MicroBio Pharmaceuticals and Pharmacology | Online ISSN 2209-2161
REVIEWS   (Open Access)

A Review of Human Microbiomes on the Regulation of  Body's Hidden Ecosystem

Sayed Ul Alam Shibly 1*, Debananda S Ningthoujam 2

+ Author Affiliations

Microbial Bioactives 6(1) 1-10 https://doi.org/10.25163/microbbioacts.619374

Submitted: 09 November 2023  Revised: 01 December 2023  Published: 02 December 2023 

Abstract

Trillions of bacteria live in and on the human body that makes up the human microbiome, which is a key factor in determining both human health and disease. A diverse collection of bacteria, viruses, fungi, and other microbes that cohabit with their host is known as the human microbiome. Although it can be found throughout the body, it is primarily found in the colon. This intricate ecology is essential for functions including immunity, metabolism, and digestion. For example, bacteria in the colon contribute to the production of vital vitamins, the breakdown of complex carbohydrates, and the defense against infections. Studies have demonstrated the connection between dysbiosis, or an imbalance in the microbiome’s composition, and several illnesses, such as inflammatory bowel disease, diabetes, obesity, and allergies. Technological developments, especially high-throughput DNA sequencing, have completely changed our capacity to research the microbiome. This review demonstrates how lifestyle, environmental, and genetic variables interact to shape each person's distinct microbiome. This knowledge has enormous potential for adjusting dietary and medicinal therapies according to a person's microbiome profile. In summary, the human microbiome exerts a profound influence on health and is implicated in the pathogenesis of various diseases.

Keywords: Microbiome, Human Health,  Dysbiosis,  Metabolism

References

AboNahas, H. H., Darwish, A. M., Abd El-kareem, H. F., AboNahas, Y. H., Mansour, S. A., Korra, Y. H., et al. (2022). “Trust Your Gut: The Human Gut Microbiome in Health and Disease,” in Microbiome-Gut-Brain Axis, eds R. Z. Sayyed and M. Khan (Singapore: Springer), 53–96.

Afanas’ev, I. (2014). New nucleophilic mechanisms of ros-dependent epigenetic modifications: Comparison of aging and cancer. Aging Dis. 5:52.

Ahlawat, S., and Sharma, K. K. (2021). Gut–organ axis: A microbial outreach and networking. Lett. Appl. Microbiol. 72, 636–668.

Arpaia, N., Campbell, C., Fan, X., Dikiy, S., van der Veeken, J., deRoos, P., ... & Rudensky, A. Y. (2013). Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation. Nature, 504(7480), 451-455.

Arrieta, M. C., Stiemsma, L. T., Amenyogbe, N., Brown, E. M., & Finlay, B. (2014). The intestinal microbiome in early life: health and disease. Frontiers in Immunology, 5, 427.

Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., … & Tap, J. (2011). Enterotypes of the human gut microbiome. Nature, 473(7346), 174-180.Tilg, H., Zmora, N., Adolph, T. E., & Elinav, E. (2020). The intestinal microbiota fuelling metabolic inflammation. Nature Reviews Immunology, 20(1), 40-54.

Belizário, J. E., et al. (2015). Gut microbiota: The brain peacekeeper. Frontiers in Microbiology, 6, 1523.S

Berg G.; Rybakova D.; Fischer D.; Cernava T.; Verges M. C.; Charles T.; Chen X.; Cocolin L.; Eversole K.; Corral G. H.; et al. Microbiome Definition Re-Visited: Old Concepts and New Challenges. Microbiome 2020, 8, 103. 10.1186/s40168-020-00875-0.

Cammarota, G., Ianiro, G., Tilg, H., Rajilic-Stojanovic, M., Kump, P., Satokari, R., … & Sokol, H. (2017). European consensus conference on faecal microbiota transplantation in clinical practice. Gut, 66(4), 569-580

Carding, S., Verbeke, K., Vipond, D. T., Corfe, B. M., & Owen, L. J. (2015). Dysbiosis of the gut microbiota in disease. Microbial Ecology in Health and Disease, 26(1), 26191.

