MiMeDB: Host and Site

Metabolites
Microbes

Metabolite ID	Name	Formula MW	Host & Biospecimen (status - Q; D; E; P)	# Related Microbes	Metabolite Type	Additional sources
MMDBc0000020	Cholesterol	C₂₇H₄₆O 386.6535	Human Feces Human Blood Human Bile Human Cerebrospinal Fluid (CSF) Human Saliva Human All Tissues Human Placenta Human Prostate Human Urine	27	Co-metabolite	Not Available
MMDBc0000019	L-Carnitine	C₇H₁₆NO₃ 162.2068	Human Feces Human Blood Human Urine Human Cerebrospinal Fluid (CSF) Human Breast Milk Human Saliva Human Adipose Tissue Human Bladder Human Brain Human Erythrocyte Human Fibroblasts Human Heart Human Intestine Human Kidney Human Liver Human Lung Human Neuron Human Placenta Human Platelet Human Prostate Human Semen Human Skeletal Muscle Human Testis	183	Co-metabolite	Milk
MMDBc0000018	beta-Alanine	C₃H₇NO₂ 89.0932	Human Feces Human Saliva Human Cerebrospinal Fluid (CSF) Human Urine Human Blood Human Kidney Human Pancreas Human Placenta Human Prostate Human Skeletal Muscle	1256	Co-metabolite	Fruit
MMDBc0000017	Cellobiose	C₁₂H₂₂O₁₁ 342.2965	Human Urine Human Intestine Human Spleen Human Blood	823	Co-metabolite
MMDBc0000016	Ammonia	H₃N 17.0305	Human Feces Human Blood Human Urine Human Cellular Cytoplasm Human Cerebrospinal Fluid (CSF) Human All Tissues	1850	Co-metabolite
MMDBc0000015	Adenosine	C₁₀H₁₃N₅O₄ 267.2413	Human Feces Human Urine Human Saliva Human Blood Human Cerebrospinal Fluid (CSF) Human Cellular Cytoplasm Human Breast Milk Human All Tissues Human Placenta	1619	Co-metabolite
MMDBc0000014	Melibiose	C₁₂H₂₂O₁₁ 342.2965	Human Urine Human Spleen Human Blood	87	Co-metabolite
MMDBc0000013	Ascorbic acid	C₆H₈O₆ 176.1241	Human Feces Human Blood Human Cerebrospinal Fluid (CSF) Human Urine Human Saliva Human Amniotic Fluid Human Breast Milk Human Cellular Cytoplasm Human Adipose Tissue Human Adrenal Cortex Human Adrenal Medulla Human Bladder Human Brain Human Epidermis Human Erythrocyte Human Eye Lens Human Fibroblasts Human Heart Human Intestine Human Leukocyte Human Liver Human Lung Human Neuron Human Ovary Human Placenta Human Platelet Human Prostate Human Skeletal Muscle Human Spleen Human Testis	37	Co-metabolite	Meat
MMDBc0000012	Betaine	C₅H₁₂NO₂ 118.1543	Human Feces Human Saliva Human Urine Human Blood Human Breast Milk Human Adipose Tissue Human Adrenal Cortex Human Adrenal Gland Human Bladder Human Epidermis Human Fibroblasts Human Intestine Human Kidney Human Liver Human Ovary Human Pancreas Human Placenta Human Platelet Human Prostate Human Skeletal Muscle Human Spleen Human Testis	1062	Co-metabolite	Not Available
MMDBc0000011	Acetic acid	C₂H₄O₂ 60.052	Human Cerebrospinal Fluid (CSF) Human Feces Human Saliva Human Breath Human Urine Human Blood Human Breast Milk Human Kidney Human Liver	2537	Co-metabolite	Essential oil
MMDBc0000010	Butyric acid	C₄H₈O₂ 88.1051	Human Feces Human Urine Human Saliva Human Breath Human Breast Milk Human Blood Human Cerebrospinal Fluid (CSF) Human Fibroblasts Human Intestine Human Kidney Human Neuron Human Prostate Human Skeletal Muscle	778	Co-metabolite	Meat
