Probiotic modulation of symbiotic gut microbial–host metabolic interactions in a humanized microbiome mouse model
Open accessAbstract
The transgenomic metabolic effects of exposure to either Lactobacillus paracasei or Lactobacillus rhamnosus probiotics have been measured and mapped in humanized extended genome mice (germ-free mice colonized with human baby flora). Statistical analysis of the compartmental fluctuations in diverse metabolic compartments, including biofluids, tissue and cecal short-chain fatty acids (SCFAs) in relation to microbial population modulation generated a novel top-down systems biology view of the host response to probiotic intervention. Probiotic exposure exerted microbiome modification and resulted in altered hepatic lipid metabolism coupled with lowered plasma lipoprotein levels and apparent stimulated glycolysis. Probiotic treatments also altered a diverse range of pathways outcomes, including amino-acid metabolism, methylamines and SCFAs. The novel application of hierarchical-principal component analysis allowed visualization of multicompartmental transgenomic metabolic interactions that could also be resolved at the compartment and pathway level. These integrated system investigations demonstrate the potential of metabolic profiling as a top-down systems biology driver for investigating the mechanistic basis of probiotic action and the therapeutic surveillance of the gut microbial activity related to dietary supplementation of probiotics.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Administration of Lactobacillus paracasei in mice expressing human baby microbiota reduces TMA production, although this has to be demonstrated in humans.
“although it has to be demonstrated in humans, the administration of Lactobacillus paracasei in mice expressing human baby microbiota reduced TMA production [91].”
From Implication of Trimethylamine N-Oxide (TMAO) in Disease: Potential Biomarker or New Therapeutic Target (2018) · cites this paper as [91]
Introducing Lactobacillus paracasei in mice expressing human baby flora decreased fecal choline and was associated with reduced TMA and dimethylamine in liver and plasma lipoproteins.
“Even though it needs to be demonstrated in humans, introducing Lactobacillus paracasei in mice expressing human baby flora decreased fecal choline and was associated with reduced concentrations of TMA and dimethylamine in the liver and plasma lipoproteins (73).”
From Trimethylamine <i>N</i> -Oxide, the Microbiome, and Heart and Kidney Disease (2017) · cites this paper as [73]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
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 · see citing works
Reeves, P. G., Nielsen, F. H., & Fahey, G. C., Jr. (1993) · Journal of Nutrition · doi:10.1093/jn/123.11.1939 · Cited by 8,730 · see citing works
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 · see citing works
Metagenomic Analysis of the Human Distal Gut Microbiome
Gill, S. R., Pop, M., DeBoy, R. T., Eckburg, P. B., Turnbaugh, P. J., Samuel, B. S., Gordon, J. I., Relman, D. A., Fraser-Liggett, C. M., & Nelson, K. E. (2006) · Science · doi:10.1126/science.1124234 · Cited by 4,699 · see citing works
Colonic Health: Fermentation and Short Chain Fatty Acids
Wong, J. M. W., de Souza, R., Kendall, C. W. C., Emam, A., & Jenkins, D. J. A. (2006) · Journal of Clinical Gastroenterology · doi:10.1097/00004836-200603000-00015 · Cited by 2,739 · see citing works
Bile acids lower triglyceride levels via a pathway involving FXR, SHP, and SREBP-1c
渡辺, 光., Houten, S. M., Wang, L., Moschetta, A., Mangelsdorf, D. J., Heyman, R. A., Moore, D. D., & Auwerx, J. H. (2004) · Journal of Clinical Investigation · doi:10.1172/jci21025 · Cited by 1,398 · see citing works
Developmental microbial ecology of the neonatal gastrointestinal tract
Mackie, R. I., Sghir, A., & Gaskins, H. R. (1999) · The American Journal of Clinical Nutrition · doi:10.1093/ajcn/69.5.1035s · Cited by 1,360 · see citing works
Allergy development and the intestinal microflora during the first year of life
Björkstén, B., Sepp, E., Julge, K., Voor, T., & Mikelsaar, M. (2001) · Journal of Allergy and Clinical Immunology · doi:10.1067/mai.2001.118130 · Cited by 1,203 · see citing works
Understanding 'Global' Systems Biology: Metabonomics and the Continuum of Metabolism
Nicholson, J. K., & Wilson, I. D. (2003) · Nature Reviews Drug Discovery · doi:10.1038/nrd1157 · Cited by 1,121 · see citing works
Self-citationSartor, R. B. (2004) · Gastroenterology · doi:10.1053/j.gastro.2004.03.024 · Cited by 1,053 · see citing works
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 · cited 4× · see citing works
“…strategies have been successfully applied to characterizing the metabolic consequences of nutritional intervention (Rezzi et al, 2007; Wang et al, 2007) the effects of the gut microflora on mammalian metabolism (Martin et al, 2006, 2007a, b) and mechanisms of insulin-resistance (Dumas et al, 2006).”
