Prebiotic mechanisms, functions and applications - A review

International Journal of Probiotics and Prebiotics

Volumn 8, Issue 4, 2013, Pages 109-131

  Blatchford, P ^a   Ansell, J ^a   De Godoy, M R C ^b   Fahey, G ^b   Garcia Mazcorro, J F ^c   Gibson, G R ^d   Goh, Y J ^e   Hotchkiss, A T ^f   Hutkins, R ^g   LaCroix, C ^h   Rastall, R A ^d   Reimer, R A ⁱ   Schoterman, M ^j   Van Sinderen, D ^k   Venema, K ^l   Whelan, K ^m  

^a THE NEW ZEALAND INSTITUTE FOR PLANT AND FOOD RESEARCH LIMITED   (New Zealand)

^b UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

^c UNIVERSIDAD AUTÓNOMA DE NUEVO LEÓN   (Mexico)

^d UNIVERSITY OF READING   (United Kingdom)

^e NORTH CAROLINA STATE UNIVERSITY   (United States)

^f U S DEPARTMENT OF AGRICULTURE   (United States)

^g UNIVERSITY OF NEBRASKA LINCOLN   (United States)

^h ETH ZURICH   (Switzerland)

ⁱ UNIVERSITY OF CALGARY   (Canada)

^j Friesland Camping ^*  (Netherlands)

^k UNIVERSITY COLLEGE CORK   (Ireland)

^l TNO   (Netherlands)

^m KING'S COLLEGE LONDON   (United Kingdom)

more..

Author keywords

Fructooligosaccharides; Galactooligosaccharides; Prebiotics; Probiotics

Indexed keywords

MANNANOLIGOSACCHARIDE; OLIGOMER; OLIGOSACCHARIDE; PECTIN; PREBIOTIC AGENT; PROBIOTIC AGENT; SHORT CHAIN FATTY ACID; UNCLASSIFIED DRUG;

ATOPY; BACTERIUM CULTURE; BIOLOGICAL ACTIVITY; BIOMASS; CHELATION; CITRUS; GASTROINTESTINAL TRACT; GENE EXPRESSION; GROWTH STIMULATION; HUMAN; IMMUNOMODULATION; INFLAMMATORY BOWEL DISEASE; LACTOBACILLUS ACIDOPHILUS; LIVER INJURY; METAGENOMICS; MICROBIAL DIVERSITY; MICROBIAL GENOME; MICROBIOME; MICROFLORA; MOLECULAR WEIGHT; MOUTH DISEASE; NONHUMAN; OBESITY; PYROSEQUENCING; RESPIRATORY TRACT INFECTION; REVIEW; RNA SEQUENCE; SKIN INFECTION; STRUCTURE ACTIVITY RELATION; VAGINA DISEASE;

EID: 84905366868     PISSN: 15551431     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review

References (188)

