Page 46 - Read Online
P. 46
Page 20 of 20 Puhlmann et al. Microbiome Res Rep 2024;3:28 https://dx.doi.org/10.20517/mrr.2024.04
65. O’Connell Motherway M, Houston A, O’Callaghan G, et al. A Bifidobacterial pilus-associated protein promotes colonic epithelial
proliferation. Mol Microbiol 2019;111:287-301. DOI PubMed
66. Gutierrez A, Pucket B, Engevik MA. Bifidobacterium and the intestinal mucus layer. Microbiome Res Rep 2023;2:36. DOI PubMed
PMC
67. Isenring J, Bircher L, Geirnaert A, Lacroix C. In vitro human gut microbiota fermentation models: opportunities, challenges, and
pitfalls. Microbiome Res Rep 2023;2:2. DOI PubMed PMC
68. Shkoporov AN, O’Regan O, Smith L, et al. Dynamic nature of viral and bacterial communities in human faeces. iScience
2024;27:108778. DOI PubMed PMC
69. Poppe J, Vieira-Silva S, Raes J, Verbeke K, Falony G. Systematic optimization of fermentation conditions for in vitro fermentations
with fecal inocula. Front Microbiol 2023;14:1198903. DOI PubMed PMC
70. Gao Q, Li K, Zhong R, et al. Supplementing glycerol to inoculum induces changes in pH, SCFA profiles, and microbiota composition
in in-vitro batch fermentation. Fermentation 2022;8:18. DOI
71. Ács N, Holohan R, Dunne LJ, et al. Comparing in vitro faecal fermentation methods as surrogates for phage therapy application.
Viruses 2022;14:2632. DOI PubMed PMC
72. Gnanasekaran T, Assis Geraldo J, Ahrenkiel DW, et al. Ecological adaptation and succession of human fecal microbial communities in
an automated in vitro fermentation system. mSystems 2021;6:e0023221. DOI PubMed PMC
73. Long W, Xue Z, Zhang Q, et al. Differential responses of gut microbiota to the same prebiotic formula in oligotrophic and eutrophic
batch fermentation systems. Sci Rep 2015;5:13469. DOI PubMed PMC
74. Pirkola L, Dicksved J, Loponen J, Marklinder I, Andersson R. Fecal microbiota composition affects in vitro fermentation of rye, oat,
and wheat bread. Sci Rep 2023;13:99. DOI PubMed PMC
75. Louis P, Duncan SH, Sheridan PO, Walker AW, Flint HJ. Microbial lactate utilisation and the stability of the gut microbiome. Gut
Microb 2022;3:e3. DOI
76. Louis P, Flint HJ. Formation of propionate and butyrate by the human colonic microbiota. Environ Microbiol 2017;19:29-41. DOI
PubMed
77. Engels C, Ruscheweyh HJ, Beerenwinkel N, Lacroix C, Schwab C. The common gut microbe Eubacterium hallii also contributes to
intestinal propionate formation. Front Microbiol 2016;7:713. DOI PubMed PMC
78. Shetty SA, Kuipers B, Atashgahi S, Aalvink S, Smidt H, de Vos WM. Inter-species metabolic interactions in an in-vitro minimal
human gut microbiome of core bacteria. NPJ Biofilms Microbiomes 2022;8:21. DOI PubMed PMC
79. Shetty SA, Boeren S, Bui TPN, Smidt H, de Vos WM. Unravelling lactate-acetate and sugar conversion into butyrate by intestinal
Anaerobutyricum and Anaerostipes species by comparative proteogenomics. Environ Microbiol 2020;22:4863-75. DOI PubMed
PMC

