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Cited by 1,688Gut microbiota and healthProbiotics and Fermented FoodsClostridium difficile and Clostridium perfringens research

The Controversial Role of Human Gut Lachnospiraceae

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Vacca, Mirco, Celano, Giuseppe, Calabrese, Francesco Maria, Portincasa, Piero, Gobbetti, Marco, De Angelis, Maria·2020·Microorganisms
DOI 10.3390/microorganisms8040573PMC PMC7232163
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Abstract

The complex polymicrobial composition of human gut microbiota plays a key role in health and disease. Lachnospiraceae belong to the core of gut microbiota, colonizing the intestinal lumen from birth and increasing, in terms of species richness and their relative abundances during the host’s life. Although, members of Lachnospiraceae are among the main producers of short-chain fatty acids, different taxa of Lachnospiraceae are also associated with different intra- and extraintestinal diseases. Their impact on the host physiology is often inconsistent across different studies. Here, we discuss changes in Lachnospiraceae abundances according to health and disease. With the aim of harnessing Lachnospiraceae to promote human health, we also analyze how nutrients from the host diet can influence their growth and how their metabolites can, in turn, influence host physiology.

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  • These taxa may interface with conserved aspects of mammalian neurophysiology.

    “These associations also exist in human clinical populations—for example, members of the Lachnospiraceae are frequently associated with diagnoses of major depressive disorder across studies60–63—suggesting that these taxa may interface with conserved aspects of mammalian neurophysiology.”

    From Integrated analysis of behavioral, epigenetic, and gut microbiome analyses in AppNL-G-F, AppNL-F, and wild type mice (2021) · cites this paper as [63]

    Section 4.5, “Intestinal Dysbiosis Associated with the Gut–Brain Axis,” links several Lachnospiraceae taxa to major depressive disorder and describes possible neural and hormonal routes between the gut microbiome and brain. This supports the cautious suggestion that the taxa may interface with neurophysiology, but the paper does not establish that their relationship with it is conserved across mammals. (LLM, conf=0.79)

    Experimental — accuracy not yet measured

  • Members of the Lachnospiraceae are frequently associated with diagnoses of major depressive disorder across studies.

    “These associations also exist in human clinical populations—for example, members of the Lachnospiraceae are frequently associated with diagnoses of major depressive disorder across studies60–63—suggesting that these taxa may interface with conserved aspects of mammalian neurophysiology.”

    From Integrated analysis of behavioral, epigenetic, and gut microbiome analyses in AppNL-G-F, AppNL-F, and wild type mice (2021) · cites this paper as [63]

