De la Microbiota a la Salud: Influencia de la Dieta, Métodos de Análisis y Retos Regulatorios

Autores/as

  • Martina Baizan-Urgell Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC)
  • Manuel Bernabeu Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC)
  • Ana Enríquez-Belenguer Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC)
  • Eduard Flores Ventura Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC)
  • Noemi Navarro-Lleó Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC)
  • Aroa Rodriguez Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC)
  • Anna Samarra Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC)
  • Anna Valls-Verdoy Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC).
  • Raúl Cabrera-Rubio Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos – Consejo Superior de Investigaciones científicas (IATA-CSIC).

DOI:

https://doi.org/10.14306/renhyd.29.4.2381

Palabras clave:

microbioma, gastrointestinal, disbiosis, dieta mediterránea, probióticos, prebióticos

Resumen

El estudio de la microbiota intestinal tiene una gran relevancia en la comprensión de la salud humana y su relación con diversas enfermedades. La microbiota, compuesta por un complejo ecosistema de microorganismos, juega un papel crucial en funciones esenciales como la inmunomodulación y el metabolismo. Las alteraciones en este sistema, conocidas como disbiosis, están vinculadas a patologías como enfermedades inflamatorias intestinales, trastornos metabólicos y psiquiátricos. Avances recientes en herramientas analíticas han permitido no solo caracterizar la composición de la microbiota sino también entender su funcionalidad y las interacciones con el huésped. Este artículo examina las metodologías más recientes para el análisis de la microbiota, incluyendo la secuenciación de ARN ribosomal 16S, metagenómica completa, y técnicas como la metabolómica y la metaproteómica, destacando sus ventajas y limitaciones. Además, se discute el impacto significativo de la dieta en la composición y funcionalidad de la microbiota. Se abordan las influencias de los alimentos ultraprocesados y las dietas ricas en fibra, y cómo estas pueden modificar el equilibrio microbiano. Por otra parte, se explora la comercialización de análisis de microbiota que,, pese a su popularidad y promesas de beneficios para la salud, enfrentan críticas por la falta de regulación y estandarización. Este escenario refuerza la necesidad de un marco regulatorio más estricto para garantizar la fiabilidad y seguridad de estos análisis. En conclusión, mientras que los estudios de microbiota ofrecen perspectivas prometedoras para el desarrollo de terapias personalizadas y la mejora de la salud intestinal y general, también presentan desafíos significativos que requieren un enfoque riguroso y regulado para maximizar su potencial clínico y terapéutico. El artículo subraya la importancia de un enfoque personalizado en el manejo de la microbiota, considerando la variabilidad individual y los factores ambientales.

Citas

(1) Marchesi F, Masi S, Summa V, Gumenyuk S, Merola R, Orlandi G, et al. Flow cytometry characterization in central nervous system and pleural effusion multiple myeloma infiltration: an Italian national cancer institute experience. Br J Haematol. 2016;172(6):980-2, doi: 10.1111/bjh.13549.

(2) Belkaid Y, Hand TW. Role of the microbiota in immunity and inflammation. Cell. 2014;157(1):121-41, doi: 10.1016/j.cell.2014.03.011.

(3) Quince C, Walker AW, Simpson JT, Loman NJ, Segata N. Shotgun metagenomics, from sampling to analysis. Nat Biotechnol. 2017;35(9):833-44, doi: 10.1038/nbt.3935.

(4) Franzosa EA, Morgan XC, Segata N, Waldron L, Reyes J, Earl AM, et al. Relating the metatranscriptome and metagenome of the human gut. Proc Natl Acad Sci U S A. 2014;111(22):E2329-2338, doi: 10.1073/pnas.1319284111.

(5) Carlino N, Blanco-Míguez A, Punčochář M, Mengoni C, Pinto F, Tatti A, et al. Unexplored microbial diversity from 2,500 food metagenomes and links with the human microbiome. Cell. 2024;187(20):5775-5795.e15, doi: 10.1016/j.cell.2024.07.039.

(6) Monteiro LJ, Varas-Godoy M, Monckeberg M, Realini O, Hernández M, Rice G, et al. Oral extracellular vesicles in early pregnancy can identify patients at risk of developing gestational diabetes mellitus. PLoS One. 2019;14(6):e0218616, doi: 10.1371/journal.pone.0218616.

(7) Panyod S, Wu W-K, Chang C-T, Wada N, Ho H-C, Lo Y-L, et al. Common dietary emulsifiers promote metabolic disorders and intestinal microbiota dysbiosis in mice. Commun Biol. 2024;7(1):1-14, doi: 10.1038/s42003-024-06224-3.

