Details of Microbe Species (MIC)

General Information of MIC (ID: MC0013)
  MIC Name
Fusobacterium nucleatum
  Synonym
Fusobacterium fusiforme, Fusobacterium plauti-vincenti, Corynebacterium fusiforme, Fusiformis fusiformis
  Lineage Kingdom: Bacteria
Phylum: Fusobacteria
Class: Fusobacteriia
Order: Fusobacteriales
Family: Fusobacteriaceae
Genus: Fusobacterium
  Oxygen Sensitivity
Obligate anaerobe
  Microbial Metabolism
Saccharolytic; Fermentative; Proteolytic
  Gram
Negative
  Host Relationship
Commensal
  No. of Coding Genes
1887
  No. of Non-Coding Genes
65
  No. of Small Non-Coding Genes
65
  No. of Gene Transcripts
2119
  No. of Pseudogenes 167
  No. of Base Pairs
2382847
  Description
Fusobacteria nucleatum is a species of gram-negative, anaerobic bacteria from the genus Fusobacteria.
  External Links Taxonomy ID 851
GutMDisorder ID gm0344
Genome Assembly ID ASM287181v1
GOLD Database ID Go0020659
GIMICA ID MIC00617

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 Deacetylation HDAC9 EM Info Eosinophil cell . Asthma [1], [2]
Histone Methylation EZH2 EM Info BCBL1 cells . Periodontitis [1], [2]
Histone Methylation SUV39H1 EM Info BCBL1 cells . Periodontitis [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 POU5F1 EM Info iPS cells promoter . [3], [4]
DNA Demethylation DPPA2 EM Info iPS cells promoter . [5], [1]
Histone Acetylation H3 EM Info CD41T cells Foxo3A promoter . [1]
Histone Crotonylation H3K9 EM Info KGN cells GPR43 . [3], [4]
Histone Deacetylation HDAC2 EM Info . . . [6]
Histone Deacetylation HDAC1 EM Info . . . [6]
Histone Methylation EZH2 EM Info BCBL1 cells . Periodontitis [1]
Histone Methylation SUV39H1 EM Info BCBL1 cells . Periodontitis [1]
miRNA miR-92a EM Info Colon cancer cells . Colon cancer [5], [1]
           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 Methylation EZH2 EM Info BCBL1 cells . Periodontitis [7]
Histone Methylation SUV39H1 EM Info BCBL1 cells . Periodontitis [7]
           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 [end-products]
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
Histone Acetylation H3 EM Info Erythroid cells . Abnormalities in BCAA metabolism [7]
Histone Methylation EZH2 EM Info BCBL1 cells . Periodontitis [7]
Histone Methylation SUV39H1 EM Info BCBL1 cells . Periodontitis [7]
           Metabolite Name: Propionate 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 Methylation EZH2 EM Info BCBL1 cells . Periodontitis [8], [4]
Histone Methylation SUV39H1 EM Info BCBL1 cells . Periodontitis [8], [4]
Histone Propionylation H3 EM Info Primary myocytes lysine 23 Health [7], [9]
Histone Propionylation H3K23 EM Info C2C12 cells Myod . [10], [4]
     Molecule Type: Microbial cell components
           Metabolite Name: Lipopolysaccharide Click to Show/Hide
              Detailed Infomation Meta Info click to show the detail information of this Metabolite
              Metabolic Classification Microbial cell components
Modification Type Molecule EM Info Cell/Tissue Type Modified sites Condition REF
DNA Methylation DNMT1 EM Info HaCaT cells . . [7]
DNA Methylation DNMT3A EM Info HaCaT cells . . [7]
DNA Methylation DNMT1 EM Info Oral epithelial cells . Periodontitis [7], [9]
Histone Acetylation Histone EM Info TGF-beta1 cells lysine 9 . [11], [7]
Histone Acetylation H3 EM Info Oral epithelial cells lysine 9 Periodontitis [12], [7]
Histone Acetylation Histone acetyltransferase p300 EM Info Oral epithelial cells . Periodontitis [13], [4]
Histone Deacetylation HDAC2 EM Info hPDLSCs . Periodontitis [7]
Histone Deacetylation HDAC1 EM Info hPDLSCs . Periodontitis [7]
Histone Demethylation JMJD3 EM Info HaCaT cells . . [7]
Histone Phosphorylation Histone EM Info TGF-beta1 cells serine 10 . [7], [14]


References
1 Epigenetic Modifications of Histones in Periodontal Disease. J Dent Res. 2016 Feb;95(2):215-22. doi: 10.1177/0022034515611876. Epub 2015 Oct 23.
2 Porphyromonas gingivalis LPS stimulation downregulates DNMT1, DNMT3a, and JMJD3 gene expression levels in human HaCaT keratinocytes. Clin Oral Investig. 2013 May;17(4):1279-85. doi: 10.1007/s00784-012-0816-z. Epub 2012 Aug 9.
3 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.
4 Reactivation of latent HIV-1 by a wide variety of butyric acid-producing bacteria Cell Mol Life Sci. 2012 Aug;69(15):2583-92. doi: 10.1007/s00018-012-0936-2. Epub 2012 Feb 10.
5 Transforming growth factor-beta 1 inhibits non-pathogenic Gram negative bacteria-induced NF-kappa B recruitment to the interleukin-6 gene promoter in intestinal epithelial cells through modulation of histone acetylation J Biol Chem. 2003 Jun 27;278(26):23851-60. doi: 10.1074/jbc.M300075200. Epub 2003 Apr 2.
6 Porphyromonas gingivalis lipopolysaccharide stimulation in human periodontal ligament stem cells: role of epigenetic modifications to the inflammation. Eur J Histochem. 2017 Aug 25;61(3):2826. doi: 10.4081/ejh.2017.2826.
7 Short-chain fatty acids from periodontal pathogens suppress histone deacetylases, EZH2, and SUV39H1 to promote Kaposi's sarcoma-associated herpesvirus replication. J Virol. 2014 Apr;88(8):4466-79. doi: 10.1128/JVI.03326-13. Epub 2014 Feb 5.
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 Propionate hampers differentiation and modifies histone propionylation and acetylation in skeletal muscle cells. Mech Ageing Dev. 2021 Jun;196:111495. doi: 10.1016/j.mad.2021.111495. Epub 2021 Apr 28.
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.
11 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.
12 Crosstalk between the microbiome and epigenome: messages from bugs. J Biochem. 2018 Feb 1;163(2):105-112. doi: 10.1093/jb/mvx080.
13 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.
14 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.

If You Find Any Error in Data or Bug in Web Service, Please Kindly Report It to Dr. Tang and Dr. Zhang.