autoimmune diseases microbiome signatures

Did you know?
Americans are over three times more likely to suffer from autoimmune diseases compared to the global average, with approximately 16.67% of the U.S. population affected versus 5% worldwide.

Autoimmune Diseases

Researched by:

  • Karen Pendergrass ID
    Karen Pendergrass

    User avatarKaren Pendergrass is a microbiome researcher specializing in microbiome-targeted interventions (MBTIs). She systematically analyzes scientific literature to identify microbial patterns, develop hypotheses, and validate interventions. As the founder of the Microbiome Signatures Database, she bridges microbiome research with clinical practice. In 2012, based on her own investigative research, she became the first documented case of FMT for Celiac Disease—four years before the first published case study.

Fact-checked by:

  • Kimberly Eyer ID
    Kimberly Eyer

    User avatarKimberly Eyer, a Registered Nurse with 30 years of nursing experience across diverse settings, including Home Health, ICU, Operating Room Nursing, and Research. Her roles have encompassed Operating Room Nurse, RN First Assistant, and Acting Director of a Same Day Surgery Center. Her specialty areas include Adult Cardiac Surgery, Congenital Cardiac Surgery, Vascular Surgery, and Neurosurgery.

November 21, 2024

Autoimmune disease is when the immune system mistakenly attacks the body’s tissues, often linked to imbalances in the microbiome, which can disrupt immune regulation and contribute to disease development.

research-feed Research feed

Researched by:

  • Karen Pendergrass ID
    Karen Pendergrass

    User avatarKaren Pendergrass is a microbiome researcher specializing in microbiome-targeted interventions (MBTIs). She systematically analyzes scientific literature to identify microbial patterns, develop hypotheses, and validate interventions. As the founder of the Microbiome Signatures Database, she bridges microbiome research with clinical practice. In 2012, based on her own investigative research, she became the first documented case of FMT for Celiac Disease—four years before the first published case study.

Fact-checked by:

  • Kimberly Eyer ID
    Kimberly Eyer

    User avatarKimberly Eyer, a Registered Nurse with 30 years of nursing experience across diverse settings, including Home Health, ICU, Operating Room Nursing, and Research. Her roles have encompassed Operating Room Nurse, RN First Assistant, and Acting Director of a Same Day Surgery Center. Her specialty areas include Adult Cardiac Surgery, Congenital Cardiac Surgery, Vascular Surgery, and Neurosurgery.

Last Updated: August 10, 2024

Microbiome Signatures identifies and validates condition-specific microbiome shifts and interventions to accelerate clinical translation. Our multidisciplinary team supports clinicians, researchers, and innovators in turning microbiome science into actionable medicine.

See full history

Karen Pendergrass

Karen Pendergrass is a microbiome researcher specializing in microbiome-targeted interventions (MBTIs). She systematically analyzes scientific literature to identify microbial patterns, develop hypotheses, and validate interventions. As the founder of the Microbiome Signatures Database, she bridges microbiome research with clinical practice. In 2012, based on her own investigative research, she became the first documented case of FMT for Celiac Disease—four years before the first published case study.

Overview

Autoimmune diseases are a group of disorders in which the immune system mistakenly attacks the body’s own cells, leading to chronic inflammation and tissue damage. These conditions can be systemic, affecting multiple organs, or organ-specific, targeting a single tissue type. While the exact causes of autoimmune diseases remain unclear, they are believed to result from a combination of genetic, environmental, and immunological factors. Emerging research has highlighted the significant role of the gut microbiome in the development and regulation of the immune system, suggesting that imbalances in microbial communities may contribute to the onset and progression of these diseases.

Conditions

The Microbiome Signatures Database on Autoimmune Disease is a developing resource designed to catalog and analyze the complex interactions between the gut microbiome and various autoimmune conditions. While the database is not yet fully comprehensive, it currently includes a selection of microbiome signatures associated with a limited number of autoimmune diseases. These initial entries represent the early stages of our efforts to understand the intricate relationships between microbial communities and immune system dysfunction. As research in this field progresses, we are actively expanding the database to include a broader range of conditions and more detailed microbial profiles. Our goal is to provide a robust and comprehensive resource that will serve as a valuable tool for researchers, clinicians, and anyone interested in the evolving science of the microbiome and its impact on autoimmune diseases.

https://microbiomesignatures.com/conditions/multiple-sclerosis/

Autoimmune Diseases

Each autoimmune disease is characterized by the immune system mistakenly attacking particular tissues, leading to a range of clinical symptoms. While the table omits detailed descriptions of the conditions themselves, it serves as a quick reference to understand which tissues are primarily involved in each disorder.

