Details of Microbe Species (MIC)

General Information of MIC (ID: MC0031)
  MIC Name
Faecalibacterium
  Lineage Kingdom: Bacteria
Phylum: Firmicutes
Class: Clostridia
Order: Clostridiales
Family: Ruminococcaceae
Genus: Faecalibacterium
  Oxygen Sensitivity
Anaerobe
  Microbial Metabolism
Saccharolytic; Fermentative
  Gram
Positive
  Host Relationship
Commensal
  Description
Faecalibacteria is a genus of bacteria. Its sole known species, Faecalibacteria prausnitzii is gram-positive, mesophilic, rod-shaped, anaerobic and is one of the most abundant and important commensal bacteria of the human gut microbiota. These bacteria produce butyrate and other short-chain fatty acids through the fermentation of dietary fiber.
  External Links Taxonomy ID 216851
GutMDisorder ID gm0326
GOLD Database ID Go0546686

Full List of Metabolite(s) Produced by This MIC
     Molecule Type: Fatty acids
           Metabolite Name: Butyrate Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [end-products]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
DNA Demethylation DPPA2 EM Info iPS cells promoter . [1], [2]
DNA Demethylation POU5F1 EM Info iPS cells promoter . [3], [4]
Histone Acetylation H3 EM Info CD41T cells Foxo3A promoter . [1], [2]
Histone Crotonylation H3K9 EM Info KGN cells GPR43 . [5], [4]
Histone Deacetylation HDAC2 EM Info . . . [6], [4]
Histone Deacetylation HDAC1 EM Info . . . [6], [4]
miRNA miR-92a EM Info Colon cancer cells . Colon cancer [1], [2]
           Metabolite Name: Iso-Butyrate Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [end-products]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
Histone Isobutyrylation H3 EM Info 293T cells lysine 14 . [7], [1]
Histone Isobutyrylation H3 EM Info 293T cells lysine 23 . [7], [1]
Histone Isobutyrylation H4 EM Info 293T cells lysine . [7], [1]
           Metabolite Name: Iso-Valerate Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [intermediate]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
Histone Acetylation H3 EM Info Marrow-derived definitive erythroid . Abnormalities in BCAA metabolism [8], [4]
           Metabolite Name: Valerate Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial producted compound [end-products]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
Histone Deacetylation HDAC3 EM Info HT-29 cells . . [1], [9]
Histone Deacetylation HDAC2 EM Info HT-29 cells . . [10], [4]
Histone Deacetylation HDAC1 EM Info HT-29 cells . . [8], [4]


References
1 Gut Microbiota as Important Mediator Between Diet and DNA Methylation and Histone Modifications in the Host. Nutrients. 2020 Feb 25;12(3):597. doi: 10.3390/nu12030597.
2 Identification of lysine isobutyrylation as a new histone modification mark. Nucleic Acids Res. 2021 Jan 11;49(1):177-189. doi: 10.1093/nar/gkaa1176.
3 Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells. Nature. 2013 Dec 19;504(7480):446-50. doi: 10.1038/nature12721. Epub 2013 Nov 13.
4 Dietary proline supplementation alters colonic luminal microbiota and bacterial metabolite composition between days 45 and 70 of pregnancy in Huanjiang mini-pigs J Anim Sci Biotechnol. 2018 Jan 30;9:18. doi: 10.1186/s40104-018-0233-5. eCollection 2018.
5 Crosstalk between the microbiome and epigenome: messages from bugs. J Biochem. 2018 Feb 1;163(2):105-112. doi: 10.1093/jb/mvx080.
6 Dietary metabolites derived from gut microbiota: critical modulators of epigenetic changes in mammals. Nutr Rev. 2017 May 1;75(5):374-389. doi: 10.1093/nutrit/nux001.
7 Human gut bacteria as potent class I histone deacetylase inhibitors in vitro through production of butyric acid and valeric acid. PLoS One. 2018 Jul 27;13(7):e0201073. doi: 10.1371/journal.pone.0201073. eCollection 2018.
8 Butyrate greatly enhances derivation of human induced pluripotent stem cells by promoting epigenetic remodeling and the expression of pluripotency-associated genes. Stem Cells. 2010 Apr;28(4):713-20. doi: 10.1002/stem.402.
9 Intermediaries of branched chain amino acid metabolism induce fetal hemoglobin, and repress SOX6 and BCL11A, in definitive erythroid cells. Blood Cells Mol Dis. 2015 Aug;55(2):161-7. doi: 10.1016/j.bcmd.2015.05.006. Epub 2015 May 27.
10 Butyrate drives the acetylation of histone H3K9 to activate steroidogenesis through PPAR-gamma and PGC1-alpha pathways in ovarian granulosa cells. FASEB J. 2021 Feb;35(2):e21316. doi: 10.1096/fj.202000444R.

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