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Symbiotic Gut Microbiota and the Modulation of Human Metabolic Phenotypes

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Metagenomics of the Human Body
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Abstract

The gut microbiota has evolved intimate symbiotic relationships with the human host and is considered as an internal “microbial organ.” It has also been shown to exhibit an immensely diverse, complex composition and significant involvement in human health and disease by use of various high-throughput “omics” techniques. However, the molecular basis of these host–microbe interactions and the role of individual bacterial species remain unclear. In this Chapter, we discuss strategies and techniques for understanding the host–microbiome symbiosis, the modulation of human metabolic phenotype especially through the gut–liver axis, and potential therapies for the gut microbiota.

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References

  • Backhed F et al (2005) Host–bacterial mutualism in the human intestine. Science 307(5717):1915–1920

    Article  PubMed  Google Scholar 

  • Backhed F et al (2004) The gut microbiota as an environmental factor that regulates fat storage. Proc Natl Acad Sci USA 101(44):15718–15723

    Article  PubMed Central  PubMed  Google Scholar 

  • Bentley R, Meganathan R (1982) Biosynthesis of vitamin K (menaquinone) in bacteria. Microbiol Rev 46(3):241–280

    CAS  PubMed Central  PubMed  Google Scholar 

  • Bhattacharyya DK, Kwon O, Meganathan R (1997) Vitamin K2 (menaquinone) biosynthesis in Escherichia coli: evidence for the presence of an essential histidine residue in o-succinylbenzoyl coenzyme A synthetase. J Bacteriol 179(19):6061–6065

    CAS  PubMed Central  PubMed  Google Scholar 

  • Bowey E, Adlercreutz H, Rowland I (2003) Metabolism of isoflavones and lignans by the gut microflora: a study in germ-free and human flora associated rats. Food Chem Toxicol 41(5):631–636

    Article  CAS  PubMed  Google Scholar 

  • Brighenti F et al (1995) Effect of neutralized and native vinegar on blood glucose and acetate responses to a mixed meal in healthy subjects. Eur J Clin Nutr 49(4):242–247

    CAS  PubMed  Google Scholar 

  • Duerden BI (1994) Virulence factors in anaerobes. Clin Infect Dis 18(Suppl 4):S253–S259

    Article  PubMed  Google Scholar 

  • Dumas ME et al (2006a) Assessment of analytical reproducibility of 1H NMR spectroscopy based metabonomics for large-scale epidemiological research: the INTERMAP study. Anal Chem 78(7):2199–2208

    Article  CAS  PubMed  Google Scholar 

  • Dumas ME et al (2006b) Metabolic profiling reveals a contribution of gut microbiota to fatty liver phenotype in insulin-resistant mice. Proc Natl Acad Sci USA 103(33):12511–12516

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Ebbels T, Beckonert O, Antti H, Bollard M, Holmes E, Lindon J, Nicholson J (2003) Toxicity classification from metabonomic data using a density superposition approach:‘CLOUDS’. Anal Chim Acta 490:109–122

    Article  CAS  Google Scholar 

  • Eckburg PB et al (2005) Diversity of the human intestinal microbial flora. Science 308(5728):1635–1638

    Article  PubMed Central  PubMed  Google Scholar 

  • Farooqi S, O’Rahilly S (2006) Genetics of obesity in humans. Endocr Rev 27(7):710–718

    Article  CAS  PubMed  Google Scholar 

  • Garcia-Tsao G et al (1995) Bacterial translocation to mesenteric lymph nodes is increased in cirrhotic rats with ascites. Gastroenterology 108(6):1835–1841

    Article  CAS  PubMed  Google Scholar 

  • Gill SR et al (2006) Metagenomic analysis of the human distal gut microbiome. Science 312(5778):1355–1359

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Guarner F, Malagelada JR (2003) Gut flora in health and disease. Lancet 361(9356):512–519

    Article  PubMed  Google Scholar 

  • Handelsman J (2004) Metagenomics: application of genomics to uncultured microorganisms. Microbiol Mol Biol Rev 68(4):669–685

