Overview
- External ontology
- mediadive.medium:J927 (source link unavailable) — DESULFATIFERULA BERRENSE MEDIUM
- Applications
-
- Microbial cultivation
- Notes
- Source: JCM | Link: https://www.jcm.riken.jp/cgi-bin/jcm/jcm_grmd?GRMD=927
Composition
flowchart LR
CultureMech_003274["desulfatiferula_berrense_medium"]
ing0_Na2SO4["Na2SO4"]
CultureMech_003274 --> ing0_Na2SO4
CHEBI_32149["CHEBI:32149"]
ing0_Na2SO4 -.-> CHEBI_32149
ing1_KH2PO4["KH2PO4"]
CultureMech_003274 --> ing1_KH2PO4
CHEBI_63036["CHEBI:63036"]
ing1_KH2PO4 -.-> CHEBI_63036
ing2_NH4Cl["NH4Cl"]
CultureMech_003274 --> ing2_NH4Cl
CHEBI_31206["CHEBI:31206"]
ing2_NH4Cl -.-> CHEBI_31206
ing3_NaCl["NaCl"]
CultureMech_003274 --> ing3_NaCl
CHEBI_26710["CHEBI:26710"]
ing3_NaCl -.-> CHEBI_26710
ing4_KCl["KCl"]
CultureMech_003274 --> ing4_KCl
CHEBI_32588["CHEBI:32588"]
ing4_KCl -.-> CHEBI_32588
ing5_CaCl2_x_2_H2O["CaCl2 x 2 H2O"]
CultureMech_003274 --> ing5_CaCl2_x_2_H2O
CHEBI_86158["CHEBI:86158"]
ing5_CaCl2_x_2_H2O -.-> CHEBI_86158
ing6_Yeast_extract["Yeast extract"]
CultureMech_003274 --> ing6_Yeast_extract
ing7_HEPES["HEPES"]
CultureMech_003274 --> ing7_HEPES
CHEBI_46756["CHEBI:46756"]
ing7_HEPES -.-> CHEBI_46756
ing8_Resazurin["Resazurin"]
CultureMech_003274 --> ing8_Resazurin
CHEBI_8806["CHEBI:8806"]
ing8_Resazurin -.-> CHEBI_8806
ing9_MgCl2_x_6_H2O["MgCl2 x 6 H2O"]
CultureMech_003274 --> ing9_MgCl2_x_6_H2O
CHEBI_86345["CHEBI:86345"]
ing9_MgCl2_x_6_H2O -.-> CHEBI_86345
ing10_NaHCO3["NaHCO3"]
CultureMech_003274 --> ing10_NaHCO3
CHEBI_32139["CHEBI:32139"]
ing10_NaHCO3 -.-> CHEBI_32139
ing11_Sodium_palmitate["Sodium palmitate"]
CultureMech_003274 --> ing11_Sodium_palmitate
CHEBI_234557["CHEBI:234557"]
ing11_Sodium_palmitate -.-> CHEBI_234557
ing12_Na2_EDTA["Na2-EDTA"]
CultureMech_003274 --> ing12_Na2_EDTA
CHEBI_64734["CHEBI:64734"]
ing12_Na2_EDTA -.-> CHEBI_64734
ing13_FeSO4_x_7_H2O["FeSO4 x 7 H2O"]
CultureMech_003274 --> ing13_FeSO4_x_7_H2O
CHEBI_75836["CHEBI:75836"]
ing13_FeSO4_x_7_H2O -.-> CHEBI_75836
ing14_CoCl2_x_6_H2O["CoCl2 x 6 H2O"]
CultureMech_003274 --> ing14_CoCl2_x_6_H2O
CHEBI_53503["CHEBI:53503"]
ing14_CoCl2_x_6_H2O -.-> CHEBI_53503
ing15_MnCl2_x_4_H2O["MnCl2 x 4 H2O"]
CultureMech_003274 --> ing15_MnCl2_x_4_H2O
CHEBI_86368["CHEBI:86368"]
ing15_MnCl2_x_4_H2O -.-> CHEBI_86368
ing16_ZnCl2["ZnCl2"]
CultureMech_003274 --> ing16_ZnCl2
CHEBI_49976["CHEBI:49976"]
ing16_ZnCl2 -.-> CHEBI_49976
ing17_NiCl2_x_6_H2O["NiCl2 x 6 H2O"]
CultureMech_003274 --> ing17_NiCl2_x_6_H2O
CHEBI_34887["CHEBI:34887"]
ing17_NiCl2_x_6_H2O -.-> CHEBI_34887
ing18_Na2MoO4_x_2_H2O["Na2MoO4 x 2 H2O"]
