Crohn’s Disease

Unpredictable abdominal pain, chronic fatigue, and digestive symptoms that fluctuate between flares and remission aren't simply "sensitive digestion"—they may signal Crohn's disease, a chronic inflammatory condition affecting over 750,000 Americans and approximately 6 to 8 million people worldwide. Research has established that gut microbiome dysbiosis plays a fundamental role in Crohn's pathogenesis, with characteristic reductions in beneficial bacteria and overgrowth of inflammatory species triggering immune dysfunction and intestinal damage. Emotional stress has been implicated and observed as a trigger for the onset of disease and flares. Our comprehensive approach addresses these underlying imbalances through gut microbiome restoration, nervous system regulation, immune system modulation, and personalized anti-inflammatory protocols to achieve lasting remission and prevent disease progression.
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What Exactly Is Crohn's Disease?

Crohn's disease is a chronic autoimmune inflammatory bowel disease (IBD) characterized by transmural inflammation that can affect any part of the gastrointestinal tract from mouth to anus, though it most commonly involves the terminal ileum and colon. Unlike ulcerative colitis, which affects only the colon's inner lining, Crohn's inflammation penetrates through all layers of the bowel wall, leading to complications such as strictures, fistulas, and abscesses in approximately half of patients within 20 years of diagnosis.

The disease results from a complex interplay between genetic predisposition, environmental triggers, immune dysregulation, and profound alterations in the gut microbiome—including reduced diversity and abundance of beneficial bacteria like Faecalibacterium prausnitzii alongside overgrowth of pathogenic species. Crohn's typically follows a relapsing-remitting course, with periods of active inflammation alternating with periods of remission.

Types of Crohn's Disease

Crohn's disease is classified based on the location of inflammation within the gastrointestinal tract, each presenting with distinct symptom patterns and treatment considerations.

Type Location Affected Common Symptoms Considerations
Ileocolitis Terminal ileum and colon Diarrhea, cramping in middle/lower right abdomen, significant weight loss Most common type affecting approximately 50% of patients; highest risk for strictures
Ileitis Terminal ileum only Diarrhea, cramping, weight loss, fistulas/abscesses in lower right abdomen Affects approximately 30% of patients; risk of vitamin B12 deficiency
Crohn's Colitis (Granulomatous Colitis) Colon only Rectal bleeding, diarrhea, skin lesions near anus, joint pain Affects approximately 20% of patients; requires differentiation from ulcerative colitis
Gastroduodenal Crohn's Stomach and duodenum Nausea, vomiting, loss of appetite, weight loss Less common; often undiagnosed; can cause bowel obstruction
Jejunoileitis Upper small intestine (jejunum) Abdominal pain after eating, malnutrition, patchy inflammation More common in children and adolescents; affects nutrient absorption

Why Crohn's Disease Impacts More Than Digestive Health

Crohn's disease extends far beyond the gastrointestinal tract due to its systemic inflammatory nature and the gut-immune connection. The chronic inflammation characteristic of Crohn's triggers widespread immune responses that can affect joints (arthritis), skin (erythema nodosum, pyoderma gangrenosum), eyes (uveitis, iritis), liver (primary sclerosing cholangitis), and bones (osteoporosis). Transmural inflammation damages the intestinal barrier, allowing bacteria and toxins to enter systemic circulation and perpetuate inflammation throughout the body. Additionally, malabsorption from damaged intestinal tissue leads to nutritional deficiencies—particularly vitamin B12, iron, vitamin D, and calcium—contributing to anemia, fatigue, bone loss, and impaired immune function. The gut-brain axis dysfunction associated with Crohn's also contributes to anxiety, depression, and cognitive difficulties commonly experienced by patients.

