<![CDATA[io9: dna]]> http://tags.lifehacker.com/assets/base/img/thumbs140x140/io9.com.png <![CDATA[io9: dna]]> http://io9.com/tag/dna http://io9.com/tag/dna <![CDATA[Are Nanoparticles Unsafe?]]> Nanoparticles don't need to come into actual contact with human DNA in order to affect them, according to new research carried out by British scientists. Does this mean our miniature future is more dangerous than first thought?

The Guardian reports that scientists from the University of Bristol placed cobalt-chromium nanoparticles on one side of a cellular barrier specifically grown for the experiment, with human fibroblast cells on the other side of the barrier. Despite the nanoparticles not actually coming into contact with the fibroblasts, the fibroblast DNA was, on average, "10 times more damaged" than under control conditions as a result of the experiment; according to Patrick Case, who led the tests:

When we measured the damage on the other side of the barrier, to our great surprise, not only did we see damage on the other side of the barrier but we saw as much damage as if we'd not had the barrier at all and had put the materials in contact with the cells underneath.

The results raise questions not only about how damaging nanotechnology may be in practice, but also about the validity of the experiment. In addition to being unsure how the test results would transfer to a human body, Case admitted that the tests also used an amount of nanoparticles thousands of times higher than anyone is likely to come into contact with in reality:

We used high doses of them because we wanted to make sure that the dose we used would cause damage to cells if the cells were exposed.

So what we're left with is the possibility that nanoparticles may be damaging to human DNA, and that they also don't need to come into physical contact with the DNA in order to damage them... But we don't know for sure. Am I the only one not comforted by this?

Nanoparticles could damage DNA at a distance, study suggests [Guardian.co.uk]

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<![CDATA[The Protein That Makes Sperm Such Speedy Swimmers]]> In competitive swimming, athletes will slim down and shave themselves to get a speed boost. Scientists have discovered sperm do the same thing, using a molecule that forces the cell to super-compact itself for a swimming advantage.

Genetic material is passed on through sperm via long strains of DNA. But one disadvantage of these strands is their giant size when unwound. As a response to this disadvantage, the body has developed a method for packing DNA strands up for easy transport. The DNA is bound up around molecules called histones and made into a dense genetic material called chromatin. This winding process is achieved by proteins grabbing onto tags distributed throughout the chromatin.

Of course, as compact as this material is, these little sperm cells try to get every advantage they can. That's where this newly discovered protein, Brdt, comes in. After the histones bind with this special protein, the sperm cell goes through a process of hypercompaction. When this protein is absent, the hypercompaction doesn't take place. The scientists, from the European Molecular Biology Laboratory, aren't sure if this is because of the special nature of Brdt or because Brdt is merely the last protein in the histone-binding sequence.

Scientists hope to use this new information about sperm development, released this week in Nature magazine, to find the link between hypercompaction and infertility. But it makes sense: if this extra phase of compaction transforms sperm from the fat kids at the pool who always belly-flop off the diving board into little Michael Phelpses, it's pretty clear why mice lacking this Brdt protein are infertile.

Putting the squeeze on sperm DNA [PhysOrg]

(Image: an X-ray crystallography image of the Brdt tags (the cyan strands) settled into the Brdt binding site. Also visible are two less-compact chromatin clumps, top left in blue, and two hypercompact versions, bottom right. Image from EMBL/IBS.)

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<![CDATA[DNA Portraits Reveal Your Inner Beauty]]> Four competing companies offer artworks based on your unique genetic code, but which one will make your genes look coolest? We compare DNA portraits from each company, each with a very different take on the art of genetic information.

DNA Art Forms takes a more interpretive approach with DNA portraiture than most companies. After identifying 15 unique regions of your genetic code, clients consult with an artist as to how they want their DNA represented, be it as an abstract form, a landscape, or as an actual portrait including your image. Portraits start at $1500, and clients are consulted each step of the way, approving concept sketches before paint ever touches canvas.

DNA 11, which claims to have pioneered the DNA portrait, takes a more straightforward approach, taking a traditional representation of a genetic profile and offering it in a wide variety of colors and sizes. The glass portraits start at $199, and fingerprint and kiss portraits are available as well.

If you just want a representation of a single gene, My Gene Image will look at a single gene from your genetic sample, such as an eye color, pheromone, circadian rhythm, or mood gene. The company will then identify the sequence of nucleotides that make up that gene, and will render the gene as a series of As, Ts, Gs, and Cs against a colorful background.

WEB2DNA doesn't actually sell artwork, and its images don't actually represent human DNA, although they are done in the style of a genetic profile. It actually converts website data into a visual structure based on DNA portraits, creating a visual "genetic profile" for your website. And, if the mood strikes you, you could always print it out and hang it on your wall.

