Diversity, stability and resilience of the human gut microbiota

An 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

Structure, function and diversity of the healthy human microbiome

The Human Microbiome Project Consortium (2012) · Nature · doi:10.1038/nature11234 · Cited by 11,726

A human gut microbial gene catalogue established by metagenomic sequencing

MetaHIT Consortium, Qin, J., Li, R., Raes, J., Arumugam, M., Burgdorf, K. S., Manichanh, C., Nielsen, T., Pons, N., Levenez, F., et al. (2010) · Nature · doi:10.1038/nature08821 · Cited by 11,624

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

Diversity of the Human Intestinal Microbial Flora

Eckburg, P. B., Bik, E. M., Bernstein, C. N., Purdom, E., Dethlefsen, L., Sargent, M., Gill, S. R., Nelson, K. E., & Relman, D. A. (2005) · Science · doi:10.1126/science.1110591 · Cited by 7,913

A core gut microbiome in obese and lean twins

Turnbaugh, P. J., Hamady, M., Yatsunenko, T., Cantarel, B. L., Duncan, A., Ley, R. E., Sogin, M. L., Jones, W. J., Roe, B. A., Affourtit, J. P., et al. (2009) · Nature · doi:10.1038/nature07540 · Cited by 7,823

Resilience, Adaptability and Transformability in Social–ecological Systems

Walker, B., Holling, C. S., Carpenter, S. R., & Kinzig, A. P. (2004) · Ecology and Society · doi:10.5751/es-00650-090205 · Cited by 7,821

Human gut microbiome viewed across age and geography

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. (2012) · Nature · doi:10.1038/nature11053 · Cited by 7,815

Enterotypes of the human gut microbiome

MetaHIT Consortium (additional members), Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., Fernandes, G. R., Tap, J., Bruls, T., et al. (2011) · Nature · doi:10.1038/nature09944 · Cited by 7,548

Linking long-term dietary patterns with gut microbial enterotypes

Wu, G. D., Chen, J., Hoffmann, C., Bittinger, K., Chen, Y.-Y., Keilbaugh, S. A., Bewtra, M., Knights, D., Walters, W. A., Knight, R., et al. (2011) · Science · doi:10.1126/science.1208344 · Cited by 6,513

Small Intestinal Bacterial Overgrowth—Pathophysiology and Its Implications for Definition and Management

Bushyhead, D. W., & Quigley, E. M. M. (2022) · Gastroenterology · doi:10.1053/j.gastro.2022.04.002 · Cited by 151

Microbiome: Should we diversify from diversity?

Johnson, K. V. ‐., & Burnet, P. W. J. (2016) · Gut Microbes · doi:10.1080/19490976.2016.1241933 · Cited by 151

Fecal Microbiota Transplantation and Its Usage in Neuropsychiatric Disorders

Evrensel, A., & Ceylan, M. E. (2016) · Clinical Psychopharmacology and Neuroscience · doi:10.9758/cpn.2016.14.3.231 · Cited by 150

Getting Started with Microbiome Analysis: Sample Acquisition to Bioinformatics

Kumar, R., Eipers, P. G., Little, R. B., Crowley, M., Crossman, D. K., Lefkowitz, E. J., & Morrow, C. D. (2014) · Current Protocols in Human Genetics · doi:10.1002/0471142905.hg1808s82 · Cited by 150

Bacterial Bile Metabolising Gene Abundance in Crohn's, Ulcerative Colitis and Type 2 Diabetes Metagenomes

Labbé, A., Ganopolsky, J. G., Martoni, C., Prakash, S., & Jones, M. L. (2014) · PLoS ONE · doi:10.1371/journal.pone.0115175 · Cited by 149

Metagenome Analysis of Bodily Microbiota in a Mouse Model of Alzheimer Disease Using Bacteria-derived Membrane Vesicles in Blood

Park, J. Y., Choi, J., Lee, Y., Lee, J.-E., Lee, E. H., Kwon, H.-J., Yang, J., Jeong, B.-R., Kim, Y., & Han, P. (2017) · Experimental Neurobiology · doi:10.5607/en.2017.26.6.369 · Cited by 149

Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification

Ziesemer, K. A., Mann, A. E., Sankaranarayanan, K., Schroeder, H., Ozga, A. T., Brandt, B. W., Zaura, E., Waters-Rist, A., Hoogland, M., Salazar-García, D. C., et al. (2015) · Scientific Reports · doi:10.1038/srep16498 · Cited by 148