CultureMech_003274 --> ing18_Na2MoO4_x_2_H2O
CHEBI_75213["CHEBI:75213"]
ing18_Na2MoO4_x_2_H2O -.-> CHEBI_75213
ing19_H3BO3["H3BO3"]
CultureMech_003274 --> ing19_H3BO3
CHEBI_33118["CHEBI:33118"]
ing19_H3BO3 -.-> CHEBI_33118
ing20_CuCl2_x_2_H2O["CuCl2 x 2 H2O"]
CultureMech_003274 --> ing20_CuCl2_x_2_H2O
CHEBI_86318["CHEBI:86318"]
ing20_CuCl2_x_2_H2O -.-> CHEBI_86318
ing21_NaOH["NaOH"]
CultureMech_003274 --> ing21_NaOH
CHEBI_32145["CHEBI:32145"]
ing21_NaOH -.-> CHEBI_32145
ing22_Na2SeO3_x_5_H2O["Na2SeO3 x 5 H2O"]
CultureMech_003274 --> ing22_Na2SeO3_x_5_H2O
CHEBI_131361["CHEBI:131361"]
ing22_Na2SeO3_x_5_H2O -.-> CHEBI_131361
ing23_Na2WO4_x_2_H2O["Na2WO4 x 2 H2O"]
CultureMech_003274 --> ing23_Na2WO4_x_2_H2O
CHEBI_63939["CHEBI:63939"]
ing23_Na2WO4_x_2_H2O -.-> CHEBI_63939
ing24_p_Aminobenzoic_acid["p-Aminobenzoic acid"]
CultureMech_003274 --> ing24_p_Aminobenzoic_acid
CHEBI_30753["CHEBI:30753"]
ing24_p_Aminobenzoic_acid -.-> CHEBI_30753
ing25_Biotin["Biotin"]
CultureMech_003274 --> ing25_Biotin
CHEBI_15956["CHEBI:15956"]
ing25_Biotin -.-> CHEBI_15956
ing26_Nicotinic_acid["Nicotinic acid"]
CultureMech_003274 --> ing26_Nicotinic_acid
CHEBI_15940["CHEBI:15940"]
ing26_Nicotinic_acid -.-> CHEBI_15940
ing27_DL_Calcium_pantothenate["DL-Calcium pantothenate"]
CultureMech_003274 --> ing27_DL_Calcium_pantothenate
CHEBI_31345["CHEBI:31345"]
ing27_DL_Calcium_pantothenate -.-> CHEBI_31345
ing28_Pyridoxine_hydrochloride["Pyridoxine hydrochloride"]
CultureMech_003274 --> ing28_Pyridoxine_hydrochloride
CHEBI_30961["CHEBI:30961"]
ing28_Pyridoxine_hydrochloride -.-> CHEBI_30961
ing29_Sodium_phosphate_buffer["Sodium phosphate buffer"]
CultureMech_003274 --> ing29_Sodium_phosphate_buffer
CultureMech_003274 --> more["...2 more"]
Ingredients (32)
| # | Ingredient | Concentration | Ontology | Notes |
|---|---|---|---|---|
| 1 |
Na2SO4
2Na.O4S 142.043 g/mol
|
2.98507 G_PER_L |
CHEBI:32149
sodium sulfate
|
Copied from referenced JCM Medium 576 |
| 2 |
KH2PO4
H2O4P.K 136.084 g/mol
|
0.199005 G_PER_L |
CHEBI:63036
potassium dihydrogen phosphate
|
Copied from referenced JCM Medium 576 |
| 3 |
NH4Cl
Cl.H4N 53.492 g/mol
|
0.298507 G_PER_L |
CHEBI:31206
ammonium chloride
|
Copied from referenced JCM Medium 576 |
| 4 |
NaCl
Cl.Na 58.443 g/mol
|
6.96517 G_PER_L |
CHEBI:26710
sodium chloride
|
Copied from referenced JCM Medium 576 |
| 5 |
KCl
Cl.K 74.551 g/mol
|
0.497512 G_PER_L |
CHEBI:32588
potassium chloride
|
Copied from referenced JCM Medium 576 |
| 6 |
CaCl2 x 2 H2O
Ca.2Cl.2H2O 147.014 g/mol
|
0.149254 G_PER_L |
CHEBI:86158
calcium chloride dihydrate