(8) Sonnenburg JL, Sonnenburg ED. Vulnerability of the industrialized microbiota. Science. 2019;366(6464):eaaw9255, doi: 10.1126/science.aaw9255.

(9) Zeng X, Xing X, Gupta M, Keber FC, Lopez JG, Lee Y-CJ, et al. Gut bacterial nutrient preferences quantified in vivo. Cell. 2022;185(18):3441-3456.e19, doi: 10.1016/j.cell.2022.07.020.

(10) Lozupone CA, Stombaugh JI, Gordon JI, Jansson JK, Knight R. Diversity, stability and resilience of the human gut microbiota. Nature. 2012;489(7415):220-30, doi: 10.1038/nature11550.

(11) Henrick BM, Rodriguez L, Lakshmikanth T, Pou C, Henckel E, Arzoomand A, et al. Bifidobacteria-mediated immune system imprinting early in life. Cell. 2021;184(15):3884-3898.e11, doi: 10.1016/j.cell.2021.05.030.

(12) Yatsunenko T, Rey FE, Manary MJ, Trehan I, Dominguez-Bello MG, Contreras M, et al. Human gut microbiome viewed across age and geography. Nature. 2012;486(7402):222-7, doi: 10.1038/nature11053.

(13) Catassi G, Aloi M, Giorgio V, Gasbarrini A, Cammarota G, Ianiro G. The Role of Diet and Nutritional Interventions for the Infant Gut Microbiome. Nutrients. 2024;16(3), doi: 10.3390/nu16030400.

(14) Boudry G, Charton E, Le Huerou-Luron I, Ferret-Bernard S, Le Gall S, Even S, et al. The Relationship Between Breast Milk Components and the Infant Gut Microbiota. Front Nutr. 2021;8:629740, doi: 10.3389/fnut.2021.629740.

(15) Ma J, Li Z, Zhang W, Zhang C, Zhang Y, Mei H, et al. Comparison of gut microbiota in exclusively breast-fed and formula-fed babies: a study of 91 term infants. Sci Rep. 2020;10:15792, doi: 10.1038/s41598-020-72635-x.

(16) Borewicz K, Suarez-Diez M, Hechler C, Beijers R, de Weerth C, Arts I, et al. The effect of prebiotic fortified infant formulas on microbiota composition and dynamics in early life. Sci Rep. 2019;9:2434, doi: 10.1038/s41598-018-38268-x.

(17) Hill CJ, Lynch DB, Murphy K, Ulaszewska M, Jeffery IB, O’Shea CA, et al. Evolution of gut microbiota composition from birth to 24 weeks in the INFANTMET Cohort. Microbiome. 2017;5:4, doi: 10.1186/s40168-016-0213-y.

(18) McKeen S, Roy NC, Mullaney JA, Eriksen H, Lovell A, Kussman M, et al. Adaptation of the infant gut microbiome during the complementary feeding transition. PLoS One. 2022;17(7):e0270213, doi: 10.1371/journal.pone.0270213.

(19) García-Gavilán JF, Atzeni A, Babio N, Liang L, Belzer C, Vioque J, et al. Effect of 1-year lifestyle intervention with energy-reduced Mediterranean diet and physical activity promotion on the gut metabolome and microbiota: a randomized clinical trial. Am J Clin Nutr. 2024;119(5):1143-54, doi: 10.1016/j.ajcnut.2024.02.021.

(20) Pavlidou E, Papadopoulou SK, Fasoulas A, Papaliagkas V, Alexatou O, Chatzidimitriou M, et al. Diabesity and Dietary Interventions: Evaluating the Impact of Mediterranean Diet and Other Types of Diets on Obesity and Type 2 Diabetes Management. Nutrients. 2023;16(1):34, doi: 10.3390/nu16010034.

(21) Wang DD, Nguyen LH, Li Y, Yan Y, Ma W, Rinott E, et al. The gut microbiome modulates the protective association between a Mediterranean diet and cardiometabolic disease risk. Nat Med. 2021;27(2):333-43, doi: 10.1038/s41591-020-01223-3.

(22) Chung WSF, Walker AW, Louis P, Parkhill J, Vermeiren J, Bosscher D, et al. Modulation of the human gut microbiota by dietary fibres occurs at the species level. BMC Biol. 2016;14:3, doi: 10.1186/s12915-015-0224-3.

(23) Foerster J, Maskarinec G, Reichardt N, Tett A, Narbad A, Blaut M, et al. The Influence of Whole Grain Products and Red Meat on Intestinal Microbiota Composition in Normal Weight Adults: A Randomized Crossover Intervention Trial. PLoS One. 2014;9(10):e109606, doi: 10.1371/journal.pone.0109606.