[via The Bio(logy) Blog]

London Calling DNA Portrait from DNA Art Forms
Miss Mad M DNA Portrait from DNA Art Forms
Theresa DNA Portrait from DNA Art Forms
Ephemeral — Two DNA Profiles from DNA Art Forms
Catherine — Single DNA Profile from DNA Art Forms
One Wish for You DNA Landscape — Three DNA Profiles from DNA Art Forms
DNA Profiles as Cityscape from DNA Art Forms
Orange Profile from DNA11
Two DNA Profiles from DNA11
Blue Profile from DNA11
Blue Mosaic Gene Rendering from My Gene Image
Orange Life Gene Rendering from My Gene Image
Pink Eye Color Gene Rendering from My Gene Image
"DNA" Rendering of Website Data from Baekdal.com

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<![CDATA[Fabricate Your Own DNA Evidence]]> DNA evidence has become the gold standard for criminal investigations, but researchers in Israel say that finding DNA at a crime scene may not be evidence of a crime, but rather the handiwork of a clever biology student.

In a paper published in Forensic Science International, Dan Frumkin, a private forensics researcher, claims that fabricating DNA evidence has become so easy that "[a]ny biology undergraduate could perform this."

Frumkin outlines two methods for fabricating DNA evidence. The first requires access to a small sample of an individual's DNA, such as a hair or a bit of saliva. The size of the sample is then increased through a common technique known as DNA amplification. Then the hopeful framer takes blood from a different individual, centrifuges it to remove the DNA-carrying white blood cells, and leaves only the red blood cells, which contain no DNA. The person then adds the amplified DNA to the blood sample, creating a handy supply of blood that could be splashed onto a crime scene to implicate the chosen target.

The second method requires no actual sample of DNA, but a person's DNA profile, which may be stored in a law enforcement database. These profiles identify variations at 13 specific spots in an individual's genome. Frumkin claims that a scientist could keep a library of a cloned snippets of DNA representing the variants at the 13 spots (he estimates 425 samples would be needed in all), and he or she could mix the snippets to create a DNA sample matching anyone's genetic profile.

Frumkin says that, at the moment, there are ways to determine whether DNA evidence has been fabricated (and his own company, Nucleix, provides such tests), but it's a step forensic labs don't normally take. Although some respondents question whether criminals will actually use these techniques to throw suspicion off themselves and onto others, Tania Simoncelli, an American Civil Liberties Union science adviser, suggests that it's time for courts to reevaluate the reliability of DNA evidence:

"DNA is a lot easier to plant at a crime scene than fingerprints," she said. "We're creating a criminal justice system that is increasingly relying on this technology."

DNA Evidence Can Be Fabricated, Scientists Show [NY Times]

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<![CDATA[Using Quantum Dots To Detect The Early Signs Of Cancer]]> For a long time, cancer screening has been difficult and invasive. Doctors had to use invasive surgical procedures and unreliable tests. Now, scientists have harvested the power of quantum semiconductors to test for very early signs of cancer.

The test, as reported in the August issue of the journal Genome Research, relies on observing DNA methylation. The process involves two substances: methyl (an organic chemical group) and cytosine (the C in GATTACA). During DNA methylation, the loose methyl groups attach to the cytosine in DNA, which can lead to the suppression of important tumor-fighting proteins, and maybe eventually to cancer.

To detect this nefarious change in DNA, the newly-developed testing process essentially removes any non-methylated DNA, and dyes and measures whatever is left. This gives the tester an idea of how much methylation is happening in a patient's DNA, which also demonstrates the patient's risk for cancer.

Worth noting is the strange quantum dye that the process uses. The modified methylated DNA strands are mixed with "quantum dots," or tiny semiconductor crystals that can easily transfer energy. When light is shined on the quantum dots, now adorned with DNA strands as in the picture above, the energy is quickly put into the nearby molecules, lighting them up like a Christmas tree and making it easy for doctors to measure them.

From a practical angle, this test, as compared with current cancer screenings, is more sensitive and quicker. It would involve only a simple blood test, as opposed to an invasive biopsy. Plus, this test can specify which cancers a patient is at risk for. It's great to see chemistry nerds making life easier and safer for all of us!

New DNA test uses nanotechnology to find early signs of cancer [via EurekaAlert]

Further Reading: What's the Future of Cancer Diagnosis?

(Image: glowing methylated DNA arrayed around a quantum dot, from Yi Zhang/JHU)

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<![CDATA[A Drug To Re-Awaken Ancient Human Genes And Fight HIV]]> "Junk DNA" are inactive parts of your genome, switched off long ago in evolutionary history. Now scientists say there's a junk gene that fights HIV. And they've discovered how to turn it back on.

What these scientists have done could give us the first foolproof HIV vaccine. They have re-awakened the human genome's latent potential to make us all into HIV-resistant creatures. This evening in PLoS Biology, they've published their ground-breaking research.

