Autoimmune Disorder Improved With Fermented Food

From a recent story in the Santa Cruz Sentinel:

[Kelly] Dearie turned to fermented foods in a moment of despair.

Her husband Charlie, who suffered from an autoimmune disorder that attacked his platelets, was told by doctors that he needed a spleen removal and a hip replacement. That would mean Charlie, an active 32-year-old man, would never be able to run or mountain bike again. . . .

The family decided to seek an alternative, and consulted Santa Cruz clinical health coach Craig Lane from Health Alkemy. . . . He checked Charlie’s temperature, blood pressure and lab results, and listened to Charlie talk about his diet, sleep and exercise. Instead of the surgeries, Lane recommended some dietary changes such as taking out coffee, wheat and sugar, and adding beet kvass, a traditional Russian fermented tonic.

Within three weeks, his platelet numbers were almost normal. Within two years he was running again, said Dearie. . . . Inspired by her husband’s healing, Dearie opened Creative Cultures and sells the beet kvass.

Dutch University Fires Unnamed Researcher

If you google “Ranjit Chandra” (a famous Canadian nutrition researcher), the second result is this page, created by me, which lists many articles about a scandal that Saul Sternberg and I did a lot to to uncover. We pointed out that several details of one of Chandra’s papers were impossible. I did not create the page to harm Chandra, but it does: For the rest of his life, anyone curious about him will find out about the scandal. It is a scarlet letter with capital S and capital L.

I suspect this is why Leiden University recently fired a scientist without naming him/her.

Leiden University Medical Centre (LUMC) has fired an employee who has committed fraud in the collection of research data. An internal inquiry showed that the employee deliberately manipulated laboratory research. The employee has confessed and accepted the dismissal. Additionally, the LUMC withdraws two scientific publications by this employee. The fraud was discovered by immediate colleagues at the Rheumatology Department.

A deal was struck. The employee won’t contest the firing, the medical center won’t name the employee in the press release. The employee didn’t want the scandal to follow him/her for the rest of their life.

I disagree with this deal. As a result of the employee’s fabrication, a clinical trial was started in which sick people ingested or had injected a powerful drug. The university claims no one was hurt (“It is clear that at no time a dangerous situation has arisen for patients”). I have no idea if anyone was hurt, but the potential for damage was great. Last night a friend told me about a Traditional Chinese Medicine drug that a friend of hers took. It worked for years and then one day stopped working. It came from China. It turned out the Chinese manufacturer had run out of the crucial ingredient and had substituted an animal tranquilizer. Her friend was really damaged by this. Chandra’s data might have caused people to take too many vitamins.

The medical center employees who handled this case (presumably very high up in medical center administration) treated the rest of us — who deserve to be warned about the fabricator — not so differently than the fabricator did: as people who don’t matter. Who don’t deserve protection.

More A comment at Retraction Watch says the anonymity is Dutch tradition: “The names of the people are not published so that these people have a chance of rebuilding their lives in the future. In the Netherlands even people who have committed serious crimes do not have their full name or photo published in the press.”

Organic Pollutants Associated With Diabetes

Everyone knows that diabetes is associated with obesity, probably because obesity causes diabetes. However, thin people also become diabetic. A clue to why is provided by the correlation between diabetes and what are called “persistent organic pollutants” (POPs). POPs are man-made organic compounds, usually pesticides, such as polychlorinated dibenzo-p-dioxins and polychlorinated dibenzofurans.

A 2006 study using NHANES (National Health and Nutrition Examination Survey 1999–2002) data found very strong associations between levels of these chemicals and diabetes. For example, a risk ratio of 30. These associations persisted even when the data was stratified in all sorts of ways. The scariest result came from people who had BMI < 25. Looking only at such people, those above the 90th percentile for amount of POPs had 16 times the risk of diabetes as those below the 25th percentile. Here is something associated with thin people getting diabetes.

Does the association exist because POPs cause diabetes? You might argue that POP exposure is correlated with poverty (poor people are more exposed), poor people exercise less than rich people, and lack of exercise causes diabetes. However, Agent Orange exposure among soldiers is associated with diabetes. That is unlikely to be due to confounding with poverty or lack of exercise.