1. Andersen, J.M., Barrangou, R., Hachem, M.A., Lahtinen, S., Goh, Y.J., Svensson, B. and Klaenhammer, T.R. (2011). Transcriptional and functional analysis of galactooligosaccharide uptake by lacS in Lactobacillus acidophilus. Proceedings National Academy of Sciences USA 108: 17785-17790.
2. Ansell, J., Parkar, S., Paturi, G., Rosendale, D. and Blatchford, P. (2013). Modification of the colonic microbiota. Advances in Food and Nutrition Research 68: 205-217.
3. APPA. (2012). Industry statistics and trends. American Pet Products Association. http://www.americanpetproducts.org/press-industrytrends.asp. Accessed in: June 2012.
4. Arslanoglu, S., Moro, G.E., Schmitt, J., Tandoi, L., Rizzardi, S. and Boehm, G. (2008). Early dietary intervention with a mixture of prebiotic oligosaccharides reduces the incidence of allergic manifestations and infections during the first two years of life. Journal of Nutrition 138: 1091-1095. (Pubitemid 351769134)
5. Asakuma, S., Hatakeyama, E., Urashima, T., Yoshida, E., Katayama, T., Yamamoto, K., Kumagai, H., Ashida, H., Hirose, J. and Kitaoka, M. (2011). Physiology of consumption of human milk oligosaccharides by infant gut-associated bifidobacteria. Journal of Biological Chemistry 286: 34583-34592.
6. Backhed, F., Ding, H., Wang, T., Hooper, L.V., Koh, G.Y., Nagy, A., Semenkovich, C.F. and Gordon, J.I. (2004). The gut microbiota as an environmental factor that regulates fat storage. Proceedings National Academy of Sciences USA 101:15718-15723. (Pubitemid 39473554)
7. Bahrami, B., Child M.W., Macfarlane S. and Macfarlane G.T. (2011). Adherence and cytokine induction in Caco-2 cells by bacterial populations from a three-stage continuous-culture model of the large intestine. Applied and Environmental Microbiology 77: 2934-2942.
8. Barrangou, R., Altermann, E., Hutkins, R., Cano, R. and Klaenhammer, T.R. (2003). Functional and comparative genomic analyses of an operon involved in fructooligosaccharide utilization by Lactobacillus acidophilus. Proceedings National Academy of Sciences USA 100: 8957-8962. (Pubitemid 36899205)
9. Barrangou, R., Azcarate-Peril, M.A., Duong, T., Conners, S.B., Kelly, R.M. and Klaenhammer, T.R. 2006. Global analysis of carbohydrate utilization by Lactobacillus acidophilus using cDNA microarrays. Proceedings National Academy of Sciences USA 103: 3816-3821. (Pubitemid 43376638)
10. Barrett, J.S., Canale, K.E., Gearry, R.B., Irving, P.M. and Gibson, P.R. (2008). Probiotic effects on intestinal fermentation patterns in patients with irritable bowel syndrome. World Journal of Gastroenterology 14: 5020-5024.
11. Barry, K.A., Wojcicki, B.J., Middelbos, I.S., Vester, B.M., Swanson, K.S. and Fahey, Jr., G.C. (2010). Dietary cellulose, fructooligosaccharides, and pectin modify fecal protein catabolites and microbial populations in adult cats. Journal of Animal Science 88: 2978-2987.
12. Bavington, C. and Page, C. (2005). Stopping bacterial adhesion: a novel approach to treating infections. Respiration 72: 335-344. (Pubitemid 41160162)
13. Becker, P. M. and Galleti, S. (2008). Food and feed components for gut health-promoting adhesion of E.coli and Salmonella enterica. Journal of the Science of Food and Agricuture 88: 2026-2035.
14. Beloshapka, A.N., Wolff, A.K. and Swanson, K.S. (2012). Effects of feeding polydextrose on faecal characteristics, microbiota and fermentative end products in healthy adult dogs. British Journal of Nutrition 108: 638-644.
15. Benjamin, J.L., Hedin, C.R., Koutsoumpas, A., Ng, S.C., McCarthy, N.E., Hart, A.L., Kamm, M.A., Sanderson, J.D., Knight, S.C., Forbes, A., Stagg, A.J., Whelan, K. and Lindsay, J.O. (2011). Randomised, double-blind, placebo-controlled trial of fructo-oligosaccharides in active Crohn's disease. Gut 60: 923-929.
16. Bloemen, J.G., Venema, K., van de Poll, M.C., Olde Damink, S.W., Buurman, W.A. and Dejong, C.H. (2009). Short chain fatty acids exchange across the gut and liver in humans measured at surgery. Clinical Nutrition 28: 657-661.
17. Boddicker, J. D., Ledeboer, N.A., Jagnow, J., Jones, B.D. and Clegg, S. (2002). Differential binding to and biofilm formation on, HEp-2 cells by Salmonella enterica Serovar Typhimurium is dependent upon allelic variation in the fimH gene of the fim gene cluster. Molecular Microbiology 45: 1255-1265. (Pubitemid 35015350)
18. Bottacini, F., Milani, C., Turroni, F., Sánchez, B., Foroni, E., Duranti, S., Serafini, F., Viappiani, A., Strati, F., Ferrarini, A., Delledonne, M., Henrissat, B., Coutinho, P., Fitzgerald, G.F., Margolles, A., van Sinderen, D. and Ventura, M. (2012). Bifidobacterium asteroides PRL2011 genome analysis reveals clues for colonization of the insect gut. PLoS One 7: e44229.
19. Bottacini, F., Medini. D., Pavesi, A., Turroni, F., Foroni, E., Riley, D., Giubellini, V., Tettelin, H., van Sinderen, D. and Ventura, M. (2010). Comparative genomics of the genus Bifidobacterium. Microbiology 156: 3243-3254.
20. Bruzzese, E., Volpicelli, M., Squeglia, V., Bruzzese, D., Salvini, F., Bisceglia, M., Lionetti, P., Cinquetti, M., Iacono, G., Amarri, S. and Guarino, A. (2009). A formula containing galacto- and fructo-oligosaccharides prevents intestinal and extra-intestinal infections: an observational study. Clinical Nutrition 28: 156-161.
21. Bunout, D., Hirsch, S., Pia de la Maza, M., Muñoz, C., Haschke, F., Steenhout, P., Klassen, P., Barrera, G., Gattas, V. and Petermann, M. (2002). Effects of prebiotics on the immune response to vaccination in the elderly. Journal of Parenteral and Enteral Nutrition 26: 372-376. (Pubitemid 35216930)
22. Byrne, C.D., Olufadi, R., Bruce, K.D., Cagampang, F.R. and Ahmed, M.H. (2009). Metabolic disturbances in non-alcoholic fatty liver disease. Clinical Science (London) 116: 539-564.
23. Cani, P.D., Neyrinck, A.M., Maton, N. and Delzenne, N.M. (2005). Oligofructose promotes satiety in rats fed a high-fat diet: involvement of glucagon-like peptide-1. Obesity Research 13: 1000-1007.
24. Cani, P.D., Knauf, C., Iglesias, M.A., Drucker, D.J., Delzenne, N.M. and Burcelin, R. (2006a) Improvement of glucose tolerance and hepatic insulin sensitivity by oligofructose requires a functional glucagon-like peptide-1 receptor. Diabetes 55: 1484-1490. (Pubitemid 44195391)
25. Cani, P.D., Joly, E., Horsmans, Y. and Delzenne, N.M. (2006b). Oligofructose promotes satiety in healthy humans: a pilot study. European Journal of Clinical Nutrition 60: 567-572. (Pubitemid 43922875)
26. Cani, P.D., Hoste, S., Guiot, Y. and Delzenne, N.M. (2007a). Dietary non-digestible carbohydrates promote L-cell differentiation in the proximal colon of rats. British Journal of Nutrition 98: 32-37. (Pubitemid 47272144)