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  1. [1]Baquero F. Nombela C. The microbiome as a human organ Clin. Microbiol. Infect. 2012 18 2 4 10.1111/j.1469-0691.2012.03916.x 22647038 · DOI
  2. [2]Atarashi K. Tanoue T. Ando M. Kamada N. Nagano Y. Narushima S. Suda W. Imaoka A. Setoyama H. Nagamori T. Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells Cell 2015 163 367 380 10.1016/j.cell.2015.08.058 26411289 PMC4765954 · DOI · Paper page
  3. [3]Gensollen T. Iyer S.S. Kasper D.L. Blumberg R.S. How colonization by microbiota in early life shapes the immune system Science 2016 352 539 544 10.1126/science.aad9378 27126036 PMC5050524 · DOI · Paper page
  4. [4]Power S.E. O’Toole P.W. Stanton C. Ross R.P. Fitzgerald G.F. Intestinal microbiota, diet and health Br. J. Nutr. 2014 111 387 402 10.1017/S0007114513002560 23931069 · DOI · Paper page
  5. [7]Zhang N. Ju Z. Zuo T. Time for food: The impact of diet on gut microbiota and human health Nutrition 2018 51 80 85 10.1016/j.nut.2017.12.005 29621737 · DOI
  6. [8]Crittenden R.G. Martinez N.R. Playne M.J. Synthesis and utilisation of folate by yoghurt starter cultures and probiotic bacteria Int. J. Food Microbiol. 2003 80 217 222 10.1016/S0168-1605(02)00170-8 12423923 · DOI
  7. [9]Riwes M. Reddy P. Microbial metabolites and graft versus host disease Am. J. Transplant. 2018 18 23 29 10.1111/ajt.14443 28742948 · DOI
  8. [10]Huttenhower C. Gevers D. Knight R. Abubucker S. Badger J.H. Chinwalla A.T. Creasy H.H. Earl A.M. FitzGerald M.G. Fulton R.S. Structure, function and diversity of the healthy human microbiome Nature 2012 486 207 10.1038/nature11234 22699609 PMC3564958 · DOI · Paper page
  9. [11]Li J. Jia H. Cai X. Zhong H. Feng Q. Sunagawa S. Arumugam M. Kultima J.R. Prifti E. Nielsen T. An integrated catalog of reference genes in the human gut microbiome Nat. Biotechnol. 2014 32 834 10.1038/nbt.2942 24997786 · DOI · Paper page
  10. [12]Lozupone C.A. Stombaugh J.I. Gordon J.I. Jansson J.K. Knight R. Diversity, stability and resilience of the human gut microbiota Nature 2012 489 220 230 10.1038/nature11550 22972295 PMC3577372 · DOI · Paper page
  11. [13]Rainey F.A. Family V. Lachnospiraceae fam. nov Bergey’s Manual of Systematic Bacteriology 3rd ed. De Vos P. Garrity G.M. Jones D. Krieg N.R. Ludwig W. Rainey F.A. Schleifer K.H. Whitman W.B. Springer Berlin/Heidelberg, Germany 2009 921 968
  12. [14]Sayers E.W. Barrett T. Benson D.A. Bolton E. Bryant S.H. Canese K. Chetvernin V. Church D.M. DiCuccio M. Federhen S. Database resources of the national center for biotechnology information Nucleic Acids Res. 2009 38 D5 D16 10.1093/nar/gkp967 19910364 PMC2808881 · DOI
  13. [15]Stackebrandt E. The Family Lachnospiraceae The Prokaryotes Rosenberg E. DeLong E.F. Lory S. Stackebrandt E. Thompson F. Springer Berlin/Heidelberg, Germany 2014 197 201
  14. [17]Sagheddu V. Patrone V. Miragoli F. Puglisi E. Morelli L. Infant early gut colonization by Lachnospiraceae: High frequency of Ruminococcus gnavus Front. Pediatr 2016 4 57 10.3389/fped.2016.00057 27313996 PMC4889575 · DOI
  15. [18]Sohn K. Underwood M.A. Prenatal and postnatal administration of prebiotics and probiotics Semin Fetal Neonatal Med. 2017 22 284 289 10.1016/j.siny.2017.07.002 28720399 PMC5618799 · DOI
  16. [19]Odamaki T. Kato K. Sugahara H. Hashikura N. Takahashi S. Xiao J.Z. Abe F. Osawa R. Age-related changes in gut microbiota composition from newborn to centenarian: A cross-sectional study BMC Microbiol. 2016 16 90 10.1186/s12866-016-0708-5 27220822 PMC4879732 · DOI · Paper page
  17. [20]Van Treuren W. Dodd D. Microbial contribution to the human metabolome: Implications for health and disease Annu. Rev. Pathol. Mech. Dis. 2020 15 345 369 10.1146/annurev-pathol-020117-043559 PMC7678725 31622559 · DOI
  18. [21]Biddle A. Stewart L. Blanchard J. Leschine S. Untangling the genetic basis of fibrolytic specialization by Lachnospiraceae and Ruminococcaceae in diverse gut communities Diversity 2013 5 627 640 10.3390/d5030627 · DOI
  19. [22]Devillard E. McIntosh F.M. Duncan S.H. Wallace R.J. Metabolism of linoleic acid by human gut bacteria: Different routes for biosynthesis of conjugated linoleic acid J. Bacteriol. 2007 189 2566 2570 10.1128/JB.01359-06 17209019 PMC1899373 · DOI · Paper page
  20. [23]Wong J. Piceno Y.M. DeSantis T.Z. Pahl M. Andersen G.L. Vaziri N.D. Expansion of urease-and uricase-containing, indole-and p-cresol-forming and contraction of short-chain fatty acid-producing intestinal microbiota in ESRD Am. J. Nephrol. 2014 39 230 237 10.1159/000360010 24643131 PMC4049264 · DOI
  21. [24]Sheridan P.O. Martin J.C. Lawley T.D. Browne H.P. Harris H.M. Bernalier-Donadille A. Duncan S.H. O’Toole P.W. Scott K.P. Flint H.J. Polysaccharide utilization loci and nutritional specialization in a dominant group of butyrate-producing human colonic Firmicutes Microb. Genom. 2016 2 e000043 10.1099/mgen.0.000043 28348841 PMC5320581 · DOI
  22. [25]Scott K.P. Martin J.C. Chassard C. Clerget M. Potrykus J. Campbell G. Mayer C.D. Young P. Rucklidge G. Ramsay A.G. Substrate-driven gene expression in Roseburia inulinivorans: Importance of inducible enzymes in the utilization of inulin and starch Proc. Natl. Acad. Sci. USA 2011 108 4672 4679 10.1073/pnas.1000091107 20679207 PMC3063597 · DOI
  23. [26]Ramsay A.G. Scott K.P. Martin J.C. Rincon M.T. Flint H.J. Cell-associated α-amylases of butyrate-producing Firmicute bacteria from the human colon Microbiology 2006 152 3281 3290 10.1099/mic.0.29233-0 17074899 · DOI
  24. [27]Scott K.P. Martin J.C. Campbell G. Mayer C.D. Flint H.J. Whole-genome transcription profiling reveals genes up-regulated by growth on fucose in the human gut bacterium “Roseburia inulinivorans” J. Bacteriol. 2006 188 4340 4349 10.1128/JB.00137-06 16740940 PMC1482943 · DOI
  25. [28]Chassard C. Goumy V. Leclerc M. Del’homme C. Bernalier-Donadille A. Characterization of the xylan-degrading microbial community from human faeces FEMS Microbiol. Ecol. 2007 61 121 131 10.1111/j.1574-6941.2007.00314.x 17391327 · DOI
  26. [29]Flint H.J. Scott K.P. Duncan S.H. Louis P. Forano E. Microbial degradation of complex carbohydrates in the gut Gut Microbes 2012 3 289 306 10.4161/gmic.19897 22572875 PMC3463488 · DOI · Paper page
  27. [30]Duncan S.H. Scott K.P. Ramsay A.G. Harmsen H.J. Welling G.W. Stewart C.S. Flint H.J. Effects of alternative dietary substrates on competition between human colonic bacteria in an anaerobic fermentor system Appl. Environ. Microbiol. 2003 69 1136 1142 10.1128/AEM.69.2.1136-1142.2003 12571040 PMC143671 · DOI
  28. [31]Rossi M. Corradini C. Amaretti A. Nicolini M. Pompei A. Zanoni S. Matteuzzi D. Fermentation of fructooligosaccharides and inulin by bifidobacteria: A comparative study of pure and fecal cultures Appl. Environ. Microbiol. 2005 71 6150 6158 10.1128/AEM.71.10.6150-6158.2005 16204533 PMC1265942 · DOI
  29. [32]Louis P. Young P. Holtrop G. Flint H.J. Diversity of human colonic butyrate-producing bacteria revealed by analysis of the butyryl-CoA: Acetate CoA-transferase gene Environ. Microbiol. 2010 12 304 314 10.1111/j.1462-2920.2009.02066.x 19807780 · DOI
  30. [33]Wolin M.J. Miller T.L. Collins M.D. Lawson P.A. Formate-Dependent Growth and Homoacetogenic Fermentation by a Bacterium from Human Feces: Description of Bryantella formatexigens gen. nov., sp. nov Appl. Environ. Microbiol. 2003 69 6321 6326 10.1128/AEM.69.10.6321-6326.2003 14532100 PMC201199 · DOI