Microbiome dysbiosis in lung cancer: from composition to therapy

Liu, N., Ma, Q., Ge, Y., Yi, C., Wei, L., Tan, J.-C., Chu, Q., Li, J., Zhang, P., & Wang, H. (2020) · npj Precision Oncology · doi:10.1038/s41698-020-00138-z · Cited by 148

Dietary differences are reflected on the gut prokaryotic community structure of wild and commercially reared sea bream (Sparus aurata)

Kormas, K. A., Meziti, A., Mente, E., & Frentzos, A. (2014) · MicrobiologyOpen · doi:10.1002/mbo3.202 · Cited by 147

Can We Prevent Obesity-Related Metabolic Diseases by Dietary Modulation of the Gut Microbiota?

Brahe, L. K., Astrup, A. V., & Larsen, L. H. (2016) · Advances in Nutrition · doi:10.3945/an.115.010587 · Cited by 147

Gut bacterial diversity of the tribes of India and comparison with the worldwide data

Dehingia, M., Kanchal, T., Talukdar, N. C., Talukdar, R., Reddy, D. N., Mande, S. S., Deka, M., & Khan, M. R. (2015) · Scientific Reports · doi:10.1038/srep18563 · Cited by 147

Gut–Liver Axis Derangement in Non-Alcoholic Fatty Liver Disease

Poeta, M., Pierri, L., & Vajro, P. (2017) · Children · doi:10.3390/children4080066 · Cited by 147

Limited influence of hospital wastewater on the microbiome and resistome of wastewater in a community sewerage system

Buelow, E., Bayjanov, J. R., Majoor, E. A. M., Willems, R. J. L., Bonten, M. J. M., Schmitt, H., & van Schaik, W. (2018) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiy087 · Cited by 147

Importance of gut microbiota in obesity

Cornejo-Pareja, I. M., Muñoz‐Garach, A., Clemente‐Postigo, M., & Tinahones, F. J. (2018) · European Journal of Clinical Nutrition · doi:10.1038/s41430-018-0306-8 · Cited by 147

Fish Skin and Gut Microbiomes Show Contrasting Signatures of Host Species and Habitat

Sylvain, F., Holland, A., Bouslama, S., Audet‐Gilbert, É., Lavoie, C., Val, A. L., & Derôme, N. (2020) · Applied and Environmental Microbiology · doi:10.1128/aem.00789-20 · Cited by 147

Diet fuelling inflammatory bowel diseases: preclinical and clinical concepts

Adolph, T. E., & Zhang, J. (2022) · Gut · doi:10.1136/gutjnl-2021-326575 · Cited by 147

Improvement of digestive health and reduction in proteobacterial populations in the gut microbiota of cystic fibrosis patients using a Lactobacillus reuteri probiotic preparation: A double blind prospective study

del Campo, R., Garriga, M. J., Pérez-Aragón, A., Guallarte, P., Lamas, A., Máiz, L., Bayón, C., Roy, G., Cantón, R., Zamora, J., et al. (2014) · Journal of Cystic Fibrosis · doi:10.1016/j.jcf.2014.02.007 · Cited by 146

Gut Microbiota Dynamics during Dietary Shift in Eastern African Cichlid Fishes

Baldo, L., Riera, J. L., Tooming‐Klunderud, A., Albà, M. M., & Salzburger, W. (2015) · PLoS ONE · doi:10.1371/journal.pone.0127462 · Cited by 146

Bacterial Adaptation to the Host's Diet Is a Key Evolutionary Force Shaping Drosophila-Lactobacillus Symbiosis

Martino, M. E., Joncour, P., Leenay, R. T., Gervais, H., Shah, M., Hughes, S., Gillet, B., Beisel, C. L., & Leulier, F. (2018) · Cell Host & Microbe · doi:10.1016/j.chom.2018.06.001 · Cited by 146

Gut Microbiota: A Perspective for Psychiatrists

Rea, K., Dinan, T. G., & Cryan, J. F. (2019) · Neuropsychobiology · doi:10.1159/000504495 · Cited by 146

Diet in Parkinson’s Disease: Critical Role for the Microbiome

Jackson, A., Forsyth, C. B., Shaikh, M., Voigt, R. M., Engen, P. A., Ramirez, V., & Keshavarzian, A. (2019) · Frontiers in Neurology · doi:10.3389/fneur.2019.01245 · Cited by 145

