rumen_bacteria_medium

CultureMech:007610 bacterial COMPLEX LIQUID
Original name: Rumen Bacteria Medium

Overview

External ontology
TOGO:M1093 — Rumen Bacteria Medium
Applications
  • Microbial cultivation
Notes
Source: https://togomedium.org/medium/M1093 Original source: JCM - JCM_M1029 Original URL: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=1029

Composition

flowchart LR
    CultureMech_007610["rumen_bacteria_medium"]
    ing0_Distilled_water["Distilled water"]
    CultureMech_007610 --> ing0_Distilled_water
    CHEBI_15377["CHEBI:15377"]
    ing0_Distilled_water -.-> CHEBI_15377
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_007610 --> ing1_Yeast_extract
    ing2_K2HPO4["K2HPO4"]
    CultureMech_007610 --> ing2_K2HPO4
    CHEBI_131527["CHEBI:131527"]
    ing2_K2HPO4 -.-> CHEBI_131527
    ing3_Resazurin["Resazurin"]
    CultureMech_007610 --> ing3_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing3_Resazurin -.-> CHEBI_8806
    ing4_Na2S_9H2O["Na2S・9H2O"]
    CultureMech_007610 --> ing4_Na2S_9H2O
    CHEBI_76209["CHEBI:76209"]
    ing4_Na2S_9H2O -.-> CHEBI_76209
    ing5_Na2CO3["Na2CO3"]
    CultureMech_007610 --> ing5_Na2CO3
    CHEBI_29377["CHEBI:29377"]
    ing5_Na2CO3 -.-> CHEBI_29377
    ing6_Glycerol["Glycerol"]
    CultureMech_007610 --> ing6_Glycerol
    CHEBI_17754["CHEBI:17754"]
    ing6_Glycerol -.-> CHEBI_17754
    ing7_Cellobiose["Cellobiose"]
    CultureMech_007610 --> ing7_Cellobiose
    CHEBI_17057["CHEBI:17057"]
    ing7_Cellobiose -.-> CHEBI_17057
    ing8_Maltose["Maltose"]
    CultureMech_007610 --> ing8_Maltose
    CHEBI_18167["CHEBI:18167"]
    ing8_Maltose -.-> CHEBI_18167
    ing9_Hemin["Hemin"]
    CultureMech_007610 --> ing9_Hemin
    CHEBI_50385["CHEBI:50385"]
    ing9_Hemin -.-> CHEBI_50385
    ing10_Glucose["Glucose"]
    CultureMech_007610 --> ing10_Glucose
    CHEBI_17234["CHEBI:17234"]
    ing10_Glucose -.-> CHEBI_17234
    ing11_Starch__soluble["Starch, soluble"]
    CultureMech_007610 --> ing11_Starch__soluble
    ing12_Trypticase_peptone__BD_BBL_["Trypticase peptone (BD-BBL)"]
    CultureMech_007610 --> ing12_Trypticase_peptone__BD_BBL_
    ing13_L__Cysteine_HCl_H2O["L--Cysteine・HCl・H2O"]
    CultureMech_007610 --> ing13_L__Cysteine_HCl_H2O
    CHEBI_91248["CHEBI:91248"]
    ing13_L__Cysteine_HCl_H2O -.-> CHEBI_91248
    ing14_CO2["CO2"]
    CultureMech_007610 --> ing14_CO2
    CHEBI_16526["CHEBI:16526"]
    ing14_CO2 -.-> CHEBI_16526
    ing15_MgSO4_7H2O["MgSO4・7H2O"]
    CultureMech_007610 --> ing15_MgSO4_7H2O
    CHEBI_31795["CHEBI:31795"]
    ing15_MgSO4_7H2O -.-> CHEBI_31795
    ing16_NaCl["NaCl"]
    CultureMech_007610 --> ing16_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing16_NaCl -.-> CHEBI_26710
    ing17_CaCl2_2H2O["CaCl2・2H2O"]
    CultureMech_007610 --> ing17_CaCl2_2H2O
    CHEBI_86158["CHEBI:86158"]
    ing17_CaCl2_2H2O -.-> CHEBI_86158
    ing18_KH2PO4["KH2PO4"]
    CultureMech_007610 --> ing18_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing18_KH2PO4 -.-> CHEBI_63036
    ing19__NH4_2SO4["(NH4)2SO4"]
    CultureMech_007610 --> ing19__NH4_2SO4
    CHEBI_62946["CHEBI:62946"]
    ing19__NH4_2SO4 -.-> CHEBI_62946

Ingredients (20)