  31. [34]Cummings J. Pomare E.W. Branch W.J. Naylor C.P. Macfarlane G.T. Short chain fatty acids in human large intestine, portal, hepatic and venous blood Gut 1987 28 1221 1227 10.1136/gut.28.10.1221 3678950 PMC1433442 · DOI · Paper page
  32. [35]Den Besten G. Lange K. Havinga R. van Dijk T.H. Gerding A. van Eunen K. Reijngoud D.J. Gut-derived short-chain fatty acids are vividly assimilated into host carbohydrates and lipids Am. J. Physiol. 2013 305 G900 G910 10.1152/ajpgi.00265.2013 24136789 · DOI
  33. [36]Macfarlane G.T. Gibson G.R. Cummings J.H. Comparison of fermentation reactions in different regions of the human colon J. Appl. Bacteriol. 1992 72 57 64 10.1111/j.1365-2672.1992.tb04882.x 1541601 · DOI
  34. [37]Kettle H. Louis P. Holtrop G. Duncan S.H. Flint H.J. Modelling the emergent dynamics and major metabolites of the human colonic microbiota Environ. Microbiol. 2015 17 1615 1630 10.1111/1462-2920.12599 25142831 · DOI
  35. [38]Tamanai-Shacoori Z. Smida I. Bousarghin L. Loreal O. Meuric V. Fong S.B. Bonnaure-Mallet M. Jolivet-Gougeon A. Roseburia spp.: A marker of health? Future Microbiol. 2017 12 157 170 10.2217/fmb-2016-0130 28139139 · DOI
  36. [39]Louis P. Flint H.J. Diversity, metabolism and microbial ecology of butyrate-producing bacteria from the human large intestine FEMS Microbiol. Lett. 2009 294 1 8 10.1111/j.1574-6968.2009.01514.x 19222573 · DOI · Paper page
  37. [40]Louis P. Flint H.J. Formation of propionate and butyrate by the human colonic microbiota Environ. Microbiol. 2017 19 29 41 10.1111/1462-2920.13589 27928878 · DOI · Paper page
  38. [41]Reichardt N. Duncan S.H. Young P. Belenguer A. Leitch C.M. Scott K.P. Flint H.J. Louis P. Phylogenetic distribution of three pathways for propionate production within the human gut microbiota ISME J. 2014 8 1323 10.1038/ismej.2014.14 24553467 PMC4030238 · DOI
  39. [42]Louis P. Duncan S.H. McCrae S.I. Millar J. Jackson M.S. Flint H.J. Restricted distribution of the butyrate kinase pathway among butyrate-producing bacteria from the human colon J. Bacteriol. 2004 186 2099 2106 10.1128/JB.186.7.2099-2106.2004 15028695 PMC374397 · DOI
  40. [43]Chassard C. Bernalier-Donadille A. H2 and acetate transfers during xylan fermentation between a butyrate-producing xylanolytic species and hydrogenotrophic microorganisms from the human gut FEMS Microbiol. Lett. 2006 254 116 122 10.1111/j.1574-6968.2005.00016.x 16451188 · DOI
  41. [44]Allen-Vercoe E. Daigneault M. White A. Panaccione R. Duncan S.H. Flint H.J. O’Neal L. Lawson P.A. Anaerostipes hadrus comb. nov., a dominant species within the human colonic microbiota; reclassification of Eubacterium hadrum Moore et al. 1976 Anaerobe 2012 18 523 529 10.1016/j.anaerobe.2012.09.002 22982042 · DOI
  42. [45]Duncan S.H. Louis P. Flint H.J. Lactate-utilizing bacteria, isolated from human feces, that produce butyrate as a major fermentation product Appl. Environ. Microbiol. 2004 70 5810 5817 10.1128/AEM.70.10.5810-5817.2004 15466518 PMC522113 · DOI
  43. [46]Duncan S.H. Barcenilla A. Stewart C.S. Pryde S.E. Flint H.J. Acetate utilization and butyryl coenzyme A (CoA): Acetate-CoA transferase in butyrate-producing bacteria from the human large intestine Appl. Environ. Microbiol. 2002 68 5186 5190 10.1128/AEM.68.10.5186-5190.2002 12324374 PMC126392 · DOI · Paper page
  44. [47]Schwab C. Ruscheweyh H.J. Bunesova V. Pham V.T. Beerenwinkel N. Lacroix C. Trophic interactions of infant bifidobacteria and Eubacterium hallii during L-fucose and fucosyllactose degradation Front. Microbiol. 2017 8 95 10.3389/fmicb.2017.00095 28194144 PMC5277004 · DOI
  45. [48]Fekry M.I. Engels C. Zhang J. Schwab C. Lacroix C. Sturla S.J. Chassard C. The strict anaerobic gut microbe Eubacterium hallii transforms the carcinogenic dietary heterocyclic amine 2-amino-1-methyl-6-phenylimidazo [4, 5-b] pyridine (PhIP) Environ. Microbiol. Rep. 2016 8 201 209 10.1111/1758-2229.12369 26711372 · DOI
  46. [49]Morita H. Toh H. Fukuda S. Horikawa H. Oshima K. Suzuki T. Murakami M. Hisamatsu S. Kato Y. Takizawa T. Comparative genome analysis of Lactobacillus reuteri and Lactobacillus fermentum reveal a genomic island for reuterin and cobalamin production DNA Res. 2008 15 151 161 10.1093/dnares/dsn009 18487258 PMC2650639 · DOI
  47. [50]Engels C. Ruscheweyh H.J. Beerenwinkel N. Lacroix C. Schwab C. The common gut microbe Eubacterium hallii also contributes to intestinal propionate formation Front. Microbiol. 2016 7 713 10.3389/fmicb.2016.00713 27242734 PMC4871866 · DOI · Paper page
  48. [51]Belzer C. Chia L.W. Aalvink S. Chamlagain B. Piironen V. Knol J. de Vos W.M. Microbial metabolic networks at the mucus layer lead to diet-independent butyrate and vitamin B12 production by intestinal symbionts MBio 2017 8 e00770-17 10.1128/mBio.00770-17 28928206 PMC5605934 · DOI
  49. [52]Crost E.H. Tailford L.E. Le Gall G. Fons M. Henrissat B. Juge N. Utilisation of mucin glycans by the human gut symbiont Ruminococcus gnavus is strain-dependent PLoS ONE 2013 8 e76341 10.1371/journal.pone.0076341 24204617 PMC3808388 · DOI
  50. [53]Crost E.H. Tailford L.E. Monestier M. Swarbreck D. Henrissat B. Crossman L.C. Juge N. The mucin-degradation strategy of Ruminococcus gnavus: The importance of intramolecular trans-sialidases Gut Microbes 2016 7 302 312 10.1080/19490976.2016.1186334 27223845 PMC4988440 · DOI
  51. [54]Meyer T.W. Hostetter T.H. Uremic solutes from colon microbes Kidney Int. 2012 81 949 954 10.1038/ki.2011.504 22318422 · DOI
  52. [55]Saito Y. Sato T. Nomoto K. Tsuji H. Identification of phenol-and p-cresol-producing intestinal bacteria by using media supplemented with tyrosine and its metabolites FEMS Microbiol. Ecol. 2018 94 125 10.1093/femsec/fiy125 29982420 PMC6424909 · DOI
  53. [56]Nazzal L. Roberts J. Singh P. Jhawar S. Matalon A. Gao Z. Holzman R. Liebes L. Blaser M.J. Lowenstein J. Microbiome perturbation by oral vancomycin reduces plasma concentration of two gut-derived uremic solutes, indoxyl sulfate and p-cresyl sulfate, in end-stage renal disease Nephrol. Dial. Transpl. 2017 32 1809 1817 10.1093/ndt/gfx029 28379433 · DOI
  54. [57]Feng Y.L. Cao G. Chen D.Q. Vaziri N.D. Chen L. Zhang J. Wang M. Guo Y. Zhao Y.Y. Microbiome–metabolomics reveals gut microbiota associated with glycine-conjugated metabolites and polyamine metabolism in chronic kidney disease Cell Mol. Life Sci. 2019 76 1 18 10.1007/s00018-019-03155-9 31147751 PMC11105293 · DOI
  55. [58]Menni C. Hernandez M.M. Vital M. Mohney R.P. Spector T.D. Valdes A.M. Circulating levels of the anti-oxidant indoleproprionic acid are associated with higher gut microbiome diversity Gut Microbes 2019 10 1 8 10.1080/19490976.2019.1586038 31030641 PMC6866703 · DOI
  56. [59]Possemiers S. Heyerick A. Robbens V. De Keukeleire D. Verstraete W. Activation of proestrogens from hops (Humulus lupulus L.) by intestinal microbiota; conversion of isoxanthohumol into 8-prenylnaringenin J. Agric. Food Chem. 2005 53 6281 6288 10.1021/jf0509714 16076107 · DOI
  57. [60]Burapan S. Kim M. Han J. Demethylation of polymethoxyflavones by human gut bacterium, Blautia sp. MRG-PMF1 J. Agric. Food Chem. 2017 65 1620 1629 10.1021/acs.jafc.7b00408 28211698 · DOI
  58. [62]Portune K.J. Benítez-Páez A. Del Pulgar E.M.G. Cerrudo V. Sanz Y. Gut microbiota, diet, and obesity-related disorders—The good, the bad, and the future challenges Mol. Nutr. Food Res. 2017 61 1600252 10.1002/mnfr.201600252 27287778 · DOI · Paper page