Regulation of the Intestinal Barrier Function by Host Defense Peptides

Robinson, K., Deng, Z., Hou, Y., & Zhang, G. (2015) · Frontiers in Veterinary Science · doi:10.3389/fvets.2015.00057 · Cited by 145

The Underlying Ecological Processes of Gut Microbiota Among Cohabitating Retarded, Overgrown and Normal Shrimp

Xiong, J., Dai, W., Zhu, J., Liu, K., Dong, C., & Qiu, Q. (2016) · Microbial Ecology · doi:10.1007/s00248-016-0910-x · Cited by 145

Microbiome Structure Influences Infection by the Parasite Crithidia bombi in Bumble Bees

Mockler, B., Kwong, W. K., Moran, N. A., & Koch, H. (2018) · Applied and Environmental Microbiology · doi:10.1128/aem.02335-17 · Cited by 145

Diet, the human gut microbiota, and IBD

Wu, G. D., Bushmanc, F. D., & Lewis, J. D. (2013) · Anaerobe · doi:10.1016/j.anaerobe.2013.03.011 · Cited by 144

The effect of captivity on the cutaneous bacterial community of the critically endangered Panamanian golden frog (Atelopus zeteki)

Becker, M. H., Richards‐Zawacki, C. L., Gratwicke, B., & Belden, L. K. (2014) · Biological Conservation · doi:10.1016/j.biocon.2014.05.029 · Cited by 144

The microbiome–systemic diseases connection

van der Meulen, T. A., Harmsen, H., Bootsma, H., Spijkervet, F., Kroese, F., & Vissink, A. (2016) · Oral Diseases · doi:10.1111/odi.12472 · Cited by 144

The Potential of Class II Bacteriocins to Modify Gut Microbiota to Improve Host Health

Umu, Ö. C. O., Bäuerl, C., Oostindjer, M., Pope, P. B., Hernández, P. E., Pérez‐Martínez, G., & Diep, D. B. (2016) · PLoS ONE · doi:10.1371/journal.pone.0164036 · Cited by 144

Metagenomic analysis of microbe-mediated vitamin metabolism in the human gut microbiome

Das, P., Babaei, P., & Nielsen, J. (2019) · BMC Genomics · doi:10.1186/s12864-019-5591-7 · Cited by 143

Water Security and Nutrition: Current Knowledge and Research Opportunities

Miller, J. D., Workman, C. L., Panchang, S. V., Sneegas, G., Adams, E. A., Young, S. L., & Thompson, A. L. (2021) · Advances in Nutrition · doi:10.1093/advances/nmab075 · Cited by 143

Microbial transmission in the social microbiome and host health and disease

Sarkar, A., McInroy, C. J. A., Harty, S., Raulo, A., Ibata, N. G. O., Valles‐Colomer, M., Johnson, K. V. ‐., Brito, I., Henrich, J., Archie, E. A., et al. (2024) · Cell · doi:10.1016/j.cell.2023.12.014 · Cited by 143

Cocoa Polyphenols and Inflammatory Markers of Cardiovascular Disease

Khan, N., Khymenets, O., Urpí-Sardà, M., Tulipani, S., Garcia‐Aloy, M., Monagas, M., Cubillos, L. X. M., Llorach, R., & Andrés‐Lacueva, C. (2014) · Nutrients · doi:10.3390/nu6020844 · Cited by 142

Evolutionary consequences of intra-patient phage predation on microbial populations

Seed, K. D., Yen, M., Shapiro, B. J., Hilaire, I. J., Charles, R. C., Teng, J. E., Ivers, L. C., Boncy, J., Harris, J. B., & Camilli, A. (2014) · eLife · doi:10.7554/elife.03497 · Cited by 142

A clinical update on the significance of the gut microbiota in systemic autoimmunity

Rosser, E. C., & Mauri, C. (2016) · Journal of Autoimmunity · doi:10.1016/j.jaut.2016.06.009 · Cited by 142

Predictive modeling of gingivitis severity and susceptibility via oral microbiota

Huang, S. W., Li, R., Zeng, X., He, T., Zhao, H., Chang, A., Bo, C., Chen, J., Yang, F., Knight, R. D., et al. (2014) · The ISME Journal · doi:10.1038/ismej.2014.32 · Cited by 141

