Video summary
In this episode of Huberman Lab Essentials, Dr. Andrew Huberman interviews Dr. Justin Sonnenburg to explore the essentials of building a healthy gut microbiome. The discussion clarifies that the term "microbiome" often refers interchangeably with "microbiota," encompassing not just bacteria but also archaea, fungi, and viruses found throughout the body, though most densely in the colon. Dr. Sonnenburg explains that these microbial communities are incredibly dense, comprising trillions of cells where bacteriophages outnumber bacterial cells by a ratio of 10 to one. While there is some debate regarding whether microbes exist within the womb, colonization largely occurs at birth; factors such as mode of delivery (vaginal vs. C-section), feeding method (breast milk vs. formula), and early antibiotic exposure significantly shape this initial ecosystem. These early trajectories can lock individuals into different developmental paths for their immune system and metabolism that persist throughout life. A central theme of the conversation is the concept of "biological gravity," where microbiomes tend to return to a stable state after perturbations like antibiotics or dietary changes, though establishing new states requires both access to specific microbes and proper nourishment. Dr. Sonnenburg highlights experiments with mice showing that while shifting from a high-fiber diet to a low-fiber Western diet reduces diversity, returning to fiber allows for recovery unless the loss of species has persisted across multiple generations, at which point extinction occurs without deliberate reintroduction via fecal transplants or therapeutics. This underscores the importance of avoiding processed foods containing artificial sweeteners and emulsifiers that disrupt the mucus layer and promote inflammation, while emphasizing that a diet rich in complex plant fibers fosters the production of short-chain fatty acids like butyrate, which fuel colonocytes and regulate metabolism. To actively reprogram an unhealthy microbiome toward reduced inflammation, Dr. Sonnenburg details his flagship study involving high-fiber diets and fermented foods containing live microbes such as yogurt, kefir, sauerkraut, and kimchi. Participants consuming over six servings of fermented food daily saw a significant increase in microbial diversity and a step-wise reduction in inflammatory markers like interleukin-6 and interleukin-12 within just six weeks. The study also noted improvements in bowel habits, suggesting that better gut motility may contribute to mood regulation via the gut-brain axis. However, Dr. Sonnenburg warns that individuals with severely depleted microbiomes from long-term Western diets or immigration may lack the specific microbes needed to degrade fiber effectively, making recovery difficult without deliberate intervention and access to diverse microbial sources found in traditional environments. The interview concludes with practical advice on navigating the supplement market and daily habits regarding hygiene and diet. Dr. Sonnenburg advises caution when selecting probiotics due to a largely unregulated industry where products often do not match their labels; consumers should seek independent validation or rely on well-known brands with strong reputations for quality control. Regarding prebiotics, he notes that purified fibers can sometimes cause specific blooms of bacteria at the expense of diversity and may lead to rapid fermentation issues in mice when combined with high-fat diets, suggesting instead a broad variety of whole plants is superior. Finally, addressing hygiene practices like handwashing, Dr. Sonnenburg advocates for context-aware approaches rather than over-sanitization, encouraging exposure to environmental microbes through dirt and pets—provided immediate toxins are avoided—to educate the immune system without compromising safety from infectious diseases.
Read the full video transcript
Welcome to Huberman Lab Essentials,
[music] where we revisit past episodes
for the most potent and actionable
science-based tools for mental health,
physical health, and performance.
I'm Andrew Huberman, and I'm a professor
of neurobiology and ophthalmology at
Stanford School of Medicine. And now,
for my discussion with Dr. Justin
Sonnenburg. Justin, thanks so much for
being here. Great to be here.
I am a true novice when it comes to the
microbiome. So, I'd like to start off
with a really basic question, which is
what is the microbiome? I think, you
know, just to start off with clarifying
terminology, microbiome and microbiota
quite often are used to refer to our
microbial community interchangeably, and
I'll probably switch between those two
terms today. The other important thing
to realize is that these microbes are um
not just in our gut, but they're all
over our body. They're in our nose,
they're in our mouths, they're on our
skin. Basically, anywhere that the
environment can get to
uh in our body, which includes inside
our digestive tract, of course, is, you
know, colonized with with microbes. And
the vast majority of these are in our
distal gut and in our colon. And so,
this is the gut microbiota or gut
microbiome. And um the
>> [clears throat]
>> density of this community is astounding.
