the microbiome lifeline: how can data and digital tools help us prevent autoimmunity
TRANSCRIPT
The Microbiome Lifeline
How Can Data and Digital Tools Help Us Prevent Autoimmunity
Bonnie Feldman, DDS, MBA – Your Autoimmunity Connectionwww.drbonnie360.com | @DrBonnie360
A New Ecosystem: The Body’s
Microbial Garden
@DrBonnie360
Convergence
@DrBonnie360
Microbiota Meets Big Data:
The Human Microbiome
Project
DOI: 10.1038/nrg3785 @DrBonnie360
Data and
Digital Tools
DOI: http://dx.doi.org/10.1016/j.tem.2015.09.011 @DrBonnie360
Metabalomics and
Metabolic Network Modeling
DOI: http://dx.doi.org/10.1016/j.atg.2016.02.001 @DrBonnie360
Modeling and
Interactions of
Gut Microbiome
DOI: http://dx.doi.org/10.3389/fgene.2015.00219 @DrBonnie360
What Characterizes the Microbiome
The Gut is Where
It’s AtOrgan of Immunity
DOI: 10.1038/nri3430 @DrBonnie360
The Gut is Where
It’s AtBrain-Gut Axis
DOI: 10.1038/nrn3346 @DrBonnie360
Location Matters
DOI: 10.1038/ajgsup.2012.4 @DrBonnie360
DOI: 10.3389/fcimb.2012.00104 @DrBonnie360
A Changing
Microbiome
What is Leaky Gut?
DOI:10.1038/ni.2611 @DrBonnie360
100+ 16% 10diseases US population Top leading
cause of death in women
less than 64 yrs
An Invisible Epidemic
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The Microbiome in Autoimmunity
@DrBonnie360
Leaky Gut and
Celiac Disease
DOI:10.1038/nrgastro.2013.141 @DrBonnie360
Microbiome in
Inflammatory Bowel Disease
DOI:10.1038/nrgastro.2015.34 @DrBonnie360
Diversity Matters in
Inflammatory Bowel Disease
DOI:10.1038/ajgsup.2012.4 @DrBonnie360
Microbiome in
Rheumatoid Arthritis
DOI:10.1038/nrrheum.2011.121 @DrBonnie360
Microbiome in
Oral Health
DOI:10.1016/j.imlet.2014.08.017 @DrBonnie360
DOI:10.1016/j.cell.2015.11.001 @DrBonnie360
Company Indication What HowOpen Biome Therapeutic - Oral &
Fecal TransplantNonprofit Stool Bank & Research Platform eliminates practical barriers to Fecal Microbiota Transplants (FMT) & provide tailored fecal microbiota preparations to bioinformatics/analytical services
-Donor Selection; characterize with molecular biomarkers, cross-sectional data, & statistical tools to predict which donors are well suited. -Maintenance Therapy; oral capsules to deliver & explore long-term management of chronic diseases
uBiome Crowdsourced Database Equip individuals with the tools needed to learn about bacteria within their bodies
-Send sample kits & surveys to collect microbiomes for analysis. -Use NIH human microbiome project to sequence DNA & ID each strain-Compare with library & compile results
Global Crowdscience Comes to the Microbiome
DOI:10.1038/nbt.2548
Medicines from Microbiota
@DrBonnie360
Company Indication What HowAOBiome Therapeutic - Topical
Skin
Advance the science of Ammonia Oxidizing Bacteria (AOB) to restore the skin’s microbiome
-Topical therapeutic & consumer product of AOB to reintroduce Nitrosomonas to skin’s bacterial flora & restore Nitric Oxide balance
Enterome Diagnostics & Therapeutic
Inflammatory Bowel Disease - Crohn’s & Ulcerative Colitis
Quantitative Metagenomics Platform (QMP) & Functional Metagenomics Platform (FMP) to support personalized medicine for microbiome-related diseases
-QMP uses total fecal bacterial gene to characterize personal metagenome with disease phenotype & ID biomarkers-FMP screen genomic/metagenomic libraries for dis & dev of new drugs/targets
Miomics Bio-Therapeutics
Therapeutic - Oral
Autoimmune Disease - RA & MS
Oral biologicals to rebalance a microbiota towards a standard microbiota.