BackgroundInfluentialSelf-citationOligosaccharides in Human Milk: Structural, Functional, and Metabolic Aspects
Kunz, C., Rudloff, S., Baier, W., Klein, N. J., & Ströbel, S. (2000) · Annual Review of Nutrition · doi:10.1146/annurev.nutr.20.1.699 · Cited by 1,037 · see citing works
750 MHz 1H and 1H-13C NMR Spectroscopy of Human Blood Plasma
Nicholson, J. K., Foxall, P. J. D., Spraul, M., Farrant, R. D., & Lindon, J. C. (1995) · Analytical Chemistry · doi:10.1021/ac00101a004 · Cited by 1,020 · see citing works
Self-citationGut microorganisms, mammalian metabolism and personalized health care
Nicholson, J. K., Holmes, E., & Wilson, I. D. (2005) · Nature Reviews Microbiology · doi:10.1038/nrmicro1152 · Cited by 945 · see citing works
Self-citationCloarec, O., Dumas, M., Craig, A., Barton, R. H., Trygg, J., Hudson, J., Blancher, C., Gauguier, D., Lindon, J. C., Holmes, E. C., et al. (2005) · Analytical Chemistry · doi:10.1021/ac048630x · Cited by 912 · see citing works
Self-citationProbiotics, prebiotics, and synbiotics: approaches for modulating the microbial ecology of the gut
COLLINS, M. D., & Gibson, G. R. (1999) · American Journal of Clinical Nutrition · doi:10.1093/ajcn/69.5.1052s · Cited by 899 · see citing works
Pharmaco-metabonomic phenotyping and personalized drug treatment
Andrew Clayton, T., Lindon, J. C., Cloarec, O., Antti, H., Charuel, C., Hanton, G., Provost, J.-P., Le Net, J.-L., Baker, D., Walley, R. J., et al. (2006) · Nature · doi:10.1038/nature04648 · Cited by 824 · cited 2× · see citing works
“…(Holmes andNicholson, 2005; Gavaghan McKee et al, 2006) and metabolic phenotype influences outcomes of drug interventions (Nicholson et al, 2004; Clayton et al, 2006), there is clearly an important role of understanding these interactions as part of personalized healthcare solutions (Nicholson,…”
BackgroundSelf-citationRapid and Noninvasive Metabonomic Characterization of Inflammatory Bowel Disease
Marchesi, J. R., Holmes, E. C., Khan, F. M. A., Kochhar, S., Scanlan, P. D., Shanahan, F., Wilson, I. D., & Wang, Y. (2007) · Journal of Proteome Research · doi:10.1021/pr060470d · Cited by 632 · see citing works
Self-citationCorcoran, B. M., Stanton, C., Fitzgerald, G. F., & Ross, R. P. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.6.3060-3067.2005 · Cited by 547 · see citing works
Lederberg, J. (2000) · Science · doi:10.1126/science.288.5464.287 · Cited by 523 · see citing works
Smith, E. A., & Macfarlane, G. T. (1996) · Journal of Applied Bacteriology · doi:10.1111/j.1365-2672.1996.tb04331.x · Cited by 481 · see citing works
A top‐down systems biology view of microbiome‐mammalian metabolic interactions in a mouse model
Martin, F., Dumas, M., Wang, Y., Legido‐Quigley, C., Yap, I. K. S., Tang, H., Zirah, S., Murphy, G. M., Cloarec, O., Lindon, J. C., et al. (2007) · Molecular Systems Biology · doi:10.1038/msb4100153 · Cited by 474 · see citing works