# Ingredient Concentration Ontology Notes
1 Distilled water
H2O 18.015 g/mol
961.0 G_PER_L CHEBI:15377
water
 Role: Solvating media; Properties: Inorganic compound, Defined component, Simple component [Merged 2 duplicates: 960.0, 1.0]
2 Yeast extract 0.5 G_PER_L Role: Nutrient source; Properties: Undefined component
3 K2HPO4
HO4P.2K 174.174 g/mol
0.3 G_PER_L CHEBI:131527
dipotassium hydrogen phosphate
 Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
4 Resazurin
C12H7NO4 229.191 g/mol
1 G_PER_L CHEBI:8806
Resazurin
 Role: pH dependent redox indicator; Properties: Organic compound, Defined component, Simple component
5 Na2S・9H2O
9H2O.2Na.S 240.182 g/mol
0.25 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
 Role: Reducing agent; Properties: Inorganic compound, Defined component, Simple component
6 Na2CO3
CO3.2Na 105.988 g/mol
4 G_PER_L CHEBI:29377
sodium carbonate
 Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
7 Glycerol
C3H8O3 92.094 g/mol
0.5 G_PER_L CHEBI:17754
glycerol
 Role: Carbon source; Properties: Organic compound, Defined component, Simple component
8 Cellobiose
C12H22O11 342.297 g/mol
0.5 G_PER_L CHEBI:17057
cellobiose
 Role: Carbon source; Properties: Organic compound, Defined component, Simple component
9 Maltose
C12H22O11 342.297 g/mol
0.5 G_PER_L CHEBI:18167
alpha-maltose
 Role: Carbon source; Properties: Organic compound, Defined component, Simple component
10 Hemin
C34H32ClFeN4O4 651.952 g/mol
1 G_PER_L CHEBI:50385
hemin
 Role: Growth factor; Properties: Organic compound, Defined component, Simple component
11 Glucose
C6H12O6 180.156 g/mol
0.5 G_PER_L CHEBI:17234
glucose
 Role: Carbon source; Properties: Organic compound, Defined component, Simple component
12 Starch, soluble 0.5 G_PER_L Role: Carbon source; Properties: Undefined component
13 Trypticase peptone (BD-BBL) 2 G_PER_L Properties: Undefined component
14 L--Cysteine・HCl・H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
0.25 G_PER_L CHEBI:91248
L-cysteine hydrochloride hydrate
 Properties: Defined component, Simple component, Organic compound
15 CO2
CO2 44.009 g/mol
variable VARIABLE CHEBI:16526
carbon dioxide
 Properties: Gas
16 MgSO4・7H2O
7H2O.Mg.O4S 246.473 g/mol
2.5 G_PER_L CHEBI:31795
magnesium sulfate heptahydrate
 Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
17 NaCl
Cl.Na 58.443 g/mol
12 G_PER_L CHEBI:26710
sodium chloride
 Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
18 CaCl2・2H2O
Ca.2Cl.2H2O 147.014 g/mol
1.6 G_PER_L CHEBI:86158
calcium chloride dihydrate
 Role: Mineral source; Properties: Inorganic compound, Defined component, Simple component
19 KH2PO4
H2O4P.K 136.084 g/mol
6 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
 Role: Buffer; Properties: Inorganic compound, Defined component, Simple component
20 (NH4)2SO4
2H4N.O4S 132.141 g/mol
6 G_PER_L CHEBI:62946
ammonium sulfate
 Role: Nitrogen source; Properties: Inorganic compound, Defined component, Simple component

Solutions

Mineral solution (see below)

Dose: 38 G_PER_L

VFA solution (see Medium [M124])

Dose: 3.1 G_PER_L

Cross-reference to Medium M124

Target organisms

No target organisms are recorded.

Provenance

Merged from 1 source record.

TimestampCuratorActionNotes
2026-01-27T06:35:53.899955Z togo-import Imported from TOGO Medium Source: JCM, ID: M1093
2026-01-28T19:48:17.407611Z chebi-enrichment Added CHEBI ontology terms to ingredients Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-02-03T00:00:00+00:00 schema-defaulter-v1.0 Applied schema defaults and normalizations Added default concentration for ingredient: CO2
2026-03-09T08:04:28.836541+00:00 solution-migrator-v1.0 Migrated solutions from ingredients to solutions array Moved 2 solution(s) from ingredients
2026-03-13T03:08:57.647135Z data-quality-cleanup-v1.0 Data quality fixes Merged 1 duplicate ingredient(s)
2026-03-13T06:19:50.032954Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:007610
2026-03-14T00:00:00+00:00 schema-defaulter-v1.0 Applied schema defaults and normalizations Added default solution name; Added default solution name
2026-03-17T06:30:02.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:08.391464+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "Rumen Bacteria Medium" to "rumen_bacteria_medium" for consistent matching
2026-05-16T09:03:07.483480+00:00 migrate_legacy_fields.py MIGRATED_LEGACY_FIELDS curation_history.date->timestamp=2
2026-06-05T07:40:30.338035+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 12 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-08T23:19:29.865286+00:00 chebi-regrounding-v1.0 Corrected CHEBI ingredient grounding (audit G21/G22) Re-grounded 2 term reference(s) to the correct CHEBI (see reports/chebi_grounding_audit.md). Label-conditional fixes for pyridoxine/pyridoxamine, glycerol, MnSO4, Ca(NO3)2, selenate; casamino acids de-grounded (mixture, no single CHEBI).
2026-06-10T06:57:21.148923+00:00 mgso4-heptahydrate-term-fix-v1.0 Corrected MgSO4·7H2O primary term grounding to heptahydrate Re-grounded 1 heptahydrate-labelled ingredient(s) from CHEBI:32599 (generic magnesium sulfate) to CHEBI:31795 (magnesium sulfate heptahydrate). Generic/hexahydrate labels untouched.
2026-06-10T07:46:46.879682+00:00 primary-term-label-canonicalization-v1.0 Canonicalized primary term label to OBO canonical (OAK) 4 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-08-06T03:05:05.635500+00:00 merge_recipes.py MERGED_RECIPES merged 1 source recipe(s) on fingerprint 1f7aaf48ada5af5ab6eac1e0494c887615b28cb7974025386983ca49b82b6d85