Deciphering the Human Gut Microbiome of Urolithin Metabotypes: Association with Enterotypes and Potential Cardiometabolic Health Implications

Romo‐Vaquero, M., Cortés‐Martín, A., Loria‐Kohen, V., de Molina, A. R., García‐Mantrana, I., Collado, M. C., Espín, J. C., & Selma, M. V. (2018) · Molecular Nutrition & Food Research · doi:10.1002/mnfr.201800958 · Cited by 141

Good Gone Bad: One Toxin Away From Disease for Bacteroides fragilis

Valguarnera, E., & Wardenburg, J. B. (2019) · Journal of Molecular Biology · doi:10.1016/j.jmb.2019.12.003 · Cited by 141

Gut Microbiota Development: Influence of Diet from Infancy to Toddlerhood

Laursen, M. F. (2021) · Annals of Nutrition and Metabolism · doi:10.1159/000517912 · Cited by 141

Metagenomic Analysis of Chicken Gut Microbiota for Improving Metabolism and Health of Chickens — A Review

Choi, K. Y., Lee, T. K., & Sul, W. J. (2015) · Asian-Australasian Journal of Animal Sciences · doi:10.5713/ajas.15.0026 · Cited by 140

Gut microbiota modulation: probiotics, antibiotics or fecal microbiota transplantation?

Cammarota, G., Ianiro, G., Bibbò, S., & Gasbarrini, A. (2014) · Internal and Emergency Medicine · doi:10.1007/s11739-014-1069-4 · Cited by 140

Rhizoma Coptidis alkaloids alleviate hyperlipidemia in B6 mice by modulating gut microbiota and bile acid pathways

He, K., Hu, Y., Ma, H., Zou, Z., Xiao, Y., Yang, Y., Feng, M., Li, X., & Ye, X. (2016) · Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease · doi:10.1016/j.bbadis.2016.06.006 · Cited by 140

Interactions between gut microbiota and berberine, a necessary procedure to understand the mechanisms of berberine

Cheng, H., Liu, J., Tan, Y., Feng, W., & Peng, C. Y. (2021) · Journal of Pharmaceutical Analysis · doi:10.1016/j.jpha.2021.10.003 · Cited by 140

Next generation probiotics: Engineering live biotherapeutics

Murali, S. K., & Mansell, T. J. (2024) · Biotechnology Advances · doi:10.1016/j.biotechadv.2024.108336 · Cited by 140

The esophageal microbiota in health and disease

Di Pilato, V., Freschi, G., Ringressi, M. N., Pallecchi, L., Rossolini, G. M., & Bechi, P. (2016) · Annals of the New York Academy of Sciences · doi:10.1111/nyas.13127 · Cited by 139

Captivity and Animal Microbiomes: Potential Roles of Microbiota for Influencing Animal Conservation

Dallas, J. W., & Warne, R. W. (2022) · Microbial Ecology · doi:10.1007/s00248-022-01991-0 · Cited by 139

Alterations of the Gut Microbiota in Patients with Diabetic Nephropathy

Zhang, L., Wang, Z., Zhang, X., Zhao, L., Chu, J., Li, H., Sun, W., Yang, C., Wang, H., Dai, W., et al. (2022) · Microbiology Spectrum · doi:10.1128/spectrum.00324-22 · Cited by 139

Innate Lymphoid Cells Control Early Colonization Resistance against Intestinal Pathogens through ID2-Dependent Regulation of the Microbiota

Guo, X., Liang, Y., Zhang, Y., Lasorella, A., Kee, B. L., & Fu, Y.-X. (2015) · Immunity · doi:10.1016/j.immuni.2015.03.012 · Cited by 138

THE GUT MICROBIOTA AND IMMUNE SYSTEM RELATIONSHIP IN HUMAN GRAFT-VERSUS-HOST DISEASE

Laterza, L., Rizzatti, G., Gaetani, E., Chiusolo, P., & Gasbarrini, A. (2016) · Mediterranean Journal of Hematology and Infectious Diseases · doi:10.4084/mjhid.2016.025 · Cited by 138

Exploiting Mucosal Immunity for Antiviral Vaccines

Iwasaki, A. (2016) · Annual Review of Immunology · doi:10.1146/annurev-immunol-032414-112315 · Cited by 138

Ammonia exposure alters the expression of immune-related and antioxidant enzymes-related genes and the gut microbial community of crucian carp (Carassius auratus)

