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The Human Gut Microbiome – A Potential Controller of Wellness and Disease
Open accessAbstract
Trillions of microorganisms co-evolve and dwell symbiotically with the human host, primarily inhabiting our gastrointestinal tract. These gastrointestinal microbes play remarkable roles in human wellness and disease. In this review, the interactions between gut microbiota and the host have been focused on, to provide an overview of the role of gut microbiota in host physiological functions such as metabolism, immunity and protection against pathogens. We elaborate on how the gut microbial imbalance (dysbiosis) may lead to pathogenesis and progression of diseases such as Clostridium difficile infection, inflammatory bowel disease, autism spectrum disorder and obesity. Recent advances in novel therapies derived from microbiome studies to target associated diseases have been reviewed. Despite the ongoing debate on whether gut microbiome plays a role in the above-mentioned diseases, we have in this review gathered evidence showing a clear link between gut microbial dysbiosis and most of these diseases. Underlying mechanisms to many of these microbiome imbalances thus leading to disease, remain to be elucidated. Future microbiome research using the human model need to be undertaken, along with application of standardized experimental protocols to reduce the huge variations in findings across currently available overlapping studies is highly recommended.
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1 retracted
Christensen, D. L., Baio, J., Braun, K. V. N., Bilder, D., Charles, J., Constantino, J. N., Daniels, J., Durkin, M. S., Fitzgerald, R. T., Kurzius-Spencer, M., et al. (2016) · MMWR. Surveillance Summaries · doi:10.15585/mmwr.ss6503a1 · Cited by 1,964
RetractedAn obesity-associated gut microbiome with increased capacity for energy harvest
Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R., & Gordon, J. I. (2006) · Nature · doi:10.1038/nature05414 · Cited by 12,444
Human gut microbes associated with obesity
Ley, R. E., Turnbaugh, P. J., Klein, S., & Gordon, J. I. (2006) · Nature · doi:10.1038/4441022a · Cited by 8,785
A metagenome-wide association study of gut microbiota in type 2 diabetes
Qin, J., Li, Y., Cai, Z., Li, S., Zhu, J., Zhang, F., Liang, S., Zhang, W., Guan, Y., Shen, D., et al. (2012) · Nature · doi:10.1038/nature11450 · Cited by 6,762
The gut microbiota as an environmental factor that regulates fat storage
Bäckhed, F., Ding, H., Wang, T., Hooper, L. V., Koh, G. Y., Nagy, A., Semenkovich, C. F., & Gordon, J. I. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0407076101 · Cited by 6,245
Obesity alters gut microbial ecology
Ley, R. E., Bäckhed, F., Turnbaugh, P., Lozupone, C. A., Knight, R. D., & Gordon, J. I. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0504978102 · Cited by 6,176
Revised Estimates for the Number of Human and Bacteria Cells in the Body
Sender, R., Fuchs, S., & Milo, R. (2016) · PLOS Biology · doi:10.1371/journal.pbio.1002533 · Cited by 5,425
Host-gut microbiota metabolic interactions
Nicholson, J. K., Holmes, E., Kinross, J., Burcelin, R., Gibson, G., Jia, W., & Pettersson, S. (2012) · Science · doi:10.1126/science.1223813 · Cited by 4,760
Commensal Bifidobacterium promotes antitumor immunity and facilitates anti–PD-L1 efficacy
Sivan, A., Corrales, L., Hubert, N., Williams, J. B., Aquino-Michaels, K., Earley, Z. M., Benyamin, F. W., Man Lei, Y., Jabri, B., Alegre, M.-L., et al. (2015) · Science · doi:10.1126/science.aac4255 · Cited by 3,888 · cited 1×
“Similarly, Sivan et al. (2015) reported that Bifidobacterium could facilitate PD-L1 blockade efficacy via augmenting DCs function, enhancing CD8+ T-cell priming and accumulation at the tumor microenvironment level.”
BackgroundDuodenal Infusion of Donor Feces for Recurrent Clostridium difficile
van Nood, E., Vrieze, A., Nieuwdorp, M., Fuentes, S., Zoetendal, E. G., de Vos, W. M., Visser, C. E., Kuijper, E. J., Bartelsman, J. F. W. M., Tijssen, J. G. P., et al. (2013) · New England Journal of Medicine · doi:10.1056/nejmoa1205037 · Cited by 3,708
Donnelly, K. L., Smith, C. I., Schwarzenberg, S. J., Jessurun, J., Boldt, M. D., & Parks, E. J. (2005) · Journal of Clinical Investigation · doi:10.1172/jci23621 · Cited by 3,604
Anticancer immunotherapy by CTLA-4 blockade relies on the gut microbiota
Vétizou, M., Pitt, J. M., Daillère, R., Lepage, P., Waldschmitt, N., Flament, C., Rusakiewicz, S., Routy, B., Roberti, M. P., Duong, C. P. M., et al. (2015) · Science · doi:10.1126/science.aad1329 · Cited by 3,488 · cited 1×
“…properties of phage, significantly increased abundance of bacteriophages and changes in phage communities composition in CD patients compared to healthy controls have indicated a possible contributory role of phage in aberrant immune response (Lepage et al., 2008; Wagner et al., 2013).”