-Research GI inhabitan commensal
Company Indication What HowOsel Therapeutic - Topical
Women’s Health
“Live Biotherapeutic Products” (LBP) focusing on women’s health (GU & GI)
-Library of proprietary human bacterial strains-Screening methods to ID strains w/ unique protective properties-Produce stable high quality LBP from selected strains
Second Genome Therapeutic - Oral
Crohn’s Disease
Microbiome Modulating Discovery Platform (MMDP)ID key microbial community members/activities/metabolites & assay for modulatory potential against host targets
-Measure & ID changes in the microbial community composition/function/signaling in health or diseased states w/ MMDP-Generation & eval of small molecules/peptide biologic/bacterial strains that modulate microbe-microbe & microbe-human interactions
Seres Therapeutics Therapeutic - Topical
Dysbiosis, Ulcerative Colitis
Propritary Microbiome Therapeutics Platform (PMTP) & Ecobiotic drugs to reestablish a healthy microbiome
-Computational approaches & PMTP to ID organismal/functional networks of microbial communities, & determine which organisms work together best with disease microbiome to restore function
Company Indication What HowSynlogic Therapeutic
Rare Genetic Metabolic Disorders & IBD
Synthetic Biotics engineered probiotic bacteria
-Platform that engineers new metabolic function into the microbiome
Vedanta Biosciences Therapeutic
Autoimmune
Modulate pathways of interaction between human microbiome & host immune sys. To induce tolerance & restore intestinal homeostasis
-Study mucosal immunology to produce drug based on a proprietary consortia of potent regulatory T cell-inducing Clostridium bacteria
Whole Biome Diagnostics & Therapeutic
Metabolic Syndrome
Proprietary discovery platform for targeted equilibration of the microbiome. Focus on metabolic syndrome
-Target novel symbiotic functionality inherent in the human-microbial interface with a microbiome diagnostic discovery platform
• Autoimmune Disease: An Invisible Epidemichttp://bit.ly/1m0ttsl
• The Serious Health Concern All 20-somethings Should Know About http://bit.ly/R9cEgp
• Decoding Autoimmunity – a Summary of the State of the Art http://bit.ly/1knzaAQ
• The Lonely Voices of Autoimmune Disease via Youtubehttp://bit.ly/X41mMv
• Believe It or Not – The Real Voices of Autoimmunity http://bit.ly/20xRCXO
Your Autoimmunity Exploration
Exploring The Microbiome Lifeline
• Fasano, Alessio. “Leaky Gut and Autoimmune Diseases.” Clinical Reviews in Allergy & Immunology 42.1 (2012) : 71–8. <http://www.ncbi.nlm.nih.gov/pubmed/22109896>.
• Gomez, Andres, David Luckey, and Veena Taneja. “The Gut Microbiome in Autoimmunity: Sex Matters.”Clinical Immunology 159.2 (2015) : 154–162. <http://www.sciencedirect.com/science/article/pii/S1521661615001576>.
• Kamdar, K et al. “Genetic and Metabolic Signals during Acute Enteric Bacterial Infection Alter the Microbiota and Drive Progression to Chronic Inflammatory Disease.” Cell Host & Microbe 19.1 (2016) : 21-31. <http://www.cell.com/cell-host-microbe/pdfExtended/S1931-3128(15)00498-9>.
• McLean, Mairi et al. “Does the Microbiota Play a Role in the Pathogenesis of Autoimmune Diseases?” Gut 64.2 (2014) : gutjnl–2014–308514. <http://gut.bmj.com/content/early/2014/11/28/gutjnl-2014-308514>.
• Waldor, Matthew et al. “Where next for Microbiome Research?” PLoS Biology 13.1 (2015) : e1002050. <http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.1002050>.
• Wu, Hao, Valentina Tremaroli, and Fredrik Bäckhed. “Linking Microbiota to Human Diseases: A Systems Biology Perspective.” Trends in Endocrinology & Metabolism 26.12 (2015) : 758-770. <http://www.cell.com/trends/endocrinology-metabolism/abstract/S1043-2760(15)00194-0>.
