Details of Microbe Species (MIC)

General Information of MIC (ID: MIC00695)
MIC Name Lachnospiraceae (firmicutes)
Body Site Gut
Lineage Kingdom: Bacteria
Phylum: Firmicutes
Class: Clostridia
Order: Clostridiales
Family: Lachnospiraceae
Oxygen Sensitivity Anaerobe
Microbial Metabolism Fermentative
Gram Negative
Host Relationship Commensal
Description The Lachnospiraceae is a family of anaerobic, spore-forming bacterium in the order Clostridiales that ferments diverse plant polysaccharides to short-chain fatty acids and alcohols. These bacteria are among the most abundant taxa in the rumen and the human gut microbiota. Members of this family may protect against colon cancer in humans by producing butyric acid. Lachnospiraceae have been found to cause diabetes in germ-free mice.
External Links Taxonomy ID
186803
GOLD Organism ID
Go0544759
Disease Relevance
          Chronic kidney disease  [ICD-11: GB61]
             Description Lachnospiraceae was associated with chronic kidney disease. [1]
          Crohn disease  [ICD-11: DD70]
             Description Lachnospiraceae flagellins have been identified as dominant antigens in Crohn's disease. [2]
          Dermatitis and eczema  [ICD-11: EA80]
             Description Lachnospiraceae was associated with atopic dermatitis. [3]
          Inflammatory bowel disease  [ICD-11: DD72]
             Description The numbers of Lachnospiraceae decreased in a subset of Inflammatory bowel disease patients. [4]
Host Genetic Factors (HGFs)
          AMY1A
             HGF ID HGF2311 HGF Info       Class Copy Number Variation: Gene Duplication (CNV-GDu)
             Description Gut microbiome Lachnospiraceae differs between high AMY1-CN and low AMY1-CN groups at the OTU Level (p-value<0.05). [5]
          CD160
             HGF ID HGF2314 HGF Info       Class Copy Number Variation: Gene Duplication (CNV-GDu)
             Description The gene CD160 with exon duplications was significantly associated with decreased abundance of Lachnospiraceae (p-value=1.65E-04). [6]
          RNF115
             HGF ID HGF2315 HGF Info       Class Copy Number Variation: Gene Duplication (CNV-GDu)
             Description The gene RNF115 with exon duplications was significantly associated with decreased abundance of Lachnospiraceae. [6]
          FPR2
             HGF ID HGF2316 HGF Info       Class Copy Number Variation: Gene Duplication (CNV-GDu)
             Description The gene FPR2 with exon duplications was significantly associated with decreased abundance of Lachnospiraceae. [6]
          MUC2
             HGF ID HGF2331 HGF Info       Class Copy Number Variation: Gene Deletion (CNV-GDe)
             Description The deletion of MUC2 showed significantly decreased abundance of Lachnospiraceae (p-value<0.05). [7]
          NINJ1
             HGF ID HGF2340 HGF Info       Class Copy Number Variation: Gene Deletion (CNV-GDe)
             Description The deletion of NINJ1 was significantly associated with a decreased abundance of the Lachnospiraceae (p-value<0.05). [8]
          TLR5
             HGF ID HGF2330 HGF Info       Class Copy Number Variation: Gene Deletion (CNV-GDe)
             Description The deletion of TLR5 influences the abundance of Lachnospiraceae. [9]
          SLC15A1
             HGF ID HGF2354 HGF Info       Class Copy Number Variation: Gene Deletion (CNV-GDe)
             Description The deletion of PepT1 could decrease the abundance of Lachnospiraceae. [10]
          rs7527334
             HGF ID HGF1244 HGF Info       Class Single Nucleotide Polymorphism: Intron variant (SNP-IV)
             Description The rs7527334 SNP was significantly associated with the abundance of Lachnospiraceae (p-value<1.00E-08). [11]
          rs7512589
             HGF ID HGF1864 HGF Info       Class Single Nucleotide Polymorphism: Intron variant (SNP-IV)
             Description The rs7512589 SNP is significantly associated with the abundance of Lachnospiraceae (p-value=6.22E-04). [6]
          rs62364750
             HGF ID HGF1798 HGF Info       Class Single Nucleotide Polymorphism: Intron variant (SNP-IV)
             Description The rs62364750 SNP was significantly associated with the abundance of Lachnospiraceae bacterium (p-value<1.00E-08). [11]
          rs61732050
             HGF ID HGF1486 HGF Info       Class Single Nucleotide Polymorphism: Synonymous variant (SNP-SV)
             Description The rs61732050 SNP is significantly associated with the abundance of Lachnospiraceae (p-value=3.53E-05). [6]
          rs3733890
