Details of Microbe Species (MIC)

General Information of MIC (ID: MC0776)
  MIC Name
Clostridium tyrobutyricum ATCC 25755
  Synonym
Clostridium tyrobutyricum ATCC 25755, Clostridium tyrobutyricum DSM 2637, Clostridium tyrobutyricum DSM 2637 = ATCC 25755, Clostridium tyrobutyricum JCM 11008
  Lineage Kingdom: Bacteria
Phylum: Firmicutes
Class: Clostridia
Order: Eubacteriales
Family: Clostridiaceae
Genus: Clostridium
  Oxygen Sensitivity
Anaerobe
  Microbial Metabolism
Saccharolytic; Fermentative
  Gram
Positive
  Genome Size (bp)
3021927
  Description
Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008 is a strain of anaerobic, gram-positive, saccharolytic bacteria.
  External Links Taxonomy ID 1121342
GOLD Database ID Go0206562

Full List of Metabolite(s) Produced by This MIC
     Molecule Type: Fatty acids
           Metabolite Name: Acetate 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 Acetylation H3K27 EM Info HepG2 cells FASN promoter Hypoxia [1], [2]
Histone Acetylation H3K27 EM Info HepG2 cells VEGF promoter Hypoxia [3], [4]
Histone Acetylation H3K9 EM Info HepG2 cells FASN promoter Hypoxia [5], [2]
Histone Acetylation H3K27 EM Info HepG2 cells ACACA promoter Hypoxia [6], [4]
Histone Acetylation H3K27 EM Info HepG2 cells LDHA promoter Hypoxia [6], [4]
Histone Acetylation H3K56 EM Info HepG2 cells ACACA promoter Hypoxia [6], [4]
Histone Acetylation H3K56 EM Info HepG2 cells LDHA promoter Hypoxia [6], [4]
Histone Acetylation H3K56 EM Info HepG2 cells VEGF promoter Hypoxia [6], [4]
Histone Acetylation H3K9 EM Info HepG2 cells ACACA promoter Hypoxia [6], [4]
Histone Acetylation H3K9 EM Info HepG2 cells LDHA promoter Hypoxia [6], [4]
Histone Acetylation H3K9 EM Info HepG2 cells VEGF promoter Hypoxia [6], [4]
Histone Acetylation H3K56 EM Info HepG2 cells FASN promoter Hypoxia [7], [2]
Histone Deacetylation HDAC9 EM Info Eosinophil cell . Asthma [1], [2]
           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 . [8], [2]
DNA Demethylation POU5F1 EM Info iPS cells promoter . [8], [2]
Histone Acetylation H3 EM Info CD41T cells Foxo3A promoter . [6], [4]
Histone Acetylation H3K9 EM Info KGN cells GPR41 . [9], [4]
Histone Acetylation H3K9 EM Info KGN cells GPR43 . [9], [4]
Histone Crotonylation H3K9 EM Info KGN cells GPR43 . [9], [2]
Histone Deacetylation HDAC2 EM Info . . . [6], [4]
Histone Deacetylation HDAC1 EM Info . . . [6], [4]
miRNA miR-92a EM Info Colon cancer cells . Colon cancer [6], [4]


References
1 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.
2 Co-culturing a novel Bacillus strain with Clostridium tyrobutyricum ATCC 25755 to produce butyric acid from sucrose Biotechnol Biofuels. 2013 Mar 4;6(1):35. doi: 10.1186/1754-6834-6-35.
3 Evidence that asthma is a developmental origin disease influenced by maternal diet and bacterial metabolites. Nat Commun. 2015 Jun 23;6:7320. doi: 10.1038/ncomms8320.
4 The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease. Nucleic Acids Res. 2019 Jan 8;47(D1):D614-D624. doi: 10.1093/nar/gky992.
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 Acetate functions as an epigenetic metabolite to promote lipid synthesis under hypoxia. Nat Commun. 2016 Jun 30;7:11960. doi: 10.1038/ncomms11960.
7 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.
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 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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