Self-citationEffects of Consumption of Probiotics and Prebiotics on Serum Lipid Levels in Humans
Pereira, D. I. A., & Gibson, G. R. (2002) · Critical Reviews in Biochemistry and Molecular Biology · doi:10.1080/10409230290771519 · Cited by 450 · see citing works
Gupta, P., Andrew, H., Kirschner, B. S., & Guandalini, S. (2000) · Journal of Pediatric Gastroenterology and Nutrition · doi:10.1097/00005176-200010000-00024 · Cited by 429 · see citing works
Contribution of microbial amino acids to amino acid homeostasis of the host
Metges, C. C. (2000) · The Journal of Nutrition · doi:10.1093/jn/130.7.1857s · Cited by 391 · see citing works
Global systems biology, personalized medicine and molecular epidemiology
Nicholson, J. K. (2006) · Molecular Systems Biology · doi:10.1038/msb4100095 · Cited by 390 · see citing works
Self-citationKAJANDER, K., HATAKKA, K., POUSSA, T., FÄRKKILÄ, M., & KORPELA, R. (2005) · Alimentary Pharmacology & Therapeutics · doi:10.1111/j.1365-2036.2005.02579.x · Cited by 361 · see citing works
The challenges of modeling mammalian biocomplexity
Nicholson, J. K., Holmes, E. C., Lindon, J. C., & Wilson, I. D. (2004) · Nature Biotechnology · doi:10.1038/nbt1015 · Cited by 357 · see citing works
Self-citationEffects of prebiotics on mineral metabolism
Scholz-Ahrens, K. E., Schaafsma, G., van den Heuvel, E. G. H. M., & Schrezenmeir, J. (2001) · American Journal of Clinical Nutrition · doi:10.1093/ajcn/73.2.459s · Cited by 339 · see citing works
Nutritional metabonomics: applications and perspectives.
Rezzi, S., Ramadan, Z., Fay, L., & Kochhar, S. (2007) · Journal of Proteome Research · doi:10.1021/pr060522z · Cited by 274 · see citing works
Self-citationFormation of methylamines from ingested choline and lecithin.
Zeisel, S. H., Wishnok, J. S., & Blusztajn, J. K. (1983) · The Journal of Pharmacology and Experimental Therapeutics · doi:10.1016/s0022-3565(25)33590-1 · Cited by 253 · see citing works
Ibnou-Zekri, N., Blum, S., Schiffrin, E. J., & von der Weid, T. (2002) · Infection and Immunity · doi:10.1128/iai.71.1.428-436.2003 · Cited by 216 · see citing works
Pereira, D. I. A., McCartney, A. L., & Gibson, G. R. (2003) · Applied and Environmental Microbiology · doi:10.1128/aem.69.8.4743-4752.2003 · Cited by 215 · see citing works
Probiotics That Modify Disease Risk
Salminen, S., Gueimonde, M., & Isolauri, E. (2005) · Journal of Nutrition · doi:10.1093/jn/135.5.1294 · Cited by 214 · see citing works
The exogenous origin of trimethylamine in the mouse
Al-Waiz, M., Mikov, M., Mitchell, S. C., & Smith, R. L. (1992) · Metabolism · doi:10.1016/0026-0495(92)90140-6 · Cited by 196 · see citing works
Adaptation of Bacteria to the Intestinal Niche: Probiotics and Gut Disorder
Dunne, C. P. (2001) · Inflammatory Bowel Diseases · doi:10.1097/00054725-200105000-00010 · Cited by 182 · see citing works
Verdú, E. F., Bercík, P., Bergonzelli, G. E., Huang, X.-X., Blennerhasset, P., Rochat, F., Fiaux, M., Mansourian, R., Corthésy-Theulaz, I., & Collins, S. M. (2004) · Gastroenterology · doi:10.1053/j.gastro.2004.06.007 · Cited by 180 · see citing works
