Gene–environment interactions shape the host–microbial interface in inflammatory bowel disease

Rudbaek, J. J. et al. Deciphering the different phases of preclinical inflammatory bowel disease. Nat. Rev. Gastroenterol. Hepatol. 21, 86–100 (2023).

Ramanan, D. & Cadwell, K. Intrinsic defense mechanisms of the intestinal epithelium. Cell Host Microbe 19, 434–441 (2016).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chikina, A. & Matic Vignjevic, D. At the right time in the right place: how do luminal gradients position the microbiota along the gut? Cells Dev. 168, 203712 (2021).

Article  CAS  PubMed  Google Scholar 

Gu, Y. et al. Immune microniches shape intestinal Treg function. Nature 628, 854–862 (2024).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hoytema van Konijnenburg, D. P. et al. Intestinal epithelial and intraepithelial T cell crosstalk mediates a dynamic response to infection. Cell 171, 783–794 (2017).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Edelblum, K. L. et al. γδ intraepithelial lymphocyte migration limits transepithelial pathogen invasion and systemic disease in mice. Gastroenterology 148, 1417–1426 (2015).

Article  PubMed  Google Scholar 

Koch, M. A. et al. Maternal IgG and IgA antibodies dampen mucosal T helper cell responses in early life. Cell 165, 827–841 (2016).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Bunker, J. J. et al. Innate and adaptive humoral responses coat distinct commensal bacteria with immunoglobulin A. Immunity 43, 541–553 (2015).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Vujkovic-Cvijin, I. et al. The systemic anti-microbiota IgG repertoire can identify gut bacteria that translocate across gut barrier surfaces. Sci. Transl. Med. 14, eabl3927 (2022).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Palm, N. W. et al. Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. Cell 158, 1000–1010 (2014).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Nagashima, K. et al. Mapping the T cell repertoire to a complex gut bacterial community. Nature 621, 162–170 (2023).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Sefik, E. et al. Mucosal immunology. Individual intestinal symbionts induce a distinct population of RORγ+ regulatory T cells. Science 349, 993–997 (2015).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Atarashi, K. et al. TH17 cell induction by adhesion of microbes to intestinal epithelial cells. Cell 163, 367–380 (2015).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Sano, T. et al. An IL-23R/IL-22 circuit regulates epithelial serum amyloid A to promote local effector TH17 responses. Cell 164, 324 (2016).

Article  CAS  PubMed  Google Scholar 

Xu, M. et al. c-MAF-dependent regulatory T cells mediate immunological tolerance to a gut pathobiont. Nature 554, 373–377 (2018).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chai, J. N. et al. Helicobacter species are potent drivers of colonic T cell responses in homeostasis and inflammation. Sci. Immunol. 2, eaal5068 (2017).

Article  PubMed  PubMed Central  Google Scholar 

Brodin, P. & Davis, M. M. Human immune system variation. Nat. Rev. Immunol. 17, 21–29 (2017).

Article  CAS  PubMed  Google Scholar 

Bakker, O. B. et al. Integration of multi-omics data and deep phenotyping enables prediction of cytokine responses. Nat. Immunol. 19, 776–786 (2018).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Brodin, P. et al. Variation in the human immune system is largely driven by non-heritable influences. Cell 160, 37–47 (2015).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Lin, J. D. et al. Rewilding Nod2 and Atg16l1 mutant mice uncovers genetic and environmental contributions to microbial responses and immune cell composition. Cell Host Microbe 27, 830–840 (2020).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Yeung, F. et al. Altered immunity of laboratory mice in the natural environment is associated with fungal colonization. Cell Host Microbe 27, 809–822 (2020).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Carr, E. J. et al. The cellular composition of the human immune system is shaped by age and cohabitation. Nat. Immunol. 17, 461–468 (2016).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Patin, E. et al. Natural variation in the parameters of innate immune cells is preferentially driven by genetic factors. Nat. Immunol. 19, 302–314 (2018).

Article  CAS  PubMed  Google Scholar 

Saint-Andre, V. et al. Smoking changes adaptive immunity with persistent effects. Nature 626, 827–835 (2024).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Cader, M. Z. et al. FAMIN is a multifunctional purine enzyme enabling the purine nucleotide cycle. Cell 180, 278–295 (2020).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Oyesola, O. et al. Genetic and environmental interactions contribute to immune variation in rewilded mice. Nat. Immunol. 25, 1270–1282 (2024).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Zheng, H. B., de la Morena, M. T. & Suskind, D. L. The growing need to understand very early onset inflammatory bowel disease. Front Immunol. 12, 675186 (2021).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Bolton, C. et al. An integrated taxonomy for monogenic inflammatory bowel disease. Gastroenterology 162, 859–876 (2022).

Article  CAS  PubMed  Google Scholar 

Sazonovs, A. et al. Large-scale sequencing identifies multiple genes and rare variants associated with Crohn’s disease susceptibility. Nat. Genet. 54, 1275–1283 (2022).

Article  CAS  PubMed  PubMed Central  Google Scholar 

Stankey, C. T. et al. A disease-associated gene desert directs macrophage inflammation through ETS2. Nature 630, 447–456 (2024).

Article  CAS  PubMed  PubMed Central 

Comments (0)

No login
gif