acetobacterium_submarinus_medium

CultureMech:002759 bacterial COMPLEX LIQUID
Original name: ACETOBACTERIUM SUBMARINUS MEDIUM

Overview

External ontology
mediadive.medium:J403 (source link unavailable) — ACETOBACTERIUM SUBMARINUS MEDIUM
Applications
  • Microbial cultivation
pH
7.0
High-metal flag
True
Notes
Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=403

Composition

flowchart LR
    CultureMech_002759["acetobacterium_submarinus_medium"]
    ing0_Sea_Salt["Sea Salt"]
    CultureMech_002759 --> ing0_Sea_Salt
    ing1_Yeast_extract["Yeast extract"]
    CultureMech_002759 --> ing1_Yeast_extract
    ing2_Na2WO4_x_2_H2O["Na2WO4 x 2 H2O"]
    CultureMech_002759 --> ing2_Na2WO4_x_2_H2O
    CHEBI_63939["CHEBI:63939"]
    ing2_Na2WO4_x_2_H2O -.-> CHEBI_63939
    ing3_Na2SeO4["Na2SeO4"]
    CultureMech_002759 --> ing3_Na2SeO4
    CHEBI_77775["CHEBI:77775"]
    ing3_Na2SeO4 -.-> CHEBI_77775
    ing4_Sodium_acetate["Sodium acetate"]
    CultureMech_002759 --> ing4_Sodium_acetate
    CHEBI_32954["CHEBI:32954"]
    ing4_Sodium_acetate -.-> CHEBI_32954
    ing5_Methylamine["Methylamine"]
    CultureMech_002759 --> ing5_Methylamine
    CHEBI_16830["CHEBI:16830"]
    ing5_Methylamine -.-> CHEBI_16830
    ing6_Sodium_formate["Sodium formate"]
    CultureMech_002759 --> ing6_Sodium_formate
    CHEBI_62965["CHEBI:62965"]
    ing6_Sodium_formate -.-> CHEBI_62965
    ing7_Methanol["Methanol"]
    CultureMech_002759 --> ing7_Methanol
    CHEBI_17790["CHEBI:17790"]
    ing7_Methanol -.-> CHEBI_17790
    ing8_KH2PO4["KH2PO4"]
    CultureMech_002759 --> ing8_KH2PO4
    CHEBI_63036["CHEBI:63036"]
    ing8_KH2PO4 -.-> CHEBI_63036
    ing9_NH4Cl["NH4Cl"]
    CultureMech_002759 --> ing9_NH4Cl
    CHEBI_31206["CHEBI:31206"]
    ing9_NH4Cl -.-> CHEBI_31206
    ing10_Resazurin["Resazurin"]
    CultureMech_002759 --> ing10_Resazurin
    CHEBI_8806["CHEBI:8806"]
    ing10_Resazurin -.-> CHEBI_8806
    ing11_NaHCO3["NaHCO3"]
    CultureMech_002759 --> ing11_NaHCO3
    CHEBI_32139["CHEBI:32139"]
    ing11_NaHCO3 -.-> CHEBI_32139
    ing12_Na2S_x_9_H2O["Na2S x 9 H2O"]
    CultureMech_002759 --> ing12_Na2S_x_9_H2O
    CHEBI_76209["CHEBI:76209"]
    ing12_Na2S_x_9_H2O -.-> CHEBI_76209
    ing13_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
    CultureMech_002759 --> ing13_p_Aminobenzoic_acid
    CHEBI_30753["CHEBI:30753"]
    ing13_p_Aminobenzoic_acid -.-> CHEBI_30753
    ing14_Biotin["Biotin"]