|
Copied from referenced JCM Medium 576 |
| 7 | Yeast extract | 0.0995025 G_PER_L | Copied from referenced JCM Medium 576 | |
| 8 | HEPES | 2.36816 G_PER_L |
CHEBI:46756
HEPES
|
Copied from referenced JCM Medium 576 |
| 9 |
Resazurin
C12H7NO4 229.191 g/mol
|
0.000995025 G_PER_L |
CHEBI:8806
Resazurin
|
Copied from referenced JCM Medium 576 |
| 10 |
MgCl2 x 6 H2O
2Cl.6H2O.Mg 203.301 g/mol
|
10 G_PER_L |
CHEBI:86345
magnesium dichloride hexahydrate
|
Copied from referenced JCM Medium 576 |
| 11 |
NaHCO3
CHO3.Na 84.006 g/mol
|
30 G_PER_L |
CHEBI:32139
sodium hydrogencarbonate
|
Copied from referenced JCM Medium 576 |
| 12 |
Sodium palmitate
C16H31O2.Na 278.412 g/mol
|
2.8 G_PER_L |
CHEBI:234557
sodium palmitate
|
Copied from referenced JCM Medium 576 |
| 13 |
Na2-EDTA
C10H14N2O8.2Na 336.208 g/mol
|
3 G_PER_L |
CHEBI:64734
EDTA disodium salt (anhydrous)
|
Copied from referenced JCM Medium 576 |
| 14 |
FeSO4 x 7 H2O
Fe.7H2O.O4S 278.013 g/mol
|
1.1 G_PER_L |
CHEBI:75836
iron(2+) sulfate heptahydrate
|
Copied from referenced JCM Medium 576 |
| 15 |
CoCl2 x 6 H2O
2Cl.Co.6H2O 237.929 g/mol
|
0.19 G_PER_L |
CHEBI:53503
cobalt chloride hexahydrate
|
Copied from referenced JCM Medium 576 |
| 16 |
MnCl2 x 4 H2O
Cl2Mn.4H2O 197.904 g/mol
|
0.05 G_PER_L |
CHEBI:86368
manganese(II) chloride tetrahydrate
|
Copied from referenced JCM Medium 576 |
| 17 |
ZnCl2
2Cl.Zn 136.296 g/mol
|
0.042 G_PER_L |
CHEBI:49976
zinc dichloride
|
Copied from referenced JCM Medium 576 |
| 18 |
NiCl2 x 6 H2O
Cl2Ni 129.599 g/mol
|
0.024 G_PER_L |
CHEBI:34887
nickel dichloride
|
Copied from referenced JCM Medium 576 |
| 19 |
Na2MoO4 x 2 H2O
2H2O.MoO4.2Na 241.946 g/mol
|
0.018 G_PER_L |
CHEBI:75213
sodium molybdate dihydrate
|
Copied from referenced JCM Medium 576 |
| 20 |
H3BO3
H3BO3 61.833 g/mol
|
0.3 G_PER_L |
CHEBI:33118
boric acid
|
Copied from referenced JCM Medium 576 |
| 21 |
CuCl2 x 2 H2O
Cl2Cu.2H2O 170.482 g/mol
|
0.002 G_PER_L |
CHEBI:86318
copper(II) chloride dihydrate
|
Copied from referenced JCM Medium 576 |
| 22 |
NaOH
HO.Na 39.997 g/mol
|
0.4 G_PER_L |
CHEBI:32145
sodium hydroxide
|
Copied from referenced JCM Medium 576 |
| 23 |
Na2SeO3 x 5 H2O
5H2O.2Na.O3Se 263.012 g/mol
|
0.006 G_PER_L |
CHEBI:131361
disodium selenite pentahydrate
|
Copied from referenced JCM Medium 576 |
| 24 |
Na2WO4 x 2 H2O
2H2O.2Na.O4W 329.846 g/mol
|
0.008 G_PER_L |
CHEBI:63939
sodium tungstate dihydrate
|
Copied from referenced JCM Medium 576 |
| 25 |
p-Aminobenzoic acid
C7H7NO2 137.138 g/mol
|
0.04 G_PER_L |
CHEBI:30753
4-aminobenzoic acid
|
Copied from referenced JCM Medium 576 |