  59. [63]Layden B.T. Angueira A.R. Brodsky M. Durai V. Lowe W.L. Short chain fatty acids and their receptors: New metabolic targets Transl. Res. 2013 161 131 140 10.1016/j.trsl.2012.10.007 23146568 · DOI
  60. [64]Puddu A. Sanguineti R. Montecucco F. Viviani G.L. Evidence for the gut microbiota short-chain fatty acids as key pathophysiological molecules improving diabetes Mediators Inflamm. 2014 2014 162021 10.1155/2014/162021 25214711 PMC4151858 · DOI
  61. [65]Esgalhado M. Kemp J.A. Damasceno N.R. Fouque D. Mafra D. Short-chain fatty acids: A link between prebiotics and microbiota in chronic kidney disease Future Microbiol. 2017 12 1413 1425 10.2217/fmb-2017-0059 29027814 · DOI
  62. [66]Maslowski K.M. Vieira A.T. Ng A. Kranich J. Sierro F. Yu D. Schilter H.C. Rolph M.S. Mackay F. Artis D. Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43 Nature 2009 461 1282 1286 10.1038/nature08530 19865172 PMC3256734 · DOI · Paper page
  63. [67]Zhu L. Baker R.D. Baker S.S. Gut microbiome and nonalcoholic fatty liver diseases Pediatric. Res. 2015 77 245 10.1038/pr.2014.157 25310763 · DOI
  64. [68]Tappenden K.A. McBurney M.I. Systemic short-chain fatty acids rapidly alter gastrointestinal structure, function, and expression of early response genes Dig. Dis. Sci. 1998 43 1526 1536 10.1023/A:1018819032620 9690391 · DOI
  65. [69]Chávez-Carbajal A. Nirmalkar K. Pérez-Lizaur A. Hernández-Quiroz F. Ramírez-del-Alto S. García-Mena J. Hernández-Guerrero C. Gut Microbiota and Predicted Metabolic Pathways in a Sample of Mexican Women Affected by Obesity and Obesity Plus Metabolic Syndrome Int. J. Mol. Sci. 2019 20 438 10.3390/ijms20020438 PMC6358992 30669548 · DOI
  66. [70]Den Besten G. Bleeker A. Gerding A. van Eunen K. Havinga R. van Dijk T.H. Oosterveer M.H. Jonker J.W. Groen A.K. Reijngoud D.J. Short-Chain Fatty Acids protect against High-Fat Diet- Induced Obesity via a PPARgamma-dependent switch from lipogenesis to fat oxidation Diabetes 2015 65 2398 2408 10.2337/db14-1213 25695945 · DOI · Paper page
  67. [71]Misztak P. Pańczyszyn-Trzewik P. Sowa-Kućma M. Histone deacetylases (HDACs) as therapeutic target for depressive disorders Pharmacol. Rep. 2018 70 398 408 10.1016/j.pharep.2017.08.001 29456074 · DOI
  68. [72]Faraco G. Cavone L. Chiarugi A. The therapeutic potential of HDAC inhibitors in the treatment of multiple sclerosis Mol. Med. 2011 17 442 447 10.2119/molmed.2011.00077 21373721 PMC3105147 · DOI
  69. [73]Gonzalez A. Krieg R. Massey H.D. Carl D. Ghosh S. Gehr T.W. Ghosh S.S. Sodium butyrate ameliorates insulin resistance and renal failure in CKD rats by modulating intestinal permeability and mucin expression Nephrol. Dial. Transpl. 2019 34 783 794 10.1093/ndt/gfy238 30085297 PMC6503301 · DOI
  70. [74]Chen G. Ran X. Li B. Li Y. He D. Huang B. Wang W. Sodium butyrate inhibits inflammation and maintains epithelium barrier integrity in a TNBS-induced inflammatory bowel disease mice model EBioMedicine 2018 30 317 325 10.1016/j.ebiom.2018.03.030 29627390 PMC5952406 · DOI · Paper page
  71. [75]Melbye P. Olsson A. Hansen T.H. Søndergaard H.B. Bang Oturai A. Short-chain fatty acids and gut microbiota in multiple sclerosis Acta Neurol. Scand. 2019 139 208 219 10.1111/ane.13045 30427062 · DOI
  72. [76]Braniste V. Al-Asmakh M. Kowal C. Anuar F. Abbaspour A. Tóth M. Korecka A. Bakocevic N. Guan N.L. Kundu P. The gut microbiota influences blood-brain barrier permeability in mice Sci. Transl. Med. 2014 6 263ra158 10.1126/scitranslmed.3009759 25411471 PMC4396848 · DOI · Paper page
  73. [77]Soty M. Penhoat A. Amigo-Correig M. Vinera J. Sardella A. Vullin-Bouilloux F. Zitoun C. Houberdon I. Mithieux G. A gut-brain neural circuit controlled by intestinal gluconeogenesis is crucial in metabolic health Mol. Metab. 2015 4 106 117 10.1016/j.molmet.2014.12.009 25685698 PMC4314540 · DOI
  74. [79]Sanna S. van Zuydam N.R. Mahajan A. Kurilshikov A. Vila A.V. Võsa U. Mujagic Z. Masclee A.A.M. Jonkers D.M.A.E. Oosting M. Causal relationships among the gut microbiome, short-chain fatty acids and metabolic diseases Nat. Genet. 2019 51 600 605 10.1038/s41588-019-0350-x 30778224 PMC6441384 · DOI · Paper page
  75. [81]Slavin J. Fiber and prebiotics: Mechanisms and health benefits Nutrients 2013 5 1417 1435 10.3390/nu5041417 23609775 PMC3705355 · DOI · Paper page
  76. [82]Ríos-Covián D. Ruas-Madiedo P. Margolles A. Gueimonde M. de los Reyes-Gavilán C.G. Salazar N. Intestinal short chain fatty acids and their link with diet and human health Front. Microbiol. 2016 7 185 10.3389/fmicb.2016.00185 26925050 PMC4756104 · DOI
  77. [84]Perry R.J. Peng L. Barry N.A. Cline G.W. Zhang D. Cardone R.L. Petersen K.F. Kibbey R.G. Goodman A.L. Shulman G.I. Acetate mediates a microbiome–brain–β-cell axis to promote metabolic syndrome Nature 2016 534 213 217 10.1038/nature18309 27279214 PMC4922538 · DOI · Paper page
  78. [85]Murugesan S. Nirmalkar K. Hoyo-Vadillo C. García-Espitia M. Ramírez-Sánchez D. García-Mena J. Gut microbiome production of short-chain fatty acids and obesity in children Eur. J. Clin. Microbiol. 2018 37 621 625 10.1007/s10096-017-3143-0 29196878 · DOI
  79. [86]Morrison D.J. Preston T. Formation of short chain fatty acids by the gut microbiota and their impact on human metabolism Gut Microbes 2016 7 189 200 10.1080/19490976.2015.1134082 26963409 PMC4939913 · DOI · Paper page
  80. [89]Huć T. Nowinski A. Drapala A. Konopelski P. Ufnal M. Indole and indoxyl sulfate, gut bacteria metabolites of tryptophan, change arterial blood pressure via peripheral and central mechanisms in rats Pharmacol. Res. 2018 130 172 179 10.1016/j.phrs.2017.12.025 29287686 · DOI
  81. [90]Venkatesh M. Mukherjee S. Wang H. Li H. Sun K. Benechet A.P. Qiu Z. Maher L. Redinbo M.R. Phillips R.S. Symbiotic bacterial metabolites regulate gastrointestinal barrier function via the xenobiotic sensor PXR and Toll-like receptor 4 Immunity 2014 41 296 310 10.1016/j.immuni.2014.06.014 25065623 PMC4142105 · DOI · Paper page
  82. [91]Chyan Y.J. Poeggeler B. Omar R.A. Chain D.G. Frangione B. Ghiso J. Pappolla M.A. Potent neuroprotective properties against the Alzheimer β-amyloid by an endogenous melatonin-related indole structure, indole-3-propionic acid J. Biol. Chem. 1999 274 21937 21942 10.1074/jbc.274.31.21937 10419516 · DOI
  83. [93]Walker A.W. Ince J. Duncan S.H. Webster L.M. Holtrop G. Ze X. Brown D. Stares M.D. Scott P. Bergerat A. Dominant and diet-responsive groups of bacteria within the human colonic microbiota ISME J. 2011 5 220 10.1038/ismej.2010.118 20686513 PMC3105703 · DOI · Paper page
  84. [94]Koh A. De Vadder F. Kovatcheva-Datchary P. Bäckhed F. From dietary fiber to host physiology: Short-chain fatty acids as key bacterial metabolites Cell 2016 165 1332 1345 10.1016/j.cell.2016.05.041 27259147 · DOI · Paper page
  85. [95]La Rosa S.L. Leth M.L. Michalak L. Hansen M.E. Pudlo N.A. Glowacki R. Gabriel Pereira G. Christopher T. Workman C.T. Arntzen M.Ø. The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary β-mannans Nat. Commun. 2019 10 905 10.1038/s41467-019-08812-y 30796211 PMC6385246 · DOI
  86. [96]Murugesan S. Ulloa-Martínez M. Martínez-Rojano H. Galván-Rodríguez F.M. Miranda-Brito C. Romano M.C. Pina-Escobedo A. Pizano-Zárate M.L. Hoyo-Vadillo C. García-Mena J. Study of the diversity and short-chain fatty acids production by the bacterial community in overweight and obese Mexican children Eur. J. Clin. Microbiol. Infect. Dis. 2015 34 1337 1346 10.1007/s10096-015-2355-4 25761741 · DOI