Probiotics to prevent urinary tract infections: the rationale and evidence
Reid, G., & Bruce, A. W. (2005) · World Journal of Urology · doi:10.1007/s00345-005-0043-1 · Cited by 174 · see citing works
Antiallergic Effects of Probiotics1,
Ouwehand, A. C. (2007) · Journal of Nutrition · doi:10.1093/jn/137.3.794s · Cited by 169 · see citing works
BILE ACID TRANSFORMATIONS BY MICROBIAL STRAINS BELONGING TO GENERA FOUND IN INTESTINAL CONTENTS
Midtvedt, T., & Norman, A. (1967) · Acta Pathologica Microbiologica Scandinavica · doi:10.1111/j.1699-0463.1967.tb05183.x · Cited by 167 · see citing works
Sarker, S. A., Sultana, S., Fuchs, G. J., Alam, N. H., Azim, T., Brüssow, H., & Hammarström, L. L. G. (2005) · PEDIATRICS · doi:10.1542/peds.2004-2334 · Cited by 146 · see citing works
Role of Oligosaccharides and Glycoconjugates in Intestinal Host Defense
Dai, D., Nanthakumar, N. N., Newburg, D. S., & Walker, W. A. (2000) · Journal of Pediatric Gastroenterology and Nutrition · doi:10.1097/00005176-200000002-00005 · Cited by 144 · see citing works
Metabonomic Investigations of Aging and Caloric Restriction in a Life-Long Dog Study
Wang, Y., Lawler, D. F., Larson, B. T., Ramadan, Z., Kochhar, S., Holmes, E. C., & Nicholson, J. K. (2007) · Journal of Proteome Research · doi:10.1021/pr060685n · Cited by 143 · see citing works
Self-citationSzymański, H., Pejcz, J., Jawień, M., Chmielarczyk, A., Strus, M., & Heczko, P. B. (2005) · Alimentary Pharmacology & Therapeutics · doi:10.1111/j.1365-2036.2006.02740.x · Cited by 141 · see citing works
Bile salts and cholesterol induce changes in the lipid cell membrane of Lactobacillus reuteri
Taranto, M. P., Fernández-Murga, M. L., Lorca, G. L., & de Valdez, G. F. (2003) · Journal of Applied Microbiology · doi:10.1046/j.1365-2672.2003.01962.x · Cited by 138 · see citing works
Waters, N. J., Garrod, S., Farrant, R. D., et al. (2000) · Analytical Biochemistry · doi:10.1006/abio.2000.4574 · Cited by 130 · see citing works
Kankaanpää, P., Yang, B., Kallio, H. P. T., Isolauri, E., & Salminen, S. (2004) · Applied and Environmental Microbiology · doi:10.1128/aem.70.1.129-136.2004 · Cited by 122 · see citing works
Comparison of proteolytic activities in various lactobacilli
Sasaki, M., Bosman, B. W., & Tan, P. S. T. (1995) · Journal of Dairy Research · doi:10.1017/s0022029900031332 · Cited by 119 · see citing works
Metabolism and Excretion of Methylamines in Rats
Smith, J. L., Wishnok, J. S., & Deen, W. M. (1994) · Toxicology and Applied Pharmacology · doi:10.1006/taap.1994.1076 · Cited by 103 · see citing works
Influence of phenol, p-cresol and indole on growth and survival of intestinal lactic acid bacteria
Nowak, A., & Libudzisz, Z. (2006) · Anaerobe · doi:10.1016/j.anaerobe.2005.10.003 · Cited by 99 · see citing works
Dietary fibre, fermentation and large bowel cancer.
