Mechanisms5 sources
Arachidonic Acid
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Search: “IDO”
Ranked matches across titles, topics, categories, and article introductions.
54 records in this view
Microorganisms10 sources
Bacteroidetes (Bacteroidota)
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Microorganisms4 sources
Bifidobacteriaceae
Bifidobacteriaceae is the family containing bifidobacterium and related genera (alloscardovia). It is the dominant family in the healthy infant gut and a significant commensal family in adults. Family-level depletion is documented in ASD (marked reduction of Actinobacte…
Microorganisms3 sources
Bifidobacteriales
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Microorganisms6 sources
Bifidobacterium
A genus of Gram-positive, obligate anaerobic bacteria that dominate the infant gut microbiome and remain important commensals throughout life. Bifidobacterium species are distinctive in the metallomics context because some species possess Ni-dependent urease -- an unusu…
Microorganisms3 sources
Bifidobacterium adolescentis
Bifidobacterium adolescentis is a Gram-positive, obligate anaerobic species within the phylum Actinobacteria and the dominant Bifidobacterium species in the adult human gut. It is a specialist degrader of resistant starch and dietary fiber, producing acetate and lactate…
Microorganisms4 sources
Bifidobacterium bifidum
Bifidobacterium bifidum is an obligate anaerobic, Gram-positive species that specializes in human milk oligosaccharide (HMO) and mucin glycan degradation. It is one of the earliest colonizers of the infant gut and a widely used probiotic species.
Microorganisms5 sources
Bifidobacterium breve
Bifidobacterium breve is a Gram-positive, obligate anaerobic species within the phylum Actinobacteria, predominantly found in the infant gut and breast milk. It is among the earliest colonizers of the neonatal intestine and plays a key role in human milk oligosaccharide…
Microorganisms5 sources
Bifidobacterium infantis
Bifidobacterium longum subsp. infantis (commonly called B. infantis) is the premier human milk oligosaccharide (HMO)-utilizing bacterium and the dominant species in the breastfed infant gut. It drives immune maturation, Treg induction, and pathogen exclusion in early li…
Microorganisms6 sources
Bifidobacterium longum
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Microorganisms6 sources
Lactobacillus acidophilus
Lactobacillus acidophilus is one of the most widely used probiotic species, with clinical trial evidence spanning multiple conditions. It is a component of many multi-strain probiotic formulations and has been tested in RCTs for schizophrenia, breast cancer chemotherapy…
Mechanisms3 sources
Peptidoglycan
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Interventions0 sources
Probiotics (Lactobacillus + Bifidobacterium) for PCOS
Research summary — not medical advice. This page synthesizes published research on a mechanism-level intervention. It is not a clinical recommendation. Consult a qualified healthcare provider before making any changes to diet, supplementation, or treatment.
Mechanisms4 sources
Acetate
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Microorganisms10 sources
Actinobacteria (Actinomycetota)
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Microorganisms3 sources
Alloscardovia
Alloscardovia is a genus of anaerobic, Gram-positive bacteria in the family Bifidobacteriaceae (phylum Actinobacteria). The primary species is A. omnicolens, which colonizes the human urogenital tract. In the WikiBiome vault, Alloscardovia appears exclusively in endomet…
Mechanisms4 sources
Bile Salt Hydrolase (BSH)
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Interventions0 sources
Breast Milk and Human Milk Oligosaccharides (HMOs) for NEC Prevention
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Mechanisms6 sources
COX-2 (Cyclooxygenase-2)
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Diseases10 sources
Depression
Depression is the most prevalent mental health disorder globally, affecting over 280 million people zhu 2025 microbiota gut brain axis depression review, and one of the most metal-sensitive conditions in this wiki. It sits at the convergence of nearly every pathway cata…
Mechanisms8 sources
GABA (Gamma-Aminobutyric Acid)
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Reference0 sources
Glossary
Alphabetical definitions of specialist terms used throughout this wiki. Where a full concept page exists, the term links to it. --- AhR (aryl hydrocarbon receptor) -- A ligand-activated transcription factor that senses microbial metabolites (especially indoles from tryp…
Diseases10 sources
Graves' Disease
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Mechanisms10 sources
Gut Barrier Dysfunction
Gut barrier dysfunction -- colloquially "leaky gut" -- is the pathological increase in intestinal permeability that permits translocation of bacteria, bacterial products (LPS, peptidoglycan), metals, and dietary antigens from the gut lumen into the systemic circulation.…
Mechanisms4 sources
Human Milk Oligosaccharides (HMOs)
Human milk oligosaccharides are a diverse family of over 200 structurally distinct complex sugars found in breast milk. They are the third most abundant solid component of human milk (after lactose and lipids), yet they are not digestible by the infant. Their sole purpo…
Host defenses5 sources
IFN-gamma (Interferon Gamma)
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Other0 sources
Intestinibacter
--- title: Intestinibacter type: entity subtype: microbe created: 2026-04-10 updated: 2026-04-16 lastsubstantiveupdate: 2026-04-16 sources: [dai-2024-gut-microbiota-cvd-bidirectional-mr, xiang-2023-host-gene-microbiome-crc-mr, wu-2017-metformin-gut-microbiome-t2d-nature…
Entity indexes10 sources
Kynurenine
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Mechanisms10 sources
Kynurenine Pathway
The kynurenine pathway (KP) is the dominant route of tryptophan catabolism, accounting for approximately 95% of dietary tryptophan degradation. It produces a cascade of neuroactive, immunomodulatory, and potentially neurotoxic metabolites whose balance determines whethe…
Microorganisms5 sources
Lactobacillaceae
Lactobacillaceae is the family containing the genus lactobacillus and related genera. It is the dominant family in the healthy vaginal microbiome and a significant family in the gut. Family-level depletion is reported across schizophrenia szeligowski 2020 gut microbiome…
Interventions0 sources
Low-Red-Meat Diet for Endometriosis
Research summary — not medical advice. This page synthesizes published research on a mechanism-level intervention. It is not a clinical recommendation. Consult a qualified healthcare provider before making any changes to diet, supplementation, or treatment.