    CultureMech_002759 --> ing14_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing14_Biotin -.-> CHEBI_15956
    ing15_Nicotinic_acid["Nicotinic acid"]
    CultureMech_002759 --> ing15_Nicotinic_acid
    CHEBI_15940["CHEBI:15940"]
    ing15_Nicotinic_acid -.-> CHEBI_15940
    ing16_DL_Calcium_pantothenate["DL-Calcium pantothenate"]
    CultureMech_002759 --> ing16_DL_Calcium_pantothenate
    CHEBI_31345["CHEBI:31345"]
    ing16_DL_Calcium_pantothenate -.-> CHEBI_31345
    ing17_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
    CultureMech_002759 --> ing17_Pyridoxine_hydrochloride
    CHEBI_30961["CHEBI:30961"]
    ing17_Pyridoxine_hydrochloride -.-> CHEBI_30961
    ing18_Sodium_phosphate_buffer["Sodium phosphate buffer"]
    CultureMech_002759 --> ing18_Sodium_phosphate_buffer
    ing19_Thiamine_HCl["Thiamine HCl"]
    CultureMech_002759 --> ing19_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing19_Thiamine_HCl -.-> CHEBI_49105
    ing20_Vitamin_B12["Vitamin B12"]
    CultureMech_002759 --> ing20_Vitamin_B12
    CHEBI_176843["CHEBI:176843"]
    ing20_Vitamin_B12 -.-> CHEBI_176843
    ing21_Nitrilotriacetic_acid["Nitrilotriacetic acid"]
    CultureMech_002759 --> ing21_Nitrilotriacetic_acid
    CHEBI_44557["CHEBI:44557"]
    ing21_Nitrilotriacetic_acid -.-> CHEBI_44557
    ing22_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
    CultureMech_002759 --> ing22_FeSO4_x_7_H2O
    CHEBI_75836["CHEBI:75836"]
    ing22_FeSO4_x_7_H2O -.-> CHEBI_75836
    ing23_H3BO3["H3BO3"]
    CultureMech_002759 --> ing23_H3BO3
    CHEBI_33118["CHEBI:33118"]
    ing23_H3BO3 -.-> CHEBI_33118
    ing24_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
    CultureMech_002759 --> ing24_MnCl2_x_4_H2O
    CHEBI_86368["CHEBI:86368"]
    ing24_MnCl2_x_4_H2O -.-> CHEBI_86368
    ing25_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
    CultureMech_002759 --> ing25_CoCl2_x_6_H2O
    CHEBI_53503["CHEBI:53503"]
    ing25_CoCl2_x_6_H2O -.-> CHEBI_53503
    ing26_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
    CultureMech_002759 --> ing26_CuCl2_x_2_H2O
    CHEBI_86318["CHEBI:86318"]
    ing26_CuCl2_x_2_H2O -.-> CHEBI_86318
    ing27_ZnSO4_x_7_H2O["ZnSO4 x 7 H2O"]
    CultureMech_002759 --> ing27_ZnSO4_x_7_H2O
    CHEBI_32312["CHEBI:32312"]
    ing27_ZnSO4_x_7_H2O -.-> CHEBI_32312
    ing28_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
    CultureMech_002759 --> ing28_Na2MoO4_x_2_H2O
    CHEBI_75213["CHEBI:75213"]
    ing28_Na2MoO4_x_2_H2O -.-> CHEBI_75213

