Food allergy has been long recognized and well documented. Other adverse reactions to foods first referred to as “toxic idiopathies” by John Freeman, co inventor of immunotherapy, at the early part of the 1900s can be mediated by and have their impact on the nervous and endocrine systems. It can also be mediated by pharmacologic mechanisms and can also affect any part of the body. There’s a great clinical need to accurately identify triggers of adverse reactivity as they have now been linked with even the most serious of modern maladies and diseases. In fact, inflammation is the hallmark of metabolic syndrome. Given the multitude of pathogenic mechanisms underlying adverse reactions to foods and other environmental exposures it is necessary that a utilizable and cost effective technology be understood so that its application be utilized under the appropriate circumstances.
KEY LEARNING POINTS
• The natural ability of certain foods to initiate an inflammatory response and induce metabolic disruptions and counterbalancing mechanisms to prevent that
• How foods can trigger “danger signals” for the immune system
Pharmacologic vs. immunologic reactions to foods
• Is there a common final pathway of all these mechanisms that can reliably indicate triggers of clinical pathology?
• Cellular testing vs. serologic testing: The advantages of cellular testing
Human nutrition, gut microbiome and immune system S'eclairer
Dr Zahida Chaudnary talks with the students about nutrition, gut microbiomes, and nutrition as we look at diseases and how your body reacts to what you eat.
Check out the slideshow by itself here.
Want an audio version? Subscribe to our Podcast on iTunes!
Want to join us for the live discussion? Check out our Social Media in the noon hour every Monday as we sit down on Google Hangout OnAir! Follow us on Twitter, Facebook, or Google+ to get updated with the link when we start!
Everyday Good Health: The Nutrient Rich Way by Lynley DrummondKiwifruit Symposium
Lynley Drummond, Director of Drummond Food Science Advisory, New Zealand. Presented at the 1st International Symposium on Kiwifruit and Health: http://www.kiwifruitsymposium.org/presentations/everyday-good-health-the-nutrient-rich-way/
This presentation considers the role of fruit, in particular kiwifruit, in the diet and how the nutrient-rich, and phytonutrient-rich properties can contribute to the improvement of health outcomes
Food allergy has been long recognized and well documented. Other adverse reactions to foods first referred to as “toxic idiopathies” by John Freeman, co inventor of immunotherapy, at the early part of the 1900s can be mediated by and have their impact on the nervous and endocrine systems. It can also be mediated by pharmacologic mechanisms and can also affect any part of the body. There’s a great clinical need to accurately identify triggers of adverse reactivity as they have now been linked with even the most serious of modern maladies and diseases. In fact, inflammation is the hallmark of metabolic syndrome. Given the multitude of pathogenic mechanisms underlying adverse reactions to foods and other environmental exposures it is necessary that a utilizable and cost effective technology be understood so that its application be utilized under the appropriate circumstances.
KEY LEARNING POINTS
• The natural ability of certain foods to initiate an inflammatory response and induce metabolic disruptions and counterbalancing mechanisms to prevent that
• How foods can trigger “danger signals” for the immune system
Pharmacologic vs. immunologic reactions to foods
• Is there a common final pathway of all these mechanisms that can reliably indicate triggers of clinical pathology?
• Cellular testing vs. serologic testing: The advantages of cellular testing
Human nutrition, gut microbiome and immune system S'eclairer
Dr Zahida Chaudnary talks with the students about nutrition, gut microbiomes, and nutrition as we look at diseases and how your body reacts to what you eat.
Check out the slideshow by itself here.
Want an audio version? Subscribe to our Podcast on iTunes!
Want to join us for the live discussion? Check out our Social Media in the noon hour every Monday as we sit down on Google Hangout OnAir! Follow us on Twitter, Facebook, or Google+ to get updated with the link when we start!
