Six Degrees of Separation Study was a Fraud

OH NOES!

Two Sides to Every Midnight Tale

pretty much everyone knows the theory of Six Degrees of Separation: That everyone in the world somehow connected through a chain of six people. What most people don’t know is, the results from the study that supposedly proved the theory were actually bogus …

The phrase “Six Degrees of Separation” was coined by Stanley Milgram — the famous and largely controversial social psychologist who originally conducted the Milgram Shock Experiment, examining people’s obedience to authority by testing how many would administer potentially lethal electric shocks to screaming victims (a study that oddly just repeated his research).

For his Six Degrees of Separation study, Milgram asked people to give a letter to other people they knew by name, then he tracked how long it took for each letter to end up in the hands of a person the original sender didn’t know in another city. He reported that the average number of people it took to get from the sender to an unknown person was six. Hence, the phrase “six degrees of separation.” But apparently no one ever bothered to look into his data, until now:

Judith Kleinfeld, a professor psychology at Alaska Fairbanks University, went back to Milgram’s original research notes and found something surprising. It turned out, she told us, that 95% of the letters sent out had failed to reach the target. Not only did they fail to get there in six steps, they failed to get there at all. Milgram was a giant figure in his world of research, but here was evidence that the claim he was famously associated with was not supported by his experiments.

[From Culture Dish : Famous Six Degrees of Separation Study was a Fraud]

I guess I’m not really six degrees from Kevin Bacon. How will I sleep now?

Hospital Scrubs a Deadly Mess

I see people walking around in public in scrubs all the time – next time, I’m going to bring this up:

scrubs

You see them everywhere — nurses, doctors and medical technicians in scrubs or lab coats. They shop in them, take buses and trains in them, go to restaurants in them, and wear them home. What you can’t see on these garments are the bacteria that could kill you.

Dirty scrubs spread bacteria to patients in the hospital and allow hospital superbugs to escape into public places such as restaurants. Some hospitals now prohibit wearing scrubs outside the building, partly in response to the rapid increase in an infection called “C. diff.” A national hospital survey released last November warns that Clostridium difficile (C. diff) infections are sickening nearly half a million people a year in the U.S., more than six times previous estimates.

The problem is that some medical personnel wear the same unlaundered uniforms to work day after day. They start their shift already carrying germs such as C.diff, drug-resistant enterococcus or staphylococcus. Doctors’ lab coats are probably the dirtiest. At the University of Maryland, 65% of medical personnel confess they change their lab coat less than once a week, though they know it’s contaminated. Fifteen percent admit they change it less than once a month. Superbugs such as staph can live on these polyester coats for up to 56 days.

[Click to continue reading Opinion: Hospital Scrubs’ Deadly Mess – WSJ.com]

Lactic Acid Found To Fuel Tumors

A story that merits close attention: both for how the research will be reported in tomorrow’s newspapers, and how the scientific community reacts.

A team of researchers at Duke University Medical Center and the Université catholique de Louvain (UCL) has found that lactic acid is an important energy source for tumor cells. In further experiments, they discovered a new way to destroy the most hard-to-kill, dangerous tumor cells by preventing them from delivering lactic acid.

Many tumors have cells that burn fuel for activities in different ways. Tumor cells near blood vessels have adequate oxygen sources and can either burn glucose like normal cells, or lactic acid (lactate). Tumor cells further from vessels are hypoxic and inefficiently burn a lot of glucose to keep going. In turn, they produce lactate as a waste product.

Tumor cells with good oxygen supply actually prefer to burn lactate, which frees up glucose to be used by the less-oxygenated cells. But when the researchers cut off the cells’ ability to use lactate, the hypoxic cells didn’t get as much glucose.

For the dangerous hypoxic cells, “it is glucose or death,” said Pierre Sonveaux, professor in the UCL Unit of Pharmacology & Therapeutics and lead author of the study, published in the Nov. 20 online edition of the Journal of Clinical Investigation. ….

The next challenge was to discover how lactate moved into tumor cells. Because lactate recycling exists in exercising muscle to prevent cramps, the researchers imagined that the same molecular machinery could be used by tumor cells. “We discovered that a transporter protein of muscle origin, MCT1, was also present in respiring tumor cells,” said Dewhirst. The team used chemical inhibitors of MCT1 and cell models in which MCT1 had been deleted to learn its role in delivering lactate. “We not only proved that MCT1 was important, we formally demonstrated that MCT1 was unique for mediating lactate uptake,” said Professor Olivier Feron of the UCL Unit of Pharmacology & Therapeutics.