Everyone has these chemicals in their body, but almost no one knows how much. I don’t know if I’m in the 10th percentile or the 90th percentile. If I’m in the 90th percentile, what can I do about it? A good place for self-measurement and tracking.

Showers and the Ecology of Knowledge

In a recent post, I said a well-functioning system will produce both optimality and complexity. I meant important systems like our bodies, economies, and formal education. If you look at the nutrition advice provided by the United States Department of Agriculture — the food pyramid, the food plate, the recommended daily allowances, and the associated reports — you will find nothing that increases the complexity of metabolism inside our bodies (in particular, the diversity of metabolic pathways). The advice is all optimality — for example, the best amounts of various micronutrients. The people behind the USDA advice, reflecting the thinking of the best nutrition scientists in the world, utterly fail to grasp the importance of complexity. Half of nutrition research — or more than half, since the topic has been so neglected — should be about how to increase internal complexity. In practice, almost none of it is. It’s obvious, I think, that the microbes within us are very important for health. They are mostly in our intestines and must be heavily influenced by what we eat. How did they get there? How can their number be increased? How can their diversity be increased?

The absence is especially striking because the point is so simple. To solve actual problems, you need both optimality and complexity. Showers — what we use to take a shower — provide an example. You want to adjust the water temperature. If you try to do this while taking a shower, it can be hard because of the delay between changing the hot/cold water proportions and feeling the effects. It is better to use the bathtub (lower) tap to set the temperature (measuring it with your wrist) and only after you’ve optimized the temperature, shift the water to the shower head. The bathtub tap produces simple output (a single stream of water) that is easy to optimize. The shower head produces more complex output that is harder to optimize but does a better job of washing (an actual problem). You need both bathtub tap (for optimization) and shower head (for complexity) to do a good job solving the problem. Likewise, we need both an understanding of necessary nutrients (Vitamin A, etc.), which can be optimized, and an understanding of microbes, which cannot be optimized but can be made more complex, to make good decisions about what food to eat. Ordinary food is the hardware, you might say; and microbes are the software.

 

Wild-Fermented Wine and the Ecology of Knowledge

I learned about wild-fermented wine from Shana Reade, who teaches wine sellers about wine. She works for a New York wine distributor called Empire Merchants.

Before the 1950s, almost all wines were made with wild ferments. Only then did cultured (store-bought) yeasts start to be used on a large scale. The new wines surely tasted worse, but it was the era of TV dinners. The first cultured yeasts were especially popular in Australia, where less tradition blocked their adoption.

Nowadays wild-fermented wines are made in many places, including California, France and Germany. They are more expensive than cultured-yeast wines but you can buy one as cheaply as $15. Wild yeast is free, but the overall process is more costly because it needs more space and time. When you do wild fermentation, you put out vats of wine open to the air. The vat-to-vat variability goes way up and some vats will have to be thrown out. Wild fermentation also varies much more in how long it takes. Wineries rarely harvest all their grapes at once. With cultured yeasts, but not wild yeasts, they can be sure that one batch will finish before the next batch arrives.

Scientists have found that the yeasts in wild-fermented wines have thicker cell walls than the yeasts in cultured-yeast wines. This is an example of the general observation that microbes (and other living things) grown by man have fewer functioning genes and metabolic pathways (such as the metabolic pathways that build cell walls) than the wild type. Wild yeast, of course, has a more stressful and variable environment than cultured yeast. Cultured yeast loses functioning genes over generations because it does not encounter the problem they solve. There is no selection against deleterious mutations. Because wild yeast has more functioning pathways, it produces more metabolic byproducts, making a more complex flavor. This is a tangible version of the idea that we should use all our metabolic pathways. (A better version is use as many metabolic pathways as possible — fermented foods help with that.) So wild fermentation is (a) more diverse in terms of strains of yeast than cultured yeast and (b) individual strains of wild yeast have more functional metabolic pathways than individual strains of cultured yeast. (Cultured wine yeast starter includes several strains of yeast.)