Cummings, J. H., & Bingham, S. (1987) · PubMed · Cited by 95 · see citing works
Gut flora and the origin of some urinary aromatic phenolic compounds
Goodwin, B. L., Ruthven, C. R. J., & Sandler, M. (1994) · Biochemical Pharmacology · doi:10.1016/0006-2952(94)90268-2 · Cited by 93 · see citing works
GASTRIC PATHOLOGY ASSOCIATED WITH HELICOBACTER PYLORI
Warren, J. R. (2000) · Gastroenterology Clinics of North America · doi:10.1016/s0889-8553(05)70139-4 · Cited by 91 · see citing works
Martin, F.-P. J., Wang, Y., Sprenger, N., Holmes, E., Lindon, J. C., Kochhar, S., & Nicholson, J. K. (2007) · Journal of Proteome Research · doi:10.1021/pr060596a · Cited by 87 · see citing works
Self-citationAllison, C., & Macfarlane, G. T. (1989) · Applied and Environmental Microbiology · doi:10.1128/aem.55.11.2894-2898.1989 · Cited by 87 · see citing works
Xu, S., Boylston, T. D., & Glatz, B. A. (2005) · Journal of Agricultural and Food Chemistry · doi:10.1021/jf051030u · Cited by 80 · see citing works
Xu, Z.-R., Hu, C.-H., & Wang, M.-Q. (2002) · The Journal of General and Applied Microbiology · doi:10.2323/jgam.48.83 · Cited by 77 · see citing works
Blum, S., & Schiffrin, E. J. (2003) · PubMed · Cited by 75 · see citing works
Essential fatty acids as possible enhancers of the beneficial actions of probiotics
Das, U. N. (2002) · Nutrition · doi:10.1016/s0899-9007(02)00840-7 · Cited by 75 · see citing works
Martin, F., Verdu, E. F., Wang, Y., Dumas, M., Yap, I. K. S., Cloarec, O., Bergonzelli, G. E., Corthesy-Theulaz, I. E., Kochhar, S., Holmes, E. C., et al. (2006) · Journal of Proteome Research · doi:10.1021/pr060157b · Cited by 74 · see citing works
Self-citationMetabolic Phenotyping of Nude and Normal (Alpk:ApfCD, C57BL10J) Mice
McKee, C. L. G., Wilson, I. D., & Nicholson, J. K. (2006) · Journal of Proteome Research · doi:10.1021/pr050255h · Cited by 64 · see citing works
Self-citationCholic Acid Is Accumulated Spontaneously, Driven by Membrane ΔpH, in Many Lactobacilli
Kurdi, P., van Veen, H. W., Tanaka, H., Mierau, I., Konings, W. N., Tannock, G. W., Tomita, F., & Yokota, A. (2000) · Journal of Bacteriology · doi:10.1128/jb.182.22.6525-6528.2000 · Cited by 63 · see citing works
Lactobacillusgrowth and membrane composition in the presence of linoleic or conjugated linoleic acid
Jenkins, J. K., & Courtney, P. D. (2003) · Canadian Journal of Microbiology · doi:10.1139/w03-003 · Cited by 61 · see citing works
Wang, Y., Tang, H., Holmes, E. C., Lindon, J. C., Turini, M. E., Sprenger, N., Bergonzelli, G. E., Fay, L. B., Kochhar, S., & Nicholson, J. K. (2005) · Journal of Proteome Research · doi:10.1021/pr050032r · Cited by 58 · see citing works
Self-citationBile salts, intestinal microflora and enterohepatic circulation
Floch, M. H. (2002) · Digestive and Liver Disease · doi:10.1016/s1590-8658(02)80165-7 · Cited by 57 · see citing works
Variation in Gut Microbiota Strongly Influences Individual Rodent Phenotypes
Holmes, E. C., & Nicholson, J. K. (2005) · Toxicological Sciences · doi:10.1093/toxsci/kfi259 · Cited by 42 · see citing works
Self-citationLin, Y., Havinga, R., Schippers, I. J., et al. (1996) · Biochemical Journal · doi:10.1042/bj3160531 · Cited by 40 · see citing works
Metges, C. C., Eberhard, M., & Petzke, K. J. (2005) · Current Opinion in Clinical Nutrition & Metabolic Care · doi:10.1097/01.mco.0000196142.72985.d3 · Cited by 34 · see citing works
Hallson, P. C., Choong, S. K. S., Kasidas, G. P., et al. (1997) · British Journal of Urology · doi:10.1046/j.1464-410x.1997.00366.x · Cited by 33 · see citing works
Fukushima, M., Matsuda, T., Yamagishi, K., et al. (1997) · Lipids · doi:10.1007/s11745-997-0138-5 · Cited by 26 · see citing works
Kishinaka, M., Umeda, A., & Kuroki, S. (1994) · Steroids · doi:10.1016/0039-128x(94)90062-0 · Cited by 25 · see citing works
Biosynthesis of protease from Lactobacillus paracasei: kinetic analysis of fermentation parameters.
Haq, I. U., & Mukhtar, H. (2006) · PubMed · Cited by 24 · see citing works
Helicobacter pylori: past, present and future.
