{"query": "Bacteria — a domain of life", "count": 20, "results": [{"id": "card_tol_domain_bacteria", "title": "Bacteria — a domain of life", "shelf": "codex", "surface": "secular", "snippet": "Bacteria: the prokaryotes without a nucleus; E. coli, cyanobacteria, the gut flora. A primary branch of the tree of life, descended from the last universal common ancestor; the universal genes below a", "authority_tier": "reference", "source": "the tree of life (molecular phylogenetics; Woese 1990)", "readable": false, "generated": false}, {"id": "card_theory_biological_nitrogen_fixation", "title": "Crop rotation & biological nitrogen fixation (the low-input path)", "shelf": "theories", "surface": "secular", "snippet": "Crop rotation & biological nitrogen fixation (the low-input path) — an engine domain that can touch it: agriculture. Calibration: map-only — rotation effects are empirical; nutrient budgets compute. L", "authority_tier": "reference", "source": "The Theory Assay — calibrated, not judged (docs/THEORY_CATALOG.md)", "readable": false, "generated": false}, {"id": "card_theory_scaling_laws", "title": "Scaling laws & allometry (Kleiber's law, the square-cube)", "shelf": "theories", "surface": "secular", "snippet": "Scaling laws & allometry (Kleiber's law, the square-cube) — an engine domain that can touch it: biology. Calibration: seals — scaling exponents and ratios compute exactly. Size is not neutral: when a ", "authority_tier": "reference", "source": "The Theory Assay — calibrated, not judged (docs/THEORY_CATALOG.md)", "readable": false, "generated": false}, {"id": "card_theory_antibiotics_resistance", "title": "Antibiotics & antimicrobial resistance (Fleming's own warning)", "shelf": "theories", "surface": "secular", "snippet": "Antibiotics & antimicrobial resistance (Fleming's own warning) — an engine domain that can touch it: medicine. Calibration: map-only — dosing computes (see pharmacokinetics); resistance dynamics are e", "authority_tier": "reference", "source": "The Theory Assay — calibrated, not judged (docs/THEORY_CATALOG.md)", "readable": false, "generated": false}, {"id": "card_theory_symbiosis", "title": "Symbiosis & endosymbiosis (cooperation as a major transition)", "shelf": "theories", "surface": "secular", "snippet": "Symbiosis & endosymbiosis (cooperation as a major transition) — an engine domain that can touch it: biology. Calibration: map-only — historical and empirical. Different species living together, from m", "authority_tier": "reference", "source": "The Theory Assay — calibrated, not judged (docs/THEORY_CATALOG.md)", "readable": false, "generated": false}, {"id": "card_theory_evolutionary_game_theory__evolutionarily_stable_stra", "title": "Evolutionary game theory (evolutionarily stable strategies)", "shelf": "theories", "surface": "secular", "snippet": "Evolutionary game theory (evolutionarily stable strategies) — an engine domain that can touch it: biology. Calibration: map-only — stability conditions compute; the biology is empirical. Maynard Smith", "authority_tier": "reference", "source": "The Theory Assay — calibrated, not judged (docs/THEORY_CATALOG.md)", "readable": false, "generated": false}, {"id": "card_src_book_43015", "title": "Bacteria in Daily Life — Grace C. Frankland", "shelf": "gutenberg", "surface": "secular", "snippet": "Bacteria in Daily Life, by Grace C. Frankland. Subjects: Bacteriology. Read the full text (public domain): https://www.gutenberg.org/ebooks/43015", "authority_tier": "reference", "source": "Project Gutenberg (public domain)", "readable": true, "generated": false}, {"id": "card_water_storing", "title": "Storing water so it stays safe", "shelf": "water", "surface": "secular", "snippet": "Use clean, FOOD-GRADE containers (commercial water jugs, or well-scrubbed food buckets) — never old milk or juice jugs, whose sugars and proteins can't be fully cleaned and will grow bacteria. Fill wi", "authority_tier": "reference", "source": "CDC water safety & storage guidance (U.S. government, public domain)", "readable": false, "generated": false}, {"id": "card_water_filters", "title": "Filters — what each kind actually removes", "shelf": "water", "surface": "secular", "snippet": "Not all filters do the same job. SEDIMENT/cloth filters remove dirt and grit only. CERAMIC and HOLLOW-FIBER (0.1–0.2 micron) filters remove bacteria and protozoa (giardia, crypto) but usually NOT viru", "authority_tier": "reference", "source": "U.S. EPA drinking-water guidance (public domain)", "readable": false, "generated": false}, {"id": "card_herb_herb_thyme", "title": "Thyme — the apothecary", "shelf": "apothecary", "surface": "secular", "snippet": "Thyme (Thymus vulgaris)\n\nThyme has mixed evidence for cough/bronchitis support. Thymol is genuinely antimicrobial in vitro. Don't substitute for medical care in serious infections.\n\nPARTS USED\n  · lea", "authority_tier": "reference", "source": "Apothecary monograph — tradition recorded, evidence marked as found", "readable": false, "generated": false}, {"id": "card_span_a87b97125c60", "title": "Fig. 41.