Common Signs of Crohn's Disease Include:

Gastrointestinal Symptoms:

  • Chronic diarrhea, often watery or occasionally bloody
  • Abdominal pain and cramping, especially in lower right quadrant
  • Urgency and increased frequency of bowel movements
  • Nausea and vomiting
  • Reduced appetite and food aversion
  • Mouth sores and oral ulcers

Systemic Symptoms:

  • Significant unintentional weight loss
  • Chronic fatigue and malaise
  • Fever, especially during flares
  • Night sweats
  • Delayed growth and development in children

Complications and Advanced Disease:

  • Strictures causing bowel obstruction
  • Fistulas (abnormal connections between intestine and skin, bladder, or vagina)
  • Abscesses and infections
  • Perianal disease including fissures and fistulas
  • Nutritional deficiencies and malabsorption

Extraintestinal Manifestations:

  • Joint pain and arthritis
  • Skin conditions (rashes, nodules, ulcerations)
  • Eye inflammation (redness, pain, vision changes)
  • Liver and bile duct complications
  • Kidney stones and urinary symptoms

Diagnostic Options at Whole Gut Health

Comprehensive Crohn's disease evaluation requires thorough assessment to determine disease location, severity, and underlying factors contributing to inflammation. At Whole Gut Health, we use advanced diagnostics to create personalized treatment protocols that address root causes alongside disease management.

Testing options may include:

Colonoscopy with Ileoscopy and Biopsy to visualize the colon and terminal ileum, assess disease extent, and obtain tissue samples for definitive diagnosis and differentiation from ulcerative colitis. Dr. Shustina is no longer performing colonoscopies.  We will review any prior records of colonoscopies.  If a colonoscopy is needed during your care.  We will refer you to one of the carefully screened Gastroenterologists within our network who will perform the procedure on our behalf.

Small Bowel Imaging (MR Enterography or CT Enterography) to evaluate small bowel involvement, strictures, fistulas, and disease activity in areas not accessible by colonoscopy.

 

Applied Kinesiology or muscle testing to help delineate root causes and confirm precise customized treatment protocols

Comprehensive Stool Analysis with Microbiome Profiling to assess gut microbiome composition, identify dysbiotic patterns characteristic of Crohn's, and measure inflammation markers including calprotectin and lactoferrin.

Inflammatory Markers and Serologic Testing including CRP, ESR, ASCA antibodies, and pANCA to help confirm diagnosis and monitor disease activity.

Nutritional and Micronutrient Assessment to identify deficiencies in vitamin B12, iron, vitamin D, zinc, and other nutrients commonly depleted in Crohn's disease.

Short-Chain Fatty Acid Analysis to evaluate gut bacterial metabolism and butyrate production critical for intestinal healing.

SIBO Breath Testing since small intestinal bacterial overgrowth frequently coexists with Crohn's disease and requires concurrent treatment.

We customize testing protocols based on symptom patterns, disease history, and suspected contributing factors to ensure comprehensive evaluation and optimal treatment planning.

Why Whole Gut Health
Is Different

At Whole Gut Health, we go beyond conventional symptom management and traditional functional medicine protocols. We trust your body's innate ability to heal itself when given the right support. In Dr. Shustina's many years of practice, she has seen that many digestive diseases have their root cause in emotional traumas and unhealed wounds. When these underlying causes are healed, the body can heal from the inside out in a lasting way. We focus on the mind-gut connection, incorporating energy healing techniques, personalized nutrition that evolves as you heal, and integrative approaches addressing mind, body, and spirit. If this resonates with you, contact our office to schedule your consultation and take the first step on your healing journey.

Our Crohn's Disease Treatment Approach

Our Three-Phase Crohn's Resolution Protocol Includes:

1. Assessment and Root-Cause Identification

  • Comprehensive evaluation of disease location, severity, and pattern (inflammatory, stricturing, or penetrating)
  • Detailed microbiome analysis to identify characteristic dysbiotic patterns
  • Assessment of environmental triggers and contributing factors including:
    • Dietary triggers and food sensitivities
    • Gut microbiome imbalances and pathogenic overgrowth
    • Intestinal permeability and barrier function
    • Nutritional deficiencies and malabsorption
    • Stress and gut-brain axis dysfunction
    • Medication effects on gut health

