minimal_medium_w_amino_acids_tang_et_al_2009

CultureMech:007075 bacterial DEFINED LIQUID
Original name: Minimal Medium w/amino acids (Tang et al 2009)

Overview

External ontology
MEDIADB:184 (source link unavailable) — Minimal Medium w/amino acids (Tang et al 2009)
Applications
  • Cultivation of genome-sequenced organisms
  • Metabolic modeling
  • Systems biology research
Notes
Source: MediaDB (Chemically-defined media for genome-sequenced organisms) Reference: https://mediadb.systemsbiology.net/

Composition

flowchart LR
    CultureMech_007075["minimal_medium_w_amino_acids_tang_et_al_2009"]
    ing0_L_Glutamate["L-Glutamate"]
    CultureMech_007075 --> ing0_L_Glutamate
    CHEBI_16015["CHEBI:16015"]
    ing0_L_Glutamate -.-> CHEBI_16015
    ing1_Glycine["Glycine"]
    CultureMech_007075 --> ing1_Glycine
    CHEBI_15428["CHEBI:15428"]
    ing1_Glycine -.-> CHEBI_15428
    ing2_L_Methionine["L-Methionine"]
    CultureMech_007075 --> ing2_L_Methionine
    CHEBI_16643["CHEBI:16643"]
    ing2_L_Methionine -.-> CHEBI_16643
    ing3_DL_Serine["DL-Serine"]
    CultureMech_007075 --> ing3_DL_Serine
    ing4_Cysteine["Cysteine"]
    CultureMech_007075 --> ing4_Cysteine
    CHEBI_15356["CHEBI:15356"]
    ing4_Cysteine -.-> CHEBI_15356
    ing5_Histidine["Histidine"]
    CultureMech_007075 --> ing5_Histidine
    CHEBI_27570["CHEBI:27570"]
    ing5_Histidine -.-> CHEBI_27570
    ing6_Alanine["Alanine"]
    CultureMech_007075 --> ing6_Alanine
    CHEBI_16977["CHEBI:16977"]
    ing6_Alanine -.-> CHEBI_16977
    ing7_DL_Tyrosine["DL-Tyrosine"]
    CultureMech_007075 --> ing7_DL_Tyrosine
    CHEBI_18186["CHEBI:18186"]
    ing7_DL_Tyrosine -.-> CHEBI_18186
    ing8_Phenylalanine["Phenylalanine"]
    CultureMech_007075 --> ing8_Phenylalanine
    CHEBI_17295["CHEBI:17295"]
    ing8_Phenylalanine -.-> CHEBI_17295
    ing9_Arginine["Arginine"]
    CultureMech_007075 --> ing9_Arginine
    CHEBI_29016["CHEBI:29016"]
    ing9_Arginine -.-> CHEBI_29016
    ing10_Magnesium_chloride["Magnesium chloride"]
    CultureMech_007075 --> ing10_Magnesium_chloride
    CHEBI_86345["CHEBI:86345"]
    ing10_Magnesium_chloride -.-> CHEBI_86345
    ing11_Boric_acid["Boric acid"]
    CultureMech_007075 --> ing11_Boric_acid
    CHEBI_33118["CHEBI:33118"]
    ing11_Boric_acid -.-> CHEBI_33118
    ing12_Sodium_sulfate["Sodium sulfate"]
    CultureMech_007075 --> ing12_Sodium_sulfate
    CHEBI_32149["CHEBI:32149"]
    ing12_Sodium_sulfate -.-> CHEBI_32149
    ing13_Dibasic_sodium_phosphate["Dibasic sodium phosphate"]
    CultureMech_007075 --> ing13_Dibasic_sodium_phosphate
    CHEBI_34683["CHEBI:34683"]