Everyday Good Health: The Nutrient Rich Way by Lynley DrummondKiwifruit Symposium
Lynley Drummond, Director of Drummond Food Science Advisory, New Zealand. Presented at the 1st International Symposium on Kiwifruit and Health: http://www.kiwifruitsymposium.org/presentations/everyday-good-health-the-nutrient-rich-way/
This presentation considers the role of fruit, in particular kiwifruit, in the diet and how the nutrient-rich, and phytonutrient-rich properties can contribute to the improvement of health outcomes
Fruits and Vegetables in a Healthy Diet by Prof Jaap SeidellKiwifruit Symposium
Prof Jaap Seidell, Full Professor at the VU University Amsterdam, The Netherlands. Presented at the 1st International Symposium on Kiwifruit and Health: http://www.kiwifruitsymposium.org/presentations/fruits-and-vegetables-in-a-healthy-diet/
An epidemic of chronic non-communicable diseases is sweeping the globe. It is afflicting especially vulnerable
groups in urban settings. Upstream factors include societal problems such as loss of social cohesion, chronic stress, poverty and unhealthy food environments.
Science Cabaret by Dr. Rodney Dietert "How to train your super organism..via ...Kitty Gifford
Attendees (and their microbes) at this event enjoyed a lively discussion on how we might better interact with our environment to support a healthier life for ourselves and our children. Think with your microbes about why we have to suffer from ever-increasing numbers of debilitating chronic diseases (asthma, food allergies, diabetes, autoimmune conditions, obesity, heart disease and cancer).
with Dr. Rodney Dietert, Cornell University Professor, Department of Microbiology and Immunology
Dr. Rodney Dietert is an internationally-known author, lecturer, scientist, book series editor, and educator. He is the author of Strategies for Protecting Your Child’s Immune System, and Science Sifting: Tools for Innovation in Science and Technology.
Friend or Foe: The Microbiome in Autoimmunity DrBonnie360
Content and Visual Design by Tiffany Simms
DrBonnie360 presents The Microbiome: Sorting the Hype from the Hope at Cambridge Healthtech Institute's 23rd International Molecular Med TRI-CON 2016 in San Francisco, March 6, 2016.
Bringing two scientists from the Sonnenburg and Knight Lab, and four microbiome companies, DrBonnie360 moderates a short course on all you need to know about the microbiome and whether it will be your best friend or your worst enemy.
As DrBonnie360's work surrounds autoimmune diseases, the microbiome proves to be one of the lifelines autoimmunity could use to cross the autoimmune abyss. Presented in this slideshare is a carefully curated set of research on autoimmune and the microbiome.
Daniel Lee, M.D., of UC San Diego Owen Clinic, presents "Update from the 15th International Workshop on Co-Morbidities and Adverse Drug Reactions in HIV"
Adam Moeser, DVM PhD
Associate Professor
Matilda R. Wilson Endowed Chair
Large Animal Clinical Sciences
College of Veterinary Medicine
January 21, 2016
Lactobacillus acidophilus CRL 1014 improved "gut health" in the SHIME(R) reactorEnrique Moreno Gonzalez
How to maintain “gut health” is a goal for scientists throughout the world. Therefore, microbiota management models for testing probiotics, prebiotics, and synbiotics have been developed.
Mapping the Human Gut Microbiome in Health and Disease Using Sequencing, Supe...Larry Smarr
Invited Talk Delivered by Mehrdad Yazdani, Calit2 Ayasdi Sponsored Lunch & Learn American Society of Human Genetics (ASHG) San Diego Convention Center October 19, 2014
For over 25 years, ALCAT has been the pioneer in developing kits used for testing of gluten allergy. A gluten allergy kit from ALCAT is capable of determining the extent of allergy that a patient has to the 350 plus chemicals that cause gluten sensitivity.
Evolution in the news (BIOL415) Spring 2014Kevin B Hugins
Mini presentation on current news stories for BIOL 415
This news article was about a journal article published in Nature Communications on April 15, 2014. The article is the result of research that was led by scientists from the Max Planck Institute for Evolutionary Anthropology. The purpose of the research was to study the co-evolution of humans and gut microbiota and examine adaptation that resulted in groups that had different diets. The primary group of interest was a hunter-gatherer group located in Tanzania known as Hadza. This is one of the few remaining true foraging populations in the world. The Hadza diet consists of baobab, game meat, honey, berries and tubers. Hadza do not consume any agricultural crops or livestock.
