Is The Secret To A Healthier Microbiome Hidden In The Hadza Diet?

Aug 24, 2017
Originally published on August 25, 2017 4:56 am

The words "endangered species" often conjure up images of big exotic creatures. Think elephants, leopards and polar bears.

But there's another of type of extinction that may be occurring, right now, inside our bodies.

Yes, I'm talking about the microbiome — that collection of bacteria in our intestines that influences everything from metabolism and the immune system to moods and behavior.

For the past few years, scientists around the world have been accumulating evidence that the Western lifestyle is altering our microbiome. Some species of bacteria are even disappearing to undetectable levels.

"Over time we are losing valuable members of our community," says Justin Sonnenburg, a microbiologist at Stanford University, who has been studying the microbiome for more than a decade.

Now Sonnenburg and his team have evidence for why this microbial die-off is happening — and hints about what we can possibly do to reverse it.

The study, published Thursday in the journal Science, focuses on a group of hunter-gatherers in Tanzania, called Hadza.

Their diet consists almost entirely of food they find in the forest, including wild berries, fiber-rich tubers, honey and wild meat. They basically eat no processed food — or even food that comes from farms.

"They are a very special group of people," Sonnenburg says. "There are only about 2,200 left and really only about 200 that exclusively adhere to hunting and gathering."

Sonnenberg and his colleagues analyzed 350 stool samples from Hadza people taken over the course of about a year. They then compared the bacteria found in Hadza with those found in 17 other cultures around the world, including other hunter-gatherer communities in Venezuela and Peru and subsistence farmers in Malawi and Cameroon.

The trend was clear: The further away people's diets are from a Western diet, the greater the variety of microbes they tend to have in their guts. And that includes bacteria that are missing from American guts.

"So whether it's people in Africa, Papua New Guinea or South America, communities that live a traditional lifestyle have common gut microbes — ones that we all lack in the industrialized world," Sonnenburg says.

In a way, the Western diet — low in fiber and high in refined sugars — is basically wiping out species of bacteria from our intestines.

That's the conclusion Sonnenburg and his team reached after analyzing the Hadza microbiome at one stage of the yearlong study. But when they checked several months later, they uncovered a surprising twist: The composition of the microbiome fluctuated over time, depending on the season and what people were eating. And at one point, the composition started to look surprisingly similar to that of Westerners' microbiome.

During the dry season, Hadza eat a lot of more meat — kind of like Westerners do. And their microbiome shifted as their diet changed. Some of the bacterial species that had been prevalent disappeared to undetectable levels, similar to what's been observed in Westerners' guts.

But then in wet season — when Hadza eat more berries and honey — these missing microbes returned, although the researchers are not really sure what's in these foods that bring the microbes back.

"I think this finding is really exciting," says Lawrence David, who studies the microbiome at Duke University. "It suggests the shifts in the microbiome seen in industrialized nations might not be permanent — that they might be reversible by changes in people's diets.

"The finding supports the idea that the microbiome is plastic, depending on diet," David adds.

Now the big question is: What's the key dietary change that could bring the missing microbes back?

Lawrence thinks it could be cutting down on fat. "At a high level, it sounds like that," he says, "because what changed in the Hadza's diet was whether or not they were hunting versus foraging for berries or honey," he says.

But Sonnenburg is placing his bets on another dietary component: fiber — which is a vital food for the microbiome.

"We're beginning to realize that people who eat more dietary fiber are actually feeding their gut microbiome," Sonnenburg says.

Hadza consume a huge amount of fiber because throughout the year, they eat fiber-rich tubers and fruit from baobab trees. These staples give them about 100 to 150 grams of fiber each day. That's equivalent to the fiber in 50 bowls of Cheerios — and 10 times more than many Americans eat.

"Over the past few years, we've come to realize how important this gut community is for our health, and yet we're eating a low-fiber diet that totally neglects them," he says. "So we're essentially starving our microbial selves."

Copyright 2018 NPR. To see more, visit


The phrase endangered species often refers to charismatic animals like mountain gorillas or polar bears. Well, today scientists are reporting that a whole different type of extinction is happening inside our bodies. NPR's Michaeleen Doucleff explains.

MICHAELEEN DOUCLEFF, BYLINE: So if you want to see where this extinction is happening, just look down at your belly. Inside there is a whole ecosystem. Yes, I'm talking about your microbiome, which contains more than a thousand species of bacteria. Justin Sonnenburg at Stanford says they are powerful critters.

JUSTIN SONNENBURG: These microbes influence biology all over our bodies. So they're affecting our immune system, our metabolism.

DOUCLEFF: Even our brains.

SONNENBURG: So moods and behavior can be affected by our gut microbes. So it's really an important community for our health.

DOUCLEFF: A community, Sonnenburg says, that's in danger. Today in the journal Science, he and his colleagues report that some bacteria inside our guts are disappearing.

SONNENBURG: Over time, we are losing valuable members of our gut community.

DOUCLEFF: Sonnenburg and his colleagues analyzed the microbiomes of 18 different cultures around the world, including traditional cultures like hunter-gatherers in Tanzania who don't eat any processed food or refined sugars. The findings were crystal clear. The further away people's diets are from a Western diet, the more variety of microbes they have in their guts, including bacteria that are missing from Americans.

SONNENBURG: We've come to realize how important this gut community is for our health, and yet we're eating a diet that totally neglects them. So we're essentially starving our microbial selves.

DOUCLEFF: In other words, a Western lifestyle has wiped a few species from our digestive tracts. Jens Walter, a microbiologist at the University of Alberta, says now the big question is, how is this affecting our health? He talked to us on Skype and says one hypothesis is that losing those bacteria has contributed to the rise in autoimmune diseases, including diabetes.

JENS WALTER: All these diseases, you know, they have skyrocketed within the last 50 or 60 years.

DOUCLEFF: And they've already been linked to the microbiome in animal models.

WALTER: Although we lack a definite proof, at least the picture or the puzzle is getting more and more complete. And everything points to that hypothesis.

DOUCLEFF: And keeping people healthy likely means keeping the critters inside of us healthy and happy. Michaeleen Doucleff, NPR News. Transcript provided by NPR, Copyright NPR.