Blocking MCT1 did not kill the oxygenated cells, but it nudged their metabolism toward inefficiently burning glucose. Because the glucose was used more abundantly by the better-oxygenated cells, they used up most of the glucose before it could reach the hypoxic cells, which starved while waiting in vain for glucose to arrive. “This finding is really exciting,” Dewhirst said. “The idea of starving hypoxic cells to death is completely novel.”

[Continue reading: Lactic Acid Found To Fuel Tumors]

Very interesting stuff.

The Body as Bacterial Landlord

Robert Lee Hotz has written an extremely fascinating look at our bacterial over-lords. If I wasn’t so busy, I’d love to create a treatment of this concept for a possible sci-fi thriller. Or something. Too interesting not to research further.

When scientists discovered that bacteria, not stress, caused most stomach ulcers, the insight overturned a century of medical dogma, transformed clinical practice and garnered a 2005 Nobel Prize for the two researchers who made the connection so many others had missed. After people adopted antibiotics to treat gastric distress, though, microbiologist Martin Blaser and his colleagues at New York University began to document an odd medical trend.

Ulcers did drop dramatically, as expected. So did the incidence of stomach cancer. As the bacteria, called Helicobacter pylori, virtually disappeared among children, however, cases of asthma tripled. So did rates of hay fever and allergies, such as eczema. Among adults, gastric reflux disease became more common, as did some forms of esophageal cancer, researchers noted.

To Dr. Blaser’s way of thinking, antibiotics and other sanitation measures are eliminating the harm these bacteria cause at the expense of the protection they provide us.

The human body teems with so many microbes that they outnumber our own cells ten to one. Vast schools of bacteria are in us and around us, like fish nuzzling a coral reef. “They are not simply along for the ride,” says Stanford University microbiologist David Relman. “They are interacting with us.”

Yet almost all of them are still unknown to science, since most cannot be grown and studied in the laboratory. In ways mysterious to medicine, this microbial menagerie of fellow travelers in and on us is controlling our health, affecting obesity, cancer and heart disease, among others.

[From The Body as Bacterial Landlord – WSJ.com]

Our constant interference with the body through use of anti-biotics has real consequences:

…As many as 500 species of bacteria may inhabit our guts, like H.pylori. Maybe 500 or so other species make themselves at home in our mouth, where each tooth has its own unique bacterial colony, Dr. Relman recently determined. No one knows how many species we contain in all. This past August, researchers at Kings College London identified yet another new species of oral bacteria between the tongue and cheek.

Until recently, half of humanity harbored these H. pylori stomach bacteria, according to a 2002 study in the New England Journal of Medicine. Indeed, we appear to have evolved together. Among those born in the U.S. during the 1990s, however, only 5% or so still carry these microbes, largely due to the indiscriminate use of antibiotics.

After analyzing health records of 7,412 people collected by the National Center for Health Statistics, Dr. Blaser and NYU epidemiologist Yu Chen reported this summer in the Journal of Infectious Diseases that children between three and 13 years old who tested positive for H. pylori bacteria were 59% less likely to have asthma. They also were 40% to 60% less likely to have hay fever or rashes.

Bacteria has evolved for billions of years, and is now an essential part of the human body

Last week, University of Chicago immunologist Alexander Chervonsky and his collaborators at Yale University reported that doses of the right stomach bacteria can stop the development of Type 1 diabetes in lab mice.

“By changing who is living in our guts, we can prevent Type 1 diabetes,” Dr. Chervonsky says.

Other bacteria are just as crucial to our well-being, feeding us the calories from food we can’t digest on our own, bolstering our immune systems, tending our skin and dosing us with vitamins, such as B-6 and B-12, which we are unable to synthesize unaided.

And there is work being done attempting to categorize the bacteria, and figure out what exactly each contributes to our body:

For the first time, researchers are attempting to identify and analyze the types of bacteria that live within us, in an effort that makes the Human Genome Project look like child’s play. Instead of sequencing the genes of one microbe at a time, researchers in a five-year, $125 million NIH effort called the Human Microbiome Project are analyzing entire communities of mixed bacteria at once, in a technique called metagenomics.

To start, researchers at the Baylor College of Medicine in Houston, the Washington University School of Medicine in St. Louis, the Broad Institute in Cambridge, Mass., and the J. Craig Venter Institute in Rockville, Md., are sequencing the genomes of 200 microbe species isolated from 250 healthy volunteers. They are sampling bacteria from the skin, gut, vagina, mouth and nose, then attempting to identify them by cataloging variations in a single gene sequence that all bacteria share.

If I was in school right now, this might be a very tempting field to enter.
[Digg-enabled access to full article via this link]

Evolution and Fat

Apparently, since for most of human history, famine was a bigger concern than feast, our bodies have evolved to maintain a certain weight, making losing weight more difficult than simple caloric reduction and/or exercise, and making it much harder to lose weight once you’ve gained it. Anecdotally, we’ve known this to be true, but now there is some scientific data to support what our bodies have been telling us.