BackgroundGut microbiota, metabolites and host immunity
Rooks, M. G., & Garrett, W. S. (2016) · Nature reviews. Immunology · doi:10.1038/nri.2016.42 · Cited by 3,409
The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice
Turnbaugh, P. J., Ridaura, V. K., Faith, J. J., Rey, F. E., Knight, R., & Gordon, J. I. (2009) · Science Translational Medicine · doi:10.1126/scitranslmed.3000322 · Cited by 3,058
A framework for human microbiome research
The Human Microbiome Project Consortium (2012) · Nature · doi:10.1038/nature11209 · Cited by 2,650
Burden of Clostridium difficile Infection in the United States
Lessa, F. C., Mu, Y., Bamberg, W. M., Beldavs, Z. G., Dumyati, G. K., Dunn, J. R., Farley, M. M., Holzbauer, S. M., Meek, J. I., Phipps, E. C., et al. (2015) · New England Journal of Medicine · doi:10.1056/nejmoa1408913 · Cited by 2,641
Rubinstein, M. R., Wang, X., Liu, W., Hao, Y., Cai, G., & Han, Y. W. (2013) · Cell Host & Microbe · doi:10.1016/j.chom.2013.07.012 · Cited by 2,476
Tolhurst, G., Heffron, H., Lam, Y. S., Parker, H. E., Habib, A. M., Diakogiannaki, E., Cameron, J., Grosse, J., Reimann, F., & Gribble, F. M. (2012) · Diabetes · doi:10.2337/db11-1019 · Cited by 2,404
The microbiome and butyrate regulate energy metabolism and autophagy in the mammalian colon
Donohoe, D. R., Garge, N., Zhang, X., Sun, W., O'Connell, T. M., Bunger, M. K., & Bultman, S. J. (2011) · Cell Metabolism · doi:10.1016/j.cmet.2011.02.018 · Cited by 2,003 · cited 2×
“Butyrate-producing microbes rescued the deficit mitochondrial respiration, ATP synthesis and autophagy in colonocytes of germfree mice (Donohoe et al., 2011), proving the importance of butyrate in colonic cellular respiration and energy production.”
BackgroundLloyd-Price, J., Abu-Ali, G., & Huttenhower, C. (2016) · Genome Medicine · doi:10.1186/s13073-016-0307-y · Cited by 1,891
Samuel, B. S., Shaito, A., Motoike, T., Rey, F. E., Backhed, F., Manchester, J. K., Hammer, R. E., Williams, S. C., Crowley, J., Yanagisawa, M., et al. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0808567105 · Cited by 1,564
Gut Dysbiosis Is Linked to Hypertension
Yang, T., Santisteban, M. M., Rodriguez, V., Li, E., Ahmari, N., Carvajal, J. M., Zadeh, M., Gong, M., Qi, Y., Zubcevic, J., et al. (2015) · Hypertension · doi:10.1161/hypertensionaha.115.05315 · Cited by 1,478
Functional food science and gastrointestinal physiology and function
Salminen, S., Bouley, C., Boutron, M.-C., Cummings, J. H., Franck, A., Gibson, G. R., Isolauri, E., Moreau, M.-C., Roberfroid, M., & Rowland, I. (1998) · British Journal of Nutrition · doi:10.1079/bjn19980108 · Cited by 1,398
Png, C. W., Lindén, S. K., Gilshenan, K. S., Zoetendal, E. G., McSweeney, C. S., Sly, L. I., McGuckin, M. A., & Florin, T. H. J. (2010) · American Journal of Gastroenterology · doi:10.1038/ajg.2010.281 · Cited by 1,364
Interaction between Phenolics and Gut Microbiota: Role in Human Health
Selma, M. V., Espín, J. C., & Tomás-Barberán, F. A. (2009) · Journal of Agricultural and Food Chemistry · doi:10.1021/jf902107d · Cited by 1,324
Structural segregation of gut microbiota between colorectal cancer patients and healthy volunteers
Wang, T., Cai, G., Qiu, Y., Fei, N., Zhang, M., Pang, X., Jia, W., Cai, S., & Zhao, L. (2012) · The ISME Journal · doi:10.1038/ismej.2011.109 · Cited by 1,287
Colonic bacterial composition in Parkinson's disease
Keshavarzian, A., Green, S. J., Engen, P. A., Voigt, R. M., Naqib, A., Forsyth, C. B., Mutlu, E., & Shannon, K. M. (2015) · Movement Disorders · doi:10.1002/mds.26307 · Cited by 1,281