             HGF ID HGF1908 HGF Info       Class Single Nucleotide Polymorphism: Missense variant (SNP-MV)
             Description The rs3733890 SNP was significantly associated with the abundance of Lachnospiraceae (p-value=8.20E-06). [12]
          rs4660293
             HGF ID HGF2669 HGF Info       Class Single Nucleotide Polymorphism: Intron variant (SNP-IV)
             Description The rs4660293 SNP was significantly associated with the abundance of Lachnospiraceae(p-value=1.03E-05). [13]
Host Immune Factors (HIFs)
          B cells
             HIF ID HIFC0001 HIF Info       Class B cells (BCs)
             Description The family Lachnospiraceae expressed protein "superantigens", which stimulated B cells expressing human VH3. [14]
          Tumor necrosis factor
             HIF ID HIFM0226 HIF Info       Class Cytokine (Cyt)
             Description Lachnospiraceae was associated with TNF-alpha. [15]
          Interferon gamma
             HIF ID HIFM0260 HIF Info       Class Cytokine (Cyt)
             Description Lachnospiraceae was associated with IFN-gamma. [15]
          Immunoglobulin A
             HIF ID HIFM0272 HIF Info       Class Immunoglobulin (Ig)
             Description Lachnospiraceae was significantly enriched in the IgA(Low or no IgA binding) consortia. [16]
          Natural Killer cells
             HIF ID HIFC0028 HIF Info       Class Natural killer cells (NKCs)
             Description Relative abundances of Lachnospiraceae was associated with Natural killer (NK) T-like cells. [15]
          T cells
             HIF ID HIFC0002 HIF Info       Class T cells (TCs)
             Description Relative abundances of Lachnospiraceae was associated with T-lymphocytes response. [15]
Environmental Factor(s)
             Disbiome ID
      215
             gutMDisorder ID
      gm0386
References
1 p-Cresyl Sulfate. Toxins (Basel). 2017 Jan 29;9(2):52. doi: 10.3390/toxins9020052.
2 Phylotype-level 16S rRNA analysis reveals new bacterial indicators of health state in acute murine colitis. ISME J. 2012 Nov;6(11):2091-106. doi: 10.1038/ismej.2012.39. Epub 2012 May 10.
3 Perturbations of gut microbiome genes in infants with atopic dermatitis according to feeding type. J Allergy Clin Immunol. 2018 Apr;141(4):1310-1319. doi: 10.1016/j.jaci.2017.11.045. Epub 2018 Jan 12.
4 Incidence, clinical predictors, genomics, and outcome of acute kidney injury among trauma patients. Ann Surg. 2010 Jul;252(1):158-65. doi: 10.1097/SLA.0b013e3181deb6bc.
5 Human Salivary Amylase Gene Copy Number Impacts Oral and Gut Microbiomes.Cell Host Microbe. 2019 Apr 10;25(4):553-564.e7. doi: 10.1016/j.chom.2019.03.001.
6 Whole exome sequencing analyses reveal gene-microbiota interactions in the context of IBD.Gut. 2020 Jul 10:gutjnl-2019-319706. doi: 10.1136/gutjnl-2019-319706. Online ahead of print.
7 The Dynamic Changes of Gut Microbiota in Muc2 Deficient Mice.Int J Mol Sci. 2018 Sep 18;19(9):2809. doi: 10.3390/ijms19092809.
8 Ninjurin1 deficiency aggravates colitis development by promoting M1 macrophage polarization and inducing microbial imbalance.FASEB J. 2020 Jun;34(6):8702-8720. doi: 10.1096/fj.201902753R. Epub 2020 May 8.
9 Current understanding of the gut microbiota shaping mechanisms.J Biomed Sci. 2019 Aug 21;26(1):59. doi: 10.1186/s12929-019-0554-5.
10 Impact of PepT1 deletion on microbiota composition and colitis requires multiple generations.NPJ Biofilms Microbiomes. 2020 Jul 21;6(1):27. doi: 10.1038/s41522-020-0137-y.
11 Host genetic variation and its microbiome interactions within the Human Microbiome Project.Genome Med. 2018 Jan 29;10(1):6. doi: 10.1186/s13073-018-0515-8.
12 Genetic Determinants of the Gut Microbiome in UK Twins.Cell Host Microbe. 2016 May 11;19(5):731-43. doi: 10.1016/j.chom.2016.04.017.
13 The Gut Microbiome Contributes to a Substantial Proportion of the Variation in Blood Lipids.Circ Res. 2015 Oct 9;117(9):817-24. doi: 10.1161/CIRCRESAHA.115.306807. Epub 2015 Sep 10.
14 B cell superantigens in the human intestinal microbiota.Sci Transl Med. 2019 Aug 28;11(507):eaau9356. doi: 10.1126/scitranslmed.aau9356.
15 Gut Mucosal and Fecal Microbiota Profiling Combined to Intestinal Immune System in Neonates Affected by Intestinal Ischemic Injuries. Front Cell Infect Microbiol. 2020 Feb 25;10:59. doi: 10.3389/fcimb.2020.00059. eCollection 2020.
16 IgA Function in Relation to the Intestinal Microbiota.Annu Rev Immunol. 2018 Apr 26;36:359-381. doi: 10.1146/annurev-immunol-042617-053238. Epub 2018 Jan 26.

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