What are the common autoimmune diseases and which body parts are affected?

Autoimmune DiseasePrimary Body Parts Affected
Rheumatoid ArthritisJoints
Systemic Lupus Erythematosus (SLE)Skin, Joints, Kidneys, Brain, Heart, Lungs
Type 1 Diabetes MellitusPancreas
Multiple Sclerosis (MS)Central Nervous System
PsoriasisSkin
Inflammatory Bowel Disease (IBD)Gastrointestinal Tract
Hashimoto’s ThyroiditisThyroid
Graves’ DiseaseThyroid
Myasthenia GravisMuscles
Celiac DiseaseSmall Intestine
Addison’s DiseaseAdrenal Glands
Sjögren’s SyndromeSalivary Glands, Lacrimal Glands
Antiphospholipid Syndrome (APS)Blood Vessels
Autoimmune HepatitisLiver
VitiligoSkin
Alopecia AreataHair Follicles

FAQs

The FAQs section offers clear answers about autoimmune diseases, their causes, and the role of the gut microbiome. It explains the purpose of the category page and how the microbiome signatures database can help explore connections between microbes and autoimmune conditions, providing essential information for researchers, clinicians, and others interested in the intersection of autoimmunity and the microbiome.

What are autoimmune diseases?

Autoimmune diseases are disorders in which the immune system mistakenly attacks the body’s own cells, tissues, or organs, leading to chronic inflammation, tissue damage, and various symptoms depending on the organs affected.

How are autoimmune diseases classified?

Autoimmune diseases can be classified as either systemic, affecting multiple organs (e.g., systemic lupus erythematosus), or organ-specific, targeting a single tissue type (e.g., Type 1 diabetes, multiple sclerosis).

What causes autoimmune diseases?

The exact causes of autoimmune diseases are not fully understood, but they are believed to arise from a combination of genetic predisposition, environmental triggers, immune system dysregulation, and gut dysbiosis.

How is the gut microbiome related to autoimmune diseases?

The gut microbiome, which consists of trillions of microorganisms living in the digestive tract, plays a crucial role in immune system development and function. Dysbiosis, or an imbalance in the gut microbiome, has been linked to the development and exacerbation of autoimmune diseases.

How can I use the microbiome signatures database in relation to autoimmune diseases?

The microbiome signatures database can be used to explore specific microbial patterns associated with different autoimmune diseases. It provides valuable insights into potential biomarkers and therapeutic targets related to the microbiome’s role in autoimmunity.

Research Feed

Multiple sclerosis patients have a distinct gut microbiota compared to healthy controls
June 27, 2016
/
Autoimmune Diseases
Autoimmune Diseases

Did you know?
Americans are over three times more likely to suffer from autoimmune diseases compared to the global average, with approximately 16.67% of the U.S. population affected versus 5% worldwide.

This case-control study investigates the gut microbiota's role in multiple sclerosis (MS) pathogenesis by comparing the fecal microbiota of relapsing-remitting MS patients to healthy controls. Findings reveal significant microbial dysbiosis in MS patients, highlighting differences in the abundance of specific bacterial genera, supporting the gut microbiota's involvement in MS etiology.

What was studied?

The research focused on investigating the potential role of gut microbiota in the pathogenesis of Multiple Sclerosis (MS), particularly relapsing-remitting MS (RRMS). It aimed to compare the fecal microbiota composition between RRMS patients and healthy controls, analyze the microbial diversity, and assess the predictive power of microbiota profiles in distinguishing disease status.

Who was studied?

The study included 31 RRMS patients, categorized based on their disease phase (active or in remission), and 36 age- and sex-matched healthy controls. The RRMS patients were between 18 and 80 years of age, met the McDonald diagnostic criteria for MS, and had an Expanded Disability Status Scale (EDSS) score between 1 and 6. The selection criteria excluded individuals with prior significant surgeries, current antibiotic or probiotic use, or a history of autoimmune diseases other than MS.

What were the most important findings?

Distinct Microbial Community Profiles: RRMS patients had significantly different gut microbiota compositions compared to healthy controls, with specific genera such as Pseudomonas, Pedobacter, Blautia, and Dorea showing higher abundance in RRMS patients, while genera like Adlercreutzia, Parabacteroides, and Lactobacillus were more abundant in controls.

