methanothrix_medium

CultureMech:002604 archaea DEFINED LIQUID
Original name: METHANOTHRIX MEDIUM

Overview

External ontology
mediadive.medium:J243 (source link unavailable) — METHANOTHRIX MEDIUM
Applications
  • Microbial cultivation
pH
6.5
Notes
Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=243

Composition

flowchart LR
    CultureMech_002604["methanothrix_medium"]
    ing0_KH2PO4["KH2PO4"]
    CultureMech_002604 --> ing0_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing0_KH2PO4 -.-> CHEBI_63036
    ing1_NaCl["NaCl"]
    CultureMech_002604 --> ing1_NaCl
    CHEBI_26710["CHEBI:26710"]
    ing1_NaCl -.-> CHEBI_26710
    ing2_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
    CultureMech_002604 --> ing2_MgCl2_x_6_H2O
    CHEBI_86345["CHEBI:86345"]
    ing2_MgCl2_x_6_H2O -.-> CHEBI_86345
    ing3_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
    CultureMech_002604 --> ing3_CaCl2_x_2_H2O
    CHEBI_86158["CHEBI:86158"]
    ing3_CaCl2_x_2_H2O -.-> CHEBI_86158
    ing4_NH4Cl["NH4Cl"]
    CultureMech_002604 --> ing4_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing4_NH4Cl -.-> CHEBI_31206
    ing5_Sodium_acetate["Sodium acetate"]
    CultureMech_002604 --> ing5_Sodium_acetate
    CHEBI_32954["CHEBI:32954"]
    ing5_Sodium_acetate -.-> CHEBI_32954
    ing6_KHCO3["KHCO3"]
    CultureMech_002604 --> ing6_KHCO3
    CHEBI_81862["CHEBI:81862"]
    ing6_KHCO3 -.-> CHEBI_81862
    ing7_L_Cysteine_HCl_x_H2O["L-Cysteine HCl x H2O"]
    CultureMech_002604 --> ing7_L_Cysteine_HCl_x_H2O
    CHEBI_91248["CHEBI:91248"]
    ing7_L_Cysteine_HCl_x_H2O -.-> CHEBI_91248
    ing8_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_002604 --> ing8_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing8_Na2S_x_9_H2O -.-> CHEBI_76209
    ing9_Resazurin["Resazurin"]
    CultureMech_002604 --> ing9_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing9_Resazurin -.-> CHEBI_8806
    ing10_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
    CultureMech_002604 --> ing10_Nitrilotriacetic_acid
    CHEBI_44557["CHEBI:44557"]
    ing10_Nitrilotriacetic_acid -.-> CHEBI_44557
    ing11_FeCl3_x_6_H2O["FeCl3 x 6 H2O"]
    CultureMech_002604 --> ing11_FeCl3_x_6_H2O
    CHEBI_86254["CHEBI:86254"]
    ing11_FeCl3_x_6_H2O -.-> CHEBI_86254
    ing12_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002604 --> ing12_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing12_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing13_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_002604 --> ing13_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing13_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing14_ZnCl2["ZnCl2"]
    CultureMech_002604 --> ing14_ZnCl2
    CHEBI_49976["CHEBI:49976"]
    ing14_ZnCl2 -.-> CHEBI_49976
    ing15_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_002604 --> ing15_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing15_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing16_H3BO3["H3BO3"]
    CultureMech_002604 --> ing16_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing16_H3BO3 -.-> CHEBI_33118
    ing17_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
    CultureMech_002604 --> ing17_NiCl2_x_6_H2O
    CHEBI_34887["CHEBI:34887"]
    ing17_NiCl2_x_6_H2O -.-> CHEBI_34887
    ing18_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
    CultureMech_002604 --> ing18_Na2SeO3_x_5_H2O
    CHEBI_131361["CHEBI:131361"]
    ing18_Na2SeO3_x_5_H2O -.-> CHEBI_131361
    ing19_Biotin["Biotin"]
    CultureMech_002604 --> ing19_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing19_Biotin -.-> CHEBI_15956
    ing20_Folic_acid["Folic acid"]
    CultureMech_002604 --> ing20_Folic_acid
    CHEBI_27470["CHEBI:27470"]
    ing20_Folic_acid -.-> CHEBI_27470
    ing21_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
    CultureMech_002604 --> ing21_Pyridoxine_hydrochloride
    CHEBI_30961["CHEBI:30961"]
    ing21_Pyridoxine_hydrochloride -.-> CHEBI_30961
    ing22_Thiamine_HCl["Thiamine HCl"]
    CultureMech_002604 --> ing22_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing22_Thiamine_HCl -.-> CHEBI_49105
    ing23_Riboflavin["Riboflavin"]
    CultureMech_002604 --> ing23_Riboflavin
    CHEBI_17015["CHEBI:17015"]
    ing23_Riboflavin -.-> CHEBI_17015
    ing24_Nicotinic_acid["Nicotinic acid"]
    CultureMech_002604 --> ing24_Nicotinic_acid
    CHEBI_15940["CHEBI:15940"]
    ing24_Nicotinic_acid -.-> CHEBI_15940
    ing25_Calcium_pantothenate["Calcium pantothenate"]
    CultureMech_002604 --> ing25_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing25_Calcium_pantothenate -.-> CHEBI_31345
    ing26_Vitamin_B12["Vitamin B12"]
    CultureMech_002604 --> ing26_Vitamin_B12
    CHEBI_176843["CHEBI:176843"]
    ing26_Vitamin_B12 -.-> CHEBI_176843
    ing27_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
    CultureMech_002604 --> ing27_p_Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing27_p_Aminobenzoic_acid -.-> CHEBI_30753
    ing28_Lipoic_acid["Lipoic acid"]
    CultureMech_002604 --> ing28_Lipoic_acid
    CHEBI_16494["CHEBI:16494"]
    ing28_Lipoic_acid -.-> CHEBI_16494