Marshall, B. J. (2003) · The Keio Journal of Medicine · doi:10.2302/kjm.52.80 · Cited by 23 · see citing works
Comparative hypocholesterolemic effects of six vegetable oils in cholesterol‐fed rat
Fukushima, M., Akiba, S., & Nakano, M. (1996) · Lipids · doi:10.1007/bf02522928 · Cited by 23 · see citing works
Growth and lipid metabolism responses in rats fed different dietary fat sources
Al‐Othman, A. A. (2000) · International Journal of Food Sciences and Nutrition · doi:10.1080/09637480050029656 · Cited by 21 · see citing works
Flagged first, then by citations
Research works printed but not linked: 4
- Cloarec O, Dumas ME, Trygg J, Craig A, Barton RH, Lindon JC, Nicholson JK, Holmes E (2005b) Evaluation of the orthogonal projection on latent structure model limitations caused by chemical shift variability and improved visualization of biomarker changes in 1H NMR spectroscopic metabonomic studies. Anal Chem 77: 517– 526 15649048
- Fuller R (2004) Probiotics in man and animals. J Appl Bacteriol 66: 365– 378 2666378
- Hurd RE (1990) Gradient-enhanced spectroscopy. J Magn Reson 87: 422– 428 22152363
- Ley R, Turnbaugh P, Klein S, Gordon J (2006) Microbial ecology: human gut microbes associated with obesity. Nature 444: 1022– 1023 17183309
Cited by
Sorted by citations
Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease
Wang, Z., Klipfell, E., Bennett, B. J., Koeth, R., Levison, B. S., DuGar, B., Feldstein, A. E., Britt, E. B., Fu, X., Chung, Y.-M., et al. (2011) · Nature · doi:10.1038/nature09922 · Cited by 5,597 · see citing works
Intestinal microbial metabolism of phosphatidylcholine and cardiovascular risk
Tang, W. H. W., Wang, Z., Levison, B. S., Koeth, R. A., Britt, E. B., Fu, X., Wu, Y., & Hazen, S. L. (2013) · New England Journal of Medicine · doi:10.1056/nejmoa1109400 · Cited by 3,402 · see citing works
Human nutrition, the gut microbiome and the immune system
Kau, A. L., Ahern, P. P., Griffin, N. W., Goodman, A. L., & Gordon, J. I. (2011) · Nature · doi:10.1038/nature10213 · Cited by 2,588 · see citing works
Zmora, N., Zilberman-Schapira, G., Suez, J., Mor, U., Dori-Bachash, M., Bashiardes, S., Kotler, E., Zur, M., Regev-Lehavi, D., Brik, R. B.-Z., et al. (2018) · Cell · doi:10.1016/j.cell.2018.08.041 · Cited by 1,695 · see citing works
The pros, cons, and many unknowns of probiotics
Suez, J., Zmora, N., Segal, E., & Elinav, E. (2019) · Nature Medicine · doi:10.1038/s41591-019-0439-x · Cited by 1,398 · see citing works
Genes and Molecules of Lactobacilli Supporting Probiotic Action
Lebeer, S., Vanderleyden, J., & De Keersmaecker, S. C. J. (2008) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00017-08 · Cited by 1,013 · see citing works
Janeiro, M., Ramírez, M., Milagro, F., Martínez, J., & Solas, M. (2018) · Nutrients · doi:10.3390/nu10101398 · Cited by 631 · see citing works
Interactions Between Gut Microbiota and Host Metabolism Predisposing to Obesity and Diabetes
Musso, G., Gambino, R., & Cassader, M. (2011) · Annual Review of Medicine · doi:10.1146/annurev-med-012510-175505 · Cited by 598 · see citing works
Mechanisms of action of probiotics: Recent advances
Ng, S. C., Hart, A. L., Kamm, M. A., Stagg, A. J., & Knight, S. C. (2009) · Inflammatory Bowel Diseases · doi:10.1002/ibd.20602 · Cited by 596 · see citing works
Understanding the role of gut microbiome–host metabolic signal disruption in health and disease
Holmes, E., Li, J. V., Athanasiou, T., Ashrafian, H., & Nicholson, J. K. (2011) · Trends in Microbiology · doi:10.1016/j.tim.2011.05.006 · Cited by 541 · see citing works