Regulation of antibacterial defense in the small intestine by the nuclear bile acid receptor
Inagaki, T., Moschetta, A., Lee, Y.-K., Peng, L., Zhao, G., Downes, M., Yu, R. T., Shelton, J. M., Richardson, J. A., Repa, J. J., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0509592103 · Cited by 1,164
Chronic kidney disease alters intestinal microbial flora
Vaziri, N. D., Wong, J., Pahl, M., Piceno, Y. M., Yuan, J., DeSantis, T. Z., Ni, Z., Nguyen, T.-H., & Andersen, G. L. (2013) · Kidney International · doi:10.1038/ki.2012.345 · Cited by 1,164
ATP drives lamina propria TH17 cell differentiation
Atarashi, K., Nishimura, J., Shima, T., Umesaki, Y., Yamamoto, M., Onoue, M., Yagita, H., Ishii, N., Evans, R., Honda, K., et al. (2008) · Nature · doi:10.1038/nature07240 · Cited by 1,089
Dumas, M.-E., Barton, R. H., Toye, A., Cloarec, O., Blancher, C., Rothwell, A., Fearnside, J., Tatoud, R., Blanc, V., Lindon, J. C., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0601056103 · Cited by 1,042
Willing, B. P., Dicksved, J., Halfvarson, J., Andersson, A. F., Lucio, M., Zheng, Z., Järnerot, G., Tysk, C., Jansson, J. K., & Engstrand, L. (2010) · Gastroenterology · doi:10.1053/j.gastro.2010.08.049 · Cited by 1,032
Koliada, A., Syzenko, G., Moseiko, V., Budovska, L., Puchkov, K., Perederiy, V., Gavalko, Y., Dorofeyev, A., Romanenko, M., Tkach, S., et al. (2017) · BMC Microbiology · doi:10.1186/s12866-017-1027-1 · Cited by 1,000
Effects of the probiotic Bifidobacterium infantis in the maternal separation model of depression
Desbonnet, L., Garrett, L., Clarke, G., Kiely, B., Cryan, J. F., & Dinan, T. G. (2010) · Neuroscience · doi:10.1016/j.neuroscience.2010.08.005 · Cited by 999
Theriot, C. M., Koenigsknecht, M. J., Carlson, P. E., Hatton, G. E., Nelson, A. M., Li, B., Huffnagle, G. B., Z. Li, J., & Young, V. B. (2014) · Nature Communications · doi:10.1038/ncomms4114 · Cited by 974
Towards the human intestinal microbiota phylogenetic core
Tap, J., Mondot, S., Levenez, F., Pelletier, E., Caron, C., Furet, J., Ugarte, E., Muñoz‐Tamayo, R., Paslier, D. L. E., Nalin, R., et al. (2009) · Environmental Microbiology · doi:10.1111/j.1462-2920.2009.01982.x · Cited by 927
Bile Salts and Glycine as Cogerminants for Clostridium difficile Spores
Sorg, J. A., & Sonenshein, A. L. (2008) · Journal of Bacteriology · doi:10.1128/jb.01765-07 · Cited by 711
Bile acids as regulatory molecules
Hylemon, P. B., Zhou, H., Pandak, W. M., Ren, S., Gil, G., & Dent, P. (2009) · Journal of Lipid Research · doi:10.1194/jlr.r900007-jlr200 · Cited by 694
Real-Time PCR Quantitation of Clostridia in Feces of Autistic Children
Song, Y., Liu, C., & Finegold, S. M. (2004) · Applied and Environmental Microbiology · doi:10.1128/aem.70.11.6459-6465.2004 · Cited by 556
Short-Chain Fatty Acids Regulate the Enteric Neurons and Control Gastrointestinal Motility in Rats
Soret, R., Chevalier, J., De Coppet, P., Poupeau, G., Derkinderen, P., Segain, J. P., & Neunlist, M. (2010) · Gastroenterology · doi:10.1053/j.gastro.2010.01.053 · Cited by 530
Role of gut microbiota and nutrients in amyloid formation and pathogenesis of Alzheimer disease
Pistollato, F., Sumalla Cano, S., Elio, I., Masias Vergara, M., Giampieri, F., & Battino, M. (2016) · Nutrition Reviews · doi:10.1093/nutrit/nuw023 · Cited by 496
Neyrinck, A. M., Possemiers, S., Druart, C., Van de Wiele, T., De Backer, F., Cani, P. D., Larondelle, Y., & Delzenne, N. M. (2011) · PLoS ONE · doi:10.1371/journal.pone.0020944 · Cited by 465