Fruits and Vegetables in a Healthy Diet by Prof Jaap SeidellKiwifruit Symposium
Prof Jaap Seidell, Full Professor at the VU University Amsterdam, The Netherlands. Presented at the 1st International Symposium on Kiwifruit and Health: http://www.kiwifruitsymposium.org/presentations/fruits-and-vegetables-in-a-healthy-diet/
An epidemic of chronic non-communicable diseases is sweeping the globe. It is afflicting especially vulnerable
groups in urban settings. Upstream factors include societal problems such as loss of social cohesion, chronic stress, poverty and unhealthy food environments.
Science Cabaret by Dr. Rodney Dietert "How to train your super organism..via ...Kitty Gifford
Attendees (and their microbes) at this event enjoyed a lively discussion on how we might better interact with our environment to support a healthier life for ourselves and our children. Think with your microbes about why we have to suffer from ever-increasing numbers of debilitating chronic diseases (asthma, food allergies, diabetes, autoimmune conditions, obesity, heart disease and cancer).
with Dr. Rodney Dietert, Cornell University Professor, Department of Microbiology and Immunology
Dr. Rodney Dietert is an internationally-known author, lecturer, scientist, book series editor, and educator. He is the author of Strategies for Protecting Your Child’s Immune System, and Science Sifting: Tools for Innovation in Science and Technology.
Friend or Foe: The Microbiome in Autoimmunity DrBonnie360
Content and Visual Design by Tiffany Simms
DrBonnie360 presents The Microbiome: Sorting the Hype from the Hope at Cambridge Healthtech Institute's 23rd International Molecular Med TRI-CON 2016 in San Francisco, March 6, 2016.
Bringing two scientists from the Sonnenburg and Knight Lab, and four microbiome companies, DrBonnie360 moderates a short course on all you need to know about the microbiome and whether it will be your best friend or your worst enemy.
As DrBonnie360's work surrounds autoimmune diseases, the microbiome proves to be one of the lifelines autoimmunity could use to cross the autoimmune abyss. Presented in this slideshare is a carefully curated set of research on autoimmune and the microbiome.
Daniel Lee, M.D., of UC San Diego Owen Clinic, presents "Update from the 15th International Workshop on Co-Morbidities and Adverse Drug Reactions in HIV"
Adam Moeser, DVM PhD
Associate Professor
Matilda R. Wilson Endowed Chair
Large Animal Clinical Sciences
College of Veterinary Medicine
January 21, 2016
Lactobacillus acidophilus CRL 1014 improved "gut health" in the SHIME(R) reactorEnrique Moreno Gonzalez
How to maintain “gut health” is a goal for scientists throughout the world. Therefore, microbiota management models for testing probiotics, prebiotics, and synbiotics have been developed.
Mapping the Human Gut Microbiome in Health and Disease Using Sequencing, Supe...Larry Smarr
Invited Talk Delivered by Mehrdad Yazdani, Calit2 Ayasdi Sponsored Lunch & Learn American Society of Human Genetics (ASHG) San Diego Convention Center October 19, 2014
For over 25 years, ALCAT has been the pioneer in developing kits used for testing of gluten allergy. A gluten allergy kit from ALCAT is capable of determining the extent of allergy that a patient has to the 350 plus chemicals that cause gluten sensitivity.
Evolution in the news (BIOL415) Spring 2014Kevin B Hugins
Mini presentation on current news stories for BIOL 415
This news article was about a journal article published in Nature Communications on April 15, 2014. The article is the result of research that was led by scientists from the Max Planck Institute for Evolutionary Anthropology. The purpose of the research was to study the co-evolution of humans and gut microbiota and examine adaptation that resulted in groups that had different diets. The primary group of interest was a hunter-gatherer group located in Tanzania known as Hadza. This is one of the few remaining true foraging populations in the world. The Hadza diet consists of baobab, game meat, honey, berries and tubers. Hadza do not consume any agricultural crops or livestock.
Renée Wilson, Registered Dietitian and PhD Candidate at University of Otago, New Zealand. Presented at the 1st International Symposium on Kiwifruit and Health: http://www.kiwifruitsymposium.org/presentations/diet-microbiota-and-metabolic-health/
This cross-sectional pilot study aims to determine whether or not there are any differences between the gut microbiota of people with normal glucose tolerance, pre-diabetes and type 2 diabetes.