Qi, X., Xue, M., Yang, S.-B., Zha, J.-W., Wang, G., & Ling, F. (2017) · Fish & Shellfish Immunology · doi:10.1016/j.fsi.2017.09.043 · Cited by 138

Biogenic Amines: Signals Between Commensal Microbiota and Gut Physiology

Sudo, N. (2019) · Frontiers in Endocrinology · doi:10.3389/fendo.2019.00504 · Cited by 138

Alteration of the gut microbiota associated with childhood obesity by 16S rRNA gene sequencing

Chen, X., Sun, H., Jiang, F., Shen, Y., Li, X., Xue-ju, H., Shen, X., & Wei, P. (2020) · PeerJ · doi:10.7717/peerj.8317 · Cited by 138

Mechanistic links between gut microbial community dynamics, microbial functions and metabolic health

Ha, C. W. (2014) · World Journal of Gastroenterology · doi:10.3748/wjg.v20.i44.16498 · Cited by 137

Fusobacterium and Enterobacteriaceae: Important players for CRC?

Allen‐Vercoe, E., & Jobin, C. (2014) · Immunology Letters · doi:10.1016/j.imlet.2014.05.014 · Cited by 137

Hypoxia and Mucosal Inflammation

Colgan, S. P., Campbell, E. L., & Kominsky, D. J. (2016) · Annual Review of Pathology Mechanisms of Disease · doi:10.1146/annurev-pathol-012615-044231 · Cited by 137

The Gastric Microbiome Is Perturbed in Advanced Gastric Adenocarcinoma Identified Through Shotgun Metagenomics

Hu, Y.-L., Pang, W., Huang, Y., Zhang, Y., & Zhang, C. (2018) · Frontiers in Cellular and Infection Microbiology · doi:10.3389/fcimb.2018.00433 · Cited by 137

Microbiota–gut–brain axis mechanisms in the complex network of bipolar disorders: potential clinical implications and translational opportunities

Ortega, M. A., Álvarez-Mon, M. Á., Montero, C. G., Fraile‐Μartinez, O., Monserrat, J., Martinez-Rozas, L., Rodríguez–Jiménez, R., Álvarez‐Mon, M., & Lahera, G. (2023) · Molecular Psychiatry · doi:10.1038/s41380-023-01964-w · Cited by 137

Genetic determinants of gut microbiota composition and bile acid profiles in mice

Kemis, J. H., Linke, V., Barrett, K. L., Boehm, F. J., Traeger, L. L., Keller, M. P., Rabaglia, M. E., Schueler, K. L., Stapleton, D. S., Gatti, D. M., et al. (2019) · PLOS Genetics · doi:10.1371/journal.pgen.1008073 · Cited by 136

Microbial metaproteomics for characterizing the range of metabolic functions and activities of human gut microbiota

Xiong, W., Abraham, P. E., Li, Z., Pan, C., & Hettich, R. L. (2015) · PROTEOMICS · doi:10.1002/pmic.201400571 · Cited by 136

Virus-Bacteria Interactions: An Emerging Topic in Human Infection

Almand, E. A., Moore, M. D., & Jaykus, L. (2017) · Viruses · doi:10.3390/v9030058 · Cited by 136

The Role of Nutrition and the Gut-Brain Axis in Psychiatry: A Review of the Literature

Mörkl, S., Wagner‐Skacel, J., Lahousen, T., Lackner, S., Holasek, S. J., Bengesser, S., Painold, A., Holl, A. K., & Reininghaus, E. Z. (2018) · Neuropsychobiology · doi:10.1159/000492834 · Cited by 136

Genes, geology and germs: gut microbiota across a primate hybrid zone are explained by site soil properties, not host species

Grieneisen, L., Charpentier, M. J. E., Alberts, S. C., Blekhman, R., Bradburd, G. S., Tung, J., & Archie, E. A. (2019) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2019.0431 · Cited by 136

Gut Microbiome Toxicity: Connecting the Environment and Gut Microbiome-Associated Diseases

Tu, P., Chi, L., Bodnar, W. M., Zhang, Z., Gao, B., Bian, X., Stewart, J. R., Fry, R. C., & Lü, K. (2020) · Toxics · doi:10.3390/toxics8010019 · Cited by 136

How to Count Our Microbes? The Effect of Different Quantitative Microbiome Profiling Approaches