Mechanisms14 sources
Mendelian Randomization
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Entity indexes8 sources
Metformin
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Microorganisms7 sources
Mortierella
Mortierella is a genus of soil-dwelling fungi in the phylum Mortierellomycota (formerly placed in Zygomycota). While primarily known as environmental saprotrophs, Mortierella species have recently been identified as residents of the human gut mycobiome -- the fungal com…
Diseases18 sources
Necrotizing Enterocolitis
Necrotizing enterocolitis (NEC) is the most common and lethal gastrointestinal emergency in premature infants, affecting 5-12% of very low birth weight neonates (<1500 g) with mortality rates of 20-30%. Characterized by intestinal inflammation, necrosis, and perforation…
Microorganisms12 sources
Odoribacter
Odoribacter splanchnicus is a Gram-negative, obligate anaerobic bacterium belonging to the family Odoribacteraceae within the phylum Bacteroidota (formerly Bacteroidetes). It is a commensal resident of the human colon recognized primarily as a producer of short chain fa…
Other0 sources
Parvimonas
--- title: Parvimonas type: entity subtype: microbe created: 2026-04-10 updated: 2026-04-16 lastsubstantiveupdate: 2026-04-16 sources: [qin-2024-consistent-microbiome-signatures-old-young-onset-crc, saito-2019-metagenomic-gut-microbiota-colorectal-adenoma, wu-2021-micro…
Microorganisms4 sources
Phocaeicola
A Gram-negative, obligate anaerobic genus within the phylum Bacteroidota (formerly Bacteroidetes) that was recently reclassified from Bacteroides based on phylogenomic evidence (Garcia-Lopez et al., 2019). The key species -- Phocaeicola vulgatus (formerly Bacteroides vu…
Mechanisms5 sources
Polyunsaturated Fatty Acids (PUFAs)
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Diseases13 sources
Postpartum Depression
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Mechanisms3 sources
Prebiotics
Non-digestible food substrates that selectively stimulate the growth and/or activity of beneficial gut microorganisms, conferring health benefits to the host. Distinct from probiotics (live organisms) and postbiotics (microbial metabolic products), prebiotics act as fue…
Interventions0 sources
Prebiotics (Inulin + FOS) for PCOS
Research summary — not medical advice. This page synthesizes published research on a mechanism-level intervention. It is not a clinical recommendation. Consult a qualified healthcare provider before making any changes to diet, supplementation, or treatment.
Microorganisms3 sources
Prevotellaceae
A family of Gram-negative, obligate anaerobic bacteria within the phylum Bacteroidota (formerly Bacteroidetes) that includes the genus prevotella and the recently described alloprevotella. Prevotellaceae are specialist fiber fermenters producing short-chain fatty acids,…
Interventions5 sources
Probiotics for ASD Dysbiosis
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Interventions2 sources
Probiotics with PPI Therapy for GERD
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
Mechanisms3 sources
Quinolinic Acid
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Mechanisms3 sources
Saccharolytic Fermentation
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Clinical cautions6 sources
STOP: Iron Supplementation for Depression-Associated Low Serum Metals
Harm potential: YELLOW — True iron deficiency anemia requires supplementation regardless of inflammatory state.
Clinical cautions4 sources
STOP: Long-Term PPI Monotherapy Without Microbiome Support in GERD
Harm potential: GREEN — PPIs remain appropriate first-line therapy; this STOP recommends co-administration of probiotics, not PPI avoidance.
Analyses0 sources
The Nickel Restriction / Commensal Casualty
Restricting dietary nickel has clear benefits for nickel-sensitive individuals: it resolves SNAS symptoms, improves Ni ACM, and even enhances H. pylori eradication. Campanale et al. (2014) found that adding a nickel-free diet to standard triple therapy increased H. pylo…
Analyses0 sources
The Probiotic Metal Sponge
Probiotics protect the gut barrier from heavy metal toxicity. Zhai et al. (2016) demonstrated that L. plantarum CCFM8610 protected intestinal epithelial cells from cadmium through a four-part mechanism: metal sequestration in the gut lumen, alleviation of oxidative stre…
Mechanisms15 sources
Tryptophan
Tryptophan (Trp) is an essential amino acid that the human body cannot synthesize and must obtain from diet. It occupies a uniquely important position at the intersection of neuroscience, immunology, and microbial ecology because it is the sole precursor to serotonin, a…
Mechanisms9 sources
Tryptophan Metabolism
Tryptophan (Trp) is an essential amino acid metabolized via three competing pathways: the kynurenine pathway, the serotonin pathway, and the microbial indole pathway. The balance among these pathways is profoundly influenced by the gut microbiome, inflammation, and meta…
Diseases10 sources
Type 1 Diabetes
This knowledge-base record is being expanded from WikiBiome’s evidence graph.