27. Cani, P.D., Neyrinck, A.M., Fava, F., Knauf, C., Burcelin, R.G., Tuohy, K.M., Gibson, G.R., Delzenne, N.M. (2007b). Selective increases of bifidobacteria in gut microflora improve high-fat-diet-induced diabetes in mice through a mechanism associated with endotoxaemia. Diabetologia 50: 2374-2383. (Pubitemid 47512397)
28. Cani, P.D., Possemiers, S., Van de Wiele, T., Guiot, Y., Everard, A., Rottier, O., Geurts, L., Naslain, D., Neyrinck, A., Lambert, D.M., Muccioli, G.G. and Delzenne, N.M. (2009). Changes in gut microbiota control inflammation in obese mice through a mechanism involving GLP-2-driven improvement in gut permeability. Gut 58: 1091-1103.
29. Cerf-Bensussan, N. and Gaboriau-Routhiau, V. (2010). The immune system and the gut microbiota: friends or foes? Nature Reviews in Immunology 10: 735-744.
30. Cleary, J. (2004). Enteropathogenic Escherichia coli (EPEC) adhesion to intestinal epithelial cells: role of bundle-forming pili (BFP), EspA filaments and intimin. Microbiology 150: 527-538.
31. Cinquin, C., Le Blay, G., Fliss, I. and Lacroix, C. (2006a). New three-stage in vitro model for infant colonic fermentation with immobilized fecal microbiota. FEMS Microbiology Ecology 57: 324-336. (Pubitemid 44024919)
32. Cinquin, C., Le Blay, G., Fliss, I. and Lacroix, C. (2006b). Comparative effects of exopolysaccharide and fructooligosaccharide on infant gut microbiota in an in vitro colonic model with immobilized cells. FEMS Microbiology Ecology 57: 226-238. (Pubitemid 44024912)
33. Cinquin, C., Le Blay, G., Fliss, I. and Lacroix, C. (2004). Immobilization of infant fecal microbiota and utilization in an in vitro colonic fermentation model. Microbial Ecology 48: 128-138. (Pubitemid 39160995)
34. Collins, M.D. and Gibson, G.R. (1999). Probiotics, prebiotics and synbiotics: Dietary approaches for the modulation of microbial ecology. American Journal of Clinical Nutrition 69: 1052-1057.
35. Collins, M. D., P. A. Lawson, P.A., Willems, A., Cordoba, J.J., Fernandez-Garayzabal, J., Garcia, P., Cai, J., Hippe, H. and Farrow, J.A. (1994). The phylogeny of the genus Clostridium: proposal of five new genera and eleven new species combinations. International Journal of Systematic Bacteriology 44: 812-826. (Pubitemid 24315163)
36. Cribby, S., Taylor, M. and Reid, G. (2008). Vaginal microbiota and the use of probiotics. Interdisciplinary Perspectives on Infectious Disease 256490. epub doi: 10.1155/2008/256490.
37. Crittenden, R.G. and Playne, M.J. (1996). Production, properties and applications of food-grade oligosaccharides. Trends in Food Science and Technology 7: 353-361. (Pubitemid 27079410)
38. Cummings, J.H. and Macfarlane, G.T. (1991). The control and consequences of bacterial fermentation in the human colon. Journal of Applied Bacteriology 70: 443-459.
39. Daubioul, C.A., Horsmans, Y., Lambert, P., Danse, E. and Delzenne, N.M. (2005). Effects of oligofructose on glucose and lipid metabolism in patients with nonalcoholic steatohepatitis: results of a pilot study. European Journal of Clinical Nutrition 59: 723-726. (Pubitemid 40716140)
40. Devine, D.A. and Marsh, P.D. (2009). Prospects for the development of probiotics and prebiotics for oral applications. Journal of Oral Microbiology, DOI: 10.3402/jom.v1i0.1949
41. Dewhirst, F.E., Chen, T., Izard, J., Paster, B.J., Tanner, A.C., Yu, W.H., Lakshmanan, A. and Wade, W.G. (2010). The human oral microbiome. Journal of Bacteriology 192: 5002-5017.
42. Dewulf, E.M., Cani, P.D., Neyrinck, A.M., Possemiers, S., Van Holle, A., Muccioli, G.G., Deldicque, L., Bindels, L.B., Pachikian, B.D., Sohet, F.M., Mignolet, E., Francaux, M., Larondelle, Y. and Delzenne, N.M. (2011). Inulin-type fructans with prebiotic properties counteract GPR43 overexpression and PPAR-related adipogenesis in the white adipose tissue of high-fat diet-fed mice. Journal of Nutritional Biochemistry 22: 712-722.
43. Drakoularakou, A., Tzortzis, G., Rastall, R.A. and Gibson, G.R. (2010). A double-blind, placebo-controlled, randomized human study assessing the capacity of a novel galactooligosaccharide mixture in reducing travellers' diarrhoea. European Journal of Clinical Nutrition 64: 146-152.
44. Duncan, S.H., Hold, G.L., Harmsen, H.J., Stewart, C.S. and Flint, H.J. (2002). Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov. International Journal of Systematic and Evolutionary Microbiology 52: 2141-2146. (Pubitemid 36004196)
45. Duncan, S.H., Louis, P. and Flint, H.J. (2004). Lactate-utilizing bacteria, isolated from human feces that produce butyrate as a major fermentation product. Applied and Environmental Microbiology 70: 5810-5817. (Pubitemid 39471821)
46. Erb-Downward, J.R., Thompson, D.L., Han, M.K., Freeman, C.M., McCloskey, L., Schmidt, L.A., Young, V.B., Toews, G.B., Curtis, J.L., Sundaram, B., Martinez, F.J. and Huffnagle, G.B. (2011). Analysis of the lung microbiome in the "healthy" smoker and in COPD. PLoS One 6: e16384.
47. Faber, T. A., Bauer, L.L., Price, N.P., Hopkins, A.C. and Fahey, G.C. (2011). In vitro digestion and fermentation characteristics of temulose molasses, a coproduct of fiberboard production, and select temulose fractions using canine fecal inoculum. Journal of Agriculture and Food Chemistry 59: 1847-1853.
48. Falony, G., Lazidou, A., Verschaeren, S., Weckx, S., Maes, D., De Vuyst, L. (2009a). In vitro kinetic analysis of fermentation of prebiotic inulin-type fructans by Bifidobacterium species reveals four different phenotypes. Applied and Environmental Microbiology 75: 454-461.
49. Falony, G., Calmeyn, T., Leroy, F. and De Vuyst, L. (2009b). Coculture fermentations of Bifidobacterium species and Bacteroides thetaiotaomicron reveal a mechanistic insight into the prebiotic effect of inulin-type fructans. Applied and Environmental Microbiology 75: 2312-2319.
50. Ferguson, L. R., Shelling, A.N., Browning, B.L., Huebner, C. and Petermann, I. (2007). Genes, diet and inflammatory bowel disease. Mutation Research-Fundamental and Molecular Mechanisms of Mutagenesis 622: 70-83. (Pubitemid 47214578)
51. Fernandez, F., Hinton, M. and Van Gils, B. (2000). Evaluation of the effect of mannan-oligosaccharides on the competitive exclusion of Salmonella Enteritidis colonization in broiler chicks. Avian Pathology 29: 575-581. (Pubitemid 32099854)
52. Fernandez, F., Hinton, M. and Van Gils, B. (2002). Dietary mannan-oligosaccharides and their effect on chicken caecal microflora in relation to Salmonella Enteritidis colonization. Avian Pathology 31: 49-58. (Pubitemid 34108222)
53. Flint, H. J., Bayer, E.A., Rincon, M.T., Lamed, R. and White, B.A. (2008). Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis. Nature Reviews Microbiology 6: 121-131.
54. Flint, H. J., Scott, K.P., Duncan. S.H., Louis, P. and Forano, E. (2012). Microbial degradation of complex carbohydrates in the gut. Gut Microbes 3: 289-306.