MMDBc0000009	Taurocholic acid	C₂₆H₄₅NO₇S 515.703	Human Feces Human Urine Human Blood Human Bile Human Fibroblasts Human Intestine Human Liver Human Neuron Human Placenta	210	Co-metabolite	Not Available
MMDBc0000008	Adenine	C₅H₅N₅ 135.1267	Human Feces Human Saliva Human Cerebrospinal Fluid (CSF) Human Blood Human Urine Human All Tissues Human Placenta Human Prostate	1788	Co-metabolite	Not Available
MMDBc0000007	Carnosine	C₉H₁₄N₄O₃ 226.2325	Human Feces Human Urine Human Blood Human Saliva Human Brain Human Fibroblasts Human Intestine Human Kidney Human Liver Human Neuron Human Placenta Human Skeletal Muscle	820	Co-metabolite	Not Available
MMDBc0000006	Biotin	C₁₀H₁₆N₂O₃S 244.311	Human Feces Human Cerebrospinal Fluid (CSF) Human Blood Human Urine Human Saliva Human All Tissues Human Prostate	1425	Co-metabolite	Juice
MMDBc0000005	2-Ketobutyric acid	C₄H₆O₃ 102.0886	Human Feces Human Urine Human Blood Human Cerebrospinal Fluid (CSF) Human Saliva	1151	Co-metabolite
MMDBc0000004	Indole	C₈H₇N 117.1479	Human Feces Human Urine Human Saliva Human Blood Human Epidermis Human Fibroblasts Human Intestine Human Neuron	784	Co-metabolite	Coffee
MMDBc0000003	p-Cresol	C₇H₈O 108.1378	Human Urine Human Blood Human Feces Human Saliva Human Adipose Tissue Human Fibroblasts	15	Co-metabolite	Fruit
MMDBc0000002	p-Cresol sulfate	C₇H₈O₄S 188.201	Human Blood Human Urine Human Saliva Human Feces Human Cerebrospinal Fluid (CSF) Human Placenta	8	Co-metabolite	Food, diet (phenylalanine-containing foods)
MMDBc0000001	Indoxyl sulfate	C₈H₇NO₄S 213.21	Human Urine Human Blood Human Feces Human Cerebrospinal Fluid (CSF) Human Bone Marrow Human Brain Human Endothelial tissue Human Heart Human Kidney Human Liver Human Skeletal Muscle	0	Co-metabolite	Food, diet (tryptophan-containing foods)

Microbe ID	Organism	Kindgom	Phylum	Oxygen preference	Energy production	Host and body site	Pathogenicity and disease	# Related metabolites
MMDBm0000001	Bacteroides fragills NCTC 9343	Not Available	Microspora	Nanaerobe	Not Available	Human Gut	Non-pathogenic	0
MMDBm0000002	Micromonospora aurantiaca ATCC 27029	Eubacteria	Actinobacteria	Aerobe	Polyisoprene rubber degrader	Human Gut	Non-pathogenic	812
MMDBm0000003	Acidaminococcus fermentans DSM 20731	Eubacteria	Firmicutes	Anaerobe	Not Available	Pig Human Gut	Pathogenic	675
MMDBm0000004	Acidaminococcus intestini RyC-MR95	Eubacteria	Firmicutes	Anaerobe	Asaccharolytic, glutamate is fermented	Human Gut	Pathogenic	580
MMDBm0000005	Acidovorax sp. KKS102	Eubacteria	Proteobacteria	Not Available	Hydrocarbon Degradation	Human Gut	Pathogenic	0
MMDBm0000006	Acinetobacter baumannii	Eubacteria	Proteobacteria	Aerobe	Prototrophic	Human Human Thigh Human Lower respiratory tract Human Lung Human Trachea Human Gingiva	Pathogenic	39
MMDBm0000007	Acinetobacter pittii ANC 4052	Eubacteria	Proteobacteria	Aerobe	Asaccharolytic	Human Gut Human Lower respiratory tract	Non-pathogenic	837
MMDBm0000008	Acinetobacter radioresistens NIPH 2130	Eubacteria	Proteobacteria	Aerobe	Asaccharolytic	Human Gut	Non-pathogenic	791