You start off with a zoomed-out view and
you see something that looks like, you
know, fecal material that digest inside
the the gut, and you zoom in, and you
start to, you know, get to the
microscopic level and see the microbes.
They are just packed, you know, side to
side, end to end. It's a super dense
bacterial community, almost like a
biofilm. To the point where it's thought
that, you know, around 30% of fecal
matter is microbes, 30 to 50%. So, you
know, it's it's an incredibly dense
microbial community. We're talking of
you know,
trillions of microbial cells. And all
those microbial cells, if you start to
get to know them and and see who they
are,
break out in the gut probably to
hundreds to a thousand species. Most of
these are bacteria, but there are a lot
of other life forms there. There are
archaea, which are little microbes that
are bacteria-like, but they're they're
different.
There are
eukaryotes. So, you know,
we commonly think of eukaryotes in the
gut as um as, you know, something like a
parasite, but there are eukaryotes,
there are fungi, there are also little
viruses. There are these bacteriophages
that infect bacterial cells. And so,
and and those actually outnumber the
bacteria like 10 to 1. So, they're just
everywhere there. They kill bacteria,
and so there's there's these really
interesting predator-prey interactions.
But overall, it's just this really
dense, complex, dynamic ecosystem. Are
microbiota seen in newborns?
In other words, where do they come from,
and dare I ask, what direction do they
enter the body? There have been some
studies that have looked at whether
there are microbes in the womb and
microbes colonizing the fetus. And
there's some debate about this, but
overall, it looks like that's not a big
part of the equation of microbial
colonization. And so, each time an
infant is born, it's this new ecosystem.
It's like an island rising up out of the
ocean that has no species on it, and
suddenly there's this like land rush
for, you know, this open territory.
There also were a lot of different
trajectories that developmental process
can take because our microbiota is so
malleable and so plastic. And those
trajectories can be affected by all
sorts of factors in early life. So, an
example is whether an infant is born by
C-section or born vaginally. Infants
that are born by C-section actually have
a
gut microbiota that looks more like
human skin than it does like either the
the birth canal, the the vagina
microbiota, or
the mother's stool microbiota. Compound
on top of that, whether you're breastfed
or formula-fed, whether your family has
a pet or doesn't have a pet, whether
you're exposed to antibiotics, there are
all these factors that really can change
that developmental process and really
change your microbial identity
eventually in life. We know from animal
studies that depending upon the microbes
that you get early in life, you can send
the immune system or metabolism of an
organism or other parts of their biology
in totally different developmental
trajectories. So, what microbes you're
colonized with early in life can really
change your biology.
>> How do I know if my microbiome is
healthy or unhealthy? Context matters a
lot. What's healthy for one person or
one population may not be healthy for
another person or population. And I will
say that there's no single answer to
this, but there are some really
important considerations. Perhaps the
best way to start talking about this is
to go back to
um
the inception of the Human Microbiome
Project, which was this program that
that NIH started. They invested a lot of
money in 2008-2009
for
really
propelling the field of of gut
microbiome research. It was becoming
evident at that point that this was not
just a curiosity of human biology, that
it was probably really important for our
health. Through those studies, we really
started to get the image that there is
this tremendous individuality in the gut
microbiome. And and so, it's it's really
hard to
start drawing
you know, conclusions after initial pass
of that project of what is a healthy
microbiome. But the other thing that we
started to realize at the same time,
there were studies going on documenting
the gut microbiome of traditional
populations of humans, hunter-gatherers,
rural agricultural populations. And um
those studies were really mind-blowing
from the perspective of, you know, all
these people are healthy, they're living
very different lifestyles, and their
microbiome doesn't look anything like a
healthy American microbiome. And so, one
possibility is that in the
industrialized world, we have a a
different microbiome from traditional
populations, and that microbiome is well
adapted to our current lifestyle, and
therefore healthy in the context of an
industrialized society. And there
probably are elements of that that are
true. Um but another possibility is that
this is a microbiome that's gone off the
rails, that it is
you know, deteriorating in the face of
antibiotic use and
all the um problems associated with a
industrialized diet, Western diet.