55. Flint, H.J., Duncan, S.H., Scott, K.P. and Louis, P. (2007). Interactions and competition within the microbial community of the human colon: links between diet and health. Environmental Microbiology 9: 1101-1111. (Pubitemid 46697267)
56. Frank, D. N., A. L. S. Amand, A.L.S., Feldman, R.A., Boedeker, E.C., Harpaz, N. and Pace, N.R. (2007). Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. Proceedings of the National Academy of Sciences USA 104: 13780-13785.
57. Fuller, R. and Gibson, G.R. (1997). Modification of the intestinal microflora using probiotics and prebiotics. Scandinavian Journal of Gastroenterology 32: 28-31. (Pubitemid 27196256)
58. Fukuda, S., Toh, H., Hase K., Oshima, K., Nakanishi, Y., Yoshimura, K., Tobe, T., Clarke, J.M., Topping, D.L., Suzuki, T., Taylor, T.D., Itoh, K., Kikuchi, J., Morita, H., Hattori, M. and Ohno, H. (2011). Bifidobacteria can protect from enteropathogenic infection through production of acetate. Nature 469: 543-547.
59. Ganan, M., Collins, M., Rastall, R., Hotchkiss, A.T., Chau, H.K., Carrascosa, A.V. and Martinez-Rodriguez, A. J. (2010). Inhibition by pectic oligosaccharides of the invasion of undifferentiated and differentiated Caco-2 cells by Campylobacter jejuni. International Journal of Food Microbiology 137: 181-185.
60. Ganner, A. and Schatzmayr, G. (2012). Capability of yeast derivatives to adhere enteropathogenic bacteria and to modulate cells of the innate immune system. Applied Microbiology and Biotechnology 95: 289-297.
61. Ghosh, T.K., Haldar, S., Bedford, M.R., Muthusami, N. and Samanta, I. (2012). Assessment of yeast cell wall as replacements for antibiotic growth promoters in broiler diets: effects on performance, intestinal histo-morphology and humoral immune responses. Journal of Animal Physiology and Animal Nutrition 96: 275-284.
62. Ghosh, S. and Mehla, R.K. (2012). Influence of dietary supplementation of prebiotics (mannanoligosaccharide) on the performance of crossbred calves. Tropical Animal Health Protection 44: 617-622.
63. Gibson, G. R., McCartney, A. L. and Rastall, R. A. (2005). Prebiotics and resistance to gastrointestinal infections. British Journal of Nutrition 93: 31-34.
64. Gibson, G.R. and Roberfroid, M.B. (1995). Dietary modulation of the colonic microbiotia: Introducing the concept of prebiotics. Journal of Nutrition 125: 1401-1412.
65. Gibson, G.R., Cummings, J.H. and Macfarlane, G.T. (1988). Use of a three-stage continuous culture system to study the effect of mucin on dissimilatory sulfate reduction and methanogenesis by mixed populations of human gut bacteria. Applied and Environmental Microbiology 54: 2750-5.
66. Gibson, G. R., Scott, K.P., Rastall, R.A., Tuohy, K.M., Hotchkiss, A., Dubert-Ferrandon, A., Gareau, M., Murphy, E.F., Saulnier, D., Loh, G., Macfarlane, S., Delzenne, N., Ringel, Y., Kozianowsk, G., Dickman, R., Lenoir-Wijnkoop, I., Walker, C. and Buddington, R. (2010). Dietary prebiotics: Current status and definition. IFIS Functional Foods Bulletin 7: 1-19.
67. Gibson, G.R. and Williams, C.M. (eds.) (2000). Functional foods: Concept to product. (Woodhead Publishing Limited, Cambridge, UK).
68. Goulas, T., Goulas, A., Tzortzis, G. and Gibson, G.R. (2009). Expression of four b-galactosidases from Bifidobacterium bifidum NCIMB41171 and their contribution on the hydrolysis and synthesis of galactooligosaccharides. Applied Microbiology and Biotechnology 84: 899-907.
69. Grootaert, C., Van den Abbeele, P., Marzorati, M., Broekaert, W.F., Courtin, C.M., Delcour, J.A., Verstraete, W. and Van de Wiele, T. (2009). Comparison of prebiotic effects of arabinoxylan oligosaccharides and inulin in a simulator of the human intestinal microbial ecosystem. FEMS Microbiology Ecology 69: 231-242.
70. Guarner, F. (2007). Prebiotics in inflammatory bowel diseases. British Journal of Nutrition 98: S85-S89.
71. Hajer, G.R., van Haeften, T.W. and Visseren, F.L. (2008). Adipose tissue dysfunction in obesity, diabetes, and vascular diseases. European Heart Journal 29: 2959-7291.
72. Hedin, C.R., Mullard, M., Sharratt, E., Jansen, C., Sanderson, J.D., Shirlaw, P., Howe, L.C., Djemal, S., Stagg, A.J., Lindsay J.O. and Whelan, K. (2010). Probiotic and prebiotic use in patients with inflammatory bowel disease: a case-control study. Inflammatory Bowel Disease 16: 2099-2108.
73. Herbert, T. and Kaser, A. (2011). Gut microbiome, obesity, and metabolic dysfunction. Journal of Clinical Investigation 121: 2126-2132.
74. Hooper, L.V. and Macpherson, A.J. (2010). Immune adaptations that maintain homeostasis with the intestinal microbiota. Nature Reviews in Immunology 10: 159-169.
75. Hosseini, E., Grootaert, C., Verstraete, W. and Van de Wiele, T. (2011). Propionate as a health-promoting microbial metabolite in the human gut. Nutrition Reviews 69: 245-258.
76. Hotchkiss, A.T. and Buddington, R.K. (2011). Intestinal infections and prebiotics: The role of oligosaccharides in promoting health. Functional Food Reviews 3: 119-134.
77. Hotchkiss, A.T., Nunez, A., Khoo, C. and Strahan, G.D. (2012). Cranberry xyloglucan oligosaccharide composition. U.S. Patent Application D.N. 0064.11, S.N. 13/480,903.
78. Hughes, S.A., Shewry, P.R., Li, L., Gibson, G.R., Sanz, M.L. and Rastall, R.A. (2007). In vitro fermentation by human fecal microflora of wheat arabinoxylans. Journal of Agriculture and Food Chemistry 55: 4589-4595. (Pubitemid 46932659)
79. Hunter, J.O., Tuffnell, Q. and Lee, A.J. (1999). Controlled trial of oligofructose in the management of irritable bowel syndrome. Journal of Nutrition 129:1451S-1453S. (Pubitemid 29302778)
80. Imamura, L., Hisamitsu, K. and Kobashi, K. (1994). Purification and characterization of β-fructofuranosidase from Bifidobacterium infantis. Biological and Pharmaceutical Bulletin 17: 596-602. (Pubitemid 24186098)
81. Jalanka-Tuovinen, J., Salonen, A., Nikkila, J., Immonen, O., Kekkonen, R., Lahti, L., Palva, A. and de Vos, W.M. (2011). Intestinal microbiota in healthy adults: temporal analysis reveals individual and common core and relation to intestinal symptoms. PLoS One 6: e23035.
82. Jeffery, I. B. and O'Toole, P.W. (2013). Diet-microbiota interactions and their implications for healthy living. Nutrients 5: 234-252.
83. Joossens, M., De Preter, V., Ballet, V., Verbeke, K., Rutgeerts, P. and Vermeire, S. (2012). Effect of oligofructose-enriched inulin (OF-IN) on bacterial composition and disease activity of patients with Crohn's disease: results from a double-blinded randomised controlled trial. Gut 61: 958.