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Hayashi H et al (2003) Molecular analysis of fecal microbiota in elderly individuals using 16S rDNA library and T-RFLP. Microbiol Immunol 47(8):557–570

    Article  CAS  PubMed  Google Scholar 

  • Kelly D et al (2004) Commensal anaerobic gut bacteria attenuate inflammation by regulating nuclear-cytoplasmic shuttling of PPAR-gamma and RelA. Nat Immunol 5(1):104–112

    Article  CAS  PubMed  Google Scholar 

  • Lederberg J (2000) Infectious history. Science 288(5464):287–293

    Article  CAS  PubMed  Google Scholar 

  • Ley RE, Peterson DA, Gordon JI (2006) Ecological and evolutionary forces shaping microbial diversity in the human intestine. Cell 124(4):837–848

    Article  CAS  PubMed  Google Scholar 

  • Ley RE et al (2005) Obesity alters gut microbial ecology. Proc Natl Acad Sci USA 102(31):11070–11075

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Li H et al (2007) Pharmacometabonomic phenotyping reveals different responses to xenobiotic intervention in rats. J Proteome Res 6(4):1364–1370

    Article  CAS  PubMed  Google Scholar 

  • Li LJ et al (2004) Changes of gut flora and endotoxin in rats with D-galactosamine-induced acute liver failure. World J Gastroenterol 10(14):2087–2090

    CAS  PubMed  Google Scholar 

  • Li M et al (2008) Symbiotic gut microbes modulate human metabolic phenotypes. Proc Natl Acad Sci USA 105(6):2117–2122

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Li YT et al (2010) Effects of gut microflora on hepatic damage after acute liver injury in rats. J Trauma 68(1):76–83

    Article  PubMed  Google Scholar 

  • Lin RS et al (1995) Endotoxemia in patients with chronic liver diseases: relationship to severity of liver diseases, presence of esophageal varices, and hyperdynamic circulation. J Hepatol 22(2):165–172

    Article  CAS  PubMed  Google Scholar 

  • Mariat D et al (2009) The firmicutes/bacteroidetes ratio of the human microbiota changes with age. BMC Microbiol 9:123

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Martin FP et al (2007) A top-down systems biology view of microbiome–mammalian metabolic interactions in a mouse model. Mol Syst Biol 3:112

    Article  PubMed Central  PubMed  Google Scholar 

  • Martin FP et al (2008) Probiotic modulation of symbiotic gut microbial–host metabolic interactions in a humanized microbiome mouse model. Mol Syst Biol 4:157

    PubMed Central  PubMed  Google Scholar 

  • Martin FP et al (2009) Topographical variation in murine intestinal metabolic profiles in relation to microbiome speciation and functional ecological activity. J Proteome Res 8(7):3464–3474

    Article  CAS  PubMed  Google Scholar 

  • Mueller S et al (2006) Differences in fecal microbiota in different European study populations in relation to age, gender, and country: a cross-sectional study. Appl Environ Microbiol 72(2):1027–1033

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Muyzer G, Smalla K (1998) Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) in microbial ecology. Antonie Van Leeuwenhoek 73(1):127–141

    Article  CAS  PubMed  Google Scholar 

  • Myers LL et al (1987) Isolation of enterotoxigenic Bacteroides fragilis from humans with diarrhea. J Clin Microbiol 25(12):2330–2333

    CAS  PubMed Central  PubMed  Google Scholar 

  • Nicholson JK, Wilson ID (2003) Opinion: understanding ‘global’ systems biology: metabonomics and the continuum of metabolism. Nat Rev Drug Discov 2(8):668–676

    Article  CAS  PubMed  Google Scholar 

  • Nicholson JK, Lindon JC (2008) Systems biology: metabonomics. Nature 455(7216):1054–1056

    Article  CAS  PubMed  Google Scholar 

  • Nicholson JK, Holmes E, Wilson ID (2005) Gut microorganisms, mammalian metabolism and personalized health care. Nat Rev Microbiol 3(5):431–438

    Article  CAS  PubMed  Google Scholar 

  • Nicholson JK et al (2004) The challenges of modeling mammalian biocomplexity. Nat Biotechnol 22(10):1268–1274

