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Gut Microbiome Alterations During HIV/SIV Infection: Implications for HIV Cure

Crakes, K. R., & Jiang, G. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.01104 · Cited by 83 · see citing works

The influence of diet and environment on the gut microbial community of field crickets

Ng, S. H., Stat, M., Bunce, M., & Simmons, L. W. (2018) · Ecology and Evolution · doi:10.1002/ece3.3977 · Cited by 83 · see citing works

Integrative Analysis Toward Different Glucose Tolerance-Related Gut Microbiota and Diet

Nuli, R., Cai, J., Kadeer, A., Zhang, Y., & Mohemaiti, P. (2019) · Frontiers in Endocrinology · doi:10.3389/fendo.2019.00295 · Cited by 84 · see citing works

Dietary Factors in Sulfur Metabolism and Pathogenesis of Ulcerative Colitis

Teigen, L. M., Geng, Z., Sadowsky, M. J., Vaughn, B. P., Hamilton, M. J., & Khoruts, A. (2019) · Nutrients · doi:10.3390/nu11040931 · Cited by 78 · see citing works

The interplay between PCOS pathology and diet on gut microbiota in a mouse model

Paris, V. R., Wong, X. Y. D., Solon‐Biet, S. M., Edwards, M. C., Aflatounian, A., Gilchrist, R. B., Simpson, S. J., Handelsman, D. J., Kaakoush, N. O., & Walters, K. A. (2022) · Gut Microbes · doi:10.1080/19490976.2022.2085961 · Cited by 79 · see citing works

Recent advances in the health benefits of pea protein (Pisum sativum): bioactive peptides and the interaction with the gut microbiome

Wang, J., Kadyan, S., Ukhanov, V., Cheng, J., Nagpal, R., & Cui, L. (2022) · Current Opinion in Food Science · doi:10.1016/j.cofs.2022.100944 · Cited by 73 · see citing works

Gastrointestinal Microbiota in Patients with Chronic Kidney Disease: A Systematic Review

Chung, S.-Y., Barnes, J. L., & Astroth, K. S. (2019) · Advances in Nutrition · doi:10.1093/advances/nmz028 · Cited by 69 · see citing works

Isotopic and genetic methods reveal the role of the gut microbiome in mammalian host essential amino acid metabolism

Newsome, S. D., Feeser, K. L., Bradley, C. J., Wolf, C., Takacs‐Vesbach, C. D., & Fogel, M. L. (2020) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2019.2995 · Cited by 67 · see citing works

Nutritional reprogramming of mouse liver proteome is dampened by metformin, resveratrol, and rapamycin

Couteur, D. G. L., Solon‐Biet, S. M., Parker, B. L., Pulpitel, T., Brandon, A. E., Hunt, N. J., Wali, J. A., Gokarn, R., Senior, A. M., Cooney, G. J., et al. (2021) · Cell Metabolism · doi:10.1016/j.cmet.2021.10.016 · Cited by 69 · see citing works

Ingestion of resistant starch by mice markedly increases microbiome‐derived metabolites

Koay, Y. C., Wali, J. A., Luk, A. W. S., Macia, L., Cogger, V. C., Pulpitel, T., Wahl, D., Solon‐Biet, S. M., Holmes, A. J., Simpson, S. J., et al. (2019) · The FASEB Journal · doi:10.1096/fj.201900177r · Cited by 66 · see citing works

Protein appetite as an integrator in the obesity system: the protein leverage hypothesis

Raubenheimer, D., & Simpson, S. J. (2023) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2022.0212 · Cited by 68 · see citing works

Production of multiple bacteriocins, including the novel bacteriocin gassericin M, by Lactobacillus gasseri LM19, a strain isolated from human milk

García-Gutiérrez, E., O’Connor, P. M., Colquhoun, I. J., Vior, N. M., Rodríguez, J. M., Mayer, M. J., Cotter, P. D., & Narbad, A. (2020) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-020-10493-3 · Cited by 60 · see citing works

Gut Microbiota and Lung Injury

Tan, J.-Y., Tang, Y., & Huang, J. (2020) · Advances in experimental medicine and biology · doi:10.1007/978-981-15-2385-4_5 · Cited by 61 · see citing works