(24) Yammine A, Namsi A, Vervandier-Fasseur D, Mackrill JJ, Lizard G, Latruffe N. Polyphenols of the Mediterranean Diet and Their Metabolites in the Prevention of Colorectal Cancer. Molecules. 2021;26(12):3483, doi: 10.3390/molecules26123483.

(25) Maiuolo J, Bulotta RM, Ruga S, Nucera S, Macrì R, Scarano F, et al. The Postbiotic Properties of Butyrate in the Modulation of the Gut Microbiota: The Potential of Its Combination with Polyphenols and Dietary Fibers. Int J Mol Sci. 2024;25(13):6971, doi: 10.3390/ijms25136971.

(26) Zhao L, Zhang T, Zhang K. Pharmacological effects of ginseng and ginsenosides on intestinal inflammation and the immune system. Front Immunol. 2024;15:1353614, doi: 10.3389/fimmu.2024.1353614.

(27) Dai S, Wellens J, Yang N, Li D, Wang J, Wang L, et al. Ultra-processed foods and human health: An umbrella review and updated meta-analyses of observational evidence. Clinical Nutrition. 2024;43(6):1386-94, doi: 10.1016/j.clnu.2024.04.016.

(28) Whelan K, Bancil AS, Lindsay JO, Chassaing B. Ultra-processed foods and food additives in gut health and disease. Nat Rev Gastroenterol Hepatol. 2024;21(6):406-27, doi: 10.1038/s41575-024-00893-5.

(29) Byndloss MX, Bäumler AJ. The germ-organ theory of non-communicable diseases. Nat Rev Microbiol. 2018;16(2):103-10, doi: 10.1038/nrmicro.2017.158.

(30) Conlon MA, Bird AR. The impact of diet and lifestyle on gut microbiota and human health. Nutrients. 2014;7(1):17-44, doi: 10.3390/nu7010017.

(31) David LA, Maurice CF, Carmody RN, Gootenberg DB, Button JE, Wolfe BE, et al. Diet rapidly and reproducibly alters the human gut microbiome. Nature. 2014;505(7484):559-63, doi: 10.1038/nature12820.

(32) Świątecka D, Narbad A, Ridgway KP, Kostyra H. The study on the impact of glycated pea proteins on human intestinal bacteria. Int J Food Microbiol. 2011;145(1):267-72, doi: 10.1016/j.ijfoodmicro.2011.01.002.

(33) De Filippo C, Cavalieri D, Di Paola M, Ramazzotti M, Poullet JB, Massart S, et al. Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa. Proc Natl Acad Sci U S A. 2010;107(33):14691-6, doi: 10.1073/pnas.1005963107.

(34) Hansen LBS, Roager HM, Søndertoft NB, Gøbel RJ, Kristensen M, Vallès-Colomer M, et al. A low-gluten diet induces changes in the intestinal microbiome of healthy Danish adults. Nat Commun. 2018;9:4630, doi: 10.1038/s41467-018-07019-x.

(35) Walker AW, Ince J, Duncan SH, Webster LM, Holtrop G, Ze X, et al. Dominant and diet-responsive groups of bacteria within the human colonic microbiota. ISME J. 2011;5(2):220-30, doi: 10.1038/ismej.2010.118.

(36) Fusco W, Lorenzo MB, Cintoni M, Porcari S, Rinninella E, Kaitsas F, et al. Short-Chain Fatty-Acid-Producing Bacteria: Key Components of the Human Gut Microbiota. Nutrients. 2023;15(9), doi: 10.3390/nu15092211.

(37) Makki K, Deehan EC, Walter J, Bäckhed F. The Impact of Dietary Fiber on Gut Microbiota in Host Health and Disease. Cell Host Microbe. 2018;23(6):705-15, doi: 10.1016/j.chom.2018.05.012.

(38) Valdes AM, Walter J, Segal E, Spector TD. Role of the gut microbiota in nutrition and health. BMJ. 2018;361:k2179, doi: 10.1136/bmj.k2179.

(39) Maki KA, Sack MN, Hall KD. Ultra-processed foods: increasing the risk of inflammation and immune dysregulation? Nat Rev Immunol. 2024;24(7):453-4, doi: 10.1038/s41577-024-01049-x.

(40) Fasano A, Chassaing B, Haller D, Flores Ventura E, Carmen-Collado M, Pastor N, et al. Microbiota during pregnancy and early life: role in maternal-neonatal outcomes based on human evidence. Gut Microbes. 2024;16(1):2392009, doi: 10.1080/19490976.2024.2392009.