Species Richness and Diversity: Active disease phase was associated with a trend towards lower species richness compared to healthy controls, while remission phase microbiota exhibited similar species richness to controls.

Predictive Power of Gut Microbiota: Using Random Forests (RF) and operational taxonomic unit (OTU) profiles, the study achieved significant classification accuracy in distinguishing RRMS patients from healthy controls based on gut microbiota composition.

Functional Implications: The functional analysis suggested alterations in pathways related to fatty acid metabolism, defense mechanisms, and glycolysis, indicating a broader impact of gut microbiota dysbiosis on metabolic functions.

What are the greatest implications of this study?

The findings underscore the importance of gut microbiota in the etiology and pathogenesis of RRMS, suggesting that dysbiosis may not only be a marker of the disease but also potentially contribute to its development and progression. These results open avenues for future research to explore gut microbiota as a therapeutic target or biomarker for MS. Understanding the specific roles of altered microbiota and their metabolic pathways could lead to new interventions to modulate the gut microbiome to manage or prevent MS. Moreover, the predictive model based on gut microbiota composition presents a novel approach for identifying individuals at risk of RRMS, offering the potential for early intervention and personalized treatment strategies.

Gut microbiota in early pediatric multiple sclerosis: a case−control study
May 13, 2016
/
Autoimmune Diseases
Autoimmune Diseases

Did you know?
Americans are over three times more likely to suffer from autoimmune diseases compared to the global average, with approximately 16.67% of the U.S. population affected versus 5% worldwide.

This study identified significant gut microbiota dysbiosis in pediatric MS, with increased pro-inflammatory taxa and metabolic shifts. Findings suggest early microbial perturbations may contribute to disease pathogenesis.

What was studied?

This study explored the gut microbiota of children diagnosed with early-onset pediatric multiple sclerosis (MS) and compared it to controls of similar age and sex. The researchers aimed to identify gut microbial community differences, including taxonomic and functional perturbations, and examined the influence of immunomodulatory drug (IMD) exposure. This study also predicted functional metabolic pathways based on microbial profiles.

Who was studied?

The study involved 18 children with relapsing-remitting multiple sclerosis (RRMS) and 17 healthy controls. The participants, aged 4 to 18 years, were enrolled from a University of California, San Francisco pediatric clinic. MS cases were within two years of symptom onset, with half being IMD-naïve. Both groups were matched by age and sex, with controls lacking autoimmune conditions or recent antibiotic exposure.

What were the most important findings?

The study revealed significant microbial differences between pediatric MS cases and controls. MS cases exhibited an enrichment in pro-inflammatory taxa, including Desulfovibrionaceae (e.g., Bilophila, Desulfovibrio) and Christensenellaceae, and a depletion of anti-inflammatory taxa such as Lachnospiraceae and Ruminococcaceae. Additionally, metabolic pathways related to glutathione metabolism were enriched in MS cases, regardless of IMD exposure. Notably, IMD exposure correlated with reduced beta diversity variations, suggesting partial modulation of the microbiome toward a more control-like composition. Furthermore, the study observed shifts in microbial genes involved in lipopolysaccharide biosynthesis and immune modulation, linking gut dysbiosis with potential mechanisms of neuroinflammation and neurodegeneration.

What are the greatest implications of this study?

This study highlights the potential role of gut microbiota in the early pathogenesis of pediatric MS. The observed microbial dysbiosis aligns with a pro-inflammatory milieu that may contribute to immune dysregulation in MS. The findings underscore the importance of gut-targeted interventions, such as dietary modifications or probiotics, as potential therapeutic strategies. The results also emphasize the need for longitudinal studies to elucidate causative versus consequential relationships between gut dysbiosis and MS development.

A comparative study of the gut microbiota in immune-mediated inflammatory diseases-does a common dysbiosis exist?
December 13, 2018
/
Autoimmune Diseases
Autoimmune Diseases

Did you know?
Americans are over three times more likely to suffer from autoimmune diseases compared to the global average, with approximately 16.67% of the U.S. population affected versus 5% worldwide.

Multiple Sclerosis (MS)
Multiple Sclerosis (MS)

Did you know? 

Several studies provide evidence of a potential association between occupational zinc exposure and an increased incidence of MS [x,x,x,x,x].