A group of scientists led by Nitya Venkataraman and Alexander Colewhether wanted to try a new approach to fighting HIV - one that worked with the body's own immune system. They knew Old World monkeys had a built-in immunity to HIV: a protein called retrocyclin, which can prevent HIV from entering cell walls and starting an infection. So they began poring over the human genome, looking to see if humans had a latent gene that could manufacture retrocyclin too. It turned out that we did, but a "nonsense mutation" in the gene had turned it off at some point in our evolutionary history.

Nonsense mutations are caused when random DNA code shows up in the middle of a gene, preventing it from beginning the process of manufacturing proteins in the cell. Venkataraman and her team decided to investigate this gene further, doing a series of tests to see if the retrocyclin it produced would keep HIV out of human cells. It did.

At last, they knew that if they could just figure out a way to reawaken the "junk" gene that creates retrocyclin in humans, they might be able to stop HIV infections. The researchers just needed to figure out a way to remove that nonsense mutation and get the target gene to start manufacturing retrocyclin again.

Here's where things really get interesting. The team found a way to use a compound called aminoglycosides, which itself can cause errors when RNA transcribes information from DNA to make proteins. But this time, the aminoglycoside error would work in their favor: It would cause that RNA to ignore the nonsense mutation in the junk gene, and therefore start making retrocyclin again. In preliminary tests, their scheme worked. The human cells made retrocyclin, fended off HIV, and effectively became AIDS-resistant. And it was done entirely using the latent potential in the so-called junk DNA of the human genome.

After more research is done, the researchers believe this might become a viable way to make humans immune to HIV infection.

What intrigues me, beyond the amazing idea of an AIDS vaccine, is that aminoglycosides have the potential to unlock the uses for other pieces of junk DNA. Those of you who read Greg Bear's novel Darwin's Radio know that this scenario is familiar scifi territory: In that book, humans start rapidly evolving after their junk DNA re-awakens in response to stress. Could we induce instant mutations, or gain other new immunities by using aminoglycosides on our junk DNA? What would it mean to have the whole crazy, giant human genome at our command?

via PLoS Biology

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<![CDATA[The Most Awesome Science Video About DNA Ever Made]]> It's hard to explain DNA replication, transcription, and protein building in an accessible but non-dumbed-down way. This quick, elegant video does it, though: You get the full story with helpful visualizations. via Information Aesthetics

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<![CDATA[Volunteers Let Their Genomes All Hang Out]]> The idea of making personal genetic information public evokes images of genomic Google searches and gene-testing job interviews straight out of Gattaca. But there are many who believe genetic openness could go a long way toward advancing disease research. Tomorrow, ten volunteers will take the first steps away from genetic privacy, allowing their personal genetic information to be posted online without the veil of anonymity.

The volunteers are all participating in the Personal Genome Project, a Harvard study, which as we’ve mentioned before, is attempting to create a database of 100,000 human genomes. Although other services collect genomes as well, PGP has come to public attention for taking personal information in lieu of payment:

In exchange for the decoding of their DNA, participants agree to make it available to all — along with photographs, their disease histories, allergies, medications, ethnic backgrounds and a trove of other traits, called phenotypes, from food preferences to television viewing habits.

So what has prompted these volunteers to make so much of their personal lives publically available? Each possesses, in PGP head George Church’s estimation, the equivalent of at least a master’s degree in genetics, and many have an academic and/or financial interest in furthering genetic research:

• George Church, PhD, Professor of Genetics at Harvard Medical School, Professor of Health Sciences & Technology at Harvard and MIT, and head of PGP.
• Esther Dyson, technology entrepreneur and commentator, philanthropist, and future space tourist.
• Misha Angrist, PhD, Science Editor at the Duke University Institute for Genome Sciences & Policy and author of The Genome Revolution: DNA, Health and Society.
• Keith Batchelder, MD, founder and CEO of Genomic Healthcare Strategies.
• Rosalynn Gill, PhD, founder and Chief Science Officer of Sciona.
• John Halamka, MD, MS, Chief Information Officer of the CareGroup Health System and Chief Information Officer and Dean for Technology at Harvard Medical School.
• Stanley Lapidus, Chairman and CEO of Helicos BioSciences Corp.
• Kirk Maxey, MD, manages the Donor Sibling Registry and the Cayman Biomedical Research Institute.
• James Sherley, MD, PhD, Senior Scientist at the Boston Biomedical Research Institute.
• Steven Pinker, PhD, Johnstone Family Professor of Psychology at Harvard University.

While the “PGP 10” understand the benefits and consequences of posting this sort of information online, some fear that those who follow their lead won’t be so savvy:

“I’m concerned that this could make it seem easy and cool to put your information out there when there is still a lot of stigma associated with certain genetic traits,” said Kathy Hudson, director of the Genetics and Public Policy Center at Johns Hopkins University. “There will be new uses of this data that people can’t anticipate — and they can’t do anything to get it back.”