“Loosely put, after you’ve lost weight, you have more of an emotional response to food and less ability to control that response,” says Michael Rosenbaum, lead author of the study in this month’s Journal of Clinical Investigation.

The key driver of this system is leptin, a hormone secreted by fat cells. When humans… lose 10% or more of their body weight, leptin falls rapidly and sets off a cascade of physiological changes that act to put weight back on. Skeletal muscles work more efficiently, thyroid and other hormones are reduced — all so the body burns 15% to 20% fewer calories, enough to put back 25 pounds or more a year.

This mechanism kicks in whether people are obese or relatively lean before losing weight — and researchers believe the effect can last for years. In previous studies, giving subjects replacement leptin reversed the metabolic changes, in effect tricking the body into ignoring the weight loss.

The latest study shows that these metabolic changes are mirrored in altered brain activity when people lose weight. The Columbia researchers put six obese subjects on liquid diets and reduced their weight by 10%, then gave them replacement leptin or a placebo. At each stage, researchers observed their brain activity using functional MRIs when they were shown food and non-food items.

The scans showed that in the weight-reduced state, the subjects had more blood flow in areas of the brain that govern emotional and sensory responses to food and less in areas involving control of food intake. When the subjects were given replacement leptin, brain activity returned to what it had been before they lost weight.

[From Can’t Keep the Weight Off? Maybe Leptin Is the Culprit – WSJ.com]

Not that keeping weight off is impossible, just it takes more willpower than you’d think.

Suron Salad

[You don’t win friends with salad, unless it is really good, like this from Cafe Suron, on Pratt, Rogers Park, Chicago]

[Non-WSJ subscribers can use this link to read the entire article]

Red Wine May Slow Aging

Breakfast drinks self-portrait
[Breakfast drinks self-portrait – click to embiggen]

Is it too early to have a sip? I could pretend we lived in 17th C.E. France…

Red wine may be much more potent than was thought in extending human lifespan, researchers say in a new report that is likely to give impetus to the rapidly growing search for longevity drugs.

The study is based on dosing mice with resveratrol, an ingredient of some red wines. Some scientists are already taking resveratrol in capsule form, but others believe it is far too early to take the drug, especially using wine as its source, until there is better data on its safety and effectiveness.

[From New Hints Seen That Red Wine May Slow Aging – NYTimes.com]

What every meal needs
[What every meal needs – click to embiggen]

Far too early to take in drug form, but not too early to drink red wine in its natural state – a glass on the way to my mouth!

Oh wait, there isn’t much resveratrol in each glass:

the door has now been opened to drugs that exploit an ancient biological survival mechanism, that of switching the body’s resources from fertility to tissue maintenance. The improved tissue maintenance seems to extend life by cutting down on the degenerative diseases of aging.

The reflex can be prompted by a faminelike diet, known as caloric restriction, which extends the life of laboratory rodents by up to 30 percent but is far too hard for most people to keep to and in any case has not been proven to work in humans.

Research started nearly 20 years ago by Dr. Leonard Guarente of the Massachusetts Institute of Technology showed recently that the famine-induced switch to tissue preservation might be triggered by activating the body’s sirtuins. Dr. Sinclair, a former student of Dr. Guarente, then found in 2003 that sirtuins could be activated by some natural compounds, including resveratrol, previously known as just an ingredient of certain red wines.

Dr. Sinclair’s finding led in several directions. He and others have tested resveratrol’s effects in mice, mostly at doses far higher than the minuscule amounts in red wine. One of the more spectacular results was obtained last year by Dr. John Auwerx of the Institute of Genetics and Molecular and Cellular Biology in Illkirch, France. He showed that resveratrol could turn plain vanilla, couch-potato mice into champion athletes, making them run twice as far on a treadmill before collapsing.

Seriously, even I would be challenged if I had to drink 100 bottles of wine a day. However, a glass or two? No problem, no problem at all. Clinical trials always start from a higher dosage – easier to see results that way – and then work back down to lesser dosages.

Separately from Sirtris’s investigations, a research team led by Tomas A. Prolla and Richard Weindruch, of the University of Wisconsin, reports in the journal PLoS One on Wednesday that resveratrol may be effective in mice and people in much lower doses than previously thought necessary. In earlier studies, like Dr. Auwerx’s of mice on treadmills, the animals were fed such large amounts of resveratrol that to gain equivalent dosages people would have to drink more than 100 bottles of red wine a day.