Galazzo, G., van Best, N., Benedikter, B. J., Janssen, K. J. H., Bervoets, L., Driessen, C., Oomen, M., Lucchesi, M., van Eijck, P. H., Becker, H. E. F., et al. (2020) · Frontiers in Cellular and Infection Microbiology · doi:10.3389/fcimb.2020.00403 · Cited by 136

Microbiota Effects on Carcinogenesis: Initiation, Promotion, and Progression

Lopez, L. R., Bleich, R. M., & Arthur, J. C. (2020) · Annual Review of Medicine · doi:10.1146/annurev-med-080719-091604 · Cited by 136

Impact of probiotic supplements on microbiome diversity following antibiotic treatment of mice

Grazul, H., Kanda, L. L., & Gondek, D. (2016) · Gut Microbes · doi:10.1080/19490976.2016.1138197 · Cited by 135

An essential role of Ffar2 (Gpr43) in dietary fibre-mediated promotion of healthy composition of gut microbiota and suppression of intestinal carcinogenesis

Sivaprakasam, S., Gurav, A., Paschall, A. V., Coe, G. L., Chaudhary, K., Cai, Y., Kolhe, R. B., Martin, P. M., Browning, D. D., Huang, L., et al. (2016) · Oncogenesis · doi:10.1038/oncsis.2016.38 · Cited by 135

Integrating the microbiome as a resource in the forensics toolkit

Clarke, T. H., Gomez, A. M., Singh, H., Nelson, K. E., & Brinkac, L. M. (2017) · Forensic Science International Genetics · doi:10.1016/j.fsigen.2017.06.008 · Cited by 135

Emerging strategies for engineering microbial communities

Tsoi, R., Dai, Z., & You, L. (2019) · Biotechnology Advances · doi:10.1016/j.biotechadv.2019.03.011 · Cited by 135

Irritable bowel syndrome: treatment based on pathophysiology and biomarkers

Camilleri, M., & Boeckxstaens, G. E. (2022) · Gut · doi:10.1136/gutjnl-2022-328515 · Cited by 135

Breast-fed and bottle-fed infant rhesus macaques develop distinct gut microbiotas and immune systems

Ardeshir, A., Narayan, N. R., Méndez-Lagares, G., Lu, D., Rauch, M., Huang, Y., Van Rompay, K. K. A., Lynch, S. V., & Hartigan-O’Connor, D. J. (2014) · Science Translational Medicine · doi:10.1126/scitranslmed.3008791 · Cited by 134

Changes in vaginal microbiota following antimicrobial and probiotic therapy

Macklaim, J. M., Clemente, J. C., Knight, R., Gloor, G. B., & Reid, G. (2015) · Microbial Ecology in Health & Disease · doi:10.3402/mehd.v26.27799 · Cited by 134

Host age, social group, and habitat type influence the gut microbiota of wild ring‐tailed lemurs (Lemur catta)

Bennett, G., Malone, M., Sauther, M. L., Cuozzo, F. P., White, B. A., Nelson, K. E., Stumpf, R. M., Knight, R. D., Leigh, S. R., & Amato, K. R. (2016) · American Journal of Primatology · doi:10.1002/ajp.22555 · Cited by 134

Species-rich networks and eco-evolutionary synthesis at the metacommunity level

Toju, H., Yamamichi, M., Guimarães, P. R., Olesen, J. M., Mougi, A., Yoshida, T., & Thompson, J. N. (2017) · Nature Ecology & Evolution · doi:10.1038/s41559-016-0024 · Cited by 134

Green and Black Tea Phenolics: Bioavailability, Transformation by Colonic Microbiota, and Modulation of Colonic Microbiota

Liu, Z., Bruins, M. E., Ni, L., & Vincken, J. (2018) · Journal of Agricultural and Food Chemistry · doi:10.1021/acs.jafc.8b02233 · Cited by 134

A Comparative Review on Microbiota Manipulation: Lessons From Fish, Plants, Livestock, and Human Research

Brugman, S., Ikeda‐Ohtsubo, W., Braber, S., Folkerts, G., Pieterse, C. M. J., & Bakker, P. A. H. M. (2018) · Frontiers in Nutrition · doi:10.3389/fnut.2018.00080 · Cited by 134

Impact of dietary fiber supplementation on modulating microbiota–host–metabolic axes in obesity