The ecology of knowledge isn’t simple. Cultured-yeast wines (in the 1950s) were made possible by earlier wild-fermented wines. With cultured yeasts you can do wine experiments you could never do with wild yeasts, thereby learning how to make better wine in general. Today’s wild-yeast wines benefit from that knowledge. They also benefit from a mass market created by cheap (cultured-yeast) wine. An ecosystem that includes both sorts of wine spreads much further and produces much better wine than an ecosystem that includes only one sort of wine.

Personal science is like cultured-yeast wine in the sense that it allows far more experiments. Personal scientists can do experiments that professional scientists would find almost impossible. (For example, the effect of standing 8 hours/day on sleep.) A scientific ecosystem that includes both personal and professional science is going to solve problems far better than an ecosystem with only one of them.

More broadly, the story of wild-fermented wines illustrates how you need complexity and optimality — not just one of them — to solve actual problems (in contrast to artificial ones). Wild yeasts are complex, but not optimal; cultured yeasts are optimal but not complex.

A well-functioning system produces both complexity and optimality. This not-very-difficult idea is almost absent from modern thought. In nutrition, economics and education, for example, there has been almost no study of how to produce complexity.

Nutrition scientists have had little interest in fermented foods, which increase our inner complexity. Yes, as nutritionists say, we need good amounts of a long list of nutrients and micronutrients (optimality). In addition, however, we need inner complexity to solve actual problems, such as digesting food and fighting off pathogens. You can’t make a list of all the metabolic pathways we need to be healthy — it might be in the hundreds of thousands. You’d never learn our need for complexity from any nutrition book, as far as I can tell.

The science of economics revolves around optimality (e.g., most profit). I believe the current stagnation of the American economy is partly due to the poor understanding of economists of how to produce economic complexity. If they don’t know, neither will anyone else. Interest groups, rich and poor, have no interest in complexity. (Illustrating The Stupidity of Crowds. The Wisdom of Crowds is about optimality.) All sorts of policies are too narrowly evaluated. Their effect on optimality is assessed (how will this affect growth of GDP? or how will this affect percent unemployed?), but not their effect on complexity.

As for education, it is a good idea to push students to be better (push them toward optimality, e.g., be better at math). But a single-minded emphasis on optimality (e.g., No Child Left Behind), with no value placed on complexity, is a disaster.

Stagnation in Psychiatry

A recent New York Times article lays it out:

Fully 1 in 5 Americans take at least one psychiatric medication. Yet when it comes to mental health, we are facing a crisis in drug innovation. . . . Even though 25 percent of Americans suffer from a diagnosable mental illness in any year, there are few signs of innovation from the major drug makers.

The author has no understanding of the stagnation, yet is opinionated:

The simple answer [to what is causing the stagnation] is that we don’t yet understand the fundamental cause of most psychiatric disorders [what does “fundamental cause” mean? — Seth], in part because the brain is uniquely difficult to study; you can’t just biopsy the brain and analyze it. That is why scientists have had great trouble identifying new targets for psychiatric drugs.

The great increase in depression has an environmental cause. Meaning that depressed brains (aside from the effects of depression) are the same as non-depressed brains. Someone who knows that would not talk about biopsying the brain.

You come to a room with a door. If you don’t know how a door works, you are going to do a lot of damage getting inside. That is modern psychiatry. I described a new explanation for depression in this article (see Example 2).

Thanks to Alex Chernavsky.

Assorted Links

  • The increasing popularity of kvas. “We ferment with ginger and, I believe, longer than other people – for seven to 10 days.”
  • Giving up wine (and other alcohol) for a month. Before this he drank 2 glasses of wine/day.
  • Wellness Mart (in California) makes it easy to get basic medical tests. “ In California, you are required to have an order from a doctor for blood tests, but WellnessMart, MD stores all have medical doctors on staff. Our doctors allow their license to be used for basic screening tests because there are some things that really shouldn’t be that difficult to find out. If you don’t have a doctor’s order and you want to run tests that aren’t a part of our standard screening packages, you will be charged a MD Consultation Fee of $25. Our doctor will help you to put together a panel that will accomplish the goals you are looking to accomplish. If the doctor determines that it is not appropriate for you to run the tests you want to run at WellnessMart, MD there will be no charges.”
  • Riding a bike while learning Polish. It helps.