Design and reporting of prebiotic and probiotic clinical trials in the context of diet and the gut microbiome

Whelan, K., Alexander, M., Gaïani, C., Lunken, G., Holmes, A. J., Staudacher, H. M., Theis, S., & Marco, M. L. (2024) · Nature Microbiology · doi:10.1038/s41564-024-01831-6 · Cited by 63 · see citing works

Lactobacillus brevis Alleviates DSS-Induced Colitis by Reprograming Intestinal Microbiota and Influencing Serum Metabolome in Murine Model

Ding, S., Ma, Y., Liu, G., Yan, W., Jiang, H., & Fang, J. Q. (2019) · Frontiers in Physiology · doi:10.3389/fphys.2019.01152 · Cited by 58 · see citing works

Conducting research on diet–microbiome interactions: A review of current challenges, essential methodological principles, and recommendations for best practice in study design

Shanahan, E. R., McMaster, J. J., & Staudacher, H. M. (2021) · Journal of Human Nutrition and Dietetics · doi:10.1111/jhn.12868 · Cited by 58 · see citing works

Dietary carbohydrates regulate intestinal colonization and dissemination of Klebsiella pneumoniae

Hecht, A. L., Harling, L. C., Friedman, E. S., Tanes, C., Lee, J., Firrman, J., Hao, F., Tu, V., Liu, L., Patterson, A. D., et al. (2024) · Journal of Clinical Investigation · doi:10.1172/jci174726 · Cited by 57 · see citing works

Dietary intervention using (1,3)/(1,6)-β-glucan, a fungus-derived soluble prebiotic ameliorates high-fat diet-induced metabolic distress and alters beneficially the gut microbiota in mice model

Muthuramalingam, K., Singh, V., Choi, C., Choi, S. I., Kim, Y. M., Unno, T., & Cho, M. (2019) · European Journal of Nutrition · doi:10.1007/s00394-019-02110-5 · Cited by 56 · see citing works

Towards an Integrative Understanding of Diet–Host–Gut Microbiome Interactions

Read, M. N., & Holmes, A. J. (2017) · Frontiers in Immunology · doi:10.3389/fimmu.2017.00538 · Cited by 54 · see citing works

Low Protein-High Carbohydrate Diets Alter Energy Balance, Gut Microbiota Composition and Blood Metabolomics Profile in Young Pigs

Spring, S., Premathilake, H., DeSilva, U., Shili, C. N., Carter, S., & Pezeshki, A. (2020) · Scientific Reports · doi:10.1038/s41598-020-60150-y · Cited by 55 · see citing works

Metatranscriptomic Analysis of the Mouse Gut Microbiome Response to the Persistent Organic Pollutant 2,3,7,8-Tetrachlorodibenzofuran

Nichols, R. G., Zhang, J., Cai, J., Murray, I. A., Koo, I., Smith, P. B. W., Perdew, G. H., & Patterson, A. D. (2019) · Metabolites · doi:10.3390/metabo10010001 · Cited by 48 · see citing works

An integrative approach to dietary balance across the life course

Raubenheimer, D., Senior, A. M., Mirth, C. K., Cui, Z., Hou, R., Couteur, D. G. L., Solon‐Biet, S. M., Léopold, P., & Simpson, S. J. (2022) · iScience · doi:10.1016/j.isci.2022.104315 · Cited by 50 · see citing works

Protein combined with certain dietary fibers increases butyrate production in gut microbiota fermentation

Jackson, R., Yao, T., Bulut, N., Cantu-Jungles, T. M., & Hamaker, B. R. (2024) · Food & Function · doi:10.1039/d3fo04187e · Cited by 45 · see citing works

The nutritional geometry of liver disease including non-alcoholic fatty liver disease

Simpson, S. J., Raubenheimer, D., Cogger, V. C., Macia, L., Solon‐Biet, S. M., Couteur, D. G. L., & George, J. (2017) · Journal of Hepatology · doi:10.1016/j.jhep.2017.10.005 · Cited by 42 · see citing works

Models of the Gut for Analyzing the Impact of Food and Drugs

Fois, C. A. M., Le, T. Y. L., Schindeler, A., Naficy, S., McClure, D. D., Read, M. N., Valtchev, P., Khademhosseini, A., & Dehghani, F. (2019) · Advanced Healthcare Materials · doi:10.1002/adhm.201900968 · Cited by 41 · see citing works

