Interaction between microbiota and immunity in health and disease

Abstract

The interplay between the commensal microbiota and the mammalian immune system development and function includes multifold interactions in homeostasis and disease. The microbiome plays critical roles in the training and development of major components of the host’s innate and adaptive immune system, while the immune system orchestrates the maintenance of key features of host-microbe symbiosis. In a genetically susceptible host, imbalances in microbiota-immunity interactions under defined environmental contexts are believed to contribute to the pathogenesis of a multitude of immune-mediated disorders. Here, we review features of microbiome-immunity crosstalk and their roles in health and disease, while providing examples of molecular mechanisms orchestrating these interactions in the intestine and extra-intestinal organs. We highlight aspects of the current knowledge, challenges and limitations in achieving causal understanding of host immune-microbiome interactions, as well as their impact on immune-mediated diseases, and discuss how these insights may translate towards future development of microbiome-targeted therapeutic interventions.

References 268

1. 1.

   Sender R, Fuchs S, Milo R. Are we really vastly outnumbered? revisiting the ratio of bacterial to host cells in humans. Cell. 2016;164:337-340.

   Not in our library10.1016/j.cell.2016.01.013

2. 2.
   The Integrative Human Microbiome Project · 2019

   No notice
3. 3.

   Hacquard S, et al. Microbiota and host nutrition across plant and animal kingdoms. Cell Host Microbe. 2015;17:603-616.

   Not in our library10.1016/j.chom.2015.04.009

4. 4.

   Lynch JB, Hsiao EY. Microbiomes as sources of emergent host phenotypes. Science. 2019;365:1405-1409.

   Not in our library10.1126/science.aay0240

5. 5.

   Dethlefsen L, McFall-Ngai M, Relman DA. An ecological and evolutionary perspective on human-microbe mutualism and disease. Nature. 2007;449:811-818.

   Not in our library10.1038/nature06245

6. 6.

   Macpherson AJ, Geuking MB, McCoy KD. Immune responses that adapt the intestinal mucosa to commensal intestinal bacteria. Immunology. 2005;115:153-162.

   Not in our library10.1111/j.1365-2567.2005.02159.x

7. 7.

   Chu H, Mazmanian SK. Innate immune recognition of the microbiota promotes host-microbial symbiosis. Nat. Immunol. 2013;14:668-675.

   Not in our library10.1038/ni.2635

8. 8.
   Interactions between Intestinal Microbiota and Host Immune Response in Inflammatory Bowel Disease · 2017

   No notice
9. 9.

   Valitutti F, Cucchiara S, Fasano A. Celiac disease and the microbiome. Nutrients. 2019;11:2403.

   Not in our library10.3390/nu11102403

10. 10.
    Host–microbiota interactions in rheumatoid arthritis · 2019

    No notice
11. 11.
    Gut Microbiome Dysbiosis and Immunometabolism: New Frontiers for Treatment of Metabolic Diseases · 2018

    No notice
12. 12.

    Main BS, Minter MR. Microbial immuno-communication in neurodegenerative diseases. Front. Neurosci. 2017;11:151.

    Not in our library10.3389/fnins.2017.00151

13. 13.

    Gopalakrishnan V, Helmink BA, Spencer CN, Reuben A, Wargo JA. The influence of the gut microbiome on cancer, immunity, and cancer immunotherapy. Cancer Cell. 2018;33:570-580.

    Not in our library10.1016/j.ccell.2018.03.015

14. 14.

    Maynard CL, Elson CO, Hatton RD, Weaver CT. Reciprocal interactions of the intestinal microbiota and immune system. Nature. 2012;489:231-241.

    Not in our library10.1038/nature11551

15. 15.

    Belkaid Y, Harrison OJ. Homeostatic immunity and the microbiota. Immunity. 2017;46:562-576.

    Not in our library10.1016/j.immuni.2017.04.008

16. 16.

    Belkaid Y, Hand TW. Role of the microbiota in immunity and inflammation. Cell. 2014;157:121-141.