84. Kanakupt, K., Vester Boler, B.M., Dunsford, B.R. and Fahey, Jr., G.C. (2011). Effects of short-chain fructooligosaccharides and galactooligosaccharides, individually and in combination, on nutrient digestibility, fecal fermentative metabolite concentrations, and large bowel microbial ecology of healthy adult cats. Journal of Animal Science 89: 1376-1384.
85. Kaplan, H. and Hutkins, R.W. (2000). Fermentation of fructooligosaccharides by lactic acid bacteria and bifidobacteria. Applied and Environmental Microbiology 66: 2682-2684. (Pubitemid 30353985)
86. Kiyohara, M., Nakatomi, T., Kurihara, S., Fushinobu, S., Suzuki, H., Tanaka, T., Shoda, S., Kitaoka, M., Katayama, T., Yamamoto, K. and Ashida, H. (2012) α-N-acetylgalactosaminidase from infant-associated bifidobacteria belonging to novel glycoside hydrolase family 129 is implicated in alternative mucin degradation pathway. Journal of Biological Chemistry 287: 693-700.
87. Khani, S., Hosseini, H.M., Taheri, M., Nourani, M.R. and Imani Fooladi, A.A. (2012). Probiotics as an alternative strategy for prevention and treatment of human diseases: a review. Inflammation and Allergy Drug Targets 11: 79-89
88. Klemm, P., Vejborg, R. M. and Hancock, V. (2010). Prevention of bacterial adhesion. Applied Microbiology and Biotechnology 88: 451-459.
89. Kogan, G. and Kocher, A. (2007). Role of yeast cell wall polysaccharides in pig nutrition and health protection. Livestock Science 109: 161-165. (Pubitemid 46667265)
90. Kolida, S., Saulnier, D.M. and Gibson, G.R. (2006). Gastrointestinal microflora: Probiotics. Advances in Applied Microbiology 59: 187-219. (Pubitemid 43994116)
91. Kovatcheva-Datchary, P., Egert, M., Maathuis, A., Rajilic-Stojanovic, M., de Graaf, A.A., Smidt, H., de Vos, W.M. and Venema, K. (2009). Linking phylogenetic identities of bacteria to starch fermentation in an in vitro model of the large intestine by RNA-based stable isotope probing. Environmental Microbiology 11: 914-926.
92. Kunz, C., Rudloff, S., Baier, W., Klein, N. and Strobel, S. (2000). Oligosaccharides in human milk: structural, functional, and metabolic aspects. Annual Reviews in Nutrition 20: 699-722.
93. Lakshminarayanan, B., Harris, H.M.B. Coakley, M., O'Sullivan, O., Stanton, C., Pruteanu, M., Shanahan, F., O'Toole, P.W. and Ross, R.P. ELDERMET consortium. (2013). Prevalence and characterization of Clostridium perfringens from the faecal microbiota of elderly Irish subjects. Journal of Medical Microbiology 62: 457-466.
94. Le Blay, G., Chassard, C., Baltzer, S. and Lacroix C. (2010). Set up of a new in vitro model to study dietary fructans fermentation in formula-fed babies. British Journal of Nutrition 103: 403-411.
95. Lee, J.H. and O'Sullivan, D.J. (2010). Genomic insights into bifidobacteria. Microbiology and Molecular Biology Reviews 74: 378-416.
96. Louis, P., Scott, K.P., Duncan, S.H. and Flint, H.J. (2007). Understanding the effects of diet on bacterial metabolism in the large intestine. Journal of Applied Microbiology 102: 1197-1208. (Pubitemid 46633434)
97. Louis, P. and Flint, H.J. (2009). Diversity, metabolism and microbial ecology of butyrate-producing bacteria from the human large intestine. FEMS Microbiology Letters 294: 1-8.
98. Maathuis, A.J., van den Heuvel, E.G., Schoterman, M.H. and Venema, K. Galacto-oligosaccharides have prebiotic activity in a dynamic in vitro colon model using a (13)C-labeling technique. Journal of Nutrition 142: 1205-1212.
99. Macfarlane, G.T., Cummings, J.H., Macfarlane, S. and Gibson, G.R. (1998a). Influence of retention time on degradation of pancreatic enzymes by human colonic bacteria grown in a 3-stage continuous culture system. Journal of Applied Bacteriology 67: 520-527.
100. Macfarlane, G.T., Hay, S. and Gibson, G.R. (1998b). Influence of mucin on glycosidase, protease and arylamidase activities of human gut bacteria grown in a 3-stage continuous culture system. Journal of Applied Bacteriology 66: 407-17.
101. Macfarlane, G.T., Macfarlane, S. and Gibson, G.R. (1998). Validation of a three-stage compound continuous culture system for investigating the effect of retention time on the ecology and metabolism of bacteria in the human colon. Microbial Ecology 35: 180-187. (Pubitemid 28190244)
102. Macfarlane, S. and Dillon, J.F. (2007). Microbial biofilms in the human gastrointestinal tract. Journal of Applied Microbiology 102: 1187-1196. (Pubitemid 46633431)
103. Malaguarera, M., Vacante, M., Antic, T., Giordano, M., Chisari, G., Acquaviva, R., Mastrojeni, S., Malaguarnera, G., Mistretta, A., Li Volti, G. and Galvano, F. (2012). Bifidobacterium longum with fructo-oligosaccharides in patients with non alcoholic steatohepatitis. Digestive Diseases Science 57: 545-553.
104. Makivuokko, H., Nurmi, J., Nurminen, P., Stowell, J. and Rautonen, N. (2005). In vitro effects on polydextrose by colonic bacteria and caco-2 cell cyclooxygenase gene expression. Nutrition and Cancer 52: 94-104. (Pubitemid 41232654)
105. Marcobal, A., Barboza, M., Froehlich, J.W., Block, D.E., German, J.B., Lebrilla, C.B. and Mills, D.A. (2010). Consumption of human milk oligosaccharides by gut-related microbes. Journal of Agriculture and Food Chemistry 58: 5334-5340.
106. Matsumoto, M., Tsuji, M., Sasaki, H., Fujita, K., Nomura, R., Nakano, K., Shintani, S. and Ooshima, T. (2005). Cariogenicity of the probiotic bacterium Lactobacillus salivarius in rats. Caries Research 39: 479-483. (Pubitemid 41507257)
107. Maurer, A.D., Chen, Q., McPherson, C. and Reimer, R.A. (2009). Changes in satiety hormones and expression of genes involved in glucose and lipid metabolism in rats weaned onto diets high in fiber or protein reflect susceptibility to increased fat mass in adulthood. Journal of Physiology London 587: 679-691.
108. Maurer, A.D., Eller, L.K., Hallam, M.C., Taylor, K. and Reimer, R.A. (2010). Consumption of diets high in prebiotic fiber or protein during growth influences the response to a high fat and sucrose diet in adulthood in rats. Nutrition and Metabolism 7: 77.
109. McBain, A.J. and Macfarlane, G.T. (1997), Investigations of bifidobacterial ecology and oligosaccharide metabolism in a three-stage compound continuous culture system. Scandinavian Journal of Gastroenterology 222: 32-40. (Pubitemid 27196257)
110. Mercer, M., Brinich, M.A., Geller, G., Harrison, K., Highland, J., James, K., Marshall, P., McCormick, J.B., Tilburt, J., Achkar, J.P., Farrell, R.M. and Sharp, R.R. (2012). How patients view probiotics: findings from a multicenter study of patients with inflammatory bowel disease and irritable bowel syndrome. Journal of Clinical Gastroenterology 46: 138-144.
111. Miele, L., Valenza, V., La Torre, G., Montalto, M., Cammarota, G., Ricci, R., Mascianà, R., Forgione, A., Gabrieli, M.L., Perotti, G., Vecchio, F.M., Rapaccini, G., Gasbarrini, G., Day, C.P. and Grieco, A. (2009). Increased intestinal permeability and tight junction alterations in nonalcoholic fatty liver disease. Hepatology 49: 1877-1887.