And that even though the Human
Microbiome
Project documented the microbiome of
healthy people, healthy Americans, that
what they really may have been
documenting there is a perturbed
microbiota that's really predisposing
people to a variety of inflammatory and
metabolic diseases. If my gut microbiome
was
dysbiotic, it was off
um early in life, can I rescue that
through proper conditions and exercise,
or is there some sort of
fixed pattern that's going to be hard
for me to escape from?
>> Yeah, the there's a big field that's
emerging now that
you know, we refer to as kind of
reprogramming the gut microbiome. And
the issue that I think we're seeing in
the field is that uh microbiomes quite
often, whether they're diseased or
healthy, exist in stable states. They
kind of tend towards this
well that has gravity to it in a in a
way, biological gravity, where it's
really hard to dislodge that community
from that state. So, even individuals,
for instance, that get antibiotics,
you know, you take oral antibiotics, the
community takes this huge hit. We know
that a bunch of microbes die, the
composition changes, and you know, that
represents a period of vulnerability
where pathogens can come in and take
over and cause disease. But if that
doesn't happen, the microbiota kind of
works its way back to something that is
not exactly like, but similar to the
pre-antibiotic treatment. We know with
dietary perturbations,
um
quite often, you'll see a really rapid
change to the gut microbiome. And then
this it's almost like a memory where it
snaps back to this something that's very
similar to the original state, even
though the diet remains different. And
so, there's this incredible
what we refer to as resilience of the
gut microbiome and and resistance to
change, or at least resistance to
establishing a new stable state. So,
that doesn't mean it's hopeless to
change an unhealthy microbiome to a
healthy microbiome, but it does mean
that we need to think carefully about
you know, restructuring these
communities in ways where we can achieve
a new stable state that will resist the
microbial community getting pulled back
to that original state. And you know,
one of the kind of simplest and nicest
examples of this is a an experiment that
we performed with with mice, where we,
you know, we're feeding mice a normal
mouse diet,
a lot of nutrients there for the gut
microbiota, things like dietary fiber.
And we switched those mice, half the
mice, to a a low-fiber diet. And we were
basically asking the question that, you
know, if you switch to kind of a
Western-like diet, a low-fiber,
higher-fat diet, what happens to the gut
microbiota? And we saw the microbiota
change, it lost diversity. It was very
similar to what we see in
in the difference between industrialized
and traditional populations. But when we
brought back a healthy diet, a lot of
the microbes returned, you know, it was
fairly, you know, there there was this
kind of memory where it went back to
very similar to its original state. The
difference is that when we put the mice
on a low-fiber, high-fat diet, and then
kept them on that for multiple
generations,
um we saw this progressive deterioration
over the course of generations, where by
the fourth generation, the gut
microbiome was a
you know, a fraction of what it
originally was. Let's say 30% of the
species only remained. Um something like
70% of the species had gone extinct or
appeared to have gone extinct.
We then put those mice back onto a
high-fiber diet, and we didn't see
recovery. So, in that case, it's a um a
situation where a new stable state has
been achieved. Um in that case, it's
probably because those mice don't
actually have access to the microbes
that they've lost. And we actually know
that we did a the control experiment of
um mice on a high-fiber diet for four
generations, they maintain all their
microbes. If we take those fourth
generation mice with all the diversity
and do a fecal transplant into the mice
that had lost their microbes, but had
been returned to a high-fiber diet,
all of the diversity was reconstituted.
So, it was um you know, so your your
question of like, how do we establish
new stable states? How do we get back to
a healthy microbiota if we have taken a
lot of antibiotics or have a
deteriorated microbiota? It's probably a
combination of having access to the
right microbes, and we can talk about
what that access looks like. It may look
like therapeutics in the future. There
are a lot of companies working on
creating cocktails of healthy microbes,
but it'll be a combination of access to
the right microbes, and um nourishing
those microbes with the the proper diet.