    ing13_Dibasic_sodium_phosphate -.-> CHEBI_34683
    ing14_Sodium_molybdate["Sodium molybdate"]
    CultureMech_007075 --> ing14_Sodium_molybdate
    CHEBI_75215["CHEBI:75215"]
    ing14_Sodium_molybdate -.-> CHEBI_75215
    ing15_Aspartate["Aspartate"]
    CultureMech_007075 --> ing15_Aspartate
    CHEBI_29995["CHEBI:29995"]
    ing15_Aspartate -.-> CHEBI_29995
    ing16_Isoleucine["Isoleucine"]
    CultureMech_007075 --> ing16_Isoleucine
    CHEBI_17191["CHEBI:17191"]
    ing16_Isoleucine -.-> CHEBI_17191
    ing17_Proline["Proline"]
    CultureMech_007075 --> ing17_Proline
    CHEBI_26271["CHEBI:26271"]
    ing17_Proline -.-> CHEBI_26271
    ing18_Valine["Valine"]
    CultureMech_007075 --> ing18_Valine
    CHEBI_16414["CHEBI:16414"]
    ing18_Valine -.-> CHEBI_16414
    ing19_Leucine["Leucine"]
    CultureMech_007075 --> ing19_Leucine
    CHEBI_15603["CHEBI:15603"]
    ing19_Leucine -.-> CHEBI_15603
    ing20_Lysine["Lysine"]
    CultureMech_007075 --> ing20_Lysine
    CHEBI_25094["CHEBI:25094"]
    ing20_Lysine -.-> CHEBI_25094
    ing21_Potassium_chloride["Potassium chloride"]
    CultureMech_007075 --> ing21_Potassium_chloride
    CHEBI_32588["CHEBI:32588"]
    ing21_Potassium_chloride -.-> CHEBI_32588
    ing22_Ammonium_chloride["Ammonium chloride"]
    CultureMech_007075 --> ing22_Ammonium_chloride
    CHEBI_31206["CHEBI:31206"]
    ing22_Ammonium_chloride -.-> CHEBI_31206
    ing23_Cobalt_chloride["Cobalt chloride"]
    CultureMech_007075 --> ing23_Cobalt_chloride
    CHEBI_35696["CHEBI:35696"]
    ing23_Cobalt_chloride -.-> CHEBI_35696
    ing24_Manganese_chloride["Manganese chloride"]
    CultureMech_007075 --> ing24_Manganese_chloride
    CHEBI_63041["CHEBI:63041"]
    ing24_Manganese_chloride -.-> CHEBI_63041
    ing25_Cupric_chloride["Cupric chloride"]
    CultureMech_007075 --> ing25_Cupric_chloride
    CHEBI_49553["CHEBI:49553"]
    ing25_Cupric_chloride -.-> CHEBI_49553
    ing26_Sodium_selenite["Sodium selenite"]
    CultureMech_007075 --> ing26_Sodium_selenite
    CHEBI_48843["CHEBI:48843"]
    ing26_Sodium_selenite -.-> CHEBI_48843
    ing27_Zinc_Chloride["Zinc Chloride"]
    CultureMech_007075 --> ing27_Zinc_Chloride
    CHEBI_49976["CHEBI:49976"]
    ing27_Zinc_Chloride -.-> CHEBI_49976
    ing28_Ferrous_chloride["Ferrous chloride"]
    CultureMech_007075 --> ing28_Ferrous_chloride
    CHEBI_30812["CHEBI:30812"]
    ing28_Ferrous_chloride -.-> CHEBI_30812
    ing29_Sodium_tungstate["Sodium tungstate"]
    CultureMech_007075 --> ing29_Sodium_tungstate
    CHEBI_63940["CHEBI:63940"]
    ing29_Sodium_tungstate -.-> CHEBI_63940
    CultureMech_007075 --> more["...4 more"]

