Respiratory Microbiome

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Respiratory Microbiome - Our Breathing Buddies

  • Dynamic microbial communities in respiratory tract; crucial for health & disease.
  • Upper Respiratory Tract (URT):
    • Nose, nasopharynx, oropharynx, larynx.
    • Higher microbial density & diversity.
    • Dominant genera: Staphylococcus, Streptococcus, Corynebacterium, Dolosigranulum, Moraxella, Haemophilus.
  • Lower Respiratory Tract (LRT):
    • Trachea, bronchi, lungs.
    • Low biomass; distinct from URT. Not sterile.
    • Common genera: Prevotella, Veillonella, Streptococcus, Pseudomonas, Haemophilus.
  • Key Functions:
    • Immune homeostasis & education.
    • Colonization resistance (pathogen displacement).
  • Dysbiosis (Imbalance):
    • Associated with asthma, COPD, cystic fibrosis, pneumonia, ARDS.
    • Influenced by: antibiotics, smoking, pollution, host genetics, infections.

⭐ The "sterile lung" paradigm is outdated; the LRT harbors a distinct, low-density microbiome, critical for respiratory health. Respiratory tract microbiome characteristics

Meet the Microbes - Resident Roster

  • Upper Respiratory Tract (URT: Nasopharynx, Oropharynx)
    • High bacterial load & diversity. Key site for initial colonization.
    • Common residents: 📌 Silly Students Hate Micro Class Notes
      • Streptococcus (viridans, S. pneumoniae)
      • Staphylococcus (S. epidermidis, S. aureus - carriage)
      • Haemophilus influenzae (non-typeable)
      • Moraxella catarrhalis
      • Corynebacterium spp. (diphtheroids)
      • Commensal Neisseria spp.
    • Also significant: Anaerobes (Prevotella, Veillonella, Fusobacterium).
  • Lower Respiratory Tract (LRT: Trachea, Lungs)
    • Low bacterial biomass; not sterile.
    • Reflects URT via microaspiration & mucociliary clearance.
    • Predominant: Prevotella, Veillonella, Streptococcus.
    • Transient colonizers often cleared by host defenses.
  • Clinical Relevance:
    • Alterations (dysbiosis) linked to asthma, COPD, pneumonia.
    • URT commensals can become opportunistic pathogens.

    ⭐ The lungs, once thought sterile, harbor a low-density microbiome in health, largely seeded by URT microaspiration.

Microbial Mayhem - When Balance Breaks

  • Dysbiosis: Respiratory microbial imbalance; loss of homeostasis.
    • Hallmarks: ↓ Diversity, ↑ pathobionts (e.g., H. influenzae, S. pneumoniae), ↓ commensals (Prevotella, Veillonella).
  • Key Triggers:
    • Antibiotics (esp. broad-spectrum)
    • Viral infections (Influenza, RSV)
    • Host factors: Genetics, immunodeficiency
    • Environment: Smoking, pollutants, aspiration
  • Clinical Impact:
    • Asthma/COPD: Exacerbations, ↑ severity.
    • Cystic Fibrosis (CF): Chronic infections (P. aeruginosa), lung function ↓.
    • Pneumonia: ↑ Susceptibility, altered course.
    • Bronchiectasis: Vicious cycle of infection-inflammation.
    • Lung Cancer: Potential contributor.

⭐ In Cystic Fibrosis, Pseudomonas aeruginosa often forms biofilms, contributing to antibiotic resistance and persistent lung infection.

Respiratory microbiome dysbiosis and therapies

Investigating & Intervening - Future Frontiers

  • Investigation Techniques:
    • Next-Gen Sequencing (NGS): 16S rRNA gene, shotgun metagenomics (DNA).
    • Functional 'Omics': Metatranscriptomics (RNA), metabolomics (metabolites).
    • Sampling: Bronchoalveolar lavage (BAL), sputum, nasal swabs.
  • Diagnostic Potential:
    • Microbial biomarkers for early disease detection (asthma, COPD, pneumonia).
    • Predicting treatment efficacy.
  • Therapeutic Avenues:
    • Modulation: Probiotics, prebiotics, synbiotics.
    • Targeted: Phage therapy, engineered bacteria.
    • Metabolite-based: Postbiotics (e.g., SCFAs).

    ⭐ Alterations in lung microbiome (dysbiosis) are increasingly recognized as key factors in asthma pathogenesis and severity.

  • Key Challenges: Standardizing protocols, proving causation, targeted delivery methods for therapeutics to the lungs.

High‑Yield Points - ⚡ Biggest Takeaways

  • The respiratory tract, previously thought sterile, hosts a distinct microbiome.
  • Upper respiratory tract (URT) has more microbes and greater diversity than the lower respiratory tract (LRT).
  • Dominant phyla include Firmicutes, Bacteroidetes, and Proteobacteria.
  • Dysbiosis (imbalance) is linked to asthma, COPD, cystic fibrosis, and respiratory infections.
  • The lung microbiome is primarily shaped by microaspiration from the URT and elimination via mucociliary clearance.
  • Host immunity, antibiotics, and environmental factors significantly modulate the respiratory microbiome.
  • Common genera in healthy lungs include Streptococcus, Prevotella, and Veillonella.

Practice Questions: Respiratory Microbiome

Test your understanding with these related questions

A 6-year-old boy presents with fever and chills, cough, rapid breathing, difficulty breathing, and chest pain. A culture from a respiratory sample shows Gram-positive bacteria. What is the most likely organism causing this infection?

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Flashcards: Respiratory Microbiome

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_____ are common among the normal flora of the gut and mouth

Hint: Obligate Aerobes or Anaerobes

TAP TO REVEAL ANSWER

_____ are common among the normal flora of the gut and mouth

Obligate Anaerobes

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