But some have already been lured in by PGP’s promise of a free genetic screening, which could tell them if they are predisposed toward certain diseases. In the latest issue of GQ, University of Illinois professor Richard Powers shares his own journey through PGP’s gene mapping process, including his decision to join the genetic database and what the geneticists found.

[Personal Genome Project]
Taking a Peek at the Experts’ Genetic Secrets [NY Times]
The Book of Me [GQ]

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<![CDATA[Extinct Tortoise Could Make a Comeback]]> When Charles Darwin wrote about giant tortoises living on Floreana in 1835, he noted a marked decline in their population from previous years. Eleven years later, another visitor to the island declared the entire species extinct. But a fortuitous discovery has led researchers to believe that they can bring this animal back from the evolutionary grave.

Although the tortoises vanished from the Floreana, a handful were preserved by the very sailors who contributed to their extinction. When they didn't need the tortoises for food, the sailors would drop the tortoises off at their whaling grounds, notably the Galapagos island of Isabela. There the Floreana tortoises interbred with the native tortoises, allowing their DNA to live on:

"The [living tortoise] samples were collected in 1994, but we had no idea what was in there because we didn't have Floreana data," said Gisella Caccone, an evolutionary biologist at Yale University in New Haven, Conn. "OK, now we have genotypes for 15 to 25 animals from the museums, so we did the analysis and boom!"

Sadly, the biologists won't be staging any Jurassic Park-style cloning to revive the reptile, as is being planned for a baby mammoth fossil discovered in Siberia last year. Instead, they will determine if there are enough tortoises carrying the Floreana DNA to begin a selective breeding program.

Extinct Giant Tortoise Could Be Revived [LiveScience]

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<![CDATA[10 Amusing Things to Do with Your Genome]]> With new SMRT DNA sequencing — and that's Single-Molecule Real-Time, not cutespeak for "smart" — it might soon be possible to get the complete details of your own genome for the price of an iPod. At long last, you'll be able to prove to the world that you truly are a beautiful and unique snowflake. That, however, is only the tip of the iceberg as far as DNA sequencing fun is concerned: What more could you do with intimate information about all 3 billion of your DNA base pairs?

  1. Preserve your DNA sequence on a CD. To store the data contained in the strands of your DNA, you'd need about 750 megabytes; that's just a little larger than the average compact disc. And if you forget about introns, non-coding RNA, regulatory sequences, and the as-yet-mysterious "junk DNA," you'll see that only between 20,000 and 25,000 human genes code for the proteins that make you who you are. That might even fit on a thumb drive.
  2. Tell your doctor exactly what medication you need. As Discover Magazine reported, SMRT DNA sequencing means that super-personal medical care is not too far away:

    As DNA sequencing becomes faster and more affordable, it should allow the building of a more complete database of genetic information. “Once we can build that sort of database for the human organism, it helps us much better understand disease, how to diagnose disease, how better to treat disease,” says Richard Wilson, the director of the Genome Sequencing Center at Washington University in St. Louis. With that information, he says, personalized medicine will become commonplace. Visits to the doctor could then produce treatments tailored not just to your lifestyle and family history, but also to your genetic profile.

  3. Befriend a fruit fly version of yourself. Creepily enough, humans and fruit flies share about 60% of their genes. Once you've got a full map of your genes, why not find a fruit fly whose genes make it 60% exactly like you? And don't stop there — you can also turn your comparative genomics approach to the honey bee, the African elephant, and the Platypus.
  4. Commission a wall poster that fully encompasses your identity. You might already have the Human Genome Landmarks poster, which maps out all the traits associated with the 22 autosomal chromosome pairs in your body — and that controversial gender one, too. Now, with a SMRT sequence of your specific genome, that poster can get up-close, personal, in your face, and all through your body.
  5. Send your DNA sequence into space. Okay, so maybe you're not famous enough to have a sample of yourself added to the Immortality Drive. But you can still make sure aliens will recognize you from a light-year away; just scrawl down the configuration of your base pairs on a long piece of paper, roll it up, and stick it into that rocket your aunt gave you last holiday season. If you can get your DNA details through the atmosphere, they'll drift practically forever in the vacuum surrounding the stars, just waiting to be discovered by some sexy weird-eared extraterrestrial friend.
  6. Go to parties in a necklace you know no one else will be wearing. Though it's advertised for pets, Perpetua's life jewel pendant could be a great way to honor humans as well. This bit of jewelry can "purify" your DNA "into a fine, silky web that captures a luminescent color tincture of your choice." Sounds like the indispensable accessory I've always wanted.
  7. Meet your children before they're born. "Mommy, What Will I Look Like?" may not have worked for Lindsay Bluth, but it sure can for you. Line up your DNA sequence next to that of your long-term significant other (or your favorite celebrity), and know immediately if your children will be attractive and non-alcoholism-prone. But remember — Ethan Hawke kicked ass in Gattaca, and his heart-disease-y astronaut was conceived in a hurry in the back of a car.
  8. Figure out your ideal diet. If you can't lose weight just by avoiding carbs, perhaps there's a genetic reason for your troubles. The emerging field of nutrigenomics might have an answer for you, especially if you show up at an expert's door with your entire genetic sequence.
  9. Become a killer Acrophobia challenger. This multiplayer acronym game was one of the best things about being online in the '90s, and it's long past time for Acrophobia to make a comeback. See if the other players can come up with any brilliant and hilarious expansions for the super-long string of Gs, As, Cs, and Ts that is your genetic code. You'll be testing their thesaurus prowess for sure.
  10. Perform a search across Earth to find people just like you. We're already storing a wealth of information about genomes in databases like GenBank and the International HapMap Project. Once people can easily procure their own DNA sequences, it seems like just a hop, skip, and a jump to the Facebook or MySpace where your genome is your personal profile. Instead of searching for people in your high school graduating class, you could search for people whose chromosomal details match your own — I wonder how high up Sarah Palin would be on Tina Fey's similarity list. There probably isn't a gene for comedy, is there?