  87. [97]Park S.K. Kim M.S. Roh S.W. Bae J.W. Blautia stercoris sp. nov., isolated from human faeces Int. J. Syst. Evol. Microbiol. 2012 62 776 779 10.1099/ijs.0.031625-0 21571940 · DOI
  88. [98]Sun M. Wu W. Liu Z. Cong Y. Microbiota metabolite short chain fatty acids, GPCR, and inflammatory bowel diseases J. Gastroenterol. 2017 52 1 8 10.1007/s00535-016-1242-9 27448578 PMC5215992 · DOI
  89. [99]Kasahara K. Krautkramer K.A. Org E. Romano K.A. Kerby R.L. Vivas E.I. Mehrabian M. Denu J.M. Bäckhed F. Lusis A.J. Interactions between Roseburia intestinalis and diet modulate atherogenesis in a murine model Nat. Microbiol. 2018 3 1461 10.1038/s41564-018-0272-x 30397344 PMC6280189 · DOI
  90. [102]Geirnaert A. Calatayud M. Grootaert C. Laukens D. Devriese S. Smagghe G. De Vos M. Boon N. Van de Wiele T. Butyrate-producing bacteria supplemented in vitro to Crohn’s disease patient microbiota increased butyrate production and enhanced intestinal epithelial barrier integrity Sci. Rep. 2017 7 11450 10.1038/s41598-017-11734-8 28904372 PMC5597586 · DOI
  91. [104]Steinmeyer S. Lee K. Jayaraman A. Alaniz R.C. Microbiota metabolite regulation of host immune homeostasis: A mechanistic missing link Curr. Allergy Asthma. Rep. 2015 15 24 10.1007/s11882-015-0524-2 26139332 · DOI
  92. [108]Jenq R.R. Taur Y. Devlin S.M. Ponce D.M. Goldberg J.D. Ahr K.F. Littmann E.R. Ling L. Gobourne A.C. Miller L.C. Intestinal Blautia is associated with reduced death from graft-versus-host disease Biol. Blood Marrow. Transpl. 2015 21 1373 1383 10.1016/j.bbmt.2015.04.016 PMC4516127 25977230 · DOI · Paper page
  93. [109]Gong J. Chehrazi-Raffle A. Placencio-Hickok V. Guan M. Hendifar A. Salgia R. The gut microbiome and response to immune checkpoint inhibitors: Preclinical and clinical strategies Clin. Trans. Med. 2019 8 9 10.1186/s40169-019-0225-x PMC6423251 30887236 · DOI
  94. [110]Cong J. Zhang X. Roles of intestinal microbiota in response to cancer immunotherapy Eur. J. Clin. Microbiol. Infect. Dis. 2018 37 2235 2240 10.1007/s10096-018-3374-8 30209679 · DOI
  95. [111]Chen W. Liu F. Ling Z. Tong X. Xiang C. Human intestinal lumen and mucosa-associated microbiota in patients with colorectal cancer PLoS ONE 2012 7 e39743 10.1371/journal.pone.0039743 22761885 PMC3386193 · DOI
  96. [112]Bajaj J.S. Hylemon P.B. Ridlon J.M. Heuman D.M. Daita K. White M.B. Monteith P. Noble N.A. Sikaroodi M. Gillevet P.M. Colonic mucosal microbiome differs from stool microbiome in cirrhosis and hepatic encephalopathy and is linked to cognition and inflammation Am. J. Physiol. Gastroint. Liver Physiol. 2012 303 G675 G685 10.1152/ajpgi.00152.2012 PMC3468538 22821944 · DOI
  97. [113]Deering K.E. Devine A. O’Sullivan T.A. Lo J. Boyce M.C. Christophersen C.T. Characterizing the Composition of the Pediatric Gut Microbiome: A Systematic Review Nutrients 2020 12 16 10.3390/nu12010016 31861722 PMC7019424 · DOI
  98. [114]Haidar Y.M. Cosman B.C. Obesity epidemiology Clin. Colon Rectal. Surg. 2011 24 205 210 10.1055/s-0031-1295684 23204935 PMC3311487 · DOI
  99. [116]Kachur S. Morera R. De Schutter A. Lavie C.J. Cardiovascular risk in patients with prehypertension and the metabolic syndrome Curr. Hypertens Rep. 2018 20 15 10.1007/s11906-018-0801-2 29511907 · DOI
  100. [117]Molina-Molina E. Krawczyk M. Stachowska E. Lammert F. Portincasa P. Non-alcoholic fatty liver disease in non-obese individuals: Prevalence, pathogenesis and treatment Clin. Res. Hepatol. Gastroenterol. 2019 43 638 645 10.1016/j.clinre.2019.04.005 31196707 · DOI
  101. [118]Eslam M. Sanyal A.J. George J. MAFLD: A consensus-driven proposed nomenclature for metabolic associated fatty liver disease Gastroenterology 2020 10.1053/j.gastro.2019.11.312 32044314 · DOI · Paper page
  102. [119]Chassaing B. Gewirtz A.T. Gut microbiota, low-grade inflammation, and metabolic syndrome Toxicol. Pathol. 2014 42 49 53 10.1177/0192623313508481 24285672 · DOI
  103. [120]D’Aversa F. Tortora A. Ianiro G. Ponziani F.R. Annicchiarico B.E. Gasbarrini A. Gut microbiota and metabolic syndrome Intern. Emerg. Med. 2013 8 11 15 10.1007/s11739-013-0916-z 23468402 · DOI
  104. [121]Natividad J.M. Agus A. Planchais J. Lamas B. Jarry A.C. Martin R. Michel M.L. Chong-Nguyen C. Roussel R. Straube S. Impaired aryl hydrocarbon receptor ligand production by the gut microbiota is a key factor in metabolic syndrome Cell Metab. 2018 28 737 749 10.1016/j.cmet.2018.07.001 30057068 · DOI · Paper page
  105. [123]Lippert K. Kedenko L. Antonielli L. Kedenko I. Gemeier C. Leitner M. Kautzky-Willer A. Paulweber B. Hackl E. Gut microbiota dysbiosis associated with glucose metabolism disorders and the metabolic syndrome in older adults Benef. Microbes. 2017 8 545 556 10.3920/BM2016.0184 28701081 · DOI
  106. [124]Salonen A. Lahti L. Salojärvi J. Holtrop G. Korpela K. Duncan S.H. Date P. Farquharson F. Johnstone A.M. Lobley G.E. Impact of diet and individual variation on intestinal microbiota composition and fermentation products in obese men ISME J. 2014 8 2218 10.1038/ismej.2014.63 24763370 PMC4992075 · DOI · Paper page
  107. [125]Zeng H. Ishaq S.L. Zhao F.Q. Wright A.D.G. Colonic inflammation accompanies an increase of β-catenin signaling and Lachnospiraceae/Streptococcaceae bacteria in the hind gut of high-fat diet-fed mice J. Nutr. Biochem. 2016 35 30 36 10.1016/j.jnutbio.2016.05.015 27362974 · DOI
  108. [126]Kostic A.D. Gevers D. Siljander H. Vatanen T. Hyötyläinen T. Hämäläinen A.M. Peet A. Tillmann V. Pöhö P. Mattila I. The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes Cell Host Microbe. 2015 17 260 273 10.1016/j.chom.2015.01.001 25662751 PMC4689191 · DOI
  109. [128]Kameyama K. Itoh K. Intestinal colonization by a Lachnospiraceae bacterium contributes to the development of diabetes in obese mice Microbes Environ. 2014 29 427 430 10.1264/jsme2.ME14054 25283478 PMC4262368 · DOI
  110. [129]Zhai B. Zhang C. Sheng Y. Zhao C. He X. Xu W. Huang K. Luo Y. Hypoglycemic and hypolipidemic effect of S-allyl-cysteine sulfoxide (alliin) in DIO mice Sci. Rep. 2018 8 1 7 10.1038/s41598-018-21421-x 29476144 PMC5824805 · DOI · Paper page
  111. [131]Patil D.P. Dhotre D.P. Chavan S.G. Sultan A. Jain D.S. Lanjekar V.B. Gangawani J. Shah P.S. Todkar J.S. Shah S. Molecular analysis of gut microbiota in obesity among Indian individuals J. Biosci. 2012 37 647 657 10.1007/s12038-012-9244-0 22922190 · DOI
  112. [132]Shen F. Zheng R.D. Sun X.Q. Ding W.J. Wang X.Y. Fan J.G. Gut microbiota dysbiosis in patients with non-alcoholic fatty liver disease Hepatob. Pancreatic Dis. Int. 2017 16 375 381 10.1016/S1499-3872(17)60019-5 28823367 · DOI · Paper page
  113. [133]Compare D. Coccoli P. Rocco A. Nardone O.M. De Maria S. Cartenì M. Nardone G. Gut–liver axis: The impact of gut microbiota on non alcoholic fatty liver disease Nutr. Metab. Carbiovasc. Dis. 2012 22 471 476 10.1016/j.numecd.2012.02.007 22546554 · DOI
  114. [134]De Minicis S. Rychlicki C. Agostinelli L. Saccomanno S. Candelaresi C. Trozzi L. Mingarelli E. Facinelli B. Magi G. Palmieri C. Dysbiosis contributes to fibrogenesis in the course of chronic liver injury in mice Hepatology 2014 59 1738 1749 10.1002/hep.26695 23959503 · DOI · Paper page