    Article  CAS  PubMed  Google Scholar 

  • Nicholson JK (2006) Global systems biology, personalized medicine and molecular epidemiology. Mol Syst Biol 2:52

    Article  PubMed Central  PubMed  Google Scholar 

  • O’Hara AM, Shanahan F (2006) The gut flora as a forgotten organ. EMBO Rep 7(7):688–693

    Article  PubMed Central  PubMed  Google Scholar 

  • Parracho HMRT et al (2005) Differences between the gut microflora of children with autistic spectrum disorders and that of healthy children. J Med Microbiol 54(10):987–991

    Article  PubMed  Google Scholar 

  • Liu Q, Duan ZP, Ha DK, Bengmark S, Kurtovic J, Riordan SM (2004) Symbiotic modulation of gut flora improves minimal hepatic encephalopathy in cirrhotic patients. Hepatology 39:5

    Article  Google Scholar 

  • Roberfroid MB et al (1995) Colonic microflora: nutrition and health. Summary and conclusions of an International Life Sciences Institute (ILSI) [Europe] workshop held in Barcelona, Spain. Nutr Rev 53(5):127–130

    Article  CAS  PubMed  Google Scholar 

  • Rolando N, Philpott-Howard J, Williams R (1996) Bacterial and fungal infection in acute liver failure. Semin Liver Dis 16(4):389–402

    Article  CAS  PubMed  Google Scholar 

  • Rowland IR et al (2000) Interindividual variation in metabolism of soy isoflavones and lignans: influence of habitual diet on equol production by the gut microflora. Nutr Cancer 36(1):27–32

    Article  CAS  PubMed  Google Scholar 

  • Sack RB, Albert MJ, Alam K, Neogi PKB, Akbar MS (1994) Isolation of entertoxigenic Bacteroides fragilis from Bangladeshi children with diarrhea: a controlled study. J clin Microbiol 32:9600–9963

    Google Scholar 

  • Sheth AA, Garcia-Tsao G (2008) Probiotics and liver disease. J Clin Gastroenterol 42(Suppl 2):S80–84

    Article  PubMed  Google Scholar 

  • Solga SF, Diehl AM (2004) Gut flora-based therapy in liver disease? The liver cares about the gut. Hepatology 39(5):1197–1200

    Article  PubMed  Google Scholar 

  • Turnbaugh PJ et al (2006) An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444(7122):1027–1131

    Article  PubMed  Google Scholar 

  • Venter CS, Vorster HH, Cummings JH (1990) Effects of dietary propionate on carbohydrate and lipid metabolism in healthy volunteers. Am J Gastroenterol 85(5):549–553

    CAS  PubMed  Google Scholar 

  • Wang Y et al (2004) Metabonomic investigations in mice infected with Schistosoma mansoni: an approach for biomarker identification. Proc Natl Acad Sci USA 101(34):12676–12681

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Xing HC et al (2005) Effects of Salvia miltiorrhiza on intestinal microflora in rats with ischemia/reperfusion liver injury. Hepatobiliary Pancreat Dis Int 4(2):274–280

    PubMed  Google Scholar 

  • Xing HC et al (2005) Intestinal microflora in rats with ischemia/reperfusion liver injury. J Zhejiang Univ Sci B 6(1):14–21

    Article  PubMed Central  PubMed  Google Scholar 

  • Younes H et al (2001) Effects of two fermentable carbohydrates (inulin and resistant starch) and their combination on calcium and magnesium balance in rats. Br J Nutr 86(4):479–485

    Article  CAS  PubMed  Google Scholar 

  • Zoetendal EG, Akkermans-van Vilet WM, de Visser JAGM, de Vos WM (2001) The host genotype affects the bacterial community in the human gastrointestinal tract. Microb Ecol Health Dis 13:129–134

    Article  Google Scholar 

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Correspondence to Lanjuan Li .

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Li, L. (2011). Symbiotic Gut Microbiota and the Modulation of Human Metabolic Phenotypes. In: Nelson, K. (eds) Metagenomics of the Human Body. Springer, New York, NY. https://doi.org/10.1007/978-1-4419-7089-3_14

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