Drug Discovery and Development of Novel Therapeutics for Inhibiting TMAO in Models of Atherosclerosis and Diabetes

Steinke, I., Ghanei, N., Govindarajulu, M., Yoo, S., Zhong, J., & Amin, R. (2020) · Frontiers in Physiology · doi:10.3389/fphys.2020.567899 · Cited by 42 · see citing works

Cardio-metabolic consequences of dietary carbohydrates: reconciling contradictions using nutritional geometry

Wali, J. A., Raubenheimer, D., Senior, A. M., Couteur, D. G. L., & Simpson, S. J. (2020) · Cardiovascular Research · doi:10.1093/cvr/cvaa136 · Cited by 40 · see citing works

Dietary Protein and Carbohydrate Levels Affect the Gut Microbiota and Clinical Assessment in Healthy Adult Cats

Badri, D. V., Jackson, M. I., & Jewell, D. E. (2021) · Journal of Nutrition · doi:10.1093/jn/nxab308 · Cited by 38 · see citing works

Nutrition at the Intersection between Gut Microbiota Eubiosis and Effective Management of Type 2 Diabetes

Hamamah, S., Iatcu, O. C., & Covașă, M. (2024) · Nutrients · doi:10.3390/nu16020269 · Cited by 38 · see citing works

Strategies to increase the efficacy of using gut microbiota for the modulation of obesity

Li, J., Rajoka, M. S. R., Shao, D., Jiang, C., Jin, M., Huang, Q., Yang, H., & Shi, J. (2017) · Obesity Reviews · doi:10.1111/obr.12590 · Cited by 35 · see citing works

Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes

Kleiner, M., Kouris, A., Violette, M. J., D’Angelo, G., Liu, Y., Korenek, A., Tolić, N., Sachsenberg, T. T., McCalder, J., Lipton, M. S. W., et al. (2023) · Microbiome · doi:10.1186/s40168-022-01454-1 · Cited by 34 · see citing works

Effects of Macronutrients on the In Vitro Production of ClpB, a Bacterial Mimetic Protein of α-MSH and Its Possible Role in Satiety Signaling

Dominique, M., Breton, J., Guérin, C., Bôle‐Feysot, C., Lambert, G., Déchelotte, P., & Fetissov, S. O. (2019) · Nutrients · doi:10.3390/nu11092115 · Cited by 33 · see citing works

Nutrient pollution alters the gut microbiome of a territorial reef fish

Degregori, S., Casey, J. M., & Barber, P. H. (2021) · Marine Pollution Bulletin · doi:10.1016/j.marpolbul.2021.112522 · Cited by 33 · see citing works

Exploring Interactions between the Gut Microbiota and Social Behavior through Nutrition

Pasquaretta, C., Gómez‐Moracho, T., Heeb, P., & Lihoreau, M. (2018) · Genes · doi:10.3390/genes9110534 · Cited by 31 · see citing works

Seasonal diet and microbiome shifts in wild rhesus macaques are better correlated at the level of nutrient components than food items

Cui, Z., Holmes, A. J., Zhang, W., Hu, D., Qi, S. H. A. O., Wang, Z., Lu, J., & Raubenheimer, D. (2021) · Integrative Zoology · doi:10.1111/1749-4877.12601 · Cited by 30 · see citing works

Functional profiling of gut microbial and immune responses toward different types of dietary fiber: a step toward personalized dietary interventions

Tan, J., Ribeiro, R. V., Barker, C., Daïen, C., Silveira, E. D. A., Holmes, A. J., Nanan, R. K. H., Simpson, S. J., & Macia, L. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2274127 · Cited by 31 · see citing works

The infant gut microbiota: in pursuit of non-protein nitrogen

Schimmel, P., Stahl, B., Knol, J., & Belzer, C. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2211917 · Cited by 28 · see citing works

Breast milk urea as a nitrogen source for urease positiveBifidobacterium infantis

Schimmel, P., Kleinjans, L., Bongers, R. S., Knol, J., & Belzer, C. (2021) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiab019 · Cited by 28 · see citing works

The role of rumen epithelial urea transport proteins in urea nitrogen salvage: A review