What's the idea about cleanses and
fasting as it relates to the health or
the dysbiosis of the microbiota? Yeah, I
mean, we know that like, you know, in
studies that are being done now to
reprogram the gut microbiota to install
a completely new microbial community,
the first step is to wash away the
resident microbial community that's
there. So, if you're in the process of
acquiring a really good microbiota, and
you know how to do that, then the the
flushing everything out is great. Um
otherwise, what is happening is you're
kind of leaving rebuilding of the
community to chance. Like, what is it?
And so, um
you know, what what microbes are going
to colonize, who's going to take up
space after you do this flush or
cleanse? And um
you know, that I think it's a a little
bit like playing Russian roulette. You
may end up with a a good microbial
community in there afterwards, you may
not. Um you certainly want to pay close
attention to what you're eating while
you're doing the reconstitution of the
community after you do something like
that. It sounds to me that avoiding
processed foods is a good idea, or
heavily processed foods in general. I
mean, not that
you know, the occasional consumption is
is
necessarily bad, but consuming processed
foods is just bad for the microbiome.
Can we say that categorically? For sure.
Yeah. You're you're exactly right. And
we can break down you know, there's a
lot of data of why different components
of processed food are so bad for us and
so bad for our microbiome, and I can
talk about a few examples of that. But
the flip side of this, the plant-based
diet, if you're eating a bunch of
complex um you know, fibers that feed
your gut microbiota, your gut microbiota
produces these substances called
short-chain fatty acids, things like
butyrate. And it's known that these
short-chain fatty acids play really
essential components both in terms of
fueling colonocytes, enforcing the
barrier, keeping inflammation low,
regulating the immune system, regulating
metabolism. Your gut microbiota is just
producing this vast array of
fermentation end products that then get
absorbed into our bloodstream and have
all of these tremendous cascading
effects that appear to be largely
beneficial on our biology. Now,
processed foods, I think, is this other
dimension where you have all of these
weird chemicals, artificial sweeteners,
weird fats, um you know, a lot of
refined simple nutrients. The simple
nutrients we've talked about, but we
know that, for instance, artificial
sweeteners can have a massive negative
impact on the gut microbiome and can
lead us towards metabolic syndrome.
Actually, there's been beautiful work
out of the Weizmann Institute on this.
And then emulsifiers, these compounds
that are put in processed foods to help
them maintain shelf stability, so things
don't separate and so, um you know, all
the the moisture content is retained
appropriately. Um
many of these are known to disrupt the
mucus layer. And as soon as you start
disrupting that barrier, that can lead
you in the direction of inflammation.
And in animal models, we know that can
lead towards metabolic syndrome as well.
So, there's there's components of
processed food that are, when studied in
isolation, known to have a direct
negative impact on gut biology and the
microbiota.
>> I do want to make sure that we
distinguish artificial sweeteners from
non-caloric plant-based sweeteners. Do
we know anything about plant-based
non-caloric sweeteners or low-caloric
sweeteners? Very little. You know, a lot
of those have a lot more bang for the
buck. They're they're incredibly sweet,
so it takes a really small amount for
them to trigger a huge amount of
sweetness. And so, it's depending upon
the mechanism of action by which these
sweeteners that are not sugar are
impacting our biology, it may be that
those are actually um you know,
less negative or or more healthy than
the ones that are artificial, just
because it requires less of them in the
food for us to perceive that sweet
taste. Um historically, there are, I
think, traditional populations that use
these, for instance, to sweeten um you
know, sweeten different foods um that
our bodies just kind of know how to deal
with those compounds better than the
ones that are synthetic. Um but I think
the you know, the studies still need to
be done. Do you actively avoid
artificial sweeteners, sucralose,
aspartame, saccharin? You personally?