The Wisconsin scientists used a dose on mice equivalent to just 35 bottles a day. But red wine contains many other resveratrol-like compounds that may also be beneficial. Taking these into account, as well as mice’s higher metabolic rate, a mere four, five-ounce glasses of wine “starts getting close” to the amount of resveratrol they found effective, Dr. Weindruch said.

Ode to Dionysus
[Ode to Dionysus – click to embiggen]

Sex Life of the Giant Squid

A recently caught giant squid in Australia [click to embiggen, if you dare!]

As a sort of addendum to a previous post, the odd sex life of a giant squid is titillating scientists.

Group sex
He says the reproductive habits of giant squids are particularly interesting and will be the focus of much study.

“[We will look at] whether it has been mated or not. Whether it is a male or female.

“Giants have very strange sexual behaviour where the male has a metre-long muscular penis that he uses a bit like a nail gun and shoots cords of sperm under the skin of the female’s arms and she carries the sperm around with her until she is ready to lay her big jelly mass of a million eggs.

“[We want to find out[ whether they gather somewhere together to mass-breed.

“If we get some sperm out of the arms of this animal then we can do paternity studies and see if was multiple males that are mating with her or single males.

[From Scientists probe giant squid sex secrets – ABC News (Australian Broadcasting Corporation)]

Everyone gets excited about different things, glad someone can drool over discovering a massive muscular penis.

Healing Herbs

Since I am lucky enough to have an in-house herbalist, I’ve been dosing myself with vitamins and herbs to help my injuries heal. I found this page which echoes most of the same treatment advice. Even if the science is unclear, or incomplete, I’d still take the supplements. At worst, I excrete the excess, without harm. More likely, the herbs/vitamins will reduce my recovery time as they seem to be doing.

This pill is expensive (well, unless you break it down by pill), but surprisingly tasty.


“Naturally Vitamins – Wobenzym N 800 Tablets” (Naturally Vitamins (Marlyn Nutraceuticals))

 


“Solaray – Vitamin C, 90 Capsules, 800 mg” (Solaray)

I prefer non-acidic C so there are no repercussions with digestion.

 


“Solaray – Optizinc, 30 mg, 60 capsules” (Solaray)

 

Proteolytic enzymes, including bromelain, papain, trypsin, and chymotrypsin, may be helpful in healing minor injuries such as sprains and strains because they have anti-inflammatory activity and appear to promote tissue healing.

Several preliminary trials have reported reduced pain and swelling, and/or faster healing in people with a variety of conditions using either bromelain,5 papain from papaya, or a combination of trypsin and chymotrypsin. Double-blind trials have reported faster recovery from athletic injuries, including sprains and strains, and earlier return to activity using eight tablets daily of trypsin/chymotrypsin, four to eight tablets daily of papain, eight tablets of bromelain (single-blind only), or a combination of these enzymes.…

Bromelain is measured in MCUs (milk clotting units) or GDUs (gelatin dissolving units). One GDU equals 1.5 MCU. Strong products contain at least 2,000 MCU (1,333 GDU) per gram (1,000 mg). A supplement containing 500 mg labeled “2,000 MCU per gram” would have 1,000 MCU of activity, because 500 mg is half a gram. Some doctors recommend 3,000 MCU taken three times per day for several days, followed by 2,000 MCU three times per day. Some of the research, however, uses smaller amounts, such as 2,000 MCU taken in divided amounts in the course of a day (500 MCU taken four times per day). Other enzyme preparations, such as trypsin/chymotrypsin, have different measuring units. Recommended use is typically two tablets four times per day on an empty stomach, but as with bromelain, the strength of trypsin/chymotrypsin tablets can vary significantly from product to product.

One controlled trial showed that people who supplement with 3 grams per day L-carnitine for three weeks before engaging in an exercise regimen are less likely to experience muscle soreness.

Antioxidant supplements, including vitamin C and vitamin E, may help prevent exercise-related muscle injuries by neutralizing free radicals produced during strenuous activities. Controlled research, some of it double-blind, has shown that 400-3,000 mg per day of vitamin C may reduce pain and speed up muscle strength recovery after intense exercise. Reductions in blood indicators of muscle damage and free radical activity have also been reported for supplementation with 400-1,200 IU per day of vitamin E in most studies, but no measurable benefits in exercise recovery have been reported. …

Vitamin C is needed to make collagen, the “glue” that strengthens connective tissue. Injury, at least when severe, appears to increase vitamin C requirements, and vitamin C deficiency causes delayed healing from injury. Preliminary human studies have suggested that vitamin C supplementation in non-deficient people can speed healing of various types of trauma, including musculoskeletal injuries, but double-blind research has not confirmed these effects for athletic injuries, which included sprains and strains.