Mayengbam, S., Lambert, J. E., Parnell, J. A., Tunnicliffe, J. M., Nicolucci, A. C., Han, J. S., Sturzenegger, T., Shearer, J., Mickiewicz, B., Vogel, H. J., et al. (2018) · The Journal of Nutritional Biochemistry · doi:10.1016/j.jnutbio.2018.11.003 · Cited by 134

Dietary protein and the intestinal microbiota: An understudied relationship

Bartlett, A., & Kleiner, M. (2022) · iScience · doi:10.1016/j.isci.2022.105313 · Cited by 134

Human intestinal gas measurement systems: in vitro fermentation and gas capsules

Ou, J. Z., Yao, C. K., Rotbart, A., Muir, J. G., Gibson, P. R., & Kalantar‐Zadeh, K. (2015) · Trends in biotechnology · doi:10.1016/j.tibtech.2015.02.002 · Cited by 133

Altered gastrointestinal microbiota in irritable bowel syndrome and its modification by diet: probiotics, prebiotics and the low FODMAP diet

Staudacher, H. M., & Whelan, K. (2016) · Proceedings of The Nutrition Society · doi:10.1017/s0029665116000021 · Cited by 133

The female urinary microbiota, urinary health and common urinary disorders

Brubaker, L. T., & Wolfe, A. J. (2017) · Annals of Translational Medicine · doi:10.21037/atm.2016.11.62 · Cited by 133

Nutritional Models of Experimentally-Induced Subacute Ruminal Acidosis (SARA) Differ in Their Impact on Rumen and Hindgut Bacterial Communities in Dairy Cows

Plaizier, J. C., Li, S., Tun, H. M., & Khafipour, E. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2016.02128 · Cited by 133

The Host Microbiota Contributes to Early Protection Against Lung Colonization by Mycobacterium tuberculosis

Dumas, A., Corral, D., Colom, A., Levillain, F., Peixoto, A., Hudrisier, D., Poquet, Y., & Neyrolles, O. (2018) · Frontiers in Immunology · doi:10.3389/fimmu.2018.02656 · Cited by 133

The Equine Gastrointestinal Microbiome: Impacts of Age and Obesity

Morrison, P. K., Newbold, C. J., Jones, E., Worgan, H. J., Grove‐White, D., Dugdale, A., Barfoot, C. F., Harris, P. A., & Argo, C. M. (2018) · Frontiers in Microbiology · doi:10.3389/fmicb.2018.03017 · Cited by 133

Dynamics of the gut microbiota in developmental stages of Litopenaeus vannamei reveal its association with body weight

Fan, J., Chen, L., Mai, G., Zhang, H., Yang, J., Deng, D., & Ma, Y. (2019) · Scientific Reports · doi:10.1038/s41598-018-37042-3 · Cited by 133

Hiding in Fresh Fruits and Vegetables: Opportunistic Pathogens May Cross Geographical Barriers

Al-Kharousi, Z. S., Guizani, N., Al-Sadi, A. M., Bulushi, I. M. A., & Shaharoona, B. (2016) · International Journal of Microbiology · doi:10.1155/2016/4292417 · Cited by 132

Advances, challenges, and directions in shrimp disease control: the guidelines from an ecological perspective

Xiong, J., Dai, W., & Li, C. (2016) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-016-7679-1 · Cited by 132

Gut Homeostasis, Microbial Dysbiosis, and Opioids

Wang, F., & Roy, S. (2016) · Toxicologic Pathology · doi:10.1177/0192623316679898 · Cited by 132

Utilization of Host-Derived Glycans by Intestinal Lactobacillus and Bifidobacterium Species

Zúñiga, M., Monedero, V., & Yebra, M. J. (2018) · Frontiers in Microbiology · doi:10.3389/fmicb.2018.01917 · Cited by 132

Fecal Microbiota Transplantation: Screening and Selection to Choose the Optimal Donor

Bibbò, S., Settanni, C. R., Porcari, S., Bocchino, E., Ianiro, G., Cammarota, G., & Gasbarrini, A. (2020) · Journal of Clinical Medicine · doi:10.3390/jcm9061757 · Cited by 132

Quercetin improves gut dysbiosis in antibiotic-treated mice

Shi, T., Bian, X., Yao, Z., Wang, Y., Gao, W., & Guo, C. (2020) · Food & Function · doi:10.1039/d0fo01439g · Cited by 132

A Consensus Statement on establishing causality, therapeutic applications and the use of preclinical models in microbiome research