112. Minekus, M., Smeets-Peeters, M., Bernalier, A., Marol-Bonnin, S., Havenaar, R., Marteau, P., Alric, M., Fonty, G., Huis in't Veld, J.H. (1995). A computer-controlled system to simulate conditions of the large intestine with peristaltic mixing, water absorption and absorption of fermentation products. Applied Microbiology and Biotechnology 53:108-114. (Pubitemid 30120182)
113. Molly, K., Vande Woestyne, M., De Smet, I. and Verstraete, W. (1994). Validation of the simulator of the human intestinal microbial ecosystem (SHIME) reactor using microorganism-associated activities. Microbial Ecology in Health and Disease 7: 191-200. (Pubitemid 2122827)
114. Molly, K., Vande Woestyne, M. and Verstraete, W. (1993). Development of a 5-step multi-chamber reactor as a simulation of the human intestinal microbial ecosystem. Applied Microbiology and Biotechnology 39: 254-258. (Pubitemid 23134616)
115. Moro, G., Arslanoglu, S., Stahl, B., Jelinek, J., Wahn, U. and Boehm, G. (2006). A mixture of prebiotic oligosaccharides reduces the incidence of atopic dermatitis during the first six months of age. Archives of Diseases in Children 91: 814-819. (Pubitemid 44521163)
116. Morrison, R.F. and Farmer, S.R. (1999). Insights into the transcriptional control of adipocyte differentiation. Journal of Cell Biochemistry 32: 59-67. (Pubitemid 30041811)
117. Nishimoto, M. and Kitaoka, M. (2007). Practical preparation of lacto-N-biose I, a candidate for the bifidus factor in human milk. Bioscience Biotechnology Biochemistry 71: 2101-2104. (Pubitemid 350113147)
118. Oakley, B.B., Fiedler, T.L., Marrazzo, J.M. and Fredricks, D.N. (2008). Diversity of human vaginal bacterial communities and associations with clinically defined bacterial vaginosis. Applied and Environmental Microbiology 74: 4898-4909.
119. O'Connell Motherway, M., Kinsella, M., Fitzgerald, G.F. and van Sinderen, D. (2013). Transcriptional and functional characterization of genetic elements involved in galactooligosaccharide utilization by Bifidobacterium breve UCC2003. Microbial Biotechnology 6: 67-79.
120. O'Connell Motherway, M., Fitzgerald, G.F. and van Sinderen, D. (2011a). Metabolism of a plant derived galactose-containing polysaccharide by Bifidobacterium breve UCC2003. Microbial Biotechnology 4: 403-416.
121. O'Connell Motherway, M., Zomer, A., Leahy, S.C., Reunanen, J., Bottacini, F., Claesson, M.J., O'Brien, F., Flynn, K., Casey, P.G., Munoz, J.A., Kearney, B., Houston, A.M., O'Mahony, C., Higgins, D.G., Shanahan, F., Palva, A., de Vos, W.M., Fitzgerald, G.F., Ventura, M., O'Toole, P.W. and van Sinderen, D. (2011b). Functional genome analysis of Bifidobacterium breve UCC2003 reveals type IVb tight adherence (Tad) pili as an essential and conserved host-colonization factor. Proceedings National Academy of Sciences USA 108: 11217-11222.
122. Ohta, A., Ohtsuki, M., Baba, S., Adachi, T., Sakata, T. and Sakaguchi, E. (1995). Calcium and magnesium absorption from the colon and rectum are increased in rats fed fructooligosaccharides. Journal of Nutrition 125: 2417-2424.
123. Olano-Martin, E., Mountzouris, K.C., Gibson, G.R. and Rastall, R.A. (2000). In vitro fermentability of dextran, oligodextran and maltodextrin by human gut bacteria. British Journal of Nutrition 83: 247-255. (Pubitemid 30125220)
124. Olesen, M. and Gudmand-Hoyer, E. (2000). Efficacy, safety, and tolerability of fructo-oligosaccharides in the treatment of irritable bowel syndrome. American Journal of Clinical Nutrition 72: 1570-1575.
125. Paineau, D., Payen, F., Panserieu, S., Coulombier, G., Sobaszek, A., Lartigau, I., Brabet, M., Galmiche, J.P., Tripodi, D., Sacher-Huvelin, S., Chapalain, V., Zourabichvili, O., Respondek, F., Wagner, A. and Bornet, F.R. (2008). The effects of regular consumption of short-chain fructo- oligosaccharides on digestive comfort of subjects with minor functional bowel disorders. British Journal of Nutrition 99: 311-318.
126. Onumpai, C., Kolida, S., Bonnin, E. and Rastall, R.A. (2011). Microbial utilization and selectivity of pectin fractions with various structures. Applied and Environmental Microbiology 77: 5747-5754.
127. Parkes, G.C., Rayment, N.B., Hudspith, B.N., Petrovska, L., Lomer, M.C., Brostoff, J., Whelan, K. and Sanderson, J.D. (2012). Distinct microbial populations exist in the mucosa-associated microbiota of sub-groups of irritable bowel syndrome. Neurogastroenterology and Motility 24: 31-39.
128. Parnell, J.A. and Reimer, R.A. (2009). Weight loss during oligofructose supplementation is associated with decreased ghrelin and increased peptide YY in overweight and obese adults. American Journal of Clinical Nutrition 89: 1751-1759.
129. Parnell, J.A. and Reimer, R.A. (2012). Prebiotic fibres dose-dependently increase satiety hormones and alter Bacteroidetes and Firmicutes in lean and obese JCR:LA cp rats. British Journal of Nutrition 107: 601-613.
130. Parnell, J.A., Raman, M., Rioux, K.P. and Reimer, R.A. (2012). The potential role of prebiotic fibre for treatment and management of non-alcoholic fatty liver disease and associated obesity and insulin resistance. Liver International 32: 705-711.
131. Parnell, J.A. and Reimer, R.A. (2009). Effect of prebiotic fiber supplementation on hepatic gene expression and serum lipids: a dose-response study in JCR: LA-cp rats. British Journal of Nutrition 103: 1577-1584.
132. Patra, A. (2011). Responses of feeding prebiotics on nutrient digestibility, faecal microbiota composition and short-chain fatty acid concentrations in dogs: A meta-analysis. Animal 5: 1743-1750.
133. Payne, A.N., Chassard, C. and Lacroix, C. (2012). Gut microbial adaptation to dietary consumption of fructose, artificial sweeteners and sugar alcohols: implications for host-microbe interactions contributing to obesity. Obesity Reviews 13: 799-809.
134. Perrin, S., Fougnies, C., Grill, J.P., Jacobs, H. and Schneider, F. (2002). Fermentation of chicory fructo-oligosaccharides in mixtures of different degrees of polymerization by three strains of bifidobacteria. Canadian Journal of Microbiology 48: 759-763. (Pubitemid 35370792)
135. Perrin, S., Warchol, M., Grill, J.P. and Schneider, F. (2001). Fermentations of fructo-oligosaccharides and their components by Bifidobacterium infantis ATCC 15697 on batch culture in semi-synthetic medium. Journal of Applied Microbiology 90: 859-865. (Pubitemid 32500232)
136. Pfeiler, E.A., Azcarate-Peril, M.A. and Klaenhammer, T.R. (2007). Characterization of a novel bile-inducible operon encoding a two-component regulatory system in Lactobacillus acidophilus. Journal of Bacteriology 189: 4624-4634. (Pubitemid 47025574)