MMDBm0000009	Adlercreutzia equolifaciens DSM 19450	Eubacteria	Actinobacteria	Anaerobe	Asaccharolytic, nonfermentative	Human Gut	Pathogenic	553
MMDBm0000010	Aeromonas jandaei Riv2	Eubacteria	Proteobacteria	Facultative anaerobe	Saccharolytic, fermentative	Human Gut Human Large intestine	Non-pathogenic	847
MMDBm0000011	Aggregatibacter aphrophilus NJ8700	Eubacteria	Proteobacteria	Facultative	Respiratory	Human Human Gut Human Lung Human Oral cavity dental cary Human Ovary Human Sinus	Non-pathogenic	706
MMDBm0000012	Agrobacterium tumefaciens F2	Eubacteria	Proteobacteria	Aerobe	Respiratory	Human Gut	Non-pathogenic	858
MMDBm0000013	Akkermansia	Eubacteria	Verrucomicrobia	Anaerobic	Fermentative, Mucin-degrading, Decarboxylation (arginine decarboxylase), Alkaline phosphatase activity, Short chain fatty acid production, Interaction with gut epithelial cells, Anti-inflammatory, Propionate production, Vitamin b12 synthesis	Human Large intestine Human Duodenum	Pathogenic	0
MMDBm0000014	Akkermansia muciniphila	Eubacteria	Verrucomicrobia	Anaerobe	Saccharolytic, fermentative	Human Gut Human Human Large intestine Human Bladder	Pathogenic	149
MMDBm0000015	Akkermansia muciniphila ATCC BAA-835	Eubacteria	Verrucomicrobia	Anaerobe	Saccharolytic, fermentative	Human Human Gut Human Large intestine	Pathogenic	718
MMDBm0000016	Alcaligenes faecalis subsp. faecalis NBRC 13111	Eubacteria	Proteobacteria	Aerobe	Respiratory	Human Gut Human Lower respiratory tract	Non-pathogenic	807
MMDBm0000017	Alistipes	Eubacteria	Bacteroidetes	Anaerobic	Fermentative, Scfa producer, Putrefaction, Indole production, Histidine degradation, Gaba production, Sulfonolipid production, Anaerobic respiration, Sulfonolipid biosynthesis	Human Large intestine Human Bladder	Pathogenic	0
MMDBm0000018	Alistipes finegoldii DSM 17242	Eubacteria	Bacteroidetes	Anaerobe	Saccharolytic, fermentative	Human Gut Human Appendix	Pathogenic	646
MMDBm0000019	Alistipes shahii WAL 8301	Eubacteria	Bacteroidetes	Anaerobe	Saccharolytic, fermentative	Human Gut Human Appendix	Pathogenic	598
MMDBm0000020	Anaerococcus prevotii DSM 20548	Eubacteria	Firmicutes	Anaerobe	Not Available	Human Human Gut	Pathogenic	631
MMDBm0000021	Anaerostipes caccae	Eubacteria	Firmicutes	Anaerobe	Saccharolytic, fermentative, acetate and lactate converted to butyrate	Human Large intestine	Pathogenic	602
MMDBm0000022	Anaerostipes hadrus	Eubacteria	Firmicutes	Anaerobe	Saccharolytic, fermentative	Human Gut Human Large intestine	Pathogenic	42
MMDBm0000023	Arcobacter butzleri RM4018	Eubacteria	Proteobacteria	Aerobe	Non-fermentative, asaccharolytic	Human Human Gut	Non-pathogenic	665
MMDBm0000024	Bacillus altitudinis 41KF2b	Eubacteria	Firmicutes	Facultative anaerobe	Respiration or fermentation of carbohydrates and central metabolism intermediates	Human Gut	Non-pathogenic	836
MMDBm0000025	Bacillus amyloliquefaciens subsp. amyloliquefaciens DC-12	Eubacteria	Firmicutes	Aerobe	Respiration or fermentation of carbohydrates and central metabolism intermediates	Human Gut	Non-pathogenic	844

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