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Background <p>Macrophages are critical to maintaining intestinal homeostasis and contribute to localized inflammation once dysregulated. Here, we aimed at understanding innate macrophage dysfunction in subjects with chronic idiopathic gut inflammation Crohn’s disease (CD) and chronic infection-related gut inflammation, intestinal tuberculosis (ITB).</p> Methodology <p>The study population involved subjects aged 18 years or above, including males and females, who met the inclusion/exclusion criteria (CD: <i>n</i> = 42; ITB: <i>n</i> = 41). RNA-seq analysis of <i>ex vivo Mtb</i>-infected or uninfected monocyte-derived macrophages (MDMs) from CD, ITB and healthy controls was done. The MDMs from a cohort of patients, including CD (<i>n</i> = 42) and ITB (<i>n</i> = 41), were characterized for innate immune responses such as autophagy (CD, <i>n</i> = 15: ITB, <i>n</i> = 09), mitochondrial depolarization (CD, <i>n</i> = 08: ITB, <i>n</i> = 08) and bactericidal capacity (CD, <i>n</i> = 25: ITB, <i>n</i> = 28). Finally, the role of <i>AXL</i> downregulation in impaired autophagy was tested.</p> Results <p>The MDMs from CD and ITB subjects showed differential regulation of autophagy-associated genes. Functionally, CD MDMs showed significant autophagy impairment compared to ITB MDMs (average MFI-201 in CD vs. 414 in ITB). Both CD and ITB MDMs were permissive to <i>Mtb</i> uptake; however, CD MDMs were more permissive (44% CD samples vs. 28% ITB samples). We noted that <i>AXL</i> was consistently downregulated in CD MDMs and biopsies compared to ITB. <i>AXL</i> knockdown in macrophages impaired autophagy, suggesting a causal relationship between AXL expression and impaired autophagy in CD MDMs.</p> Conclusion <p>We experimentally demonstrate distinct autophagy regulation between CD and ITB MDMs. Impaired autophagy in CD MDMs could explain the heightened chronic inflammation observed in CD subjects. The association of <i>AXL</i> downregulation with autophagy impairment could facilitate novel diagnostic and intervention approaches against CD.</p> Graphical abstract <p></p>

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AXL-dependent autophagy impairment differentiates monocyte-derived macrophages from Crohn’s disease and intestinal tuberculosis

  • 期刊论文

  • 发表日期：

    2026年2月9日

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  • Sonakshi Udinia,
  • Mrinmoy Das,
  • Shaina Jamwal,
  • Manasvini Markandey,
  • Aditya Bajaj,
  • Lalita Mehra,
  • Saurabh Kedia,
  • Carey F. H. Lim,
  • Shihui Foo,
  • Prasenjit Das,
  • Shanshan Howland,
  • Mrutyunjay Suar,
  • Amit Singhal,
  • Vineet Ahuja,
  • Dhiraj Kumar

摘要

Background

Macrophages are critical to maintaining intestinal homeostasis and contribute to localized inflammation once dysregulated. Here, we aimed at understanding innate macrophage dysfunction in subjects with chronic idiopathic gut inflammation Crohn’s disease (CD) and chronic infection-related gut inflammation, intestinal tuberculosis (ITB).

Methodology

The study population involved subjects aged 18 years or above, including males and females, who met the inclusion/exclusion criteria (CD: n = 42; ITB: n = 41). RNA-seq analysis of ex vivo Mtb-infected or uninfected monocyte-derived macrophages (MDMs) from CD, ITB and healthy controls was done. The MDMs from a cohort of patients, including CD (n = 42) and ITB (n = 41), were characterized for innate immune responses such as autophagy (CD, n = 15: ITB, n = 09), mitochondrial depolarization (CD, n = 08: ITB, n = 08) and bactericidal capacity (CD, n = 25: ITB, n = 28). Finally, the role of AXL downregulation in impaired autophagy was tested.

Results

The MDMs from CD and ITB subjects showed differential regulation of autophagy-associated genes. Functionally, CD MDMs showed significant autophagy impairment compared to ITB MDMs (average MFI-201 in CD vs. 414 in ITB). Both CD and ITB MDMs were permissive to Mtb uptake; however, CD MDMs were more permissive (44% CD samples vs. 28% ITB samples). We noted that AXL was consistently downregulated in CD MDMs and biopsies compared to ITB. AXL knockdown in macrophages impaired autophagy, suggesting a causal relationship between AXL expression and impaired autophagy in CD MDMs.

Conclusion

We experimentally demonstrate distinct autophagy regulation between CD and ITB MDMs. Impaired autophagy in CD MDMs could explain the heightened chronic inflammation observed in CD subjects. The association of AXL downregulation with autophagy impairment could facilitate novel diagnostic and intervention approaches against CD.

Graphical abstract