Zinc is a component of many enzymes, including some that are needed to repair wounds. Even a mild deficiency of zinc can interfere with optimal recovery from everyday tissue damage as well as from more serious trauma. Trace minerals, such as manganese, copper, and silicon are also known to be important in the biochemistry of tissue healing.

[From Sprains and Strains – [Alternative Medicine]]

(click for the cited research).
Reminds me, I should pick up a pineapple or two, those suckers are high in proteolytic enzymes.

Natural Mug

Circadian Riddems and Spare Tires

Ahh, now it makes sense why my waist size went from 28 to, umm, something larger.

For some people, packing on unwanted pounds might have more to do with the functioning of their internal body clocks than with willpower.

Researchers from Northwestern University and Evanston Northwestern Healthcare have been studying how a faulty circadian clock, which regulates different parts of the body, including the mechanisms that control sleep and hunger, can damage the metabolism thus raising the risk for obesity and diabetes.

[From Researchers: Faulty body clock may lead to obesity, diabetes — chicagotribune.com]

snip

So far, 32 epidemiological studies have shown an association between inadequate sleep and higher body-mass index, a measure of overweight, said Dr. Eve Van Cauter, a professor of medicine at the University of Chicago. Van Cauter studies the effect of circadian rhythms on the endocrine system.

Van Cauter and her colleagues have published two studies examining the effects of short-term sleep restriction in young, healthy, lean adults. They found that individuals experienced different levels of hunger and satiety, depending on how much sleep they got.

“Leptin, an important hormone regulating appetite, is disturbed by sleep deprivation and no longer determines caloric need accurately,” Van Cauter said.

In one study, sleep-deprived subjects were asked to rate their hunger for certain foods. Not only were they hungrier, they had a higher appetite for starchy, sweet and other high-carbohydrate foods.

“They did not have a need for food based on their energy expenditure, but they nevertheless felt more hunger,” Van Cauter said.

On a related target, we have started using a device that is supposed to re-calibrate one’s circadian rhythms using the blue light part of the spectrum.


“Philips GoLite P1 Blue Spectrum Light Therapy Device” (Philips Respironics)

Winter blues got you down? Boost your mood, energy, and sleep with a blue-spectrum light therapy device from Apollo Health. For years the world’s leading light therapy researchers and doctors have known that full-spectrum, 10,000 lux light boxes can be very effective at treating seasonal affective disorder (SAD) and other circadian rhythm related mood disorders. But there is something new in store for light therapy: blue spectrum. If you or a loved one is affected by these type of disorders, the Apollo Health GoLite P1 Blue Spectrum Light Therapy Device may help easy your suffering and improve your life.

Widely acclaimed as the best-selling, most-recommended manufacturer of 10,000 lux light therapy boxes, Apollo Health has taken a technological step forward with the GoLite P1. Recently, researchers have discovered that a very specific range of blue light is, in fact, the most effective color (wavelength) in treating these disorders. After years of research, Apollo has released this patent-pending product that delivers only the most effective blue spectrum light. Utilizing only the most effective wavelengths, the GoLite P1 provides a more convenient treatment, and fewer side effects than traditional 10,000 lux full-spectrum light therapy devices.

The patent-pending Bluewave technology is the result of 10 years of research with medical universities and the National Institutes of Health (NIH). Although other companies may tout the benefits of this new research, only Apollo Health participated in the actual trials. In fact, Apollo is the only company to produce lights that provide 100 percent of the effective blue light spectrum. Bluewave is the most important because it provides a higher effective response than most full spectrum light at one-tenth the intensity of a regular 10,000 lux light therapy device. This means light therapy is not only convenient, but easier on the eyes with fewer side effects. Because Bluewave is so effective, all of the Apollo Health Britewave products have also been upgraded with the new technology. It is clear: Bluewave is the light therapy technology of the future.

Apollo Health recommends keeping the GoLite P1 at 20-22 inches from your face. Once you are comfortable with using the device, you’ll be ready to take advantage of the GoLite P1’s fully programmable interface and advanced features. This light therapy device is equipped with an adjustable treatment timer with an automatic shut-down, a protective flip cover, long-lasting eye-safe LEDs, and an anti-glare diffuser lens. After you’ve established your personalized treatment schedule, the GoLite P1 will remember your personal settings. For your convenience, the GoLite P1 has a built-in clock and a backlit digital LCD display. And as the world’s smallest light therapy device, the GoLite P1 weights less than one pound. This device is UL, CUL, and CE safety listed, EMF-free, UV-free, and comes equipped with a two-year limited warranty.

There’s also a version with a battery, which might find its way to our office soon. We have definitely noticed a positive difference in our moods and energy since using the light. I read the paper and drink coffee, and don’t even really notice that it is on.