Yeah, you know, I do. I I avoid them,
but I'm not I you know, I think that
just doing things in moderation makes it
a lot easier. And doing things slowly
makes it a lot easier. And so, so there
are very few rules that I have that are
hard and fast. I'm I'm a pretty flexible
eater. I don't believe that having an
artificial, you know, having a diet Coke
um will, you know, somehow cascade into
some terrible disease or something like
that. I'd love to talk about fiber and
fermented foods, because you and Chris
had a what I think is a really
interesting and exciting paper comparing
inflammatory markers of people who ate a
certain amount of fiber or a certain
amount of of these fermented foods. Let
me take before I dive into that study,
let me take a step back, because I think
the reason that we did this study goes
back to this kind of epiphany that we we
had while studying the gut microbiome,
because I think when we started studying
it at Stanford, we were thinking about
it as this kind of newly appreciated
aspect of our biology, almost like um
finding an organ that we didn't know was
there, and starting to think about like
all the drug targets that were there.
Can we go in with small molecule drugs
and think of ways to manipulate this
community to ameliorate disease. And um
this is largely the mindset of Western
medicine, and largely born out of the
era of infectious disease. Um you wait
for an infection to start, a bacterial
infection, you treat with antibiotics,
and you know, that's the way medicine is
practiced. And that's become less
successful over time as we've moved into
this era of inflammatory Western
diseases, and largely moved out of the
era of infectious diseases, at least
infectious bacterial diseases. That is
paradigm of waiting for diseases to
appear and come into the clinic um is
not really very effective in the context
of inflammatory Western diseases,
autoimmune diseases, metabolic syndrome,
uh heart diseases, and inflammatory
disease. You know, the list goes on and
on. And so, we started to think a lot
about like, how can we get out in front
of this? How can we think about like
preventative ways of dealing with this
crisis of metabolic and inflammatory
diseases. And this tremendous, beautiful
body of literature started to come
forward in the field that showed that
the gut microbiome is absolutely
critical to modulating our immune
status. So, if you change the
microbiome, you can fundamentally change
how the immune system operates. And we
know that the immune system is the at
the basis of a lot of these diseases,
inflammatory chronic diseases. And so,
it it brought up this possibility that
maybe the fact that we're not nourishing
this community well enough, maybe the
fact that it's um deteriorated over time
um due to all of the things that go
along with an industrialized lifestyle,
antibiotics, and so forth. Um maybe we
have a microbiome right now in the
industrialized world that is setting our
immune system at a set point, simmering
inflammation, that's driving us towards
these inflammatory diseases. And
wouldn't it be wonderful if we could
figure out how to um
uh
use diet specifically, but just kind of
learn the rules of how to reconfigure
both the composition and function of our
gut microbiome, so that inflammation was
different in our bodies, so that each
one of us was less likely to go on and
develop an inflammatory disease. Our
flagship study, we wanted to understand
if we put people on a high-fiber diet,
um how would that affect their
microbiome and immune system? And if we
put them on a high-fermented food diet,
a diet rich in live microbes and all the
metabolites that um are present from
fermentation in foods, how would that
change microbiome and immune system? The
idea was, in the case of the high-fiber
diet, just increasing plant-based fiber.
So, can you eat more whole grains, more
legumes, more vegetables, nuts, get the
fiber up in the range of, you know, from
15 to 20 g per day up to over 40 g per
day. So, can you kind of double or more
the amount of fiber that you eat per
day? The people that were eating the
high-fermented food uh diet, um they
were instructed to basically eat um, you
know, foods that you could buy at a
grocery store that were naturally
fermented and contain live microbes.
Yogurt, kefir, uh, sauerkraut, kimchi.
We instructed people to eat
non-sweetened yogurts. Um, a huge
pitfall in this area is you can have a
yogurt loaded with bacteria, kind of the
base of what's healthy, and then a ton
of like artificial flavoring and sugar
loaded on top of that. Manufacturers put
a ton of sugar in after the fact to kind
of mask the sour taste of fermented
foods, which is hard for some people to
become accustomed to. Getting used to
that sour flavor is is difficult, but
people really should try to stay away
from those um, fermented foods that are
loaded with sugar, and that's what we
instructed people in this study. A lot
of people shy away from the high-quality
fermented foods because they they can be
quite costly. Um, I'll just refer people
to a resource in Tim Ferriss's book, The
4-Hour Chef. He actually gives an
excellent recipe for making your own
sauerkraut, which basically
um, involves cabbage and water and salt,
but you have to do it properly because
you can grow some um, not necessarily
uh, lethal, but some somewhat dangerous
bacteria if you don't scrape off the top
layer properly. But he gives beautiful
instructions for how to do this in vats.