Connecting Body Time Series to Macro Body ChangesLarry Smarr
The American Academy of Osteopathy 2017 Convocation
The Balance Point: Bringing the Science and Art of Osteopathic Medicine Together
Breakout Session
Colorado Springs, CO
March 24, 2017
The Emerging Personalized Medicine Paradigm of Time-Series Tracking of Mind, ...Larry Smarr
Invited Zoom Remote Lecture
For Sara Gottfried, MD Personalized Medicine for Mental Health Course
Integrative Psychiatry Institute
Recorded June 28, 2022
Biological diversity, or biodiversity, is the scientific term for the variety and variability of life on Earth. Biodiversity is the key indicator of the health of an ecosystem. Every living thing, including man, is involved in these complex networks of interdependent relationships, which are called ecosystems.
Like all healthy ecosystems, Richness of microbiota species characterizes the GI microbiome in healthy individuals. Conversely, a loss in species diversity is a common finding in several disease states. Microbiota Biodiversity helps us : 1- Combat aggressions from other microorganisms, 2- Maintaining the wholeness of the intestinal mucosa. 3- Plays an important role in the immune system, 4- Performing a barrier effect.5- A healthy and balanced gut microbiota is key to ensuring proper digestive functioning. A gut out of balance means a body out of balance which means illness including Inflammation, Allergies, Infections, Nutrient deficiencies, Weight Gain, Asthma-allergies – Autoimmunity
• Arthritis, Metabolic Bone disease, Skin problems e.g. eczema, rosacia, Mood disorders - Cognitive decline-Alzheimers and Cancer.
The gut microbial dysbiosis its fallouts and therapeutic potential of gut mic...Vinod Nikhra
My Keynote Talk at the
6th International Conference on Diabetes Treatment and Research
and 5th International Conference on Public Health and Nutrition
October 16-17, 2019
Vancouver, Canada
Patologie digestive, extradigestive e MicrobiotaASMaD
Presentazione a cura del Professor Giovanni Barbara - M.A.S.T.E.R. ECM in Gastroenterologia: Focus on: Microbiota e dintorni - Fondazione Santa Lucia - Roma
Microbiota, leaky gut syndrome and gut-related diseasesMaurizio Salamone
Lecture on "Microbiota, Leaky gut Syndrome and gut-related disease" at the 7° International workshop on Immunonutrition "Eating for preventing" Carovigno (BA) May 1st-3th 2014
Similar to Toward Personalized Nutrition for the Host and its Microbiome (20)
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Ang Chong Yi Navigating Singaporean Flavors: A Journey from Cultural Heritage...Ang Chong Yi
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Toward Personalized Nutrition for the Host and its Microbiome
1. “Toward Personalized Nutrition
for the Host and its Microbiome”
Keynote
Forum on the Future of Food, Health and Nutrition
University of California, Davis
Davis, CA
May 1, 2018
Dr. Larry Smarr
Director, California Institute for Telecommunications and Information Technology
Harry E. Gruber Professor,
Dept. of Computer Science and Engineering
Jacobs School of Engineering, UCSD
http://lsmarr.calit2.net
1
2. Abstract
The things we ingest orally, whether food or pharmaceuticals, cause a dynamic evolution of
our gut microbiome, which in turn impacts our health. Mammals have trillions of microbes
inhabiting their GI tract, forming a highly diverse ecology. This gut microbiome is coupled to
all the other organs in the body in multiple ways. New research discoveries demonstrate
that a variety of processed food additives can disrupt the microbiome. I will illustrate
microbiome impacts with experiments I have run on my own body. This new research is
illuminating the coming disruptive transition to personalized nutrition, tuned to the state of
our body and its microbiome.
3. To Understand the Impact of Food on Health and Disease
We Must Consider the Human Microbiome
Inclusion of the “Dark Matter” of the Body
Will Radically Alter Medicine and the Food Industry
99% of Your
DNA Genes
Are in Microbe Cells
Not Human Cells
Your Body Has
10 Times As Many Microbe Cells
As DNA-Bearing Human Cells
4. The Cost of Sequencing DNA
Has Fallen Over 100,000x in the Last Ten Years
This Has Enabled Sequencing of
Both Human and Microbial Genomes
5. The United States Population’s Human Gut Microbiome
Has Diverged a Great Deal from Hunter-Gatherers
“The microbiome of uncontacted Amerindians,” J. C. Clemente, et al. Science Advances 1, e1500183 (2015).