Zhong, C., Long, R., & Stewart, G. S. (2022) · Animal nutrition · doi:10.1016/j.aninu.2022.01.008 · Cited by 28 · see citing works

The geometry of resource constraint: An empirical study of the golden snub‐nosed monkey

Hou, R., Chapman, C. A., Rothman, J. M., Zhang, H., Huang, K., Guo, S., Li, B., & Raubenheimer, D. (2020) · Journal of Animal Ecology · doi:10.1111/1365-2656.13408 · Cited by 26 · see citing works

The intestinal microbiome of Australian abalone, Haliotis laevigata and Haliotis laevigata × Haliotis rubra, over a 1-year period in aquaculture.

Danckert, N. P., Wilson, N. L., Phan-Thien, K.-Y., & Stone, D. A. J. (2020) · Aquaculture · doi:10.1016/j.aquaculture.2020.736245 · Cited by 26 · see citing works

Impact of low-protein diets on broiler nutrition, production sustainability, gene expression, meat quality and greenhouse gas emissions

Salahi, A., Shahir, M. H., Attia, Y. A., Fahmy, K. N. E.-D., Bovera, F., & Tufarelli, V. (2025) · Journal of Applied Animal Research · doi:10.1080/09712119.2025.2473419 · Cited by 24 · see citing works

Underlying beneficial effects of Rhubarb on constipation-induced inflammation, disorder of gut microbiome and metabolism

Gao, H., He, C., Hua, R., Chen, L., Wang, B., Du, Y., Xin, S., Guo, Y., Gao, L., Zhang, L., et al. (2022) · Frontiers in Pharmacology · doi:10.3389/fphar.2022.1048134 · Cited by 26 · see citing works

The Metabolic Response to a Low Amino Acid Diet is Independent of Diet-Induced Shifts in the Composition of the Gut Microbiome

Pak, H. H., Richardson, N. E., Green, C. L., Brinkman, J. A., Yu, D., Tomasiewicz, J. L., Yang, S. E., Boyle, C., Konon, E. N., Ong, I. M., et al. (2019) · Scientific Reports · doi:10.1038/s41598-018-37177-3 · Cited by 24 · see citing works

The Gut Microbiome on a Periodized Low-Protein Diet Is Associated With Improved Metabolic Health

Li, Z., Rasmussen, T. S., Rasmussen, M. L., Li, J., Henríquez‐Olguín, C., Kot, W., Nielsen, D. S., & Jensen, T. E. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.00709 · Cited by 22 · see citing works

Modulatory Effect of Protein and Carotene Dietary Levels on Pig gut Microbiota

González-Prendes, R., Pena, R. N., Solé, E., Seradj, A. R., Estany, J., & Ramayo‐Caldas, Y. (2019) · Scientific Reports · doi:10.1038/s41598-019-51136-6 · Cited by 24 · see citing works

The Interplay of Nutrition, the Gut Microbiota and Immunity and Its Contribution to Human Disease

Dawson, S. L., Todd, E., & Ward, A. C. (2025) · Biomedicines · doi:10.3390/biomedicines13020329 · Cited by 24 · see citing works

Role of gut microbe-derived metabolites in cardiometabolic diseases: Systems based approach

Cao, Y., Aquino-Martínez, R., Hutchison, E. R., Allayee, H., Lusis, A. J., & Rey, F. E. (2022) · Molecular Metabolism · doi:10.1016/j.molmet.2022.101557 · Cited by 23 · see citing works

Hypoxia and inactivity related physiological changes precede or take place in absence of significant rearrangements in bacterial community structure: The PlanHab randomized trial pilot study

Šket, R., Treichel, N. S., Kublik, S., Debevec, T., Eiken, O., Mekjavić, I. B., Schloter, M., Vital, M., Chandler, J., Tiedje, J. M., et al. (2017) · PLoS ONE · doi:10.1371/journal.pone.0188556 · Cited by 22 · see citing works

Resilience of small intestinal beneficial bacteria to the toxicity of soybean oil fatty acids

Rienzi, S. C. D., Jacobson, J., Kennedy, E. A., Bell, M. E., Shi, Q., Waters, J. L., Lawrence, P., Brenna, J. T., Britton, R. A., Walter, J., et al. (2018) · eLife · doi:10.7554/elife.32581 · Cited by 22 · see citing works