    Not in our library10.1016/j.cell.2014.03.011

17. 17.

    Gensollen T, Iyer SS, Kasper DL, Blumberg RS. How colonization by microbiota in early life shapes the immune system. Science. 2016;352:539-544.

    Not in our library10.1126/science.aad9378

18. 18.

    Backhed F, et al. Dynamics and stabilization of the human gut microbiome during the first year of life. Cell Host Microbe. 2015;17:690-703.

    Not in our library10.1016/j.chom.2015.04.004

19. 19.

    Koenig JE, et al. Succession of microbial consortia in the developing infant gut microbiome. Proc. Natl. Acad. Sci. USA. 2011;108(Suppl 1):4578-4585.

    Not in our library10.1073/pnas.1000081107

20. 20.

    Yatsunenko T, et al. Human gut microbiome viewed across age and geography. Nature. 2012;486:222-227.

    Not in our library10.1038/nature11053

21. 21.

    Russell SL, et al. Early life antibiotic-driven changes in microbiota enhance susceptibility to allergic asthma. EMBO Rep. 2012;13:440-447.

    Not in our library10.1038/embor.2012.32

22. 22.

    Zhang X, Zhivaki D, Lo-Man R. Unique aspects of the perinatal immune system. Nat. Rev. Immunol. 2017;17:495-507.

    Not in our library10.1038/nri.2017.54

23. 23.

    Bhutta ZA, Black RE. Global maternal, newborn, and child health - So near and yet so far. N. Engl. J. Med. 2013;369:2226-2235.

    Not in our library10.1056/nejmra1111853

24. 24.

    Neu J, Walker WA. Necrotizing enterocolitis. N. Engl. J. Med. 2011;364:255-264.

    Not in our library10.1056/nejmra1005408

25. 25.

    Wang J, et al. Dysbiosis of maternal and neonatal microbiota associated with gestational diabetes mellitus. Gut. 2018;67:1614-1625.

    Not in our library10.1136/gutjnl-2018-315988

26. 26.

    Gomez de Aguero M, et al. The maternal microbiota drives early postnatal innate immune development. Science. 2016;351:1296-1302.

    Not in our library10.1126/science.aad2571

27. 27.

    Dominguez-Bello MG, et al. Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns. Proc. Natl. Acad. Sci. USA. 2010;107:11971-11975.

    Not in our library10.1073/pnas.1002601107

28. 28.

    Caballero-Flores G, et al. Maternal immunization confers protection to the offspring against an attaching and effacing pathogen through delivery of IgG in breast milk. Cell Host Microbe. 2019;25:313-323.

    Not in our library10.1016/j.chom.2018.12.015

29. 29.

    Zheng W, et al. Microbiota-targeted maternal antibodies protect neonates from enteric infection. Nature. 2020;577:543-548.

    Not in our library10.1038/s41586-019-1898-4

30. 30.

    Bauer H, Horowitz RE, Levenson SM, Popper H. The response of the lymphatic tissue to the microbial flora. Studies on germfree mice. Am. J. Pathol. 1963;42:471-483.

    Not in our library

31. 31.

    Umesaki Y, Setoyama H, Matsumoto S, Okada Y. Expansion of alpha beta T-cell receptor-bearing intestinal intraepithelial lymphocytes after microbial colonization in germ-free mice and its independence from thymus. Immunology. 1993;79:32-37.

    Not in our library

32. 32.

    Hapfelmeier S, et al. Reversible microbial colonization of germ-free mice reveals the dynamics of IgA immune responses. Science. 2010;328:1705-1709.

    Not in our library10.1126/science.1188454

33. 33.

    Ivanov II, et al. Specific microbiota direct the differentiation of IL-17-producing T-helper cells in the mucosa of the small intestine. Cell Host Microbe. 2008;4:337-349.

    Not in our library10.1016/j.chom.2008.09.009

34. 34.

    Ivanov II, et al. Induction of intestinal Th17 cells by segmented filamentous bacteria. Cell. 2009;139:485-498.