Gattaca image from SciFlicks.

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<![CDATA[Instant DNA Scan is SMRT, I Mean S-M-A-R-T]]> Medcal treatments will take a quantum leap forward once we can develop drugs that are genetically tailored to a specific individual. But to do that, we need a way to sequence someone's DNA quickly and cheaply. Today, it takes months and costs six figures. Pacific Biosciences' Single-Molecule, Real-Time (SMRT) DNA sequencer is going to change that.

DNA sequencing is slow and takes a lot of computational power. To put it into Homer Simpson terms, the DNA is replicated, torn into little pieces, sorted out and analyzed bit by bit, then reassembled by a computer. The SMRT sequencer improves on the process because it "watches" the DNA as it is being replicated by the polymerase, reading each piece of DNA in something called the Zero-Mode Waveguide. The ZMW is a "nanophotonic visualization chamber" made by making a hole just a few tens of nanometers across in a metal film just 100 nanometers thick. Chemicals introduced into the reaction give off tiny flashes of colored light, which are detected by the highly parallel optics system (pictured). The CCD can detect the lights, and computers use that information to figure out which base pairs are in which ZMW window, decoding long strands of DNA in real-time. You could be running down to the DNA-Mart for a quick DNA scan as soon as 2013. Image by: Pacific Biosciences.

Long Reads, Short Run Time, and High Quality Data at Lower Cost. [Pacific Biosciences]

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<![CDATA[Stephen Colbert’s DNA To Be Sent Into Space, Become Self-Aware]]> For those who can’t imagine a universe without Stephen Colbert, there’s good news. The satirist’s DNA is going to be preserved for future generations, and perhaps future civilizations. Video game designer and soon-to-be space tourist Richard Garriott is adding Colbert’s genetic code to the Immortality Drive, the digital time capsule Garriott plans to take to the International Space Station to serve as an “offsite backup” for the human race. And should an alien civilization happen upon the archive and decide to clone those inside, Lord British has lined up a few other humans to keep Colbert company.

Colbert is reportedly delighted by the prospect of his off-world immortality:

I am thrilled to have my DNA shot into space, as this brings me one step closer to my lifelong dream of being the baby at the end of 2001.

But he won’t be alone. Garriott seeks to preserve certain portions of humanity in the event that the Space Station becomes mankind’s final legacy:

The Immortality Drive is a digital archive of mankind's greatest achievements and a snapshot of humanity itself. This archive will be stored on the International Space Station to serve as a remote "offsite backup" of humanity, should we suffer a disastrous fate.

Garriott has enabled players on his newest MMORPG, Tabula Rasa, to upload their characters and personal messages to the Immortality Drive, and has chosen a select few whose DNA, like Colbert’s, will be digitized and preserved. So what does it take to have your genome sent to space? Below are the current Immortality Drive inductees:

Entrepreneurs:
• Kevin Rose, founder of Digg, Pownce, and Revision3
• Tim Draper, venture capitalist and viral marketing innovator
• Robert Scoble, technology evangelist and business blogger

Athletes:
• Scott Johnson, Olympic gold medal gymnast
• Matt Morgan, American Gladiator and professional wrestler

Musicians:
• Joe Ely, singer, songwriter, and guitarist
• Stephen Bruton, producer and blues guitarist
• Eric Johnson, guitarist and instrumental composer
• Patrice Pike, singer, songwriter, and reality show participant