Ingredients (34)

# Ingredient Concentration Ontology Notes
1 L-Glutamate
C5H9NO4 147.13 g/mol
0.025 MILLIMOLAR CHEBI:16015
L-glutamic acid
 Cross-references: KEGG:glu-L
2 Glycine
C2H5NO2 75.067 g/mol
0.025 MILLIMOLAR CHEBI:15428
glycine
 Cross-references: KEGG:gly
3 L-Methionine
C5H11NO2S 149.215 g/mol
0.025 MILLIMOLAR CHEBI:16643
L-methionine
 Cross-references: KEGG:met-L
4 DL-Serine 0.025 MILLIMOLAR
5 Cysteine
C3H7NO2S 121.161 g/mol
0.025 MILLIMOLAR CHEBI:15356
cysteine
6 Histidine
C6H9N3O2 155.157 g/mol
0.025 MILLIMOLAR CHEBI:27570
histidine
7 Alanine
C3H7NO2 89.094 g/mol
0.025 MILLIMOLAR CHEBI:16977
L-alanine
8 DL-Tyrosine
C9H11NO3 181.191 g/mol
0.025 MILLIMOLAR CHEBI:18186
tyrosine
9 Phenylalanine
C9H11NO2 165.192 g/mol
0.025 MILLIMOLAR CHEBI:17295
L-phenylalanine
10 Arginine
C6H14N4O2 174.204 g/mol
0.025 MILLIMOLAR CHEBI:29016
arginine
11 Magnesium chloride
2Cl.6H2O.Mg 203.301 g/mol
1.0 MILLIMOLAR CHEBI:86345
magnesium dichloride hexahydrate
12 Boric acid
H3BO3 61.833 g/mol
0.0032346 MILLIMOLAR CHEBI:33118
boric acid
13 Sodium sulfate
2Na.O4S 142.043 g/mol
1.5 MILLIMOLAR CHEBI:32149
sodium sulfate
14 Dibasic sodium phosphate
HO4P.2Na 141.958 g/mol
4.4 MILLIMOLAR CHEBI:34683
disodium hydrogenphosphate
15 Sodium molybdate
MoO4.2Na 205.916 g/mol
0.0017986 MILLIMOLAR CHEBI:75215
sodium molybdate (anhydrous)
16 Aspartate
C4H5NO4 131.087 g/mol
0.025 MILLIMOLAR CHEBI:29995
aspartate(2-)
17 Isoleucine
C6H13NO2 131.175 g/mol
0.025 MILLIMOLAR CHEBI:17191
L-isoleucine
18 Proline
C5H9NO2 115.132 g/mol
0.025 MILLIMOLAR CHEBI:26271
proline
19 Valine
C5H11NO2 117.148 g/mol
0.025 MILLIMOLAR CHEBI:16414
L-valine
20 Leucine
C6H13NO2 131.175 g/mol
0.025 MILLIMOLAR CHEBI:15603
L-leucine
21 Lysine
C6H14N2O2 146.19 g/mol
0.025 MILLIMOLAR CHEBI:25094
lysine
22 Potassium chloride
Cl.K 74.551 g/mol
1.34 MILLIMOLAR CHEBI:32588
potassium chloride
23 Ammonium chloride
Cl.H4N 53.492 g/mol
28.0 MILLIMOLAR CHEBI:31206
ammonium chloride
24 Cobalt chloride
2Cl.Co 129.839 g/mol
0.014858 MILLIMOLAR CHEBI:35696
cobalt dichloride
25 Manganese chloride
Cl2Mn 125.844 g/mol
0.0224145 MILLIMOLAR CHEBI:63041
manganese(II) chloride
26 Cupric chloride
Cl2Cu 134.452 g/mol
0.000117316 MILLIMOLAR CHEBI:49553
copper(II) chloride
27 Sodium selenite
2Na.O3Se 172.937 g/mol
0.000228102 MILLIMOLAR CHEBI:48843
disodium selenite
28 Zinc Chloride
2Cl.Zn 136.296 g/mol
0.0146718 MILLIMOLAR CHEBI:49976
zinc dichloride
29 Ferrous chloride
Cl2Fe 126.751 g/mol
0.0502992 MILLIMOLAR CHEBI:30812
iron dichloride
30 Sodium tungstate
2Na.O4W 293.816 g/mol
0.000242527 MILLIMOLAR CHEBI:63940
sodium tungstate
31 Nickel Sulfate 0.0038044 MILLIMOLAR
32 PIPES 10.0 MILLIMOLAR CHEBI:39033
PIPES
33 Sodium L-lactate
C3H5O3.Na 112.06 g/mol
30.0 MILLIMOLAR CHEBI:232798
sodium L-lactate
34 Threonine
C4H9NO3 119.119 g/mol
0.025 MILLIMOLAR CHEBI:26986
threonine

Preparation

  1. Dissolve all ingredients in distilled water to specified concentrations
  2. Adjust pH if specified in original formulation
  3. Sterilize by filtration (0.22 μm) to preserve heat-sensitive components

Target organisms

No target organisms are recorded.

Provenance

TimestampCuratorActionNotes
2026-06-14T05:58:58.561437+00:00 idnf-grounding-fix-v1.0 Fixed ID_NOT_FOUND term groundings Absent/obsolete CHEBI term ids fixed - 2 re-grounded to the correct CHEBI, 0 de-grounded (mixture or unverifiable).
2026-01-27T07:21:44.247454Z mediadb-import Imported from MediaDB Source: MediaDB (Institute for Systems Biology), Medium ID: 184, Reference: Mazumdar et al. (2014) PLOS One
2026-01-28T19:48:23.396460Z chebi-enrichment Added CHEBI ontology terms to ingredients Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-03-13T06:19:45.965517Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:007075
2026-03-17T06:30:15.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:04.087902+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "'Minimal Medium w/amino acids (Tang et al 2009" to "minimal_medium_w_amino_acids_tang_et_al_2009" for consistent matching
2026-06-05T07:41:34.744604+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 14 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-08-20T19:02:54.670291+00:00 apply_mim_groundings.py Adopted MIM published grounding Grounded 3 ingredient(s) from MIM's ingredient_mappings.sssom.tsv (2026-08-18), exactMatch only, where this record carried no CHEBI term (#308).
2026-08-31T06:18:15.647633+00:00 repair_mediadb_names.py REPAIRED_MEDIADB_TRUNCATED_NAME Restored the medium's own name in media_term.term.label, original_name. The MediaDB SQL parser truncated every value containing a parenthesis at that parenthesis; recovered from media_database.07Oct2015.sql.