(41) Suez J, Zmora N, Segal E, Elinav E. The pros, cons, and many unknowns of probiotics. Nat Med. 2019;25(5):716-29, doi: 10.1038/s41591-019-0439-x.

(42) Liao W, Chen C, Wen T, Zhao Q. Probiotics for the Prevention of Antibiotic-associated Diarrhea in Adults: A Meta-Analysis of Randomized Placebo-Controlled Trials. J Clin Gastroenterol. 2021;55(6):469-80, doi: 10.1097/MCG.0000000000001464.

(43) Szajewska H, Kołodziej M. Systematic review with meta-analysis: Saccharomyces boulardii in the prevention of antibiotic-associated diarrhoea. Aliment Pharmacol Ther. 2015;42(7):793-801, doi: 10.1111/apt.13344.

(44) Daniel N, Gewirtz AT, Chassaing B. Akkermansia muciniphila counteracts the deleterious effects of dietary emulsifiers on microbiota and host metabolism. Gut. 2023;72(5):906-17, doi: 10.1136/gutjnl-2021-326835.

(45) Smolinska S, Popescu F-D, Zemelka-Wiacek M A. Review of the Influence of Prebiotics, Probiotics, Synbiotics, and Postbiotics on the Human Gut Microbiome and Intestinal Integrity. J Clin Med. 2025;14(11):3673, doi: 10.3390/jcm14113673.

(46) De Giani A, Sandionigi A, Zampolli J, Michelotti A, Tursi F, Labra M, et al. Effects of Inulin-Based Prebiotics Alone or in Combination with Probiotics on Human Gut Microbiota and Markers of Immune System: A Randomized, Double-Blind, Placebo-Controlled Study in Healthy Subjects. Microorganisms. 2022;10(6):1256, doi: 10.3390/microorganisms10061256.

(47) Flores Ventura E, Lane JA, Turjeman S, Vidra N, Weiss GA, Gross G, et al. ILSI Europe perspective review: site-specific microbiota changes during pregnancy associated with biological consequences and clinical outcomes: opportunities for probiotic interventions. Gut Microbes. 2025;17(1):2501186, doi: 10.1080/19490976.2025.2501186.

(48) Liu N, Wang X, Wang M. The effect of pre/pro/synbiotics on cardiometabolic health in patients with polycystic ovary syndrome: A systematic review, meta-analysis and meta-evidence. Journal of Functional Foods. 2025;133:106996, doi: 10.1016/j.jff.2025.106996.

(49) Ford AC, Harris LA, Lacy BE, Quigley EMM, Moayyedi P. Systematic review with meta-analysis: the efficacy of prebiotics, probiotics, synbiotics and antibiotics in irritable bowel syndrome. Alimentary Pharmacology & Therapeutics. 2018;48(10):1044-60, doi: 10.1111/apt.15001.

(50) Turnbaugh PJ, Quince C, Faith JJ, McHardy AC, Yatsunenko T, Niazi F, et al. Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. Proc Natl Acad Sci U S A. 2010;107(16):7503-8, doi: 10.1073/pnas.1002355107.

(51) Holmes E, Li JV, Athanasiou T, Ashrafian H, Nicholson JK. Understanding the role of gut microbiome-host metabolic signal disruption in health and disease. Trends Microbiol. 2011;19(7):349-59, doi: 10.1016/j.tim.2011.05.006.

(52) Bronner DN, Faber F, Olsan EE, Byndloss MX, Sayed NA, Xu G, et al. Genetic Ablation of Butyrate Utilization Attenuates Gastrointestinal Salmonella Disease. Cell Host Microbe. 2018;23(2):266-273.e4, doi: 10.1016/j.chom.2018.01.004.

(53) Cani PD, Delzenne NM, Amar J, Burcelin R. Role of gut microflora in the development of obesity and insulin resistance following high-fat diet feeding. Pathol Biol (Paris). 2008;56(5):305-9, doi: 10.1016/j.patbio.2007.09.008.

(54) Kamada N, Chen GY, Inohara N, Núñez G. Control of Pathogens and Pathobionts by the Gut Microbiota. Nat Immunol. 2013;14(7):685-90, doi: 10.1038/ni.2608.

(55) Gilliland A, Chan JJ, De Wolfe TJ, Yang H, Vallance BA. Pathobionts in Inflammatory Bowel Disease: Origins, Underlying Mechanisms, and Implications for Clinical Care. Gastroenterology. 2024;166(1):44-58, doi: 10.1053/j.gastro.2023.09.019.