Writers:
• Tracy Hickman, novelist and game designer (Dragonlance, The Darksword Trilogy, The Death Gate Cycle)
• Scott Murphy, television and screenwriter (Angel, Star Wars: The Clone Wars, Flash Gordon)
• Clifford Green, screenwriter (Spacecamp, The Seventh Sign)
• Christiana Miller, television writer (General Hospital, Star Trek: Voyager)
• Daniel Fiorella, television and radio writer, magazine contributor (Adventures of the Galaxy Rangers, A Prairie Home Companion, Mad Magazine, Cracked)
• Doug Molitor, television writer (Sliders, Teenage Mutant Ninja Turtles, X-Men: Evolution)
• Ian Abrams, television writer and producer, director of the screenwriting and playwriting program at Drexel University.
• Melvyn B. Sherer, television writer and Andy Kaufman collaborator (Married with Children, Happy Days, Small Wonder)
• Steven Melching, television and screenwriter (Star Wars: The Clone Wars, Men in Black: The Series, X-Men: The Animated Series)
• Heather E. Ash, television writer (Stargate SG-1)

The post-human future, it seems, will be ruled by the television writers.

Image by Todd Lockwood.

Stephen Colbert to have his DNA sent into space [AP]
Operation Immortality

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<![CDATA[DNA Tests Reveal Who Was Having Sex with Neanderthals 40,000 Years Ago]]> Are modern humans the hybrid children of early humans and Neanderthals? For over a decade, scientists have wondered what exactly happened to the Neanderthals, low-tech hominids who populated Western Europe, when homo sapiens arrived on the scene from Africa and Asia with sophisticated weaponry and the rudiments of symbolic art. Homo sapiens arrived in Europe roughly 45,000 years ago, and co-existed with Neanderthals for what scientists estimate could have been anywhere from 1000 to 10,000 years. Some remains seem to indicate that the two groups shared the same caves, and might have traded with each other. But what else did they share?

Though we can't be sure what their everyday interactions were like, scientists now have one more piece of evidence that homo sapiens and Neanderthals weren't mixing their DNA.

A group of Italian researchers published a new study today in PLoS One comparing the DNA from early human bones from about 28,000 years ago with DNA Neanderthal bones. What's cool about the new study is that the early human bones are quite recently discovered, and therefore very unlikely to have been contaminated by DNA from humans who have handled them.

The researchers sequenced DNA from these bones, testing to see if there was significant overlap with Neanderthal DNA, which would indicate that homo sapiens' DNA had been changed by interbreeding with Neanderthals. Many anthropologists have long believed that the two species interbred because there are a few ancient skulls whose morphology seems to be a perfect blend of human and Neanderthal.

But tests of the fossilized DNA revealed no matches. The early human DNA from the Italian researchers' sample looked very much like modern DNA, not like Neanderthal DNA. So it looks like humans weren't getting busy with Neanderthals after all. Or if they were, they didn't have a lot of babies.

28,000 Year Old Cro Magnon Sequence [PLoS One]

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<![CDATA[Proto-DNA from Meteorites Kick-Started Life on Earth]]> How life got started on Earth is still a big problem for scientists. The story goes something like this: "Well, there was this primordial soup of amino acids and stuff, then maybe there was some lightning, or something, and then ::mumble, mumble:: and then we had life." Awkward! But that awkwardness may be over: Research on the Murchison meteor, which landed in Australia in 1969, has found that the rock carried the building blocks of DNA on board. The finding puts panspermia firmly in the spotlight as a possible origin for life on Earth, and makes a lot more sense than that old tale of thunderstorms and arm-waving.

Panspermia theories often argue that Martian mircobes hitched a ride on an Earth-bound meteor, then thrived and evolved into the life we see here on Earth. But the new findings from researchers at Imperial College London suggest the building blocks of life rather than life itself arrived from outer space. They figure that since the Murchison meteor fell to Earth bringing the molecules uracial and xanthine — precursors to DNA — there must have been a lot of this stuff pelting the planet billions of years ago.

Early life may have needed the space-born material to get started, or it could've incorporated the meteorite bits because they conferred some kind of evolutionary advantage:

Lead author Dr Zita Martins, of the Department of Earth Science and Engineering at Imperial College London, says that the research may provide another piece of evidence explaining the evolution of early life. She says:

“We believe early life may have adopted nucleobases from meteoritic fragments for use in genetic coding which enabled them to pass on their successful features to subsequent generations.”

Between 3.8 to 4.5 billion years ago large numbers of rocks similar to the Murchison meteorite rained down on Earth at the time when primitive life was forming. The heavy bombardment would have dropped large amounts of meteorite material to the surface on planets like Earth and Mars.

Either way, it looks like we're made of space stuff.

Source: Imperial College London

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<![CDATA[A Special DNA Surprise for Daddy]]> In the category of weirdest product pitches, you can now include the email I got from Intigene. The company's rep suggested that Father's Day would be a good time to remind people that they could buy Identigene's home DNA paternity tests. At first I thought it was a joke because their website looked so much like something out of one of my fantasies about crappy quack DNA tests online. Their number is even 1-800-DNA-TYPE, which just reeks of used-car sales techniques. But no, it was all too real.

