HDAC-driven autophagy repression aids macrophage immune evasion by K. pneumoniae strains displaying classical, MDR,

Kuniyil Abhinand1, Shima Merin Sony1, Avandika B Anil1

  • 1School of Biotechnology, Amrita Vishwa Vidyapeetham, Amritapuri, Kollam, Kerala 690525, India.

Iscience
|July 20, 2026
PubMed

Insights

Multidrug-resistant and hypervirulent Klebsiella pneumoniae evade immune responses by suppressing autophagy via epigenetic reprogramming. Inhibiting histone deacetylases (HDACs) restores autophagy, enhances bacterial clearance, and offers a potential therapeutic strategy.

Area of Science:

  • Immunology
  • Microbiology
  • Epigenetics

Background:

  • Emergence of multidrug-resistant (MDR) and hypervirulent (hvKp) Klebsiella pneumoniae strains presents a significant clinical challenge.
  • Understanding host immune responses to different K. pneumoniae strains is crucial for developing effective treatments.

Purpose of the Study:

  • To compare host epigenetic responses to classical (cKp), MDR-Kp, and hvKp isolates.
  • To investigate the role of histone deacetylases (HDACs) in K. pneumoniae infection and immune evasion.

Main Methods:

  • Infection models using cKp, MDR-Kp, and hvKp isolates.
  • Chromatin immunoprecipitation (ChIP) to analyze HDAC2 enrichment at the ATG5 promoter.
  • Macrophage polarization assays and cytokine expression analysis (IL-10).
  • HDAC1/2 gene knockdown and pharmacological inhibition (CI994, SAHA).

Main Results:

  • All K. pneumoniae strains induced HDAC2 upregulation and H3K18 deacetylation, suppressing autophagy.
  • hvKp induced an immunosuppressive M2-like macrophage phenotype, promoting bacterial survival and IL-10 expression.
  • HDAC inhibition restored autophagy, normalized cytokine responses, enhanced bacterial clearance, and reversed M2 polarization.

Conclusions:

  • HDAC-mediated epigenetic reprogramming is a key mechanism for K. pneumoniae immune evasion.
  • HDAC inhibition represents a promising host-directed therapeutic strategy against K. pneumoniae infections.

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