A possible role of Bacteroides fragilis enterotoxin in the aetiology of colorectal cancer
Ulger Toprak, N., Yagci, A., Gulluoglu, B. M., Akin, M. L., Demirkalem, P., Celenk, T., & Soyletir, G. (2006) · Clinical Microbiology and Infection · doi:10.1111/j.1469-0691.2006.01494.x · Cited by 454
Dysbiosis Signature of Fecal Microbiota in Colorectal Cancer Patients
Wu, N., Yang, X., Zhang, R., Li, J., Xiao, X., Hu, Y., Chen, Y., Yang, F., Lu, N., Wang, Z., et al. (2013) · Microbial Ecology · doi:10.1007/s00248-013-0245-9 · Cited by 454
Gut microbial products regulate murine gastrointestinal motility via Toll-like receptor 4 signaling
Anitha, M., Vijay–Kumar, M., Sitaraman, S. V., Gewirtz, A. T., & Srinivasan, S. (2012) · Gastroenterology · doi:10.1053/j.gastro.2012.06.034 · Cited by 397
Microbiota controls the homeostasis of glial cells in the gut lamina propria
Kabouridis, P. S., Lasrado, R., McCallum, S., Chng, S. H., Snippert, H. J., Clevers, H., Pettersson, S., & Pachnis, V. (2015) · Neuron · doi:10.1016/j.neuron.2014.12.037 · Cited by 358
De Palma, G., Nadal, I., Medina, M., Donat, E., Ribes-Koninckx, C., Calabuig, M., & Sanz, Y. (2010) · BMC Microbiology · doi:10.1186/1471-2180-10-63 · Cited by 330
Intestinal microbiota influence the early postnatal development of the enteric nervous system
Collins, J., Borojevic, R., Verdu, E. F., Huizinga, J. D., & Ratcliffe, E. M. (2014) · Neurogastroenterology & Motility · doi:10.1111/nmo.12236 · Cited by 318
Wang, L. W., Tancredi, D. J., & Thomas, D. W. (2011) · Journal of Developmental & Behavioral Pediatrics · doi:10.1097/dbp.0b013e31821bd06a · Cited by 258
Duboc, H., Rainteau, D., Rajca, S., Humbert, L., Farabos, D., Maubert, M., Grondin, V., Jouet, P., Bouhassira, D., Seksik, P., et al. (2012) · Neurogastroenterology & Motility · doi:10.1111/j.1365-2982.2012.01893.x · Cited by 256
Nishioku, T., Matsumoto, J., Dohgu, S., Sumi, N., Miyao, K., Takata, F., Shuto, H., Yamauchi, A., & Kataoka, Y. (2010) · Journal of Pharmacological Sciences · doi:10.1254/jphs.09292sc · Cited by 168
Guo, X., Rao, J. N., Liu, L., Zou, T.-T., Turner, D. J., Bass, B. L., & Wang, J.-Y. (2003) · American Journal of Physiology-Cell Physiology · doi:10.1152/ajpcell.00015.2003 · Cited by 153
Guo, X., Rao, J. N., Liu, L., Zou, T., Keledjian, K. M., Boneva, D., Marasa, B. S., & Wang, J.-Y. (2005) · American Journal of Physiology-Gastrointestinal and Liver Physiology · doi:10.1152/ajpgi.00407.2004 · Cited by 93
Ieraci, A., Forni, P. E., & Ponzetto, C. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.222362099 · Cited by 89
Jackson, P. B., Boccuto, L., Skinner, C., Collins, J. S., Neri, G., Gurrieri, F., & Schwartz, C. E. (2009) · Autism Research · doi:10.1002/aur.87 · Cited by 65 · cited 1×
“This hypothesis is supported by the observation of impaired MET-signaling in ASD patients especially those that comorbid with familial gastrointestinal disorder (Campbell et al., 2009; Jackson et al., 2009).”
Background
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Metadata
- Authors
- Kho, Z. Y., & Lal, S. K.
- Venue
- Frontiers in Microbiology
- Publisher
- Frontiers Media SA
- Published
- 2018-08-14
- Volume
- 9
- Pages
- 1835-1835
- ISSN
- 1664-302X (ISSN-L)
- OpenAlex
- W2885492105
- Cited by
- 1,104
- References
- 55
- FWCI
- 32.88
- Type
- journal article
- Language
- en
- Open access
- gold
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