  115. [135]Krawczyk M. Bonfrate L. Portincasa P. Nonalcoholic fatty liver disease Best Pract Res. Clin. Gastroenterol. 2010 24 695 708 10.1016/j.bpg.2010.08.005 20955971 · DOI
  116. [137]Quraishi M.N. Sergeant M. Kay G. Iqbal T. Chan J. Constantinidou C. Trivedi P. Ferguson J. Adams D.H. Pallen M. The gut-adherent microbiota of PSC–IBD is distinct to that of IBD Gut 2017 66 386 388 10.1136/gutjnl-2016-311915 27196590 · DOI · Paper page
  117. [138]Torres J. Bao X. Goel A. Colombel J.F. Pekow J. Jabri B. Williams K.M. Castillo A. Odin J.A. Meckel K. The features of mucosa-associated microbiota in primary sclerosing cholangitis Aliment. Pharmacol. Ther. 2016 43 790 801 10.1111/apt.13552 26857969 PMC5177987 · DOI · Paper page
  118. [139]Chaves L.D. McSkimming D.I. Bryniarski M.A. Honan A.M. Abyad S. Thomas S.A. Wells S. Buck M. Sun Y. Genco R.J. Chronic kidney disease, uremic milieu, and its effects on gut bacterial microbiota dysbiosis Am. J. Physiol. Renal. Physiol. 2018 315 F487 F502 10.1152/ajprenal.00092.2018 29693447 PMC6172581 · DOI
  119. [140]De Angelis M. Montemurno E. Piccolo M. Vannini L. Lauriero G. Maranzano V. Gozzi G. Serrazanetti D. Dalfino G. Gobbetti M. Microbiota and metabolome associated with immunoglobulin A nephropathy (IgAN) PLoS ONE 2014 9 e99006 10.1371/journal.pone.0099006 24922509 PMC4055632 · DOI
  120. [141]Al Khodor S. Shatat I.F. Gut microbiome and kidney disease: A bidirectional relationship Pediatr. Nephrol. 2017 32 921 931 10.1007/s00467-016-3392-7 27129691 PMC5399049 · DOI · Paper page
  121. [143]Wang F. Zhang P. Jiang H. Cheng S. Gut bacterial translocation contributes to microinflammation in experimental uremia Dig. Dis. Sci. 2012 57 2856 2862 10.1007/s10620-012-2242-0 22615020 · DOI
  122. [144]Vaziri N.D. Wong J. Pahl M. Piceno Y.M. Yuan J. DeSantis T.Z. Ni Z. Nguyen T.H. Andersen G.L. Chronic kidney disease alters intestinal microbial flora Kidney Int. 2013 83 308 315 10.1038/ki.2012.345 22992469 · DOI · Paper page
  123. [145]Barrios C. Beaumont M. Pallister T. Villar J. Goodrich J.K. Clark A. Pascual J. Ley R.E. Spector T.D. Bell J.T. Gut-microbiota-metabolite axis in early renal function decline PLoS ONE 2015 10 e0134311 10.1371/journal.pone.0134311 26241311 PMC4524635 · DOI · Paper page
  124. [146]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. Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease Nature 2011 472 57 10.1038/nature09922 21475195 PMC3086762 · DOI · Paper page
  125. [149]Castillo-Rodriguez E. Fernandez-Prado R. Esteras R. Perez-Gomez M. Gracia-Iguacel C. Fernandez-Fernandez B. Kanbay M. Tejedor A. Lazaro A. Ruiz-Ortega M. Impact of altered intestinal microbiota on chronic kidney disease progression Toxins 2018 10 300 10.3390/toxins10070300 PMC6070989 30029499 · DOI
  126. [150]Hill N.R. Fatoba S.T. Oke J.L. Hirst J.A. O’Callaghan C.A. Lasserson D.S. Hobbs F.R. Global prevalence of chronic kidney disease–a systematic review and meta-analysis PLoS ONE 2016 11 e0158765 10.1371/journal.pone.0158765 27383068 PMC4934905 · DOI
  127. [151]Cosola C. Rocchetti M.T. Sabatino A. Fiaccadori E. Di Iorio B.R. Gesualdo L. Microbiota issue in CKD: How promising are gut-targeted approaches? J. Nephrol. 2019 32 27 37 10.1007/s40620-018-0516-0 30069677 · DOI
  128. [152]Manichanh C. Borruel N. Casellas F. Guarner F. The gut microbiota in IBD Nat. Rev. Gastroenterol. Hepatol. 2012 9 599 608 10.1038/nrgastro.2012.152 22907164 · DOI · Paper page
  129. [153]Bonfrate L. Tack J. Grattagliano I. Cuomo R. Portincasa P. Microbiota in health and irritable bowel syndrome: Current knowledge, perspectives and therapeutic options Scand. J. Gastroentero. 2013 48 995 1009 10.3109/00365521.2013.799220 23964766 · DOI
  130. [154]Gevers D. Kugathasan S. Denson L.A. Vázquez-Baeza Y. Van Treuren W. Ren B. Schwager E. Knights D. Song S.J. Yassour M. The treatment-naive microbiome in new-onset Crohn’s disease Cell Host Microbe 2014 15 382 392 10.1016/j.chom.2014.02.005 24629344 PMC4059512 · DOI · Paper page
  131. [155]Baumgart M. Dogan B. Rishniw M. Weitzman G. Bosworth B. Yantiss R. Orsi R.H. Wiedmann M. McDonough P. Kim S.G. Culture independent analysis of ileal mucosa reveals a selective increase in invasive Escherichia coli of novel phylogeny relative to depletion of Clostridiales in Crohn’s disease involving the ileum ISME J. 2007 1 403 418 10.1038/ismej.2007.52 18043660 · DOI
  132. [156]Frank D.N. Amand A.L.S. Feldman R.A. Boedeker E.C. Harpaz N. Pace N.R. Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases Proc. Natl. Acad. Sci. USA 2007 104 13780 13785 10.1073/pnas.0706625104 17699621 PMC1959459 · DOI · Paper page
  133. [157]Sasaki K. Inoue J. Sasaki D. Hoshi N. Shirai T. Fukuda I. Osawa R. Construction of a model culture system of human colonic microbiota to detect decreased Lachnospiraceae abundance and butyrogenesis in the feces of ulcerative colitis patients Biotechnol. J. 2019 14 1800555 10.1002/biot.201800555 30791234 · DOI
  134. [158]Boltin D. Perets T.T. Vilkin A. Niv Y. Mucin function in inflammatory bowel disease: An update J. Clin Gastroenterol. 2013 47 106 111 10.1097/MCG.0b013e3182688e73 23164684 · DOI
  135. [159]Torres J. Mehandru S. Colombel J.F. Peyrin-Biroulet L. Crohn’s disease Lancet 2017 389 1741 1755 10.1016/S0140-6736(16)31711-1 27914655 · DOI
  136. [160]Jellbauer S. Raffatellu M. An intestinal arsonist: Pathobiont ignites IBD and flees the scene Gut 2014 63 1034 1035 10.1136/gutjnl-2013-305589 24026350 · DOI
  137. [161]Duck W.L. Walter M.R. Novak J. Kelly D. Tomasi M. Cong Y. Elson C.O. Isolation of flagellated bacteria implicated in Crohn’s disease Inflamm. Bowel. Dis. 2007 13 1191 1201 10.1002/ibd.20237 17712838 · DOI
  138. [162]Carabotti M. Scirocco A. Maselli M.A. Severi C. The gut-brain axis: Interactions between enteric microbiota, central and enteric nervous systems Ann. Gastroenterol. 2015 28 203 209 25830558 PMC4367209
  139. [163]Inserra A. Rogers G.B. Licinio J. Wong M.L. The Microbiota-Inflammasome Hypothesis of Major Depression Bioessays 2018 40 1800027 10.1002/bies.201800027 30004130 PMC12180310 · DOI · Paper page
  140. [164]Zheng P. Zeng B. Zhou C. Liu M. Fang Z. Xu X. Wang W. Tang W. Tan Z. Shi J. Gut microbiome remodeling induces depressive-like behaviors through a pathway mediated by the host’s metabolism Mol. Psychiatr. 2016 21 786 10.1038/mp.2016.44 27067014 · DOI · Paper page
  141. [165]Bonaz B. Bazin T. Pellissier S. The vagus nerve at the interface of the microbiota-gut-brain axis Front. Neurosci. 2018 12 49 10.3389/fnins.2018.00049 29467611 PMC5808284 · DOI · Paper page
  142. [166]Osadchiy V. Martin C.R. Mayer E.A. The Gut–Brain Axis and the Microbiome: Mechanisms and Clinical Implications Clin. Gastroenterol. Hepatol. 2019 17 322 332 10.1016/j.cgh.2018.10.002 30292888 PMC6999848 · DOI · Paper page
  143. [167]Wong M.L. The inflammasome and the microbiota-gut-brain axis Neurol. Psychiatr Brain Res. 2018 29 25 10.1016/j.npbr.2018.01.110 · DOI
  144. [168]Quigley E.M. Microbiota-brain-gut axis and neurodegenerative diseases Curr. Neurol. Neurosci. Rep. 2017 17 94 10.1007/s11910-017-0802-6 29039142 · DOI · Paper page
  145. [170]Mass M. Kubera M. Leunis J.C. The gut-brain barrier in major depression: Intestinal mucosal dysfunction with an increased translocation of LPS from gram negative enterobacteria (leaky gut) plays a role in the inflammatory pathophysiology of depression Neuroendocrinol. Lett. 2008 29 117 124 18283240