Cho, I., & Blaser, M. J. (2012). The human microbiome: at the interface of health and disease. Nature Reviews Genetics, 13(4), 260-270.

Clemente, J. C., Ursell, L. K., Parfrey, L. W., & Knight, R. (2012). The impact of the gut microbiota on human health: an integrative view. Cell, 148(6), 1258-1270.

Cryan, J. F., & Dinan, T. G. (2012). Mind-altering microorganisms: the impact of the gut microbiota on brain and behaviour. Nature Reviews Neuroscience, 13(10), 701-712

David, L. A., Maurice, C. F., Carmody, R. N., Gootenberg, D. B., Button, J. E., Wolfe, B. E., … & Turnbaugh, P. J. (2014). Diet rapidly and reproducibly alters the human gut microbiome. Nature, 505(7484), 559-563

Dinan, T. G., & Cryan, J. F. (2017). The Microbiome-Gut-Brain Axis in Health and Disease. Gastroenterology Clinics of North America, 46(1), 77-89.

egre, J. A., & Wu, J. (2009). Microbial ecology: Seeing the forest for the trees. Nature, 457(7228), 143-144.

Franzosa, E. A., Huang, K., Meadow, J. F., Gevers, D., Lemon, K. P., Bohannan, B. J., … & Huttenhower, C. (2015). Identifying personal microbiomes using metagenomic codes. Proceedings of the National Academy of Sciences, 112(22), E2930-E2938.

Goodrich, J. K., Waters, J. L., Poole, A. C., Sutter, J. L., Koren, O., Blekhman, R., … & Ley, R. E. (2014). Human genetics shape the gut microbiome. Cell, 159(4), 789-799.

Guigoz Y.; Dore J.; Schiffrin E. J. The Inflammatory Status of Old Age Can Be Nurtured from the Intestinal Environment. Curr. Opin. Clin. Nutr. Metab. Care 2008, 11, 13–20. 10.1097/MCO.0b013e3282f2bfdf.

Honda, K., & Littman, D. R. (2016). The microbiota in adaptive immune homeostasis and disease. Nature, 535(7610), 75-84.

 Khoruts, A., & Sadowsky, M. J. (2016). Therapeutic transplantation of the distal gut microbiota. Mucosal Immunology, 9(1), 55-59.

Kim S. A.; Kim B. R.; Chun M. Y.; Youn S. W. Relation between Ph in the Trunk and Face: Truncal Ph Can Be Easily Predicted from Facial Ph. Ann. Dermatol. 2016, 28, 216–221. 10.5021/ad.2016.28.2.216

Lloyd-Price, J., Abu-Ali, G., & Huttenhower, C. (2016). The healthy human microbiome. Genome Medicine, 8(1),

Lloyd-Price, J., Mahurkar, A., Rahnavard, G., Crabtree, J., Orvis, J., Hall, A. B., … & Huttenhower, C. (2019). Strains, functions and dynamics in the expanded Human Microbiome Project. Nature, 550(7674), 61-66.

Lozupone, C. A., Stombaugh, J. I., Gordon, J. I., Jansson, J. K., & Knight, R. (2012). Diversity, stability, and resilience of the human gut microbiota. Nature, 489(7415), 220-230.

Lynch, S. V., & Pedersen, O. (2016). The Human Intestinal Microbiome in Health and Disease. New England Journal of Medicine, 375(24), 2369-2379.

Lynch, S. V., & Pedersen, O. (2016). The human intestinal microbiome in health and disease. New England Journal of Medicine, 375(24), 2369-2379.

Marchesi, J. R., Adams, D. H., Fava, F., Hermes, G. D., Hirschfield, G. M., Hold, G., … & Sorek, R. (2016). The gut microbiota and host health: a new clinical frontier. Gut, 65(2), 330-339.

 Paramsothy, S., Kamm, M. A., & Kaakoush, N. O. (2018). Beneficial changes in fecal microbiota and metabolome are associated with enhanced immunity and reduced recurrence following FMT in Clostridioides difficile infection. European Journal of Gastroenterology & Hepatology, 30(10), 1076-1086.