[Amerindians in
Venezuela/Columbia]
[Africa]
U.S. Human
Microbiome
Project
Missing Microbes
6. Are Changes in Our Microbiome Ecology Driving The Multi-Decadal Increase
In Autoimmune and Other Non-Communicable Diseases?
Bach (2002) N Engl J Med, Vol. 347, 911-920
2014
7. Could the Gut Microbiome Ecology Changes Shed New Light On
The Obesity/Metabolic Syndrome Public Health Emergency?
% Obese
100 Million American Adults
Have Diabetes or Prediabetes
- CDC 2017
11. Sebastian E. Winter, Christopher A. Lopez
& Andreas J. Bäumler,
EMBO reports v.14, p. 319-327 (2013)
Inflammation Enables Anaerobic Respiration Which Leads to Dysbiosis:
Phylum-Level Shifts in the Gut Microbiome Ecology
12. ● Metabolic Network for Central
Metabolism in E.coli
● Other Metabolic Pathways
Not shown:
○ Amino Acid Metabolism
○ Fatty Acid Metabolism
○ Nucleotide Metabolism
○ ……
● Metabolic Network Varies For
Different Strains
King et al. PLOS Computational Biology (2015)
Ubiquinone Reduction/Oxidation
Menaquinone Reduction/Oxidation
Demethylmenaquinone Reduction/Oxidation
Nitrate Reductase
TCA cycle
Glycolysis & Gluconeogenesis
Pentose Phosphate
Pathway
Fermentation
UC San Diego Has Constructed Genome-Wide Metabolic
Computational Models for 110 E. Coli Strains (including 54 IBD isolates)
Bernhard Palsson Systems Biology
Research Group-UC San Diego
13. The Microbiome–Gut–Brain Axis Connects Altered Microbiome Ecology
To Shifts in Behavior and Disease Throughout the Body
Source: Montiel-Castro, et al.
Frontiers in Integrative Neuroscience 2013
14. The Coupled Neural, Immune, and Microbiome Systems
Provide a Model Explaining How Nutrition Can Alter Neurodevelopment
2017
15. Since Humans Are Not Mice, I Have Been Tracking My Internal Biomarkers For A Decade
To Understand My Body/Microbiome Dynamics
My Quarterly
Blood DrawCalit2 64 Megapixel VROOM
16. Only One of My Blood Measurements
Was Far Out of Range--Indicating Chronic Inflammation
Normal Range <1 mg/L
27x Upper Limit
Complex Reactive Protein (CRP) is a Blood Biomarker
for Detecting Presence of Inflammation
17. Longitudinal Stool Tests Revealed Large Excursions in My Immune System:
Inflammatory Bowel Disease
Normal Range
<7.3 µg/mL
124x Upper Limit for Healthy
Lactoferrin is a Protein Shed from Neutrophils -
An Antibacterial that Sequesters Iron
Typical
Lactoferrin Value for
Active Inflammatory
Bowel Disease
(IBD)
18. I Have Been Collaborating with the UCSD Knight Lab
To Analyze My Gut Microbiome Dynamics
Larry’s 40 Stool Samples Over 3.5 Years
to Rob’s lab on April 30, 2015
19. Lessons from Ecological Dynamics:
Gut Microbiome Has Multiple Relatively Stable Equilibria
“The Application of Ecological Theory Toward an Understanding of the Human Microbiome,”
Elizabeth Costello, Keaton Stagaman, Les Dethlefsen, Brendan Bohannan, David Relman
Science 336, 1255-62 (2012)
20. PCoA by Justine Debelius and Jose Navas,
Knight Lab, UCSD
My Gut Microbiome Ecology Shifted After Drug Therapy
Leading to Rapid Weight Gain, But Drop in IBD Symptoms
Lialda &
Uceris
12/1/13
to
1/1/14
12/1/13-
1/1/14
Frequent IBD Symptoms
Weight Loss
7/1/12 to 12/1/14
Blue Balls on
Diagram to the Right
Principal Coordinate Analysis of
Microbiome Ecology
Weight Data from Larry Smarr, Calit2, UCSD
Weekly Weight
Few IBD Symptoms
Weight Gain 1/1/14 to 8/1/15
Red Balls on
Diagram to the Right
21. My Fasting Glucose Level Began to Rise
After the Microbiome Shift – I Had Developed Prediabetes
Glucose Best Range
70 to 100
Prediabetes Range
100 to 125
Weight gain startedDiabetes Range
22. Can We “Garden” Our Way Back to Health?
New Tools for Managing the Microbiome
“I would like to lose the language of warfare,”
said Julie Segre, a senior investigator at
the National Human Genome Research Institute.