    Not in our library10.1016/j.cell.2009.09.033

35. 35.

    Tan TG, et al. Identifying species of symbiont bacteria from the human gut that, alone, can induce intestinal Th17 cells in mice. Proc. Natl. Acad. Sci. USA. 2016;113:E8141-E8150.

    Not in our library10.1073/pnas.1617460113

36. 36.

    Atarashi K, et al. Th17 cell induction by adhesion of microbes to intestinal epithelial cells. Cell. 2015;163:367-380.

    Not in our library10.1016/j.cell.2015.08.058

37. 37.

    Mazmanian SK, Liu CH, Tzianabos AO, Kasper DL. An immunomodulatory molecule of symbiotic bacteria directs maturation of the host immune system. Cell. 2005;122:107-118.

    Not in our library10.1016/j.cell.2005.05.007

38. 38.

    Wesemann DR, et al. Microbial colonization influences early B-lineage development in the gut lamina propria. Nature. 2013;501:112-115.

    Not in our library10.1038/nature12496

39. 39.

    Cahenzli J, Koller Y, Wyss M, Geuking MB, McCoy KD. Intestinal microbial diversity during early-life colonization shapes long-term IgE levels. Cell Host Microbe. 2013;14:559-570.

    Not in our library10.1016/j.chom.2013.10.004

40. 40.

    Fulde M, et al. Neonatal selection by Toll-like receptor 5 influences long-term gut microbiota composition. Nature. 2018;560:489-493.

    Not in our library10.1038/s41586-018-0395-5

Cited by papers we hold 57

• Gut modulation to regulate NF-κB in colorectal and gastric cancer therapy and inflammation · 2025
  Not checked
• Multiomics analyses of gut microbiota and metabolites in people living with HIV before and during SARS-COV-2 infection · 2025
  Not checked
• Type 2 immunity in allergic diseases · 2025
  No notice
• The microbiome in graft-versus-host disease: a tale of two ecosystems · 2025
  Not checked
• Beyond the gut: decoding the gut–immune–brain axis in health and disease · 2025
  No notice
• Gut Microbiota Dysbiosis: Pathogenesis, Diseases, Prevention, and Therapy · 2025
  No notice
• Host genetic regulation of human gut microbial structural variation · 2024
  No notice
• Breaking the barriers: the role of gut homeostasis in Metabolic-Associated Steatotic Liver Disease (MASLD) · 2024
  No notice
• Navigating Challenges and Opportunities in Multi-Omics Integration for Personalized Healthcare · 2024
  No notice
• Intratumoural microbiota: a new frontier in cancer development and therapy · 2024
  No notice
• Microbiota–gut–brain axis and its therapeutic applications in neurodegenerative diseases · 2024
  No notice
• The gut microbiota–brain axis in neurological disorder · 2023
  No notice
• Excessive consumption of mucin by over-colonized Akkermansia muciniphila promotes intestinal barrier damage during malignant intestinal environment · 2023
  No notice
• Deficient butyrate-producing capacity in the gut microbiome is associated with bacterial network disturbances and fatigue symptoms in ME/CFS · 2023
  No notice
• Signalling cognition: the gut microbiota and hypothalamic-pituitary-adrenal axis · 2023
  No notice
• Understanding the Gut–Brain Axis and Its Therapeutic Implications for Neurodegenerative Disorders · 2023
  No notice
• Roles of Short-Chain Fatty Acids in Inflammatory Bowel Disease · 2023
  No notice
• Crosstalk between Gut Microbiota and Host Immunity: Impact on Inflammation and Immunotherapy · 2023
  No notice
• The Notch signaling pathway: a potential target for cancer immunotherapy · 2023
  No notice
• Probiotics Mechanism of Action on Immune Cells and Beneficial Effects on Human Health · 2023
  No notice

and 37 more

Reads

A person counts once a day per paper. We keep no cookie and no address: a reader is a hash that changes every day. Any month under five reads shows no number.