Self-citationMetagenomic approaches for defining the pathogenesis of inflammatory bowel diseases
Peterson, D. A., Frank, D. N., Pace, N. R., & Gordon, J. I. (2008) · Cell Host & Microbe · doi:10.1016/j.chom.2008.05.001 · Cited by 503 · see citing works
Chapter 12: Human Microbiome Analysis
Morgan, X. C., & Huttenhower, C. (2012) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1002808 · Cited by 496 · see citing works
Trimethylamine <i>N</i> -Oxide, the Microbiome, and Heart and Kidney Disease
Zeisel, S. H., & Warrier, M. (2017) · Annual Review of Nutrition · doi:10.1146/annurev-nutr-071816-064732 · Cited by 475 · see citing works
Genome-scale analyses of health-promoting bacteria: probiogenomics
Ventura, M., O'Flaherty, S., Claesson, M. J., Turroni, F., Klaenhammer, T. R., van Sinderen, D., & O'Toole, P. W. (2009) · Nature Reviews Microbiology · doi:10.1038/nrmicro2047 · Cited by 471 · see citing works
The role of the gut microbiota in nonalcoholic fatty liver disease
Abu-Shanab, A., & Quigley, E. M. M. (2010) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/nrgastro.2010.172 · Cited by 457 · see citing works
Gut microbial colonisation in premature neonates predicts neonatal sepsis
Madan, J. C., Salari, R. C., Saxena, D., Davidson, L., O'Toole, G. A., Moore, J. H., Sogin, M. L., Foster, J. A., Edwards, W. H., Palumbo, P., et al. (2012) · Archives of Disease in Childhood - Fetal and Neonatal Edition · doi:10.1136/fetalneonatal-2011-301373 · Cited by 340 · see citing works
Impact of intestinal microbiota on intestinal luminal metabolome
Matsumoto, M., Kibe, R., Ooga, T., Aiba, Y., Kurihara, S., Sawaki, E., Koga, Y., & Benno, Y. (2012) · Scientific Reports · doi:10.1038/srep00233 · Cited by 334 · see citing works
The Human Gut Microbiome and Body Metabolism: Implications for Obesity and Diabetes
Devaraj, S., Hemarajata, P., & Versalovic, J. (2013) · Clinical Chemistry · doi:10.1373/clinchem.2012.187617 · Cited by 321 · see citing works
O'Shea, E. F., Cotter, P. D., Stanton, C., Ross, R. P., & Hill, C. (2012) · International Journal of Food Microbiology · doi:10.1016/j.ijfoodmicro.2011.05.025 · Cited by 305 · see citing works
Food, immunity, and the microbiome
Tilg, H., & Moschen, A. R. (2015) · Gastroenterology · doi:10.1053/j.gastro.2014.12.036 · Cited by 292 · see citing works
Intersections Between Microbiome and Heart Failure: Revisiting the Gut Hypothesis
Nagatomo, Y., & Tang, W. H. W. (2015) · Journal of Cardiac Failure · doi:10.1016/j.cardfail.2015.09.017 · Cited by 259 · see citing works
Utilization of amino acids by bacteria from the pig small intestine
Dai, Z.-L., Zhang, J., Wu, G., & Zhu, W.-Y. (2010) · Amino Acids · doi:10.1007/s00726-010-0556-9 · Cited by 246 · see citing works
Probiotics: interaction with gut microbiome and antiobesity potential.
Arora, T., Singh, S., & Sharma, R. K. (2013) · Nutrition · doi:10.1016/j.nut.2012.07.017 · Cited by 176 · see citing works
The Biological Role of Inflammation in Atherosclerosis
Wong, B. W., Meredith, A., Lin, D., & McManus, B. M. (2012) · Canadian Journal of Cardiology · doi:10.1016/j.cjca.2012.06.023 · Cited by 168 · see citing works
Modeling metabolism of the human gut microbiome
Magnúsdóttir, S., & Thiele, I. (2018) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2017.12.005 · Cited by 127 · see citing works
How can probiotics and prebiotics impact mucosal immunity?