Autoimmunity and the Microbiome
@DrBonnie360
The Microbiome and Inflammatory Bowel Disease• De Souza, Heitor, and Claudio Fiocchi. “Immunopathogenesis of IBD: Current State of the Art.” Nature Reviews
Gastroenterology & Hepatology (2015) : 13-27 <http://www.ncbi.nlm.nih.gov/pubmed/26627550>.
• Sartor, R. Balfour. “The Intestinal Microbiota in Inflammatory Bowel Disease.” Nestle Nutrition Institute Workshop Series 79 (2014) : 29–39.<https://uncch.pure.elsevier.com/en/publications/the-intestinal-microbiota-in-inflammatory-bowel-diseases>.
• Sartor, RB, and SK Mazmanian. “Intestinal Microbes in Inflammatory Bowel Diseases.” The American Journal of
Gastroenterology … (2012) : 15-21. <http://www.nature.com/ajgsup/journal/v1/n1/abs/ajgsup20124a.html>.
• Wlodarska, Marta, Aleksandar Kostic, and Ramnik Xavier. “An Integrative View of Microbiome-Host Interactions in Inflammatory Bowel Diseases.” Cell Host & Microbe 17.5 (2015) : 577-591. <http://www.cell.com/cell-host-microbe/abstract/S1931-3128(15)00166-3>.
@DrBonnie360
The Microbiome and Periodontal Disease• Costalonga, M, and MC Herzberg. “The Oral Microbiome and the Immunobiology of Periodontal Disease and
Caries.” Immunology Letters 162.2 (2014) : 22-38. <http://www.sciencedirect.com/science/article/pii/S0165247814001874>.
Rheumatoid Arthritis
Systemic Lupus Erythematosus
• Scher, JU, and SB Abramson. “The Microbiome and Rheumatoid Arthritis.” Nature Reviews Rheumatology 7 (2011) : 569-578. <http://www.nature.com/nrrheum/journal/v7/n10/abs/nrrheum.2011.121.html>.
• Mu, Q, H Zhang, and XM Luo. “SLE: Another Autoimmune Disorder Influenced by Microbes and Diet?” Frontiers in Immunology (2015) : n. pag. <http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4663251/>.
@DrBonnie360
Prevention – Diet, Food, & Nutrition• Tilg, H, and AR Moschen. “Food, Immunity, and the Microbiome.” Gastroenterology 148.6 (2015) : 1107-1119. <
http://www.sciencedirect.com/science/article/pii/S0016508515000128>.
• Zeevi et al. “Personalized Nutrition by Prediction of Glycemic Responses.” Cell. 163.5 (2015) : 1079-1094. <http://www.cell.com/abstract/S0092-8674(15)01481-6>.
• Zmora, N et al. “Taking It Personally: Personalized Utilization of the Human Microbiome in Health and Disease.” Cell Host & Microbe 19.1 (2016) : 12-20. <http://www.cell.com/cell-host-microbe/pdf/S1931-3128(15)00508-9.pdf>.
Prevention – Prebiotics & Probiotics• Hemarajata, P, and J Versalovic. “Effects of Probiotics on Gut Microbiota: Mechanisms of Intestinal
Immunomodulation and Neuromodulation.” Therapeutic Advances in Gastroenterology. (2012) : 39-51. <http://tag.sagepub.com/content/early/2012/09/24/1756283X12459294.abstract>.
• Petschow, B et al. “Probiotics, Prebiotics, and the Host Microbiome: The Science of Translation.” Annals of the New York Academy of Sciences (2013) : 1-17. <http://onlinelibrary.wiley.com/doi/10.1111/nyas.12303/full>.
@DrBonnie360
The Microbiome Lifeline
+1.310.666.5312
www.drbonnie360.com
@DrBonnie360
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Bonnie Feldman, DDS, MBADrBonnie360 is helping companies and entrepreneurs counteract the autoimmune epidemic. Through consulting, market research, writing and speaking, she works with teams using data and digital tools to reshape research, diagnosis, treatment and prevention of autoimmune disease.