WikiBiomeThe human microbiome encyclopediaRanked matches across titles, topics, categories, and article introductions, filtered to microbe.
A Gram-negative, obligate anaerobic, mucin-degrading bacterium that colonizes the intestinal mucus layer and has emerged as one of the most important next-generation probiotics. A. muciniphila is consistently depleted in disease states associated with metal dyshomeostas…
A Gram-negative, obligate anaerobic genus within the Bacteroidetes phylum (family Rikenellaceae). Alistipes occupies a complex and context-dependent role in the gut ecosystem — some species carry well-documented anti-inflammatory properties, while the genus is paradoxic…
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
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.
This knowledge-base record is being expanded from WikiBiome’s evidence graph.
The leading bacterial cause of diarrheal disease worldwide, with an estimated 400-500 million cases annually. C. jejuni is notable in the metallomics context for possessing a nickel-dependent [NiFe] hydrogenase essential for colonization but lacking urease -- a striking…
A Gram-positive, spore-forming, obligate anaerobic bacterium that is the leading cause of antibiotic-associated diarrhea and pseudomembranous colitis in healthcare settings. In the metallomics framework, C. difficile sits at the intersection of metal-antibiotic co-selec…
Clostridium butyricum is a spore-forming, obligate anaerobic, Gram-positive bacterium and one of the leading next-generation probiotic candidates. The MIYAIRI 588 strain (CBM 588) is approved as a pharmaceutical probiotic in Japan and has expanding clinical evidence acr…
An encapsulated basidiomycete yeast that causes cryptococcal meningitis -- the leading cause of meningitis in HIV/AIDS patients and responsible for an estimated 180,000 deaths annually. Its nickel-dependent urease has been called the organism's "Achilles' heel" because …
The most abundant bacterium in the healthy human colon (5-15% of total fecal microbiota), F. prausnitzii is the premier butyrate producer in the gut and a cornerstone of anti-inflammatory intestinal homeostasis. Its depletion is one of the most consistent microbiome sig…
This page serves as the family-level hub for Lachnospiraceae, connecting the individual genus and species pages (roseburia, blautia, anaerostipes, eubacterium rectale) with the overarching ecological and metabolic framework that defines the family. For the primary entit…
The causative agent of tuberculosis (TB), the leading infectious disease killer worldwide (~1.3 million deaths annually). M. tuberculosis has an exceptionally complex metal biology: it deploys nickel-dependent hydrogenase and urease for intracellular survival, species-s…
Oscillibacter is a genus of Gram-negative, strictly anaerobic, motile bacteria within the family Oscillospiraceae (phylum Firmicutes). The type species, Oscillibacter valericigenes, was first isolated from the alimentary tract of a Japanese freshwater fish and named for…