2. Targeted Intervention

  • Visceral Manipulation: A manual technique used to help optimize motility as well as address the mind body connection.
  • Energy Medicine: A powerful technique to address the body’s vibration, the mind-gut connection and to empower the body’s unique ability to heal itself.
  • Anti-Inflammatory Protocols: Strategic use of natural anti-inflammatory compounds such as curcumin, customized herbal regimens, and omega-3 fatty acids.
  • Gut Microbiome Restoration: Evidence-based probiotic strains, prebiotics, and synbiotics targeting species depleted in Crohn's disease to restore competitive balance
  • Dietary Modification: Personalized anti-inflammatory nutrition plans including protocols which address dietary changes needed with improvement and flares
  • Intestinal Healing Support: Targeted nutrients and compounds to restore mucosal integrity and reduce intestinal permeability
  • Nutritional Repletion: Comprehensive supplementation to address deficiencies and support immune function
  • Standard Medical Therapies: Many patients are on medications when joining Whole Gut Health.  We use these only when necessary and patients are often able to stop them safely and effectively.

3. Long-Term Remission and Prevention

  • Sustained Microbiome Balance: Long-term protocols for maintaining healthy gut bacterial populations and preventing dysbiosis recurrence
  • Flare Prevention: Identification and avoidance of individual triggers with early intervention protocols
  • Nervous System Regulation: Customized sustainable and consistent practices along personalized lifestyle changes
  • Immune Modulation: Ongoing support for balanced immune function through nutrition, lifestyle, and targeted supplementation
  • Monitoring and Surveillance: Regular assessment of disease activity, nutritional status, and complication screening
  • Quality of Life Optimization: Comprehensive support addressing fatigue, mental health, and extraintestinal manifestations
  • Tapering of medical therapies is often possible in collaboration with patient goals
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Expert-Led, Patient-Centered Care

Dr. Alexandra Shustina, NYC’s and Miami’s premier gut health specialist doctor is a board-certified gastroenterologist and internist. She is a gut health specialist with training in conventional gastroenterology and functional gut health. She is an expert in the gut microbiome and its role in health and wellness.

At Whole Gut Health, our care is led by experienced functional medicine clinicians with a deep understanding of the gut microbiome and advanced diagnostics. We combine evidence-based strategies from conventional gastroenterology with a functional and integrative lens to give you the clarity and support needed for long-term healing.

Frequently Asked Questions

Crohn's disease is a chronic autoimmune inflammatory bowel disease (IBD) that causes inflammation throughout the gastrointestinal tract, most commonly affecting the terminal ileum (end of small intestine) and colon. Unlike ulcerative colitis, Crohn's inflammation penetrates through all layers of the bowel wall and can occur in patches with healthy tissue in between (skip lesions). The disease results from complex interactions between genetics, immune dysfunction, environmental triggers, and gut microbiome imbalances.

Ileocolitis (most common, ~50% of patients)

  • Affects terminal ileum and colon
  • Symptoms: diarrhea, cramping in middle/lower right abdomen, weight loss
  • Highest risk for stricture development

Ileitis (~30% of patients)

  • Affects terminal ileum only
  • Symptoms: diarrhea, cramping, fistulas/abscesses
  • Risk of vitamin B12 deficiency

Crohn's Colitis (~20% of patients)

  • Affects colon only
  • Symptoms: rectal bleeding, diarrhea, skin lesions, joint pain
  • Requires differentiation from ulcerative colitis

Gastroduodenal Crohn's

  • Affects stomach and duodenum
  • Symptoms: nausea, vomiting, loss of appetite
  • Can cause bowel obstruction

Jejunoileitis

  • Affects upper small intestine
  • Symptoms: abdominal pain after eating, malnutrition
  • More common in children

Gastrointestinal: Chronic diarrhea (sometimes bloody), abdominal pain and cramping, urgency, nausea, reduced appetite, mouth sores

Systemic: Significant weight loss, chronic fatigue, fever during flares, night sweats, delayed growth in children

Complications: Strictures, fistulas, abscesses, perianal disease, nutritional deficiencies

Extraintestinal: Joint pain, skin conditions, eye inflammation, liver complications, kidney stones

Comprehensive evaluation includes multiple assessment approaches:

Colonoscopy with Ileoscopy and Biopsy

  • Visualizes colon and terminal ileum
  • Obtains tissue for definitive diagnosis

Small Bowel Imaging

  • MR or CT enterography for disease extent and complications

Applied Kinesiology 

  • helps delineate root causes and confirms precise customized treatment protocols