—Uniform tomatoes together. |", "shelf": "sources", "surface": "secular", "snippet": "quickly cools the water. A slender-pointed knife is useful for — \npeeling and coring. \n\n4. Blanching consists of plunging the vegetable or fruit into \na large amount of boiling water for a short time.", "authority_tier": "primary_pd", "source": "Successful Canning and Preserving (Powell, 1917)", "readable": true, "generated": false}, {"id": "card_span_a0e64a83f023", "title": "PROCESSING—HOT-WATER BATH", "shelf": "sources", "surface": "secular", "snippet": "PROCESSING 1s the term applied to the operation of sterilizing \nor heating to destroy bacteria so that the canned goods will keep. \n\nAll fruits and juicy vegetables are better in color and \ntexture if", "authority_tier": "primary_pd", "source": "Successful Canning and Preserving (Powell, 1917)", "readable": true, "generated": false}, {"id": "card_floor_tree_of_life", "title": "The tree of life — chains from LUCA, homologous genes where domains meet", "shelf": "codex", "surface": "secular", "snippet": "The tree of life as a floor on the one map, the exact parallel of the Indo-European floor. The floor is LUCA, the last universal common ancestor. The trees are the three DOMAINS (Bacteria, Archaea, Eu", "authority_tier": "engine_derived", "source": "Narrow Highway — the tree of life (molecular phylogenetics)", "readable": false, "generated": false}, {"id": "card_tol_domain_archaea", "title": "Archaea — a domain of life", "shelf": "codex", "surface": "secular", "snippet": "Archaea: prokaryotes distinct from bacteria; methanogens, halophiles, thermophiles - Woese's third domain. A primary branch of the tree of life, descended from the last universal common ancestor; the ", "authority_tier": "reference", "source": "the tree of life (molecular phylogenetics; Woese 1990)", "readable": false, "generated": false}, {"id": "card_gene_atp_synthase", "title": "ATP synthase — a universal gene (a homolog across the domains)", "shelf": "codex", "surface": "secular", "snippet": "ATP synthase: the rotary enzyme that makes ATP from a proton gradient (F-type / A-type / V-type). Found in Bacteria, Archaea, Eukaryota - a homologous gene descended from a single ancestral gene in LU", "authority_tier": "reference", "source": "molecular phylogenetics; universal homologs of LUCA", "readable": false, "generated": false}, {"id": "card_gene_ef_tu", "title": "elongation factor (EF-Tu / EF-1alpha) — a universal gene (a homolog across the domains)", "shelf": "codex", "surface": "secular", "snippet": "elongation factor (EF-Tu / EF-1alpha): delivers each aminoacyl-tRNA to the ribosome during translation. Found in Bacteria, Archaea, Eukaryota - a homologous gene descended from a single ancestral gene", "authority_tier": "reference", "source": "molecular phylogenetics; universal homologs of LUCA", "readable": false, "generated": false}, {"id": "card_gene_ssu_rrna", "title": "small-subunit ribosomal RNA — a universal gene (a homolog across the domains)", "shelf": "codex", "surface": "secular", "snippet": "small-subunit ribosomal RNA: the RNA core of the small ribosomal subunit (16S in prokaryotes, 18S in eukaryotes). Found in Bacteria, Archaea, Eukaryota - a homologous gene descended from a single ance", "authority_tier": "reference", "source": "molecular phylogenetics; universal homologs of LUCA", "readable": false, "generated": false}, {"id": "card_gene_aars", "title": "aminoacyl-tRNA synthetases — a universal gene (a homolog across the domains)", "shelf": "codex", "surface": "secular", "snippet": "aminoacyl-tRNA synthetases: charge each tRNA with its correct amino acid - the enzymes that READ the genetic code. Found in Bacteria, Archaea, Eukaryota - a homologous gene descended from a single anc", "authority_tier": "reference", "source": "molecular phylogenetics; universal homologs of LUCA", "readable": false, "generated": false}, {"id": "card_src_taxon_200795", "title": "Chloroflexota — GNS bacteria", "shelf": "taxonomy", "surface": "secular", "snippet": "GNS bacteria (Chloroflexota) — a phylum. In the tree of life under Bacillati. Also known as: GNS bacteria, green non-sulfur bacteria.", "authority_tier": "reference", "source": "NCBI Taxonomy (public domain)", "readable": false, "generated": false}, {"id": "card_src_taxon_1106", "title": "Chloroflexaceae — filamentous anoxygenic phototrophic bacteria", "shelf": "taxonomy", "surface": "secular", "snippet": "filamentous anoxygenic phototrophic bacteria (Chloroflexaceae) — a family. In the tree of life under Chloroflexineae. Also known as: filamentous anoxygenic phototrophic bacteria, photosynthetic flexib", "authority_tier": "reference", "source": "NCBI Taxonomy (public domain)", "readable": false, "generated": false}], "house": {"door": "FIND", "kind": "cards", "trail": "results", "seal": null, "next_step": {"do": "open the top card", "door": "FIND", "tool": "card_get", "params": {"id": "card_tol_domain_bacteria"}}, "ends": "a verdict or a card · the trail · a seal · one next step"}}