Details of Microbe Species (MIC)

General Information of MIC (ID: MC0122)
  MIC Name
Acidaminococcus fermentans DSM 20731
  Lineage Kingdom: Bacteria
Phylum: Firmicutes
Class: Negativicutes
Order: Acidaminococcales
Family: Acidaminococcaceae
Genus: Acidaminococcus
  Oxygen Sensitivity
Obligate anaerobe
  Microbial Metabolism
Fermentative
  Gram
Negative
  Genome Size (bp)
2329769
  No. of Coding Genes
2026
  No. of Non-Coding Genes
82
  No. of Small Non-Coding Genes
82
  No. of Gene Transcripts
2108
  Description
Acidaminococcus fermentans DSM 20731 is an anaerobic gram-negative bacteria isolated from a pig gut. It can utilize amino acids as the sole source of energy for growth, but lactate, fumarate, malate, succinate, citrate, and pyruvate can not serve as energy sources for growth.
  External Links Taxonomy ID 591001
Genome Assembly ID ASM2530v1

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], [2]
Histone Acetylation H3K9 EM Info HepG2 cells FASN promoter Hypoxia [4], [2]
Histone Acetylation H3K27 EM Info HepG2 cells ACACA promoter Hypoxia [5], [2]
Histone Acetylation H3K27 EM Info HepG2 cells LDHA promoter Hypoxia [5], [2]
Histone Acetylation H3K56 EM Info HepG2 cells ACACA promoter Hypoxia [5], [2]
Histone Acetylation H3K56 EM Info HepG2 cells LDHA promoter Hypoxia [5], [2]
Histone Acetylation H3K56 EM Info HepG2 cells VEGF promoter Hypoxia [5], [2]
Histone Acetylation H3K9 EM Info HepG2 cells ACACA promoter Hypoxia [5], [2]
Histone Acetylation H3K9 EM Info HepG2 cells LDHA promoter Hypoxia [5], [2]
Histone Acetylation H3K9 EM Info HepG2 cells VEGF promoter Hypoxia [5], [2]
Histone Acetylation H3K56 EM Info HepG2 cells FASN promoter Hypoxia [6], [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 . [7], [2]
DNA Demethylation POU5F1 EM Info iPS cells promoter . [7], [2]
Histone Acetylation H3 EM Info CD41T cells Foxo3A promoter . [5], [2]
Histone Acetylation H3K9 EM Info KGN cells GPR41 . [8], [2]
Histone Acetylation H3K9 EM Info KGN cells GPR43 . [8], [2]
Histone Deacetylation HDAC2 EM Info . . . [5], [2]
Histone Deacetylation HDAC1 EM Info . . . [5], [2]
miRNA miR-92a EM Info Colon cancer cells . Colon cancer [5], [2]


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 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.
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 Crosstalk between the microbiome and epigenome: messages from bugs. J Biochem. 2018 Feb 1;163(2):105-112. doi: 10.1093/jb/mvx080.
5 Acetate functions as an epigenetic metabolite to promote lipid synthesis under hypoxia. Nat Commun. 2016 Jun 30;7:11960. doi: 10.1038/ncomms11960.
6 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.
7 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.
8 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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