O'Flaherty, S., Saulnier, D., Pot, B., & Versalovic, J. (2010) · Gut Microbes · doi:10.4161/gmic.1.5.12924 · Cited by 103 · see citing works
The Metabolic and Ecological Interactions of Oxalate-Degrading Bacteria in the Mammalian Gut
Miller, A., & Dearing, D. (2013) · Pathogens · doi:10.3390/pathogens2040636 · Cited by 101 · see citing works
Impact of Probiotics on Risk Factors for Cardiovascular Diseases. A Review
Ebel, B., Lemetais, G., Beney, L., Cachon, R., Sokol, H., Langella, P., & Gervais, P. (2014) · Critical Reviews in Food Science and Nutrition · doi:10.1080/10408398.2011.579361 · Cited by 97 · see citing works
Borges, N. A., Stenvinkel, P., Bergman, P., Qureshi, A. R., Lindholm, B., Moraes, C., Stockler-Pinto, M. B., & Mafra, D. (2019) · Probiotics and Antimicrobial Proteins · doi:10.1007/s12602-018-9411-1 · Cited by 83 · see citing works
Beyond phylotyping: understanding the impact of gut microbiota on host biology
Reigstad, C. S., & Kashyap, P. C. (2013) · Neurogastroenterology & Motility · doi:10.1111/nmo.12134 · Cited by 66 · see citing works
Selenium-Enriched Probiotics Improves Murine Male Fertility Compromised by High Fat Diet
Ibrahim, H. A. M., Zhu, Y., Wu, C., Lu, C., Ezekwe, M. O., Liao, S. F., & Haung, K. (2012) · Biological Trace Element Research · doi:10.1007/s12011-011-9308-2 · Cited by 62 · see citing works
Lan, K., Xie, G., & Jia, W. (2013) · Evidence-based Complementary and Alternative Medicine · doi:10.1155/2013/819147 · Cited by 47 · see citing works
The Interplay between the Microbiota and Enterohemorrhagic <i>Escherichia coli</i>
Pifer, R., & Sperandio, V. (2014) · Microbiology Spectrum · doi:10.1128/microbiolspec.ehec-0015-2013 · Cited by 32 · see citing works
- Authors
- Martin, F. J., Wang, Y., Sprenger, N., Yap, I. K. S., Lundstedt, T., Lek, P., Rezzi, S., Ramadan, Z., van Bladeren, P., Fay, L. B., Kochhar, S., Lindon, J. C., Holmes, E., & Nicholson, J. K.
- Affiliations
- Imperial College London (GB)
- Nestlé (Switzerland) (CH)
- Uppsala University (SE)
- Corresponding author
- Nicholson, Jeremy K
- ORCID
- Venue
- Molecular Systems Biology
- Published
- 2008-01-15
- Volume
- 4
- Issue
- 1
- Pages
- 157-157
- ISSN
- 1744-4292 (ISSN-L)
- PMC
- PMC2238715
- OpenAlex
- W2166086031
- Cited by
- 421
- References
- 75
- Citations by year
- 2026: 5 · 2025: 8 · 2024: 12 · 2023: 14 · 2022: 18 · 2021: 17 · 2020: 28 · 2019: 15 · 2018: 19 · 2017: 18 · 2016: 24 · 2015: 30 · 2014: 25 · 2013: 34 · 2012: 32
- FWCI
- 16.47
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Molecular Systems Biology (publishedVersion, other-oa)
- Europe PMC (PubMed Central) (publishedVersion, cc-by-nc-sa)
- PubMed Central (publishedVersion, cc-by-nc-sa)
- PubMed (publishedVersion)
- Socio-Environmental Systems Modeling (acceptedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion, other-oa)
- Funders
- National Heart, Lung, and Blood Institute (5-R01-HL 71950-2, R01HL071950)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Life Sciences › Agricultural and Biological Sciences › Food Science › Probiotics and Fermented Foods
- Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Animal Nutrition and Physiology
- Keywords
- probiotics, Lactobacillus paracasei, Lactobacillus rhamnosus, germ-free mice, gut microbiota, host-microbe metabolic interactions, short-chain fatty acids, hepatic lipid metabolism, serum lipoproteins, glycolysis, amino acid metabolism, methylamine, metabolite profiling, systems biology
- MeSH terms
- Animals, Bile Acids and Salts, Cell Compartmentation, Chromatography, Liquid, Fatty Acids, Volatile, Feces, Female, Host-Parasite Interactions, Humans, Ileum, Infant, Newborn, Liver, Models, Biological, Protons, Species Specificity, Mass Spectrometry, Symbiosis, Tissue Extracts, Nuclear Magnetic Resonance, Biomolecular, Probiotics, Models, Animal, Principal Component Analysis, Gastrointestinal Tract, Mice, Metagenome
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