Proctor, L. M. (2011). The human microbiome project in 2011 and beyond. Cell Host & Microbe, 10(4), 287-291

Qin, J., Li, R., Raes, J., Arumugam, M., Burgdorf, K. S., Manichanh, C., … & Wang, J. (2010). A human gut microbial gene catalogue established by metagenomic sequencing. Nature, 464(7285), 59-65.

Rinninella, E., Raoul, P., Cintoni, M., Franceschi, F., Miggiano, G. A. D., Gasbarrini, A., & Mele, M. C. (2019). What is the healthy gut microbiota composition? A changing ecosystem across age, environment, diet, and diseases. Microorganisms, 7(1), 14.

Rinninella, E., Raoul, P., Cintoni, M., Franceschi, F., Miggiano, G. A. D., Gasbarrini, A., & Mele, M. C. (2019). What is the healthy gut microbiota composition? A changing ecosystem across age, environment, diet, and diseases. Microorganisms, 7(1), 14.

Rook, G. A., et al. (2013). Microbiota as an environmental immunogen: impact on tolerance and autoimmunity. Current Opinion in Immunology, 25(6), 378-385.

 Round, J. L., & Mazmanian, S. K. (2009). The gut microbiota shapes intestinal immune responses during health and disease. Nature Reviews Immunology, 9(5), 313-323.

Sartor, R. B. (2008). Microbial influences in inflammatory bowel diseases. Gastroenterology, 134(2), 577-594.

Scott, K. P., Gratz, S. W., Sheridan, P. O., Flint, H. J., & Duncan, S. H. (2013). The influence of diet on the gut microbiota. Pharmacological Research, 69(1), 52-60.

Sender, R., Fuchs, S., & Milo, R. (2016). Revised estimates for the number of human and bacteria cells in the body. PLOS Biology, 14(8), e1002533.

Shanahan, F. (2012). A commentary on the safety of probiotics. Gastroenterology, 143(5), 1082-1083.

Shi, Y., et al. (2021). Personalized Manipulation of the Gut Microbiome as a Potential Strategy to Ameliorate Gastrointestinal and Systemic Immune-Mediated Diseases. Frontiers in Medicine, 8, 611997.

Shreiner, A. B., Kao, J. Y., & Young, V. B. (2015). The gut microbiome in health and in disease. Current Opinion in Gastroenterology, 31(1), 69-75.

Sonnenburg, J. L., & Sonnenburg, E. D. (2019). The ancestral and industrialized gut microbiota and implications for human health. Nature Reviews Microbiology, 17(6), 383-390.

Tremaroli, V., & Bäckhed, F. (2012). Functional interactions between the gut microbiota and host metabolism. Nature, 489(7415), 242-249.

Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R., & Gordon, J. I. (2007). An obesity-associated gut microbiome with increased capacity for energy harvest. Nature, 444(7122), 1027-1031.

Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R., & Gordon, J. I. (2006). An obesity-associated gut microbiome with increased capacity for energy harvest. Nature, 444(7122), 1027-1031.

 Vaghef-Mehrabany, E., Alipour, B., Homayouni-Rad, A., Sharif, S. K., Asghari-Jafarabadi, M., Zavvari, S., ... & Alizadeh, M. (2014). Probiotic supplementation improves inflammatory status in patients with rheumatoid arthritis. Nutrition, 30(4), 430-435.

Wu, G. D., Chen, J., Hoffmann, C., Bittinger, K., Chen, Y. Y., Keilbaugh, S. A., … & Lewis, J. D. (2011). Linking long-term dietary patterns with gut microbial enterotypes. Science, 334(6052), 105-108.

Wu, H. J., & Wu, E. (2012). The role of gut microbiota in immune homeostasis and autoimmunity. Gut Microbes, 3(1), 4-14.

Yatsunenko T.; Rey F. E.; Manary M. J.; Trehan I.; Dominguez-Bello M. G.; Contreras M.; Magris M.; Hidalgo G.; Baldassano R. N.; Anokhin A. P.; et al. Human Gut Microbiome Viewed across Age and Geography. Nature 2012, 486, 222–227. 10.1038/nature11053.

PDF
Full Text
Export Citation

View Dimensions


View Plumx



View Altmetric



6
Save
0
Citation
614
View
0
Share