You can make large amounts of truly
fermented sauerkraut just from cabbage,
water, and salt if you're willing to
follow the protocol. You know, if you
can get your hands on a scoby, kombucha
is another one that's super simple. It's
like
>> grow your own. You can you can just make
your own, and it's super easy to do. I
make it I constantly have a batch of
kombucha going at home, and it's just,
you know, it's a it's a scoby, a
symbiotic community of bacteria and
yeast that you, you know, you you brew
tea, you add sugar to it, and you put
the scoby in, and you wait a week or two
depending upon the temperature, and you
then you just, you know,
move the scoby over to a new batch, and
your your old you what the scoby was in
is kombucha, and it's it's wonderful.
So,
how much fermented food were they
consuming? Eating? Servings? Ounces? Um,
how many times a day? Early day? Late
day? The general instructions were for
people to eat as much fermented foods as
possible. More is better. People um,
during the height of the intervention
phase were up over six servings on
average per day of fermented foods. So,
kind of two servings at each meal, and
the uh, you know, ounces or weights or
size it really depended on what the
fermented food was, and we just told
them to stick to what was a recommended
dose on the the package that they were
they were buying. You know, for a
kombucha it'd be like a 6-to-8-oz glass,
um, sauerkraut like a half cup or
something like that. And same with
yogurt. The the big signal really was in
the fermented food group. We saw all the
things that you would hope to see in a
Western microbiota and Western human. We
saw this increase in microbiota
diversity over the course of the 6 weeks
while they were consuming the fermented
foods. We can't always say that um,
higher diversity is better when it comes
to our microbial communities. We know
there are cases, for instance, bacterial
vaginosis where higher diversity is
actually indicative of a disease state.
Um, but we um, know in the context of
the gut and for people living in the
industrialized world, higher diversity
is generally better. Um, we know that
there's a spectrum of diversity. People
with higher diversity generally are
healthier. If you can push your
diversity higher, you're in better
shape. And so, we saw that increase in
diversity, and then the major question
is what happened to the immune system as
these people were increasing their gut
microbiota diversity through the
fermented foods. Um, we so, we did the
um, this massive immune profiling, and
we see, you know, a couple dozen immune
markers, inflammatory markers decrease
over the course of the study. So, we we
um, measured these at multiple time
points throughout the course of the
study, and there's kind of this
step-wise reduction in things like
interleukin-6 and um, you know,
interleukin-12, a variety of kind of
famous inflammatory mediators. Um, and
then even if you go into the immune
cells and you start looking at their
signaling cascades, we see that those
signaling cascades are less activated at
the end of the study compared to the
beginning of the study, indicating an
attenuation of inflammation. So, so kind
of exactly what we would hypothesize
would lead to less propensity for
inflammatory disease over time. That's a
a huge extension of a very short study.
>> So, did people say they were feeling
better um, in any way? And if so, what
did you observe? And again, we're
highlighting these as anecdata. You
know, tons of people say they have more
energy, they think more clearly, they
sleep better. And it's really hard to
uncouple like, is this because, you
know, these people have taken charge now
of what they're eating and just feel
better in general for being in control
of kind of what they're doing, or is
there this cascading um, set of effects
that are actually kind of emanating from
the gut-brain axis? And and I should
say, you know, the the list of this goes
on and on. There are people who claim
that their complexion improves and that
their, you know, allergies and there's
probably all sorts of ripple effects. If
you can affect your inflammation, you
can we know that you can affect your
cognition. We know that you can affect
your, you know, your your skin and and
inflammation that's occurring on your
skin. So, so I really think that there
is a basis for a lot of those anecdotes.