| 26 |
Biotin
C10H16N2O3S 244.316 g/mol
|
0.01 G_PER_L |
CHEBI:15956
biotin
|
Copied from referenced JCM Medium 576 |
| 27 |
Nicotinic acid
C6H5NO2 123.111 g/mol
|
0.1 G_PER_L |
CHEBI:15940
nicotinic acid
|
Copied from referenced JCM Medium 576 |
| 28 |
DL-Calcium pantothenate
2C9H16NO5.Ca 476.536 g/mol
|
0.05 G_PER_L |
CHEBI:31345
Calcium pantothenate
|
Copied from referenced JCM Medium 576 |
| 29 |
Pyridoxine hydrochloride
C8H11NO3.HCl 205.641 g/mol
|
0.1 G_PER_L |
CHEBI:30961
pyridoxine hydrochloride
|
Copied from referenced JCM Medium 576 |
| 30 | Sodium phosphate buffer | 100.0 G_PER_L | [Collapsed 2 identical duplicates: 100.0, 100.0] | Copied from JCM Medium 576 | |
| 31 |
Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
|
0.1 G_PER_L |
CHEBI:49105
thiamine hydrochloride
|
Copied from referenced JCM Medium 576 |
| 32 | Vitamin B12 | 0.05 G_PER_L |
CHEBI:176843
vitamin B12
|
Copied from referenced JCM Medium 576 |
Preparation
- Use Medium No. 576 supplemented with 20.0 ml/L 0.1 M sodium octanoate solution (autoclaved under an anaerobic atmosphere, final concentration 5 mM) as the substrate instead of sodium palmitate.
Target organisms
No target organisms are recorded.
Provenance
| Timestamp | Curator | Action | Notes |
|---|---|---|---|
| 2026-01-26T17:53:18.028991Z | mediadive-import | Imported from MediaDive | Source: JCM, ID: J927 |
| 2026-02-03T11:26:56.641513 | quality-tagger-v1.0 | Added data quality flag | Marked as incomplete_composition due to placeholder ingredients |
| 2026-03-13T06:19:19.110024Z | culturemech-id-assigner-v1.0 | Assigned CultureMech ID | Assigned stable identifier: CultureMech:003274 |
| 2026-03-17T19:45:33.022719+00:00 | normalize_media_names_to_snake_case.py | NAME_NORMALIZED | Normalized name from "DESULFATIFERULA BERRENSE MEDIUM" to "desulfatiferula_berrense_medium" for consistent matching |
| 2026-04-04T18:49:19.845622 | copy_referenced_compositions | RESOLVED_REFERENCE | Resolved reference by copying from desulfatibacillus_olefinivorans_medium (CultureMech:002924) |
| 2026-05-16T08:57:27.497817+00:00 | migrate_data_quality_flags.py | MIGRATED_DATA_QUALITY_FLAGS | dict(2 keys) -> list(1 entries) |
| 2026-06-05T07:40:55.866588+00:00 | mim-legacy-to-chebi-migration-v1.0 | Refreshed legacy MediaIngredientMech links to CHEBI keying | Replaced 30 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme. |
| 2026-06-10T07:46:55.290651+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. |
| 2026-09-02T07:38:01.564888+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. |