Apparently, Identigene lays claim to being the first home DNA testing kit, which might in fact be true. It's only recently that companies like 23andme.com have started offering more extensive home DNA testing, offering to chart your ancestry or identify whether you've got a genetic predilection for depression. The thing that makes me think "scifi" when I see the Indentigene site, which you really must check out, is the way it feels like a cheesy ad from 2040. Just because they treat what still seems like cutting-edge technology as if it were as cheap and simple as a home pregnancy test. Which it is.

This is the consumer biotech, future kids: It begins not with a bang but with a cheesy website and late-night TV infomercials. Also, I love how the Identigene test comes in a box that looks like it's for condoms.

Identigene [actually real website for actual service you can buy]

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<![CDATA[Should Google be Able to Read Your Genome?]]> DNAperson.jpgGene-sequencing technology is taking off, but George Church at Harvard University is taking it to the next level: he wants to sequence the genomes of 100,000 people. Right now, about 12 human genomes have been sequenced and Church's ambitious plan is likely to cost cost around $1 billion to complete. Recently Google — who in February announced its Google Health software for storing electronic medical records — agreed to foot a major part of the bill. Google gives us free email, chat, search, a shopping client, and so on and all they've ever asked is that we let them look at all over our most private information. Seems like a fair trade, but does that extend to our DNA?

Church has good reasons for wanting piles of genomic data. As a Bloomberg article on the project says:

By matching genetic data from each person with his or her health history, Church would build a database that would link DNA variations and disease for scientists and drugmakers, the first step in deciding on treatments that can block the mutations or adjust how they work within the body.

Church also said he'll explore other human traits under genetic control. Participants will give facial and body measurements, tell researchers what time they get up in the morning, and detail other behaviors, he said.

Church has already partially sequenced genomes from 10 people, and the jump to 100,000 is under review by a Harvard ethics panel. The project ``only stops when we stop learning things,'' Church said.

We should note: there's no evidence of wrongdoing here, and Google has never explicitly said "we want to organize genetic information." True, they are major investors in the personal genomics company 23andMe, but we have every reason to believe that Big brother "don't be evil" Google will play it straight, keeping any information they have access to safe and anonymous.

But still you've got to wonder, does Google want direct access to DNA information? And if so, why?

Source: Bloomberg via SciGuy

Graphic: Personal Genome Project (Church's outfit)

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<![CDATA[Fake DNA Will be Scaffolding for Next Gen Nanotech]]> The building blocks of life just got a little weirder. Natural DNA strands are also a favorite construction tool for nano-engineers because of its tendency for individual strands to automatically bind to one another, snapping into a range of useful shapes, like the famous double helix design. Now scientists at Arizona State University have taken things to the next level and created GNA (that's Glycerol Nucleic Acid). More heat-tolerant and able to twist in ways its natural cousin can't, scientists want to use GNA as a self-assembling scaffold for the nano-robots of the future. No word on the danger of GNA escaping from the lab and spawning a race of killer synthetic, self-assembling aliens. (from EurekAlert, image: TurboSquid)

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<![CDATA[The Ancient Apocalypse]]> Finally, a reason to think we'll survive the next apocalypse. Last week, a study that traced the origins of humans through mitochondrial DNA concluded that 70,000 years ago humanity underwent its greatest disaster ever. Africa experienced a massive drought at the time and it devastated our population, leaving perhaps as few as 2,000 people alive on the entire planet. Yet somehow we recovered — a warm thought for all the cold nights we spend dreading nuclear war, the next pandemic, dwindling water and food supplies, and global warming.

Today there are about 6.6 billion people on the planet and climbing fast (remember when we got to 6 billion...nine years ago??). It's hard to read the news and not come up with a laundry list of ways to destroy our civilization, if not all humanity.

So it's nice to know that humanity's a little more rugged than we thought. Here's what researchers from National Geographic Genographic Project had to say on the findings, which was published in the American Journal of Human Genetics:

Previous studies using mitochondrial DNA — which is passed down through mothers — have traced modern humans to a single ''mitochondrial Eve,'' who lived in Africa about 200,000 years ago.

The migrations of humans out of Africa to populate the rest of the world appear to have begun about 60,000 years ago, but little has been known about humans between Eve and that dispersal.

The new study looks at the mitochondrial DNA of the Khoi and San people in South Africa which appear to have diverged from other people between 90,000 and 150,000 years ago.

The researchers led by Doron Behar of Rambam Medical Center in Haifa, Israel and Saharon Rosset of IBM T.J. Watson Research Center in Yorktown Heights, N.Y., and Tel Aviv University concluded that humans separated into small populations prior to the Stone Age, when they came back together and began to increase in numbers and spread to other areas.