137. Pliszczak, D., Bourgeois, S., Bordes, C., Valour, J.P., Mazoyer, M.A., Orecchioni, A.M., Nakache, E. and Lantéri, P. (2011). Improvement of an encapsulation process for the preparation of pro- and prebiotics-loaded bioadhesive microparticles by using experimental design. European Journal of Pharmaceutical Sciences 44: 83-92.
138. Pokusaeva, K., Neves, A.R., Zomer, A., O'Connell-Motherway, M., MacSharry, J., Curley, P., Fitzgerald, G.F. and van Sinderen, D. (2010) Ribose utilization by the human commensal Bifidobacterium breve UCC2003. Microbial Biotechnology 3: 311-323.
139. Pokusaeva, K., O'Connell-Motherway, M., Zomer, A., Macsharry, J., Fitzgerald, G.F. and van Sinderen, D. (2011a). Cellodextrin utilization by Bifidobacterium breve UCC2003. Applied and Environmental Microbiology 77: 1681-1690.
140. Pokusaeva, K., Fitzgerald, G.F. and van Sinderen, D. (2011b). Carbohydrate metabolism in bifidobacteria. Genes and Nutrition 6: 285-306.
141. Pyra, K.A., Saha, D.C. and Reimer, R.A. (2012). Prebiotic fiber increases hepatic acetyl CoA carboxylase phosphorylation and suppresses glucose-dependent insulinotropic polypeptide secretion more effectively when used with metformin in obese rats. Journal of Nutrition 142: 213-20.
142. Quintero-Villegas, M. I., Aam, B. B., Rupnow, J., Sorile, M., Eijsink, V. G. H., Hutkins, R.W. (2013). Adherence inhibition of enteropathogenic Escherichia coli by chitooligosaccharides with specific degrees of acetylation and polymerization. Journal of Agriculture and Food Chemistry - in press.
143. Reimer, R.A., Maurer, A.D., Eller, L.K., Hallam, M.C., Shaykhutdinov, R., Vogel, H.J. and Weljie, A.M. (2012). Satiety hormone and metabolomic response to an intermittent high energy diet differs in rats consuming long-term diets high in protein or prebiotic fiber. Journal of Proteome Research 11: 4065-4074.
144. Rhoades, J., Manderson, K., Wells, A., Hotchkiss, A. T., Gibson, G. R., Formentin, K., Beer, M. and Rastall, R. A. (2008). Oligosaccharide-mediated inhibition of the adhesion of pathogenic Escherichia coli strains to human gut epithelial cells in vitro. Journal of Food Protection 71: 2272-2277.
145. Rhoades, J., Gibson, G.R., Formentin, K., Beer, M. and Rastall, R.A (2006). Inhibition of the adhesion of enteropathogenic Escherichia coli strains to HT-29 cells in culture by chitooligosaccharides. Carbohydrate Polymer 64: 57-59. (Pubitemid 43884935)
146. Riley, M. A. and Wertz, J.E. (2002). Bacteriocins: evolution, ecology, and application." Annual Review of Microbiology 56: 117-137. (Pubitemid 35217450)
147. Roberfroid, M., Gibson, G.R., Hoyles, L., McCartney, A.L., Rastall, R., Rowland, I., Wolvers, D., Watzl, B., Szajewska, H., Stahl, B., Guarner, F., Respondek, F., Whelan, K., Coxam, V., Davicco, M.J., Léotoing, L., Wittrant, Y., Delzenne, N.M., Cani, P.D., Neyrinck, A.M. and Meheust A. (2010). Prebiotic effects: metabolic and health benefits. British Journal of Nutrition 104: 1-63.
148. Roediger, W.E. (1982). Utilization of nutrients by isolated epithelial cells of the rat colon. Gastroenterology 83: 424-429.
149. Rosendale, D. I., Blatchford, P.A., Sims, I.M., Parkar, S.G., Carnachan, S.M., Hedderley, D. and Ansell, J. (2012). Characterizing kiwifruit carbohydrate utilization in vitro and its consequences for human faecal microbiota. Journal of Proteome Research 11: 5863-5875.
150. Salonen, A., de Vos, W.M. and Palva, A. (2010). Gastrointestinal microbiota in irritable bowel syndrome: present state and perspectives. Microbiology 156: 3205-3215.
151. Sanders, M.E., Gibson, G.R., Gill, H.S. and Guarner, F. (2007). Probiotics: Their potential to impact human health. CAST Issue Paper 36: 1-20.
152. Schell, M.A., Karmirantzou, M., Snel, B., Vilanova, D., Berger, B., Pessi, G., Zwahlen, M.C., Desiere, F., Bork, P., Delley, M., Pridmore, R.D. and Arigoni, F. (2002) The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract. Proceedings National Academy of Science USA 99: 14422-14427. (Pubitemid 35257687)
153. Scott, K.P., Gratz, S.W., Sheridan, P.O., Flint, H.J. and Duncan, S.H. (2013). The influence of diet on the gut microbiota. Pharmacological Research 69: 52-60.
154. Sarbini, S. R., Kolida, S., Naeye, T., Einerhand, A., Brison, Y., Remaud-Simeon, M., Monsan, P., Gibson, G. R. and Rastall, R. A. (2011). In vitro fermentation of linear and alpha-1,2-branched dextrans by the human fecal microbiota. Applied and Environmental Microbiology 77: 5307-5315.
155. Sila, D.N., Van Buggenhout, S., Duvetter, T., Fraeye, I., De Roeck, A., Van Loey, A., and Hendrick, M. (2009). Pectins in processed fruits and vegetables: Part II - Structure-function relationships. Comprehensive Reviews in Food Science and Food Safety 8: 86-104
156. Sela, D.A., Garrido, D., Lerno, L., Wu, S., Tan, K., Eom, H.J., Joachimiak, A., Lebrilla, C.B. and Mills, D.A. (2012). Bifidobacterium longum subsp. infantis ATCC 15697 α-fucosidases are active on fucosylated human milk oligosaccharides. Applied and Environmental Microbiology 78: 795-803.
157. Sela, D.A., Li, Y., Lerno, L., Wu, S., Marcobal, A.M., German, J.B., Chen, X., Lebrilla, C.B. and Mills, D.A. (2011). An infant-associated bacterial commensal utilizes breast milk sialyloligosaccharides. Journal of Biological Chemistry 286: 11909-11918.
158. Sela, D.A., Chapman, J., Adeuya, A., Kim, J.H., Chen, F., Whitehead, T.R., Lapidus, A., Rokhsar, D.S., Lebrilla, C.B., German, J.B., Price, N.P., Richardson, P.M. and Mills, D.A. (2008). The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome. Proceedings National Academy Science USA 105: 18964-18969.
159. Sharon, N. (2006). Carbohydrates as future anti-adhesion drugs for infectious diseases. Biochim Biophys Acta 1760: 527-537.
160. Sharon, N. and Ofek, I. (1986). Mannose specific bacterial surface lectins. Microbial lectins and agglutinins. (John Wiley & Sons, New York) 55-82.
161. Shoaf, K., Mulvey, G. L., Armstrong, G. D. and Hutkins, R. W. (2006). Prebiotic galactooligosaccharides reduce adherence of enteropathogenic Escherichia coli to tissue culture cells. Infection and Immunity 74: 6920-6928. (Pubitemid 44913167)
162. Shoaf-Sweeney, K. D. and Hutkins, R. W. (2008). Adherence, anti-adherence, and oligosaccharides: preventing pathogens from sticking to the host. Advances in Food and Nutrition Research 55: 101-161.
163. Silk, D.B., Davis, A., Vulevic, J., Tzortzis, G. and Gibson, G.R. (2009). Clinical trial: the effects of a trans-galactooligosaccharide prebiotic on faecal microbiota and symptoms in irritable bowel syndrome. Alimentary Pharmacology and Therapy 29: 508-518.