  146. [171]Cheung S. Goldenthal A.R. Uhlemann A.C. Mann J.J. Miller J.M. Sublette M.E. Systematic Review of Gut Microbiota and Major Depression Front. Psychiatry 2019 10 34 10.3389/fpsyt.2019.00034 30804820 PMC6378305 · DOI · Paper page
  147. [172]Jiang H. Ling Z. Zhang Y. Mao H. Ma Z. Yin Y. Wang W. Tang W. Tan Z. Shi J. Altered fecal microbiota composition in patients with major depressive disorder Brain Behav. Immun. 2015 48 186 194 10.1016/j.bbi.2015.03.016 25882912 · DOI · Paper page
  148. [173]Berer K. Gerdes L.A. Cekanaviciute E. Jia X. Xiao L. Xia Z. Liu C. Klotz L. Stauffer U. Baranzini S.E. Gut microbiota from multiple sclerosis patients enables spontaneous autoimmune encephalomyelitis in mice Proc. Natl. Acad. Sci. USA 2017 114 10719 10724 10.1073/pnas.1711233114 28893994 PMC5635914 · DOI · Paper page
  149. [174]Cree B.A. Spencer C.M. Varrin-Doyer M. Baranzini S.E. Zamvil S.S. Gut microbiome analysis in neuromyelitis optica reveals overabundance of Clostridium perfringens Ann. Neurol. 2016 80 443 447 10.1002/ana.24718 27398819 PMC5053302 · DOI
  150. [175]Cekanaviciute E. Yoo B.B. Runia T.F. Debelius J.W. Singh S. Nelson C.A. Kanner R. Bencosme Y. Kyung Lee Y. Hauser S.L. Gut bacteria from multiple sclerosis patients modulate human T cells and exacerbate symptoms in mouse models Proc. Natl. Acad. Sci. USA 2017 114 10713 10718 10.1073/pnas.1711235114 28893978 PMC5635915 · DOI
  151. [176]Chen J. Chia N. Kalari K.R. Yao J.Z. Novotna M. Soldan M.M.P. Luckey D.H. Marietta E.V. Jeraldo P.R. Chen X. Multiple sclerosis patients have a distinct gut microbiota compared to healthy controls Sci. Rep. 2016 6 28484 10.1038/srep28484 27346372 PMC4921909 · DOI · Paper page
  152. [177]Schirmer M. Smeekens S.P. Vlamakis H. Jaeger M. Oosting M. Franzosa E.A. Horst R.T. Jansen T. Jacobs L. Bonder M.J. Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity Cell 2016 167 1897 10.1016/j.cell.2016.11.046 27984736 · DOI
  153. [178]Shahi S.K. Freedman S.N. Mangalam A.K. Gut microbiome in multiple sclerosis: The players involved and the roles they play Gut Microbes 2017 8 607 615 10.1080/19490976.2017.1349041 28696139 PMC5730390 · DOI
  154. [179]Cekanaviciute E. Debelius J.W. Singh S. Runia T. Nelson C. Yoo B. Gut dysbiosis is a feature of MS and it is characterized by bacteria able to regulate lymphocyte differentiation in vitro Proceedings of the 2016 European Committee for Treatment and Research in Multiple Sclerosis London, UK 14 September 2016
  155. [181]Bibbò S. Ianiro G. Giorgio V. Scaldaferri F. Masucci L. Gasbarrini A. Cammarota G. The role of diet on gut microbiota composition Eur. Rev. Med. Pharmacol. Sci. 2016 20 4742 4749 27906427
  156. [182]Flint H.J. Duncan S.H. Scott K.P. Louis P. Links between diet, gut microbiota composition and gut metabolism Proc. Nutr. Soc. 2015 74 13 22 10.1017/S0029665114001463 25268552 · DOI · Paper page
  157. [183]Scott K.P. Gratz S.W. Sheridan P.O. Flint H.J. Duncan S.H. The influence of diet on the gut microbiota Pharmacol. Res. 2013 69 52 60 10.1016/j.phrs.2012.10.020 23147033 · DOI · Paper page
  158. [184]Wu G.D. Chen J. Hoffmann C. Bittinger K. Chen Y.Y. Keilbaugh S.A. Bewtra M. Knights D. Walters W.A. Knight R. Linking long-term dietary patterns with gut microbial enterotypes Science 2011 334 105 108 10.1126/science.1208344 21885731 PMC3368382 · DOI · Paper page
  159. [185]De Angelis M. Ferrocino I. Calabrese F.M. De Filippis F. Cavallo N. Siragusa S. Rampelli S. Di Cagno R. Rantsiou K. Vannini L. Diet influences the functions of the human intestinal microbiome Sci. Rep. 2020 10 1 15 10.1038/s41598-020-61192-y 32144387 PMC7060259 · DOI
  160. [186]Rinninella E. Cintoni M. Raoul P. Lopetuso L.R. Scaldaferri F. Pulcini G. Miggiano G.A.D. Gasbarrini A. Mele M.C. Food components and dietary habits: Keys for a healthy gut microbiota composition Nutrients 2019 11 2393 10.3390/nu11102393 31591348 PMC6835969 · DOI
  161. [187]Flint H.J. Scott K.P. Louis P. Duncan S.H. The role of the gut microbiota in nutrition and health Nat. Rev. Gastroenterol. Hepatol. 2012 9 577 10.1038/nrgastro.2012.156 22945443 · DOI
  162. [188]Wilson M. Bacteriology of Humans: An Ecological Perspective Nibali L. Henderson B. John Wiley & Sons Hoboken, NJ, USA 2009
  163. [189]Tottey W. Feria-Gervasio D. Gaci N. Laillet B. Pujos E. Martin J.F. Sebedio J.L. Sion B. Jarrige J.F. Alric M. Colonic transit time is a driven force of the gut microbiota composition and metabolism: In vitro evidence J. Neurogastroenterol. Motil. 2017 23 124 10.5056/jnm16042 27530163 PMC5216643 · DOI · Paper page
  164. [190]Flint H.J. Duncan S.H. Scott K.P. Louis P. Interactions and competition within the microbial community of the human colon: Links between diet and health Environ. Microbiol. 2007 9 1101 1111 10.1111/j.1462-2920.2007.01281.x 17472627 · DOI
  165. [192]Aminov R.I. Walker A.W. Duncan S.H. Harmsen H.J.M. Welling G.W. Flint H.J. Molecular diversity, cultivation and improved detection by fluorescent in situ hybridization of a dominant group of human gut bacteria related to Roseburia spp. or Eubacterium rectale Appl. Environ. Microbiol. 2006 72 6371 6376 10.1128/AEM.00701-06 16957265 PMC1563657 · DOI
  166. [194]Di Iorio B.R. Rocchetti M.T. De Angelis M. Cosola C. Marzocco S. Di Micco L. di Bari I. Accetturo M. Vacca M. Gobbetti M. Nutritional Therapy Modulates Intestinal Microbiota and Reduces Serum Levels of Total and Free Indoxyl Sulfate and P-Cresyl Sulfate in Chronic Kidney Disease (Medika Study) J. Clin. Med. 2019 8 1424 10.3390/jcm8091424 PMC6780815 31510015 · DOI
  167. [196]Daniel H. Gholami A.M. Berry D. Desmarchelier C. Hahne H. Loh G. Mondot S. Lepage P. Rothballer M. Walker A. High-fat diet alters gut microbiota physiology in mice ISME J. 2014 8 295 10.1038/ismej.2013.155 24030595 PMC3906816 · DOI
  168. [197]Ortega J.F. Morales-Palomo F. Fernandez-Elias V. Hamouti N. Bernardo F.J. Martin-Doimeadios R.C. Nelson R.K. Horowitz J.F. Mora-Rodriguez R. Dietary supplementation with omega-3 fatty acids and oleate enhances exercise training effects in patients with metabolic syndrome Obesity 2016 24 1704 1711 10.1002/oby.21552 27356240 · DOI
  169. [198]Marik P.E. Varon J. Omega-3 dietary supplements and the risk of cardiovascular events: A systematic review Clin. Cardiol. 2009 32 365 372 10.1002/clc.20604 19609891 PMC6653319 · DOI · Paper page
  170. [199]Liu J. Ma D.W. The role of n-3 polyunsaturated fatty acids in the prevention and treatment of breast cancer Nutrients 2014 6 5184 5223 10.3390/nu6115184 25412153 PMC4245586 · DOI
  171. [200]Noriega B.S. Sanchez-Gonzalez M.A. Salyakina D. Coffman J. Understanding the impact of omega-3 rich diet on the gut microbiota Case Rep. Med. 2016 10.1155/2016/3089303 PMC4808672 27065349 · DOI
  172. [202]Howe P. Buckley J. Metabolic health benefits of long-chain omega-3 polyunsaturated fatty acids Mil. Med. 2014 179 138 143 10.7205/MILMED-D-14-00154 25373098 · DOI
  173. [203]Horrocks L.A. Yeo Y.K. Health benefits of docosahexaenoic acid (DHA) Pharmacol. Res. 1999 40 211 225 10.1006/phrs.1999.0495 10479465 · DOI
  174. [204]Kim E. Kim D.B. Park J.Y. Changes of mouse gut microbiota diversity and composition by modulating dietary protein and carbohydrate contents: A pilot study Prev. Nutr. Food Sci. 2016 21 57 10.3746/pnf.2016.21.1.57 27069907 PMC4827636 · DOI