Ingredients (29)

# Ingredient Concentration Ontology Notes
1 Sea Salt 29.7324 G_PER_L
2 Yeast extract 0.099108 G_PER_L
3 Na2WO4 x 2 H2O
2H2O.2Na.O4W 329.846 g/mol
0.0297324 G_PER_L CHEBI:63939
sodium tungstate dihydrate
4 Na2SeO4
2Na.O4Se 188.936 g/mol
0.00049554 G_PER_L CHEBI:77775
sodium selenate
5 Sodium acetate
C2H3O2.Na 82.034 g/mol
0.99108 G_PER_L CHEBI:32954
sodium acetate
6 Methylamine
CH5N 31.058 g/mol
1.98216 G_PER_L CHEBI:16830
methylamine
7 Sodium formate
CHO2.Na 68.007 g/mol
4.9554 G_PER_L CHEBI:62965
sodium formate
8 Methanol
CH4O 32.042 g/mol
5 G_PER_L CHEBI:17790
methanol
9 KH2PO4
H2O4P.K 136.084 g/mol
0.198216 G_PER_L CHEBI:63036
potassium dihydrogen phosphate
10 NH4Cl
Cl.H4N 53.492 g/mol
0.267592 G_PER_L CHEBI:31206
ammonium chloride
11 Resazurin
C12H7NO4 229.191 g/mol
0.00049554 G_PER_L CHEBI:8806
Resazurin
12 NaHCO3
CHO3.Na 84.006 g/mol
1.24876 G_PER_L CHEBI:32139
sodium hydrogencarbonate
13 Na2S x 9 H2O
9H2O.2Na.S 240.182 g/mol
0.49554 G_PER_L CHEBI:76209
sodium sulfide nonahydrate
14 p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
0.04 G_PER_L CHEBI:30753
4-aminobenzoic acid
15 Biotin
C10H16N2O3S 244.316 g/mol
0.01 G_PER_L CHEBI:15956
biotin
16 Nicotinic acid
C6H5NO2 123.111 g/mol
0.1 G_PER_L CHEBI:15940
nicotinic acid
17 DL-Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
0.05 G_PER_L CHEBI:31345
Calcium pantothenate
18 Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
0.1 G_PER_L CHEBI:30961
pyridoxine hydrochloride
19 Sodium phosphate buffer 100.0 G_PER_L [Collapsed 2 identical duplicates: 100.0, 100.0]
20 Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
0.1 G_PER_L CHEBI:49105
thiamine hydrochloride
21 Vitamin B12 0.05 G_PER_L CHEBI:176843
vitamin B12
22 Nitrilotriacetic acid
C6H9NO6 191.139 g/mol
12.8 G_PER_L CHEBI:44557
nitrilotriacetic acid
23 FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
0.42 G_PER_L CHEBI:75836
iron(2+) sulfate heptahydrate
24 H3BO3
H3BO3 61.833 g/mol
0.01 G_PER_L CHEBI:33118
boric acid
25 MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
0.1 G_PER_L CHEBI:86368
manganese(II) chloride tetrahydrate
26 CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
0.17 G_PER_L CHEBI:53503
cobalt chloride hexahydrate
27 CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
0.02 G_PER_L CHEBI:86318
copper(II) chloride dihydrate
28 ZnSO4 x 7 H2O
7H2O.O4S.Zn 287.558 g/mol
0.21 G_PER_L CHEBI:32312
zinc sulfate heptahydrate
29 Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
0.01 G_PER_L CHEBI:75213
sodium molybdate dihydrate

Preparation

  1. Mix ingredients except methanol, NaHCO3 and Na2S x 9H2O, bring to a boil and cool down under a stream of N2 gas. Add methanol to the medium and distribute into culture vessels (e.g., 20 ml of the medium in 120 ml serum bottles) under a stream of H2-CO2 (4:1, v/v) gas mixture, seal with butyl rubber stoppers, and autoclave. Separately autoclave 5% Na2S x 9H2O solution under a N2 atmosphere. Filer-sterilize 8% NaHCO3 solution and store under a N2-CO2 (4:1, v/v) gas mixture. Before inoculation, add the sterile NaHCO3 and Na2S x 9H2O solutions to the medium, and readjust pH to 7.0, if necessary. Pressurize the inoculated bottles to 200 kPa H2-CO2 (4:1, v/v).
  2. Dissolve nitrilotriacetic acid in 800 ml distilled water and adjust pH to 6.5 with NaOH. Then proceed to add the minerals and bring volume to 1.0 L.

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-01-26T17:53:16.518685Z mediadive-import Imported from MediaDive Source: JCM, ID: J403
2026-03-13T03:09:44.508068Z data-quality-cleanup-v1.0 Data quality fixes Merged 1 duplicate ingredient(s)
2026-03-13T06:19:15.537285Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:002759
2026-03-17T06:30:57.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:45:28.947246+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "ACETOBACTERIUM SUBMARINUS MEDIUM" to "acetobacterium_submarinus_medium" for consistent matching
2026-06-05T07:40:46.824875+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 25 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-10T07:37:34.460303+00:00 primary-term-regrounding-v1.0 Re-grounded wrong primary term id (OAK-verified) 1 primary term(s); ingredient name resolved by OAK sqlite:obo:chebi.
2026-06-10T07:46:52.411503+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.
2026-09-02T07:37:54.902379+00:00 repair_merged_duplicates.py REPAIRED_SUMMED_DUPLICATE_MERGE Collapsed 1 ingredient row(s) whose concentration was the SUM of identical duplicate values written by cleanup_media_quality.py. Every merged part was the same value, so the pre-merge value is unambiguous and no source lookup was needed. Rows whose merged parts differ were left untouched.