“Apollo Health GoLite M2 Blue Spectrum Light Therapy Device” (Apollo Health)

More Plastic Water Bottle Blues

Do Not Attempt This At Home

That’s it, I’m sticking with beer, wine and Jameson’s from now on…..

Alina Tugend writes:

The type of plastic bottle that typically holds water, soda and juice is made from polyethylene terephthalate, a petroleum-based material also known as PET that is labeled No. 1.

The trouble with reusing those plastic bottles is that each time they are washed and refilled they become a little more scratched and crinkly, which can lead them to degrade. That can cause a trace metal called antimony to leach out, said Frederick S. vom Saal, a professor of biology at the University of Missouri who has studied plastics for years.

[snip]

But perhaps a better alternative — in terms of health and the environment — is to use the hard plastic bottles made with polycarbonate plastic, often known by the brand Nalgene. It has the numeral 7 stamped at the bottom and is the same type of material used to make some baby bottles, the lining of tin cans and other products. I have some of those around the house. They are just too big to fit into our car cup holders so I retired them to the basement.

Time to dig them out?

Not quite. Environmental groups and some scientists have raised concern that such plastic can leach bisphenol A, an endocrine-disrupting chemical.

[Click to read more of The (Possible) Perils of Being Thirsty While Being Green – New York Times]

Which plastic bottle to use then? Can’t always count on having the


“Sigg Samurai Spirit Water Bottle” (Sigg)

“If I was to use plastic, I would stay with No. 2 and No. 5,” Professor vom Saal said. No. 2 is high-density polyethylene; No. 5 is polypropylene. Both are used in margarine tubs and yogurt containers for example.

But, he warned, do not heat anything in any type of plastic in the microwave.

If you do use these hard No. 7 plastic bottles, the Green Guide, published by the National Geographic Society, advises you to avoid washing them in a dishwasher or with harsh detergent to limit wear and tear.

Bush Censors Climate Reports

Speaking about Bush crony-corruption (aren’t we always?), climate change science also was a target of the heavy hand of the Assministration. Following the Bush playbook, oil industry hacks were placed in positions of authority, and manipulated every bit of data they could to obfuscate global warming reports.

Helios is Benevolent

Chris Mooney has more, as does the LA Times:

Congressional hearing heats up over changes to climate reports – Los Angeles Times


Government scientists, armed with copies of heavily edited reports, charged Monday that the Bush administration and its political appointees had soft-pedaled their findings on climate change.The accusations led Democrats and Republicans at the congressional hearing to accuse each other of censorship, smear tactics and McCarthyism.

To underscore their charges of the administration’s oil-friendly stance, Democrats grilled an oil lobbyist who was hired by the White House to review government climate change documents and who made hundreds of edits that the lawmakers said minimized the impact of global warming.“You were a spin doctor,” Rep. John A. Yarmuth (D-Ky) told the lobbyist.

Henry Waxman is doing his job well:

The House Committee on Oversight and Government Reform hearing was marked by an open confrontation between Chairman Henry A. Waxman (D-Los Angeles) and the ranking Republican, Rep. Darrell Issa (R-Vista) — a rare display of direct debate in otherwise carefully choreographed hearings.

The hearing was the latest effort to challenge what the Democratic congressional majority sees as the Bush administration’s unchecked use of power. In the past few weeks, Democrats have held inquiries or announced plans to examine the unmonitored use of national security letters that allow the government to spy on Americans, the dismissal of U.S. attorneys and the identifying of former covert CIA operative Valerie Plame, among other issues.

Waxman has been particularly aggressive, pursuing inquiries about intelligence in the lead-up to the Iraq war and the politics of global warming.

To support their charges Monday, the Democrats produced hundreds of pages of legal depositions, exhibits and e-mail exchanges between administration officials. The paper trail illustrated how officials with no scientific training shaped the administration’s climate change message and edited global warming reports, inserting doubt in the place of definitive statements and diminishing the role people play in the planet’s rising temperatures.

Waxman’s committee received more than eight boxes of papers from the White House Council on Environmental Quality that he said provided disturbing indications of political interference.

“There may have been a concerted effort directed by the White House to mislead the public about the dangers of global climate change,” said Waxman, who also cited the administration practice of “controlling what federal scientists could say to the public and the media about their work.”

“It would be a serious abuse if senior White House officials deliberately tried to defuse calls for action by ensuring that the public heard a distorted message about the risks of climate change,” Waxman said.

Continue reading “Bush Censors Climate Reports”

I Am Haplogroup R1B

I don’t think I ever posted the results of my DNA swab, as described here. Briefly, the National Geographic Society is conducting a rather large study, attempting to map out human history via DNA swabs. Comparatively wealthy citizens of the world pay $100 for their samples, in order to underwrite the collection efforts for less wealthy areas of the world.