This study reveals that gut microbiota dysbiosis in immune-mediated inflammatory diseases includes shared enrichment of pro-inflammatory taxa like Streptococcus and Eggerthella, alongside depletion of beneficial genera such as Roseburia. These patterns support a common microbial signature across IMIDs and highlight potential targets for diagnosis and therapeutic intervention.

What was studied?

This study examined whether a common gut microbiota dysbiosis exists across multiple immune-mediated inflammatory diseases (IMIDs), specifically Crohn’s disease (CD), ulcerative colitis (UC), multiple sclerosis (MS), and rheumatoid arthritis (RA). Researchers employed 16S rRNA gene sequencing of stool samples and machine learning techniques to identify both disease-specific and shared microbial signatures. This pilot investigation also explored the potential of taxonomic features to classify disease states using random forest classifiers.

Who was studied?

The study included 99 participants: 20 with CD, 19 with UC, 19 with MS, 21 with RA, and 23 healthy controls (HC). Patients were recruited from clinical centers in Winnipeg, Canada, and met disease-specific diagnostic criteria. Inclusion criteria mandated age above 18 and no antibiotic use in the preceding 8 weeks. Biological replicates were collected approximately two months apart to assess microbial stability over time.

What were the most important findings?

The study identified a shared gut microbiota dysbiosis signature across IMIDs, marked by reduced diversity and distinct taxonomic shifts compared to healthy controls. Alpha diversity was significantly lower in IMID groups, especially in CD. Key genera enriched across all disease groups included Actinomyces, Eggerthella, Clostridium III, Faecalicoccus, and Streptococcus—potential Major Microbial Associations (MMAs) due to their pro-inflammatory profiles and consistent presence in IMID cohorts. In contrast, Gemmiger, Lachnospira, and Roseburia were significantly depleted in IMIDs and are known to produce anti-inflammatory metabolites like butyrate. Machine learning classifiers distinguished disease from HC with high accuracy (AUC up to 0.95 for CD), confirming the reliability of these microbial features as diagnostic indicators. Disease-specific signatures were also detected: Bifidobacterium was elevated in UC, Intestinibacter in CD, and unclassified Erysipelotrichaceae in MS.

Key DomainDetails
Conditions StudiedCrohn’s disease, ulcerative colitis, multiple sclerosis, rheumatoid arthritis
Shared Microbial IncreasesActinomyces, Eggerthella, Clostridium III, Faecalicoccus, Streptococcus
Shared Microbial DecreasesGemmiger, Lachnospira, Roseburia
Disease-Specific AssociationsIntestinibacter (CD), Bifidobacterium (UC), Erysipelotrichaceae (MS), Roseburia (↓ in RA)
Microbiome MetricsAlpha diversity lowest in CD, highest in healthy controls; compositional shifts significant
Clinical ImplicationsSupports development of microbiome-targeted diagnostics and interventions
Diagnostic PerformanceAUCs: CD vs HC = 0.95; classification robust for all IMIDs using Gram-positive taxa

What are the greatest implications of this study?

This study provides compelling evidence for a partially conserved gut microbiota dysbiosis pattern in IMIDs, despite their diverse clinical presentations. The findings suggest that microbial taxa such as Streptococcus and Eggerthella may contribute to shared pathogenic mechanisms via modulation of host immunity, while depletion of butyrate-producing genera like Roseburia may reflect a breakdown in mucosal tolerance. These MMAs highlight targets for microbiome-modulating interventions and support their integration into risk stratification and personalized treatment strategies. Furthermore, the study underscores the diagnostic potential of microbiota-based machine learning tools, offering a route to non-invasive, microbiome-informed screening across inflammatory conditions.

Update History

2024-11-07 08:44:18

Added Multiple Sclerosis major

Alias iure reprehenderit aut accusantium. Molestiae dolore suscipit. Necessitatibus eum quaerat. Repudiandae suscipit quo necessitatibus. Voluptatibus ullam nulla temporibus nobis. Atque eaque sed totam est assumenda. Porro modi soluta consequuntur veritatis excepturi minus delectus reprehenderit est. Eveniet labore ut quas minima aliquid quibusdam. Vitae possimus fuga praesentium eveniet debitis exercitationem deleniti.

Create a free account to unlock this study summary.

Microbiome Insiders can read two study summaries for any topic on Microbiome.

(Get started with your free account)

2024-11-07 08:42:53

1
Join the Roundtable

Contribute to published consensus reports, connect with top clinicians and researchers, and receive exclusive invitations to roundtable conferences.