Relation Between Dietary Protein Intake and Gut Microbiome Composition in Community-Dwelling Older Men: Findings from the Osteoporotic Fractures in Men Study (MrOS)

Farsijani, S., Cauley, J. A., Peddada, S., Langsetmo, L., Shikany, J. M., ORWOLL, E. S., Ensrud, K. E., Cawthon, P. M., & Newman, A. B. (2022) · Journal of Nutrition · doi:10.1093/jn/nxac231 · Cited by 21 · see citing works

Intracellular glycogen accumulation by human gut commensals as a niche adaptation trait

Esteban-Torres, M., Ruíz, L., Rossini, V., Nally, K., & van Sinderen, D. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2235067 · Cited by 20 · see citing works

Gut Feelings: How Microbes, Diet, and Host Immunity Shape Disease

Theis, B. F., Park, J. S., Kim, J. S., Zeydabadinejad, S., Vijay–Kumar, M., Yeoh, B. S., & Saha, P. (2025) · Biomedicines · doi:10.3390/biomedicines13061357 · Cited by 24 · see citing works

The road ahead of dietary restriction on anti-aging: focusing on personalized nutrition

Duan, H., Li, J., Yu, L., & Fan, L. (2022) · Critical Reviews in Food Science and Nutrition · doi:10.1080/10408398.2022.2110034 · Cited by 20 · see citing works

Inflammatory crosstalk between saturated fatty acids and gut microbiota–white adipose tissue axis

Jamar, G., & Pisani, L. P. (2022) · European Journal of Nutrition · doi:10.1007/s00394-022-03062-z · Cited by 20 · see citing works

Dietary Protease Supplementation Improved Growth Performance and Nutrients Digestion via Modulating Intestine Barrier, Immunological Response, and Microbiota Composition in Weaned Piglets

Liu, T., Ma, W., Wang, J., Wei, Y., Wang, Y., Luo, Z., Zhang, Y., Zeng, X., Guan, W., Shao, D., et al. (2024) · Antioxidants · doi:10.3390/antiox13070816 · Cited by 19 · see citing works

Homology analysis between clinically isolated extraintestinal and enteral Klebsiella pneumoniae among neonates

Chen, C., Wang, M., Li, X., Li, P., Tian, J., Zhang, K., & Luo, C. (2021) · BMC Microbiology · doi:10.1186/s12866-020-02073-2 · Cited by 17 · see citing works

Thinking Outside the Cereal Box: Noncarbohydrate Routes for Dietary Manipulation of the Gut Microbiota

Reese, A. T., & Carmody, R. N. (2018) · Applied and Environmental Microbiology · doi:10.1128/aem.02246-18 · Cited by 19 · see citing works

Elemental Ratios Link Environmental Change and Human Health

Paseka, R. E., Bratt, A. R., MacNeill, K. L., Burian, A., & See, C. R. (2019) · Frontiers in Ecology and Evolution · doi:10.3389/fevo.2019.00378 · Cited by 17 · see citing works

Dietary protein and the intestinal microbiota: An understudied relationship

Bartlett, A., & Kleiner, M. (2022) · iScience · doi:10.1016/j.isci.2022.105313 · Cited by 124 · see citing works

Nutrition, microbiomes, and intestinal inflammation

Devkota, S., & Chang, E. B. (2013) · Current Opinion in Gastroenterology · doi:10.1097/mog.0b013e328365d38f · Cited by 36 · see citing works

Towards an Integrative Understanding of Diet–Host–Gut Microbiome Interactions

Read, M. N., & Holmes, A. J. (2017) · Frontiers in Immunology · doi:10.3389/fimmu.2017.00538 · Cited by 54 · see citing works

Precision Nutrition and the Microbiome, Part I: Current State of the Science

Mills, S., Stanton, C., Lane, J. A., Smith, G., & Ross, R. P. (2019) · Nutrients · doi:10.3390/nu11040923 · Cited by 406 · see citing works

Linking dietary patterns with gut microbial composition and function

Sheflin, A. M., Melby, C. L., Carbonero, F., & Weir, T. L. (2017) · Gut Microbes · doi:10.1080/19490976.2016.1270809 · Cited by 162 · see citing works