Haplogroup R1B M343

Unfortunately, the cool stuff is a Flash file, hidden for participants only, including art samples of Upper Paleolithic man, explanation of the migration to England which my ancestors apparently did, etc. Very cool stuff. Here is what I’ve managed to extract.

How to Interpret Your Results Above are results from the laboratory analysis of your Y-chromosome. Your DNA was analyzed for Short Tandem Repeats (STRs), which are repeating segments of your genome that have a high mutation rate. The location on the Y chromosome of each of these markers is depicted in the image, with the number of repeats for each of your STRs presented to the right of the marker. For example, DYS19 is a repeat of TAGA, so if your DNA repeated that sequence 12 times at that location, it would appear: DYS19 12. Studying the combination of these STR lengths in your Y Chromosome allows researchers to place you in a haplogroup, which reveals the complex migratory journeys of your ancestors. Y-SNP: In the event that the analysis of your STRs was inconclusive, your Y chromosome was also tested for the presence of an informative Single Nucleotide Polymorphism (SNP). These are mutational changes in a single nucleotide base, and allow researchers to definitively place you in a genetic haplogroup.

DNA migration Map
DNA migration Map

Entire migratory history below ‘the fold’. Some of it is beyond my understanding, but it is still fascinating.

 

Haplogroup K M9
Haplogroup K M9

Haplogroup P M45
Haplogroup P M45

Haplogroup R1 M173
Haplogroup R1 M173

Haplogroup R1B M343
Haplogroup R1B M343

 

12 Market Y DNA 2
12 Market Y DNA 2

My immediate ancestry

 

12 Market YDNA
12 Market YDNA

 

 

Your Y chromosome results identify you as a member of haplogroup R1b, a lineage defined by a genetic marker called M343. This haplogroup is the final destination of a genetic journey that began some 60,000 years ago with an ancient Y chromosome marker called M168. The very widely dispersed M168 marker can be traced to a single individual—“Eurasian Adam.” This African man, who lived some 31,000 to 79,000 years ago, is the common ancestor of every non-African person living today. His descendants migrated out of Africa and became the only lineage to survive away from humanity’s home continent.

 

Population growth during the Upper Paleolithic era may have spurred the M168 lineage to seek new hunting grounds for the plains animals crucial to their survival. A period of moist and favorable climate had expanded the ranges of such animals at this time, so these nomadic peoples may have simply followed their food source.

Improved tools and rudimentary art appeared during this same epoch, suggesting significant mental and behavioral changes. These shifts may have been spurred by a genetic mutation that gave “Eurasian Adam’s” descendants a cognitive advantage over other contemporary, but now extinct, human lineages.

Some 90 to 95 percent of all non-Africans are descendants of the second great human migration out of Africa, which is defined by the marker M89.

M89 first appeared 45,000 years ago in Northern Africa or the Middle East. It arose on the original lineage (M168) of “Eurasian Adam,” and defines a large inland migration of hunters who followed expanding grasslands and plentiful game to the Middle East.

Many people of this lineage remained in the Middle East, but others continued their movement and followed the grasslands through Iran to the vast steppes of Central Asia. Herds of buffalo, antelope, woolly mammoths, and other game probably enticed them to explore new grasslands.

With much of Earth’s water frozen in massive ice sheets, the era’s vast steppes stretched from eastern France to Korea. The grassland hunters of the M89 lineage traveled both east and west along this steppe “superhighway” and eventually peopled much of the continent.

A group of M89 descendants moved north from the Middle East to Anatolia and the Balkans, trading familiar grasslands for forests and high country. Though their numbers were likely small, genetic traces of their journey are still found today.

Some 40,000 years ago a man in Iran or southern Central Asia was born with a unique genetic marker known as M9, which marked a new lineage diverging from the M89 group. His descendants spent the next 30,000 years populating much of the planet.

Most residents of the Northern Hemisphere trace their roots to this unique individual, and carry his defining marker. Nearly all North Americans and East Asians have the M9 marker, as do most Europeans and many Indians. The haplogroup defined by M9, K, is known as the Eurasian Clan.

This large lineage dispersed gradually. Seasoned hunters followed the herds ever eastward, along a vast belt of Eurasian steppe, until the massive mountain ranges of south central Asia blocked their path.

The Hindu Kush, Tian Shan, and Himalaya, even more formidable during the era’s ice age, divided eastward migrations. These migrations through the “Pamir Knot” region would subsequently become defined by additional genetic markers.