Comprehensive Stool Analysis

  • Assesses microbiome composition and inflammation markers (calprotectin)

Blood Testing

  • Inflammatory markers (CRP, ESR) and serologic antibodies (ASCA, pANCA)

Nutritional Assessment

  • Identifies common deficiencies (B12, iron, vitamin D)

SIBO Breath Testing

  • Evaluates concurrent bacterial overgrowth

Our comprehensive three-phase Crohn's resolution protocol includes:

Phase 1: Assessment and Root-Cause Identification

  • Evaluation of disease location, severity, and pattern
  • Microbiome analysis for dysbiotic patterns
  • Assessment of dietary triggers, nutritional deficiencies, and contributing factors

Phase 2: Targeted Intervention

  • Visceral Manipulation to help optimize motility as well as address the mind body connection.
  • Energy Medicine to address the body’s vibration, the mind-gut connection and to empower the body’s unique ability to heal itself.
  • Anti-inflammatory protocols using natural compounds.  
  • Gut microbiome restoration with targeted probiotics and prebiotics
  • Personalized dietary modification 
  • Intestinal healing support and nutritional repletion
  • We use standard medical therapy only when necessary 

Phase 3: Long-Term Remission and Prevention

  • Sustained microbiome balance protocols
  • Flare prevention and early intervention strategies
  • Nervous System Regulation through consistent practices and lifestyle changes
  • Ongoing immune modulation and monitoring
  • Quality of life optimization
  • Tapering of medical therapies is often possible in collaboration with patient goals

Research has established that Crohn's patients consistently show characteristic dysbiotic patterns including reduced diversity, decreased beneficial bacteria (especially Faecalibacterium prausnitzii and other butyrate producers), and overgrowth of inflammatory species (particularly Enterobacteriaceae and E. coli). This imbalance reduces short-chain fatty acid production needed for intestinal healing, compromises gut barrier function, and triggers abnormal immune responses perpetuating inflammation.

Yes, with comprehensive treatment, many patients achieve and maintain remission for extended periods. The goal of modern Crohn's management is not just symptom control but mucosal healing, which significantly reduces complication risk and improves long-term outcomes. Our approach combines conventional therapies when needed with gut microbiome restoration, anti-inflammatory nutrition, nervous system regulation, and lifestyle modification to maximize remission duration and quality of life.

At Whole Gut Health, we take a comprehensive approach to Crohn's disease that addresses underlying factors alongside disease management:

  • Focus on true root causes of the disease
  • Nervous system regulation as an important part of healing the mind- gut connection
  • Gut microbiome restoration as an important therapeutic target
  • Integration of conventional gastroenterology with functional medicine approaches
  • Personalized dietary protocols based on individual triggers and tolerances
  • Comprehensive nutritional assessment and repletion
  • Emphasis on sustained remission and quality of life rather than just symptom suppression

Dr. Alexandra Shustina is a board-certified gastroenterologist and internist who serves as NYC's and Miami's premier gut health specialist. She has training in both conventional gastroenterology and functional gut health, with particular expertise in inflammatory bowel diseases and comprehensive gut microbiome restoration protocols.

The first step is scheduling a comprehensive consultation where we'll:

  • Review your symptoms, disease history, and current management in detail
  • Assess true root causes and  contributing factors
  • Determine the most appropriate testing and treatment strategy
  • Develop a personalized Crohn's management plan addressing root causes alongside disease control

Contact our office to schedule your initial consultation and begin your journey toward sustained remission and optimal gut health.

 

Locations

New York

PHONE

(212) 634 4233

ADDRESS

635 Madison Ave.
New York, NY 10022

BUSINESS HOURS

Monday - Friday
9:00am - 5:00pm
Saturday - Sunday - Closed

BUSINESS HOURS

Monday - Friday
9:00am - 5:00pm
Saturday - Sunday - Closed

Miami

PHONE

(212) 634 4233

ADDRESS

407 Lincoln Rd Suite 10B
Miami Beach, FL 33139

BUSINESS HOURS

Monday - Friday
9:00am - 5:00pm
Saturday - Sunday - Closed

BUSINESS HOURS

Monday - Friday
9:00am - 5:00pm
Saturday - Sunday - Closed

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