It may just be hard to see in a short
study and in
um, a small, you know, a small cohort of
people over a short period of time. You
know, we also have a um, a standardized
um, uh, stool measure that people use,
and there was um, you know, kind of less
constipation, better bowel movements
over the course of both of these
interventions. So, it did seem like
bowel habits improved, which um, a lot
of times can lead to better moods, but
that we weren't able to to measure that.
What sorts of interesting things did you
observe in the fiber group? Data seemed
to be telling us that if you start off
with a diverse microbiota, maybe one
that's better equipped to degrade a wide
variety of of dietary fiber, you're more
likely to respond positively to it. If
you have a very depleted gut microbiome,
you're not as likely to be able to
respond to it. And thinking back to that
experiment that we talked about before
with the multi-generational loss of of
fiber-fermenting microbes in in mice
that were fed uh, a Western diet, um, it
it may be that um, many of us in the
industrialized world have a microbiome
that's so depleted now that even if we
consume a high-fiber diet, at least for
a short period of time, we don't have
the right microbes in our gut to degrade
that fiber. And this has actually been
observed by other groups. Beautiful
study out of University of Minnesota
looking at immigrants coming to the
United States, and you know, within 9
months, but certainly over the course of
years, immigrants that come here lose
um, a a lot of the diversity in their
gut microbiome, but a lot of the
fiber-degrading capacity in their gut
microbiome, too. So, it could be that
over time this becomes a one-way street,
and it's hard for us to recover
um, the the microbes that that actually
can degrade the fiber. And I think that
this probably intersects with sanitation
in our environment and the fact that we
don't have access to new microbes that
might help us degrade the fiber, that we
actually um, you know, have lost these
microbes, and they're in some ways
irrecoverable without deliberate
reintroduction of fiber-degrading
microbes. Well, you have children. Did
you do you encourage them to uh,
interact with pets and dirt and
Absolutely. stuff in the environment,
provided that stuff wasn't immediately
toxic?
>> Yeah, exactly. Certainly just with
infectious diseases in general, it's
really important to be aware of um, you
know, the the possibility for
compromising your health through the
spread of germs. And so, that that is
just, you know, hand washing is
important, and we have to be careful
with, you know, um, the the spread of
germs, but I do think that um, you know,
the sanitation sanitization of our
environment um, has gone overboard with
the, you know, um, various things being
impregnated with antibiotics, you know,
shopping carts and things like that, and
toothbrushes, and you know, it's it's
like antibiotics and and um, you know,
things for killing microbes are are
everywhere. And
when we were raising, you know, when our
daughters were young and we were we were
making these decisions, the calculations
that we would make were really um, one,
uh, how likely are they to encounter a
disease-causing microbe? If we've been
out, you know, on a hike or in our
garden, you know, just kind of working
in the dirt or whatever, maybe it's not
as important to wash your hands before
you have lunch, even if there's a little
bit of dirt on them. Um, if they've been
in a public playground where maybe
there's um, other kids with germs or
maybe even chemicals like pesticides and
and herbicides that are being used, um,
it maybe it's more important then to
wash your hands. You know, certainly if
you've been in the grocery store or on
the subway, probably a good idea to wash
your hands. But I so, I think you really
need to think about kind of the the
context of it, and um, it
exposure to microbes uh, from the
environment is likely an important part
of um, educating our immune system and
keeping the proper balance in our immune
system, and it's just a matter of
figuring out the right way to do that
safely. What what's the thought about
probiotics for for the typical person
that's not recovering from a round of
antibiotics or that um, has been
prescribed them? The so, I think the the
first thing to say is buyer beware
because it's a supplement market, it's
largely unregulated, and that means that
there are a lot of bad products out
there, and a lot of products that um,
even though they're not intended to be
bad, just don't have great quality
control. There have been several studies
that have taken off the uh,
over-the-counter, just kind of
off-the-shelf probiotics, surveyed
what's in there based on sequencing, and
shown that they what is in there does
not match what's on the label. there are
places that probiotic companies can send
their product to have it independently
validated. So, you want to look for that
sort of validation on the on a product.