Eastern Africa experienced a series of severe droughts between 135,000 and 90,000 years ago and the researchers said this climatological shift may have contributed to the population changes, dividing into small, isolated groups which developed independently.

Paleontologist Meave Leakey, a Genographic adviser, commented: ''Who would have thought that as recently as 70,000 years ago, extremes of climate had reduced our population to such small numbers that we were on the very edge of extinction.''

Source: Associated Press, via PhysOrg

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<![CDATA[Splicers Goes Back to the Old Human-Animal Intermingling Formula]]> All those headlines about geneticists creating "chimeras" in the lab — mingling human and animal DNA for experiments — have finally spawned a new flick. But Splicers, coming out next year with stars Adrian Brody and Sarah Polley as beleaguered DNA mixers, isn't exactly the cool movie one might have hoped for.

Basically Brody and Polley create a human-animal hybrid creature that gets out of control. But we've been there, done that. Why not get really nasty, ala Bela Lugosi in 1930s shocker Murders in the Rue Morgue, and have our demented scientists trying to implant a naked lady with gorilla blood? (Yeah, the 30s were a crazy time.) Or how about going the more realistic route, dealing with what it would be like as a human-animal hybrid, with no civil rights due to that pesky nonhuman DNA? Sadly, Splicers will give us nothing more than another monster flick with a DNA twist. [Cinema Blend]

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<![CDATA[The Genetic History Of GATTACA]]> A collector's edition of GATTACA will be out in two weeks, and it's getting the full Blu-ray treatment from Sony. Maybe this box-office flop will finally get the respect that it deserves, especially now that we're getting closer and closer to being able to build superhumans. Find out more about the strange and awesome history of GATTACA below.

gattaca22.jpg


  • The film was originally supposed to the called The Eighth Day, but a Belgian film with that title forced the film-makers to change theirs. In the film, the center where Vincent's parents go to genetically engineer another baby is called "The Eighth Day." It's a reference to the biblical line "And on the Seventh Day, God rested." Presumably, on the eighth day, man started tinkering around on his own.

  • The production budget for the movie was $36 million, but it only grossed $12 million. Sadly, there is no genetic testing for a box office hit.

  • The film boasts a fairly impressive cast: Ethan Hawke, Uma Thurman, Jude Law, Alan Arkin, Ernest Borgnine, Loren Dean and Gore Vidal.

  • Jude Law's character Jerome starts referring to himself as his middle name, Eugene. Perhaps a sly reference to eugenics.

  • Uma Thurman's character is named Irene Cassini after the 17th century Italian astronomer. He discovered the gap in Saturn's rings, along with several of its moons.

  • They didn't have a large budget for the futuristic look and feel of the movie, so they modeled the "near future" after the past. Men wear dark suits with fedoras, women wear form-fitting dresses, cars are retro models, like Vincent's 1963 Studebaker Avanti, outfitted with electric engines (just an electric whine on the soundtrack).

  • The government agents/detectives in the film are called "Hoovers," not only as a nod to J. Edgar Hoover, but to the fact that they vacuum up hair and skin cells when they collect evidence.

  • When promoting the movie, Sony placed fake ads in newspapers around the country offering "Children made to order." The ads looked so real that they got thousands of phone calls, and The American Society for Reproductive Medicine asked Sony to change them to make it clear they were fake advertisements.

  • Sony knew the film would be under close scrutiny from scientists, so they hired human-gene-therapy researcher French Anderson as a science consultant, and had test screenings for The Society of Mammalian Cell Biologists.

  • Scientists seemed to love the movie for the most part. In fact molecular biologist Lee M. Silver said "Gattaca is a film that all geneticists should see if for no other reason than to understand the perception of our trade held by so many of the public-at-large." Too bad there weren't a ton of geneticists hitting the theaters back then.

  • Bioethicist James Hughes wasn't so fond of the movie, however. His book Citizen Cyborg: Why Democratic Societies Must Respond to the Redesigned Human of the Future railed against the genetic testing in the movie.

  • The original ending of the film featured images of people who may have never been born if we'd had genetic testing: people like Albert Einstein (dyslexia) , Abraham Lincoln (Marfan syndrome), Jackie Joyner-Kersee (asthma) and John F. Kennedy (Addison's disease) were shown over a background of stars with their afflictions listed. It then ends with the statement "Of course, the other birth that may never have taken place is your own." People in test screenings said it made them feel inadequate.

  • As a lesson in the DNA-uninformed (like me), the tile of the film comes from the four DNA bases: Adenosine, Guanosine, Thymine, and Cytosine. They sometimes line up to form GATTACA in a DNA sequence.

  • The announcements that come over the PA system in the Gattaca building are in Esperanto.

  • Frank Lloyd Wright's futuristic Marin County Civic Center was used as the exterior of the Gattaca building. It's got that sort of hipster-50s retro cool look. It was also used extensively in George Lucas' THX-1138.
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