Thanks to Casey Manion and Adam Clemens.

First Effects of Intermittent Fasting

Jeff Winkler described his first weeks of intermittent fasting:

Annual physical July 2nd [2013], HDL 46, cholesterol 243, LDL 177. Doc pushing for statins. I’ve been taking 5000 IU D3, some zinc, eating vaguely low carb. Had a kid a couple years ago. Watched Eat Fast, Live Longer. Was blown away.

Decided to try intermittent fasting and use $500 USB ultrasound device (BodyMetrix) for feedback. Conclusions after three weeks:

  • It’s not hard. I’m eating within an 8-hour window. Usually try to eat first food at 9 AM, close the window 8 hours after. I’m hardly ever hungry. Now it’s like “oh, it’s 9, guess I should eat”. I’m not eating specially or restricting my intake.
  • Losing weight. About 237->231 in 20 days.

For me, the novelty was his BodyMetrix data (mm of subcutaneous fat). Here it is:

This shows fat loss from the thigh and waist; the chest measurements vary too much to see a trend. The BodyMetrix data and the weight data (237–>231) confirm each other. He also used an Omron measurement device that uses impedence to measure body fat. You hold it in your hands. Its data were too noisy to conclude anything.

All in all, Winkler’s scale did a good job of detecting weight loss, the BodyMetrix device added a bit (confirmed the weight loss was due at least partly to fat loss), and the Omron device added nothing. The BodyMetrix device is advertised with the claim “no embarrassing pinching” but I’m sure pinching (with calipers) to measure skinfold thickness would have been more accurate.

Women and Body Fat (Ancestral Health Symposium 2013)

One of the best talks at the 2013 Ancestral Health Symposium was by Will Lassek, a retired doctor. Here’s the abstract:

One puzzle is why human males have such a strong preference for women with hourglass figures and low weights that can compromise fertility. The second is why slender young women typically have about one third of their weight in body fat, more than bears starting to hibernate, and why human infants are also very fat. Finally, why do women typically gain another twenty pounds or more during their reproductive years? The answer may lie in the roles that fat plays in providing essential fatty acids needed for the growth of a very large brain and in regulating overall fetal growth.

His answer to the first question was that death during childbirth was a serious danger. Women of lower weight give birth to babies with smaller heads — less likely to cause death. Wider hips means a larger birth canal. Women gain weight after their first birth because their birth canal is wider — the optimal baby size has gone up. A variety of data supported these ideas. Lessek’s answer to the first question is quite different than what evolutionary psychologists have said.

Economic Stagnation and Recent College Graduates

In an excellent article about the college-loan “bubble” — the government has made it easy for students to get loans that a large fraction of them will repay only with great difficulty — Matt Taibbi writes:

We’re doing the worst thing people can do: lying to our young. Nobody, not even this president, who was swept to victory in large part by the raw enthusiasm of college kids, has the stones to tell the truth: that a lot of them will end up being pawns in a predatory con game designed to extract the equivalent of home-mortgage commitment from 17-year-olds dreaming of impossible careers as nautical archaeologists or orchestra conductors.

I agree with Taibbi’s big point — college students are being very badly treated — but I would summarize it differently. The worst thing older people can do to young people is construct an economy that has no place for them. Humans are the only animal that specializes. We learn a specialized skill and use it throughout our life to make a living. Not allowing someone to do this is not allowing them to be human.

Due to lack of innovation, too few jobs are being created. New jobs in new industries doing new things are jobs for which young people are especially well-suited. The problem with stagnation — stagnation in new goods and services — is (a) problems stack up unsolved and (b) jobs especially suitable for recent entrants to the job market aren’t created.

Failing to provide college students decent jobs is Horrible Thing #1. Burdening them with a great deal of debt before they enter a stagnant economy is Horrible Thing #2. I have blogged many times about Horrible Thing #3: Not helping students learn and develop their individual skills.