”It does a disservice to all the bacteria
that have co-evolved with us
and are maintaining the health of our bodies.”
23. Manipulating Your Microbiome Can Work -- Fecal Microbiome Transfer
Is a Rapidly Growing New Treatment for Clostridia Difficile
Dr. Bill Sandborn,
Chief UCSD GI
Dr. Brigid Boland,
UCSD GI
C. diff is the nation’s
most common
hospital-acquired
infection,
affecting 500,000
and killing 30,000
Americans/year
(CDC)
Fecal transplants
are 90% curative.
OpenBiome supplies
to over 500 hospitals
in all 50 states,
so far 10,000
transplants.
www.cidrap.umn.edu/news-perspective/2015/02/cdc-puts-c-difficile-burden-453000-cases-29000-deaths
24. Fecal Transplants in Pill Form
For Your Pets Are Already Available
Spinout of
“Based on our research, we have found that many pet digestive
disorders are linked to low bacterial diversity in the gut.”
--AnimalBiome CEO Holly Ganz
25. Adding Vegetable Fiber to the Diet
Seems to Counter Obesity By Increasing Microbiome Diversity
26. Can I Increase My Microbiome Diversity
By Consuming 3 Dozen Plant Species Per Day?
UC San Diego’s Rob Knight Lab is Currently
Sequencing 100 Days of My Stool Samples
I Also Have Photos of Everything I Consumed
27. Aligning Your Eating Pattern With Your Body’s Circadian Rhythm
Is As Important As What You Eat
28. I Volunteered to Become a Patient in the UCSD/Salk Pilot Study
of Time-Restricted Eating (TRE) in Metabolic Syndrome
28
– Hypothesis
– In patients with metabolic syndrome who eat for
≥ 14 hours per day, limiting daily oral intake
to 10 hours per day for 3 months while
using a smartphone application will result in:
– Weight loss
– Improved glucose metabolism
– Improved biomarkers associated with
cardiovascular disease risk
– First study of TRE in metabolic syndrome
– First use of continuous glucose monitoring during TRE
Pam Taub, MD
Cardiology
Satchin Panda, PhD
Circadian Biology
29. Pre Post
Days
1 2 3 4 5 6 7 8 9 10 11
Glucose
(mg/dL)
Glucose
(mg/dL)
Days
1 2 3 4 5 6 7 8 9
Time-Restricting My Food Intake to Ten Hours
Improved My Glucose Spiking Without Changing Diet
Data from Taub/Panda Clinical Trial
Graphics by Azure Grant, QuantifiedSelf.com
30. Pre Post
Days
Days
Days123456789
Days
8am 4pm 12am 8am
Time of Day
1234567891011
8am 4pm 12am 8am
Heat Map of Continuous Glucose Monitor Every 5 Minutes
Before and After 3 Months of Time-Restricted Eating
10-Hour
Eating Window
• Other Improvements:
– Waist 108cm to 102 cm
– Weight 197 to 189
– Blood Pressure 140/74 to 130/69 Data from Taub/Panda Clinical Trial
Graphics by Azure Grant, QuantifiedSelf.com
Time of Day
32. UC San Diego Is Carrying Out Detailed Input/Output Research
Connecting Metagenomics and Metabolomics of Food and Gut Microbiome
Projects Leaders: Julia Gauglitz, Rob Knight, Pieter Dorrestein, Rachael Dutton, UC San Diego
Editor's Notes
Remake these heatmaps to start at 8am…
Replot to start at 6am.
4 days into post there is a shift looks like you didn’t eat until noon--- flew on day 4 the 29th (the day when his glucose starts and ends later)