Metwaly, A., Kriaa, A., Hassani, Z., Carraturo, F., Druart, C., Trebicka, J., Godoy, Y., Schierwagen, R., Bork, P., Iyappan, A., et al. (2025) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/s41575-025-01041-3 · Cited by 132

The Impact of Antibiotic Therapy on Intestinal Microbiota: Dysbiosis, Antibiotic Resistance, and Restoration Strategies

Cusumano, G., Flores, G. A., Venanzoni, R., & Angelini, P. (2025) · Antibiotics · doi:10.3390/antibiotics14040371 · Cited by 132

From lifetime to evolution: timescales of human gut microbiota adaptation

Quercia, S., Candela, M., Giuliani, C., Turroni, S., Luiselli, D., Rampelli, S., Brigidi, P., Franceschi, C., Bacalini, M. G., Garagnani, P., et al. (2014) · Frontiers in Microbiology · doi:10.3389/fmicb.2014.00587 · Cited by 131

The Bacterial Microbiome and Virome Milestones of Infant Development

Lim, E. S., Wang, D., & Holtz, L. R. (2016) · Trends in Microbiology · doi:10.1016/j.tim.2016.06.001 · Cited by 131

Temporal dynamics of the gut microbiota in people sharing a confined environment, a 520-day ground-based space simulation, MARS500

Turroni, S., Rampelli, S., Biagi, E., Consolandi, C., Severgnini, M., Peano, C., Quercia, S., Soverini, M., Carbonero, F. G., Bianconi, G., et al. (2017) · Microbiome · doi:10.1186/s40168-017-0256-8 · Cited by 131

Characterization of Metagenomes in Urban Aquatic Compartments Reveals High Prevalence of Clinically Relevant Antibiotic Resistance Genes in Wastewaters

Ng, C., Tay, M., Tan, B., Le, T., Haller, L., Chen, H., Koh, T. H., Barkham, T., Thompson, J. R., & Gin, K. Y. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.02200 · Cited by 131

Probiotics for the treatment of depressive symptoms: An anti-inflammatory mechanism?

Park, C., Brietzke, E. M., Rosenblat, J. D., Musial, N., Zuckerman, H., Ragguett, R., Pan, Z., Rong, C., Fus, D., & McIntyre, R. S. (2018) · Brain Behavior and Immunity · doi:10.1016/j.bbi.2018.07.006 · Cited by 131

Long-term impact of tylosin on fecal microbiota and fecal bile acids of healthy dogs

Manchester, A. C., Webb, C. B., Blake, A. B., Sarwar, F., Lidbury, J. A., Steiner, J. M., & Suchodolski, J. S. (2019) · Journal of Veterinary Internal Medicine · doi:10.1111/jvim.15635 · Cited by 131

Gut Microbiota Metabolites in Major Depressive Disorder—Deep Insights into Their Pathophysiological Role and Potential Translational Applications

Ortega, M. A., Álvarez-Mon, M. Á., Montero, C. G., Fraile‐Μartinez, O., Guijarro, L. G., Lahera, G., Monserrat, J., Valls, P., Mora, F., Rodríguez–Jiménez, R., et al. (2022) · Metabolites · doi:10.3390/metabo12010050 · Cited by 131

Advances in pathophysiology of gut microbiota

Xiu-ya, H. (2014) · Zhongguo bingli shengli zazhi

Gut microbiome stability and resilience: elucidating the response to perturbations in order to modulate gut health

Fassarella, M., Blaak, E. E., Penders, J., Nauta, A., Smidt, H., & Zoetendal, E. G. (2020) · Gut · doi:10.1136/gutjnl-2020-321747 · Cited by 818

Defining a Healthy Human Gut Microbiome: Current Concepts, Future Directions, and Clinical Applications

Bäckhed, F., Fraser, C. M., Ringel, Y., Sanders, M. E., Sartor, R. B., Sherman, P. M., Versalovic, J., Young, V., & Finlay, B. B. (2012) · Cell Host & Microbe · doi:10.1016/j.chom.2012.10.012 · Cited by 836

Diversity of Human Microbial Pathogens and Commensals

Relman, D. A. (2008) · International Journal of Infectious Diseases · doi:10.1016/j.ijid.2008.05.109

Foundations of the gut microbiome: understanding microbial ecology

Kalia, P., Angelis, M., Rani, A., & Qavi, D. (2026) · Elsevier eBooks · doi:10.1016/b978-0-443-40483-2.00019-4