Ingredients (29)

# Ingredient Concentration Ontology Notes
1 KH2PO4
H2O4P.K 136.084 g/mol
0.294118 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
2 NaCl
Cl.Na 58.443 g/mol
1.588235 G_PER_L CHEBI:26710
sodium chloride
 [Merged 2 duplicates: 0.588235, 1.0]
3 MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
0.0980392 G_PER_L CHEBI:86345
magnesium dichloride hexahydrate
4 CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
0.17843140000000002 G_PER_L CHEBI:86158
calcium chloride dihydrate
 [Merged 2 duplicates: 0.0784314, 0.1]
5 NH4Cl
Cl.H4N 53.492 g/mol
0.980392 G_PER_L CHEBI:31206
ammonium chloride
6 Sodium acetate
C2H3O2.Na 82.034 g/mol
6.66667 G_PER_L CHEBI:32954
sodium acetate
7 KHCO3
CHO3.K 100.114 g/mol
3.92157 G_PER_L CHEBI:81862
potassium hydrogencarbonate
8 L-Cysteine HCl x H2O
C3H7NO2S.H2O.HCl 175.637 g/mol
0.490196 G_PER_L CHEBI:91248
L-cysteine hydrochloride hydrate
9 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
0.490196 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
10 Resazurin
C12H7NO4 229.191 g/mol
0.000980392 G_PER_L CHEBI:8806
Resazurin
11 Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
12.8 G_PER_L CHEBI:44557
nitrilotriacetic acid
12 FeCl3 x 6 H2O
Cl3Fe.6H2O 270.294 g/mol
1.35 G_PER_L CHEBI:86254
iron trichloride hexahydrate
13 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.1 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
14 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.024 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
15 ZnCl2
2Cl.Zn 136.296 g/mol
0.1 G_PER_L CHEBI:49976
zinc dichloride
16 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.025 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
17 H3BO3
H3BO3 61.833 g/mol
0.01 G_PER_L CHEBI:33118
boric acid
18 NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
0.12 G_PER_L CHEBI:34887
nickel dichloride
19 Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
0.026 G_PER_L CHEBI:131361
disodium selenite pentahydrate
20 Biotin
C10H16N2O3S 244.316 g/mol
0.002 G_PER_L CHEBI:15956
biotin
21 Folic acid
C19H19N7O6 441.404 g/mol
0.002 G_PER_L CHEBI:27470
folic acid
22 Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
0.01 G_PER_L CHEBI:30961
pyridoxine hydrochloride
23 Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
0.005 G_PER_L CHEBI:49105
thiamine hydrochloride
24 Riboflavin
C17H20N4O6 376.369 g/mol
0.005 G_PER_L CHEBI:17015
riboflavin
25 Nicotinic acid
C6H5NO2 123.111 g/mol
0.005 G_PER_L CHEBI:15940
nicotinic acid
26 Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.005 G_PER_L CHEBI:31345
Calcium pantothenate
27 Vitamin B12 0.0001 G_PER_L CHEBI:176843
vitamin B12
28 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.005 G_PER_L CHEBI:30753
4-aminobenzoic acid
29 Lipoic acid
C8H14O2S2 206.332 g/mol
0.005 G_PER_L CHEBI:16494
lipoic acid

Preparation

  1. Mix ingredients, except Trace vitamins, KHCO3, L-cysteine x HCl x H2O and Na2S x 9H2O, and adjust pH to 7.0. Bring to a boil for 5-10 sec, then, cool down under a stream of N2-CO2 (80:20) and add KHCO3. Dispense the medium into suitable culture vessels (e.g., 50 ml of the medium in 120 ml serum bottles) under a stream of N2-CO2 (80:20) and seal with butyl rubber stoppers. After autoclaving, stand the medium overnight. Separately autoclave cysteine x HCl and Na2S x 9H2O as 5% solutions, respectively, under a N2 atmosphere. Filter-sterilize Trace vitamins under a N2 atmosphere. Prior to inoculation, aseptically and anaerobically add Trace vitamins, L-cysteine x HCl x H2O and Na2S x 9H2O solutions. Pressurize the inoculated bottles to 100 kPa N2-CO2 (80:20).
  2. Dissolve nitrilotriacetic acid first in 200 ml of distilled water, and adjust pH to 6.5 with KOH. Then add the remaining salts and adjust volume to 1.0 L. Readjust pH to 7.0 with KOH.
  3. Comment: For strain JCM 10134, incubate with a 10-20% inoculum.

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:16.068256Z mediadive-import Imported from MediaDive Source: JCM, ID: J243
2026-03-13T03:09:17.588370Z data-quality-cleanup-v1.0 Data quality fixes Merged 2 duplicate ingredient(s)
2026-03-13T06:19:14.493564Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002604
2026-03-17T06:30:25.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:27.765239+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "METHANOTHRIX MEDIUM" to "methanothrix_medium" for consistent matching
2026-06-05T07:40:16.903549+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 29 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:46:42.854658+00:00 primary-term-label-canonicalization-v1.0 Canonicalized primary term label to OBO canonical (OAK) 3 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.