164. Sokol, H., Pigneur, B., Watterlot, L., Lakhdari, O., Bermúdez- Humarán, L.G., Gratadoux, J.J., Blugeon, S., Bridonneau, C., Furet, J.P., Corthier, G., Grangette, C., Vasquez, N., Pochart, P., Trugnan, G., Thomas, G., Blottière, H.M., Doré, J., Marteau, P., Seksik, P. and Langella, P. (2008). Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients. Proceedings National Academy Science USA 105: 16731-16736.
165. Sokol, H., Seksik, P., Furet, J.P., Lakhdari, O., Bermúdez- Humarán, L.G., Gratadoux, J.J., Blugeon, S., Bridonneau, C., Furet, J.P., Corthier, G., Grangette, C., Vasquez, N., Pochart, P., Trugnan, G., Thomas, G., Blottière, H.M., Doré, J., Marteau, P., Seksik, P. and Langella, P. (2009). Low counts of Faecalibacterium prausnitzii in colitis microbiota. Inflammatory Bowel Disease 15: 1183-1189.
166. Staudacher, H.M., Lomer, M.C., Anderson, J.L., Barrett, J.S., Muir, J.G., Irving, P.M. and Whelan, K. (2012). Fermentable carbohydrate restriction reduces luminal bifidobacteria and gastrointestinal symptoms in patients with irritable bowel syndrome. Journal of Nutrition 142: 1510-1518.
167. Staudacher, H.M., Whelan, K., Irving, P.M. and Lomer, M.C. (2011). Comparison of symptom response following advice for a diet low in fermentable carbohydrates (FODMAPs) versus standard dietary advice in patients with irritable bowel syndrome. Journal of Human Nutrition and Dietetics 24: 487-95.
168. Steer, T., Carpenter, H., Tuohy, K. and Gibson, G.R. (2000). Perspectives on the role of the human gut microbiota and its modulation by pro- and prebiotics. Nutrition Research Reviews 13: 229-254. (Pubitemid 32125097)
169. Tannock, G.W., Munro, K., Taylor, C., Lawley, B., Young, W., Byrne, B., Emery, J. and Louie, T. (2010). A new macrocyclic antibiotic, fidaxomicin (OPT-80), causes less alteration to the bowel microbiota of Clostridium difficile-infected patients than does vancomycin. Microbiology 156: 3354-3359.
170. Tester, R. F. and Al-Ghazzewi, F. H. (2013). Mannans and health, with a special focus on glucomannans. Food Research International 50: 384-391.
171. Turnbaugh, P.J., Ley, R.E., Mahowald, M.A., Magrini, V., Mardis, E.R. and Gordon, J.I. (2006). An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444: 1027-1031. (Pubitemid 46018515)
172. Turroni, F., Bottacini, F., Foroni, E., Mulder, I., Kim, J.H., Zomer, A., Sánchez, B., Bidossi, A., Ferrarini, A., Giubellini, V., Delledonne, M., Henrissat, B., Coutinho, P., Oggioni, M., Fitzgerald, G.F., Mills, D., Margolles, A., Kelly, D., van Sinderen, D. and Ventura, M. (2010) Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging. Proceedings National Academy Science USA 107: 19514-19519.
173. Turroni, F., Strati, F., Foroni, E., Serafini, F., Duranti, S., van Sinderen, D. and Ventura, M. (2012). Analysis of predicted carbohydrate transport systems encoded by Bifidobacterium bifidum PRL2010. Applied and Environmental Microbiology 78: 5002-5012.
174. U.S. Department of Energy. (2011). U.S. Billion-Ton Update. Biomass Supply for a Bioenergy and Bioproducts Industry. R.D. Perlack and B.J. Stokes (Leads), ORNL/TM-2011/224. Oak Ridge National Laboratory, Oak Ridge, TN.
175. van Nuenen, M.H.M.C., Meyer, P.D. and Venema, K. (2003). The effect of various inulins and Clostridium difficile on the metabolic activity of the human colonic microbiota in vitro. Microbial Ecology Health Disease 15: 137-44. (Pubitemid 37498876)
176. Venema, K. (2010). Role of gut microbiota in the control of energy and carbohydrate metabolism. Current Opinion in Clinical Nutrition and Metabolic Care 13: 432-438.b
177. Venema, K. (2012). Intestinal fermentation of lactose and prebiotic lactose derivatives, including human milk oligosaccharides. International Dairy Journal 22: 123-40.
178. Ventura, M., Turroni, F., Zomer, A., Foroni, E., Giubellini, V., Bottacini, F., Canchaya, C., Claesson, M.J., He, F., Mantzourani, M., Mulas, L., Ferrarini, A., Gao, B., Delledonne, M., Henrissat, B., Coutinho, P., Oggioni, M., Gupta, R.S., Zhang, Z., Beighton, D., Fitzgerald, G.F., O'Toole, P.W. and van Sinderen, D. (2009) The Bifidobacterium dentium Bd1 genome sequence reflects its genetic adaptation to the human oral cavity. PLoS Genetics 5: e1000785.
179. Ventura, M., O'Connell-Motherway, M., Leahy, S., Moreno-Munoz, J.A., Fitzgerald, G.F. and van Sinderen, D. (2007). From bacterial genome to functionality; case bifidobacteria. International Journal of Food Microbiology 120: 2-12. (Pubitemid 350051483)
180. Verbrugghe, E., Croubels, S., Vandenbroucke, V., Goossens, J., De Backer, P., Eeckhout, M., De Saeger, S., Boyen, F., Leyman, B., Van Parys, A., Haesebrouck, F. and Pasmans, F.A. (2012). Modified glucomannan mycotoxin-adsorbing agent counteracts the reduced weight gain and diminishes cecal colonization of Salmonella Typhimurium in T-2 toxin exposed pigs. Research in Veterinary Science 93: 1139-1141.
181. Vulevic, J., Drakoularakou, A., Yaqoob, P., Tzortzis, G. and Gibson, G.R. (2008). Modulation of the fecal microflora profile and immune function by a novel trans-galactooligosaccharide mixture (B-GOS) in healthy elderly volunteers. American Journal of Clinical Nutrition 88: 1438-1446.
182. Wakinaka, T., Kiyohara, M., Kurihara, S., Hirata, A., Chaiwangsri, T., Ohnuma, T., Fukamizo, T., Katayama, T., Ashida, H. and Yamamotom K. (2013). Bifidobacterial α-galactosidase with unique carbohydrate-binding module specifically acts on blood group B antigen. Glycobiology 23: 232-240.
183. Watson, D., O'Connell-Motherway, M., Schoterman, M.H., van Neerven, R.J., Nauta, A. and van Sinderen, D. (2013). Selective carbohydrate utilization by lactobacilli and bifidobacteria. Journal of Applied Microbiology - in press.
184. Wang, Y.C., McPherson, K., Marsh, T., Gortmaker, S.L. and Brown, M. (2011). Health and economic burden of the projected obesity trends in the USA and the UK. Lancet 378: 815-825.
185. Wullt, M., Johansson Hagslatt, M.L., Odenholt, I. and Berggren, A. (2007). Lactobacillus plantarum 299v enhances the concentrations of fecal short-chain fatty acids in patients with recurrent Clostridium difficile-associated diarrhea. Digestive Disease Science 52: 2082-2086. (Pubitemid 47246469)
186. Yuan-Kun, L. (2013). Effects of diet on gut microbiota profile and the implications for health and disease. Bioscience of Microbiota, Food and Health 32: 1-12.
187. Yoshida, E., Sakurama, H., Kiyohara, M., Nakajima, M., Kitaoka, M., Ashida, H., Hirose, J., Katayama, T., Yamamoto, K. and Kumagai, H. (2012). Bifidobacterium longum subsp. infantis uses two different β-galactosidases for selectively degrading type-1 and type-2 human milk oligosaccharides. Glycobiology 22: 361-368.
188. Zihler, A., Le Blay, G., Braegger, C. and Lacroix, C. (2011). Protective effect of probiotics on Salmonella infectivity assessed with combined in vitro gut fermentation-cellular models. BMC Microbiology 11: 264.