(56) Cryan JF, Dinan TG. Mind-altering microorganisms: the impact of the gut microbiota on brain and behaviour. Nat Rev Neurosci. 2012;13(10):701-12, doi: 10.1038/nrn3346.

(57) Kim DY, Camilleri M. Serotonin: a mediator of the brain-gut connection. Am J Gastroenterol. 2000;95(10):2698-709, doi: 10.1111/j.1572-0241.2000.03177.x.

(58) Bastiaanssen TFS, Cryan JF. The Microbiota-Gut-Brain Axis in Mental Health and Medication Response: Parsing Directionality and Causality. International Journal of Neuropsychopharmacology. 2021;24(3):216-20, doi: 10.1093/ijnp/pyaa088.

(59) Namkung J, Kim H, Park S. Peripheral Serotonin: a New Player in Systemic Energy Homeostasis. Mol Cells. 2015;38(12):1023-8, doi: 10.14348/molcells.2015.0258.

(60) Gacesa R, Kurilshikov A, Vich Vila A, Sinha T, Klaassen MAY, Bolte LA, et al. Environmental factors shaping the gut microbiome in a Dutch population. Nature. 2022;604(7907):732-9, doi: 10.1038/s41586-022-04567-7.

(61) Quinn-Bohmann N, Wilmanski T, Sarmiento KR, Levy L, Lampe JW, Gurry T, et al. Microbial community-scale metabolic modelling predicts personalized short-chain fatty acid production profiles in the human gut. Nat Microbiol. 2024;9(7):1700-12, doi: 10.1038/s41564-024-01728-4.

(62) Derrien M, van Hylckama Vlieg JET. Fate, activity, and impact of ingested bacteria within the human gut microbiota. Trends Microbiol. 2015;23(6):354-66, doi: 10.1016/j.tim.2015.03.002.

(63) Lynch SV, Pedersen O. The Human Intestinal Microbiome in Health and Disease. N Engl J Med. 2016;375(24):2369-79, doi: 10.1056/NEJMra1600266.

(64) Costea PI, Zeller G, Sunagawa S, Pelletier E, Alberti A, Levenez F, et al. Towards standards for human fecal sample processing in metagenomic studies. Nat Biotechnol. 2017;35(11):1069-76, doi: 10.1038/nbt.3960.

(65) Porcari S, Mullish BH, Asnicar F, Ng SC, Zhao L, Hansen R, et al. International consensus statement on microbiome testing in clinical practice. Lancet Gastroenterol Hepatol. 2024:S2468-1253(24)00311-X, doi: 10.1016/S2468-1253(24)00311-X.

(66) Gevers D, Kugathasan S, Denson LA, Vázquez-Baeza Y, Van Treuren W, Ren B, et al. The treatment-naive microbiome in new-onset Crohn’s disease. Cell Host Microbe. 2014;15(3):382-92, doi: 10.1016/j.chom.2014.02.005.

(67) Solomon MZ, Jennings B. Bioethics and Populism: How Should Our Field Respond? Hastings Cent Rep. 2017;47(2):11-6, doi: 10.1002/hast.684.

(68) Ji J, Jin W, Liu S, Jiao Z, Li X. Probiotics, prebiotics, and postbiotics in health and disease. MedComm (2020). 2023;4(6):e420, doi: 10.1002/mco2.420.

(69) Ejtahed HS, Parsa M, Larijani B. Ethical challenges in conducting and the clinical application of human microbiome research. J Med Ethics Hist Med. 2023;16:5, doi: 10.18502/jmehm.v16i5.13313.

(70) Thanush D, Basavaraj HC, Gowrav MP. Current Regulation and Initial Considerations for Successful Development and Commercialization of Microbiome Therapies. Advanced Gut & Microbiome Research. 2023;2023(1):6657515, doi: 10.1155/2023/6657515.

(71) The Integrative Human Microbiome Project. Nature. 2019;569(7758):641-8, doi: 10.1038/s41586-019-1238-8.

Publicado

2025-12-21

Cómo citar

Baizan-Urgell, M., Bernabeu, M., Enríquez-Belenguer, A., Flores Ventura, E., Navarro-Lleó, N., Rodriguez, A., Samarra, A., Valls-Verdoy, A., & Cabrera-Rubio, R. (2025). De la Microbiota a la Salud: Influencia de la Dieta, Métodos de Análisis y Retos Regulatorios. Revista Española De Nutrición Humana Y Dietética, 29(4). https://doi.org/10.14306/renhyd.29.4.2381