrorism threats. The book was The Cobra Event (Preston, 1998), a sci-fi thriller by journalist and novelist Richard Preston that told of a mad scientist who brewed a lethal, genetically engineered virus in his New York City apartment. Preston’s tale highlighted the potential ease with which individuals or small groups with access to advanced bioweapons capabilities could launch attacks on major US cities.1 After reading The Cobra Event, Clinton called several advisory meetings and ordered classified assessments and simulation exercises to examine the threat depicted in the story. As a result of these deliberations, by the end of his administration Clinton had increased funding for biodefense preparedness efforts fourfold, to more than $400 million per year.' The article goes on to describe the two trajectories of bioweapons threats, and puts them both in perspective. It may or may not calm everyone who's ever spent a sleepless night after reading one of the many bioterrorism novels"

MikeChino writes "Instructables member Patrik has successfully transformed an old HP5150 inkjet printer into a DIY bioprinter. To do this he removed the plastic covers and panels and rewired the paper handling mechanism. Then he prepped ink cartridges to be able to handle biological materials by opening the lid, removing the ink, and washing it out with deionized water. For his first experiment, he printed a simple solution of arabinose onto filter paper."

A reader sends news of researchers who encoded an MP3, a PDF, a JPG, and a TXT file into DNA, along with another file that explains the encoding. The researchers estimate the storage density of this technique at 2.2 petabytes per gram (abstract). "We knew we needed to make a code using only short strings of DNA, and to do it in such a way that creating a run of the same letter would be impossible. So we figured, let's break up the code into lots of overlapping fragments going in both directions, with indexing information showing where each fragment belongs in the overall code, and make a coding scheme that doesn't allow repeats. That way, you would have to have the same error on four different fragments for it to fail – and that would be very rare," said one of the study's authors. "We've created a code that's error tolerant using a molecular form we know will last in the right conditions for 10 000 years, or possibly longer," said another.

theodp writes "Harvard geneticist George Church recently told Der Spiegel he's close to developing the necessary technology to clone a Neanderthal, at which point all he'd need is an 'adventurous human woman' to be a surrogate mother for the first Neanderthal baby to be born in 30,000 years (article in German, translation to English). Church said, 'We have lots of Neanderthal parts around the lab. We are creating Neanderthal cells. Let's say someone has a healthy, normal Neanderthal baby. Well, then, everyone will want to have a Neanderthal kid. Were they superstrong or supersmart? Who knows? But there's one way to find out.'"

cylonlover writes "Inspired by the tough teeth of a marine snail and the remarkable process by which they form, assistant professor David Kisailus at the University of California, Riverside is working toward building cheaper, more efficient nanomaterials. By achieving greater control over the low-temperature growth of nanocrystals (abstract), his research could improve the performance of solar cells and lithium-ion batteries, lead to higher-performance materials for car and airplane frames, and help develop abrasion-resistant materials that could be used for anything from specialized clothing to dental drills."

An anonymous reader writes "Dozens of volunteers who anonymously donated their genomic data to a public database for medical research have been identified by a team led by Yaniv Erlich, a former computer security researcher turned geneticist. Erlich's team matched Y chromosomal markers in genomes compiled by the 1000 Genomes Project with non-anonymous genomic databases, for example some assembled from contributions by family tree enthusiasts (abstract). After finding a match on a presumed relative of the study participant, the researchers pieced together the relative's family tree through search engines and the like, until they were able to identify the participant based on gender, age, place of birth, and other supposedly 'non-identifying' information associated with the genome. The names of the identified participants have not been released."

ananyo writes "The ribosome, the molecular machine that translates our genetic code to build the body's proteins, is a mechanical marvel. Now, chemists have invented a nanomachine that can achieve a similar feat. The artificial system is not about to displace nature's ribosome, a complex of proteins and RNA. It is much simpler, and only about about one-tenth of the size — and, it is achingly slow, destroys the code it reads and can produce only very short chunks of protein, known as peptides. It does, however, show that some of the tactics of biology's molecular machines can be adopted to make useful chemicals. The device relies on a rotaxane — a large molecular ring threaded onto another molecule that acts as an axle (abstract). The axle is lined with three amino acids, and a chain of three more amino acids hangs from the outer edge of the ring. Heating the device prompts the ring to move along the axle, adding amino acids one-by-one to the chain attached to the ring."