Um there also are names that are just
very well known and um you know, it's uh
you know,
their reputations are on the line, so
they probably invest a little bit more
in quality control than maybe some of
the other lesser-known names. Because
there's such a huge range of products
and because each person is their own
little caper when it comes to the
microbiome, it's really hard to know
um whether there are great products for
a given indication. The really good
advice that I've heard is try to find a
study that supports in you know, a
really well-designed study and this is
very hard for people who aren't
scientists to evaluate, but so you know,
if you're experiencing a medical problem
or want to consult a doctor, um the you
know, that that might be helpful, but
finding a study where a specific
probiotic has successfully done whatever
it is you're looking for and then stick
sticking with that probiotic is really
the best recipe for as a as a place to
start in this space, I think. And what
about prebiotics? There's there a number
of um reasons why I can imagine that
prebiotics would be beneficial. The
studies that have been done
>> [clears throat]
>> on prebiotics, the it's really kind of a
um mixed bag of results. The um
there have been studies done with um
purified fibers where you actually see
microbiota diversity plummet over the
course of the study because um you get a
very specific bloom in a small number of
bacteria that are good at using that one
type of fiber and that's at the expense
of all the other microbes that are in
the gut. And so um so it's really hard
to replicate with purified fiber what
you'd get for instance at a salad bar in
terms of the array of complex
carbohydrates that you would be exposing
your microbiota to and I think the kind
of um
uh
broad view of this in the field is that
consuming a broad variety of plants is
uh and and all the the diverse fiber
that comes with that is probably better
in fostering diversity in your
microbiota than purified fibers. Now,
there are um again a lot of people who
benefit from purified fibers either for
GI motility um or or for other aspects
of of GI health problems that they've
been experiencing. Again, I think it's
the type of thing where you have to um
try to find the thing that that's right
for you, but there um there also are
studies that suggest that if you layer
rapidly fermentable um fibers on top of
a Western diet, you actually can um
result in in weird metabolism happening
in your liver because you have this
incredibly rapid fermentation of fiber
along with a lot of fat um coming into
the system, at least that's the that's
the theory. And in a mouse study that
was published a few years ago, they
actually see that a subset of the mice
develop hepatocellular carcinoma
when they're fed a a high-dose
prebiotic.
>> cancer liver cancer on top of a um on
top of a Western diet. So, whether
that's representative of human biology,
we don't know, but um you know, purified
fibers are definitely very different um
both in terms of the diversity of
structures, but also in terms of how
rapidly they're fermented in the gut
because um you know, if you are eating
plants, the complex structures there
really slow the microbes down in terms
of fermentation and you end up with a
slow rate of fermentation over the
length of your colon as opposed to this
big burst of fermentation that can
happen if you eat something that is
highly soluble and and easily accessed
by the microbes. So, you've covered a
tremendous amount of information and I'm
incredibly grateful. Where can people
find out more about the work that you're
doing? We can certainly provide links
and you have a book on this topic, so
could you tell us about the book where
we can learn more about the Sonnenburg
lab and the work that you're doing.
Maybe people will even try and enroll in
some of these studies. Um yeah, so uh
Erica, my wife and I wrote a book called
The Good Gut and um that that really was
a um response to how we were changing
our lives in response to to being in the
field, being very familiar with the
research, seeing that a lot of our
friends that weren't studying the gut
microbiome, but were very well informed,
many of them scientists, were not doing
the same things we were doing and it was
very clear that it was just the um lack
of information funneling out of the
field to other people. And so we wanted
to um make that accessible to people who
are not microbiome scientists. And then,
you know, in terms of kind of connecting
with our research, certainly there's the
Center for Human Microbiome Studies at
Stanford, which is kind of our home base
for doing a lot of these dietary
interventions. We list the studies
there, um give more information on what
we're doing, and then we have a lab
website, too, that people can go to and
read more about our research and we're
always looking for participants for our
studies. Thank you so much for your time
and for the work you do and I hope we
can do it again. Thanks, Andrew. This
was a great conversation. Terrific.
>> [music]