Cited by

Sorted by citations

Authors
Vacca, M., Celano, G., Calabrese, F. M., Portincasa, P., Gobbetti, M., & De Angelis, M.
Affiliations
  • University of Bari Aldo Moro (IT)
  • Free University of Bozen-Bolzano (IT)
  • Department of Soil, Plant and Food Sciences, University of Bari Aldo Moro, 70126 Bari, Italy
Corresponding author
  • Celano, Giuseppe
  • Portincasa, Piero
ORCID
Venue
Microorganisms
Publisher
MDPI AG
Published
2020-04-15
Volume
8
Issue
4
Pages
573
ISSN
2076-2607 (ISSN-L)
DOI
10.3390/microorganisms8040573
PMC
PMC7232163
OpenAlex
W3016889019
Cited by
1,688
References
29
Citations by year
2026: 242 · 2025: 333 · 2024: 369 · 2023: 294 · 2022: 267 · 2021: 163 · 2020: 16 · 2019: 1 · 2018: 1
FWCI
17.83
Type
journal article
Language
en
Open access
Licence
Locations
  • Microorganisms (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • Open Research (University of Surrey) (submittedVersion, other-oa)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • CINECA IRIS Institutional Research Information System (University of Bari Aldo Moro) (submittedVersion, cc-by)
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
  • Health Sciences › Medicine › Infectious Diseases › Clostridium difficile and Clostridium perfringens research
Keywords
Lachnospiraceae, human gut microbiome, short-chain fatty acids, gut dysbiosis, extraintestinal diseases, microbial metabolites, host physiology

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