The marker M45 first appeared about 35,000 to 40,000 years ago in a man who became the common ancestor of most Europeans and nearly all Native Americans. This unique individual was part of the M9 lineage, which was moving to the north of the mountainous Hindu Kush and onto the game-rich steppes of Kazakhstan, Uzbekistan, and southern Siberia.

The M45 lineage survived on these northern steppes even in the frigid Ice Age climate. While big game was plentiful, these resourceful hunters had to adapt their behavior to an increasingly hostile environment. They erected animal skin shelters and sewed weathertight clothing. They also refined the flint heads on their weapons to compensate for the scarcity of obsidian and other materials.

The intelligence that allowed this lineage to adapt and thrive in harsh conditions was critical to human survival in a region where no other hominids are known to have survived.

Members of haplogroup R are descendents of Europe’s first large-scale human settlers. The lineage is defined by Y chromosome marker M173, which shows a westward journey of M45-carrying Central Asian steppe hunters.

The descendents of M173 arrived in Europe around 35,000 years ago and immediately began to make their own dramatic mark on the continent. Famous cave paintings, like those of Lascaux and Chauvet, signal the sudden arrival of humans with artistic skill. There are no artistic precedents or precursors to their appearance.

Soon after this lineage’s arrival in Europe, the era of the Neandertals came to a close. Genetic evidence proves that these hominids were not human ancestors but an evolutionary dead end. Smarter, more resourceful human descendents of M173 likely outcompeted Neandertals for scarce Ice Age resources and thus heralded their demise.

The long journey of this lineage was further shaped by the preponderance of ice at this time. Humans were forced to southern refuges in Spain, Italy, and the Balkans. Years later, as the ice retreated, they moved north out of these isolated refuges and left an enduring, concentrated trail of the M173 marker in their wake.

Today, for example, the marker’s frequency remains very high in northern France and the British Isles—where it was carried by M173 descendents who had weathered the Ice Age in Spain.

Members of haplogroup R1b, defined by M343 are the direct descendents of Europe’s first modern humans—known as the Cro-Magnon people.

Cro-Magnons arrived in Europe some 35,000 years ago, during a time when Neandertals still lived in the region. M343-carrying peoples made woven clothing and constructed huts to withstand the frigid climes of the Upper Paleolithic era. They used relatively advanced tools of stone, bone, and ivory. Jewelry, carvings, and intricate, colorful cave paintings bear witness to the Cro Magnons’ surprisingly advanced culture during the last glacial age.

When the ice retreated genetically homogenous groups recolonized the north, where they are still found in high frequencies. Some 70 percent of men in southern England are R1b. In parts of Spain and Ireland that number exceeds 90 percent.

There are many sublineages within R1b that are yet to be defined. The Genographic Project hopes to bring future clarity to the disparate parts of this distinctive European lineage.

 

 

Track Your Kit

Door

The next step of our DNA samples has been completed:

Track Your Kit – The Genographic Project:
DNA ANALYSIS AND QUALITY CONTROL
The samples are transferred into PCR amplification plates for testing using a robotic liquid handling station. The appropriate chemicals are added to the samples to amplify the targeted regions of the DNA for testing. The samples are heated and cooled in a thermal cycler in order to run the PCR amplification. The PCR amplification products are loaded into the capillary electrophoresis machine and the products are sorted by size and color.
A laboratory staff member uses a computer program to assign scores to the samples. The computer generated scores are then reviewed by two additional laboratory staff members to produce finalized data.

The Great Genographic Project

Venetian Night

Our DNA samples have moved to the next step in the Genographic Project….

Track Your Kit – The Genographic Project:
DNA ISOLATION
The cells are broken open by incubation with a protein-cutting enzyme overnight. Chemicals and the samples are transferred into deep well blocks for robotic DNA isolation. The blocks of chemicals and samples are placed on the extraction robot. The robotic DNA isolation uses silica-coated iron beads. In the presence of the appropriate chemicals DNA will bind to silica. The robot then uses magnetic probes to collect the beads (and DNA) and transfer them through several chemical washes and finally into a storage buffer, which allows the beads to release the DNA. At this point the beads are collected and discarded.

Track Your Kit – The Genographic Project

Tall statue aka Our Onion-headed Overlords

Our DNA has made it to Houston, and is currently being isolated.

Track Your Kit – The Genographic Project:
ARRIVAL AND BATCH CREATION
The kits are received at the Houston office of Family Tree DNA and checked in. All of the kits are assigned to a batch and shipped to the Arizona Research Labs at the University of Arizona. The samples are received at the university and the orders are transferred to a computer system. The computer sorts the orders and assigns each sample to a specific location in one of many sample grids As the barcodes on the samples are read the computer directs the researchers where to place each sample (which tray and which coordinates).