complete_seed_medium_liu_2004

CultureMech:007282 bacterial DEFINED LIQUID
Original name: Complete Seed Medium (Liu 2004)

Overview

External ontology
MEDIADB:379 (source link unavailable) — Complete Seed Medium (Liu 2004)
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_007282["complete_seed_medium_liu_2004"]
    ing0_Riboflavin["Riboflavin"]
    CultureMech_007282 --> ing0_Riboflavin
    CHEBI_17015["CHEBI:17015"]
    ing0_Riboflavin -.-> CHEBI_17015
    ing1_Biotin["Biotin"]
    CultureMech_007282 --> ing1_Biotin
    CHEBI_15956["CHEBI:15956"]
    ing1_Biotin -.-> CHEBI_15956
    ing2_Glucose["Glucose"]
    CultureMech_007282 --> ing2_Glucose
    CHEBI_17234["CHEBI:17234"]
    ing2_Glucose -.-> CHEBI_17234
    ing3_Nicotinate["Nicotinate"]
    CultureMech_007282 --> ing3_Nicotinate
    CHEBI_15940["CHEBI:15940"]
    ing3_Nicotinate -.-> CHEBI_15940
    ing4_Magnesium_sulfate["Magnesium sulfate"]
    CultureMech_007282 --> ing4_Magnesium_sulfate
    CHEBI_32599["CHEBI:32599"]
    ing4_Magnesium_sulfate -.-> CHEBI_32599
    ing5_Pyridoxine_HCl["Pyridoxine HCl"]
    CultureMech_007282 --> ing5_Pyridoxine_HCl
    CHEBI_30961["CHEBI:30961"]
    ing5_Pyridoxine_HCl -.-> CHEBI_30961
    ing6_Thiamine_HCl["Thiamine HCl"]
    CultureMech_007282 --> ing6_Thiamine_HCl
    CHEBI_49105["CHEBI:49105"]
    ing6_Thiamine_HCl -.-> CHEBI_49105
    ing7_Potassium_dihydrogen_phosphate["Potassium dihydrogen phosphate"]
    CultureMech_007282 --> ing7_Potassium_dihydrogen_phosphate
    CHEBI_63036["CHEBI:63036"]
    ing7_Potassium_dihydrogen_phosphate -.-> CHEBI_63036
    ing8_Ammonium_chloride["Ammonium chloride"]
    CultureMech_007282 --> ing8_Ammonium_chloride
    CHEBI_31206["CHEBI:31206"]
    ing8_Ammonium_chloride -.-> CHEBI_31206
    ing9_Sodium_acetate["Sodium acetate"]
    CultureMech_007282 --> ing9_Sodium_acetate
    CHEBI_32954["CHEBI:32954"]
    ing9_Sodium_acetate -.-> CHEBI_32954

Ingredients (10)

# Ingredient Concentration Ontology Notes
1 Riboflavin
C17H20N4O6 376.369 g/mol
0.0001329 MILLIMOLAR CHEBI:17015
riboflavin
 Cross-references: KEGG:ribflv
2 Biotin
C10H16N2O3S 244.316 g/mol
4.093e-05 MILLIMOLAR CHEBI:15956
biotin
 Cross-references: KEGG:btn
3 Glucose
C6H12O6 180.156 g/mol
555.1 MILLIMOLAR CHEBI:17234
glucose
4 Nicotinate
C6H5NO2 123.111 g/mol
0.03249 MILLIMOLAR CHEBI:15940
nicotinic acid
 Cross-references: KEGG:nac
5 Magnesium sulfate
Mg.O4S 120.368 g/mol
3.246 MILLIMOLAR CHEBI:32599
magnesium sulfate
6 Pyridoxine HCl
C8H11NO3.HCl 205.641 g/mol
0.0004863 MILLIMOLAR CHEBI:30961
pyridoxine hydrochloride
7 Thiamine HCl
C12H17N4OS.Cl.HCl 337.276 g/mol
4.447e-05 MILLIMOLAR CHEBI:49105
thiamine hydrochloride
8 Potassium dihydrogen phosphate
H2O4P.K 136.084 g/mol
36.74 MILLIMOLAR CHEBI:63036
potassium dihydrogen phosphate
9 Ammonium chloride
Cl.H4N 53.492 g/mol
130.9 MILLIMOLAR CHEBI:31206
ammonium chloride
10 Sodium acetate
C2H3O2.Na 82.034 g/mol
73.14 MILLIMOLAR CHEBI:32954
sodium acetate

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
2026-01-27T07:21:46.045967Z mediadb-import Imported from MediaDB Source: MediaDB (Institute for Systems Biology), Medium ID: 379, Reference: Mazumdar et al. (2014) PLOS One
2026-01-28T19:48:10.394589Z chebi-enrichment Added CHEBI ontology terms to ingredients Enriched using MicrobeMediaParam and MediaDive chemical mappings
2026-02-06T05:10:16.256882Z invalid-chebi-removal Removed 1 invalid CHEBI ID(s) Removed CHEBI IDs with invalid format (7+ digits) from MicrobeMediaParam source data
2026-03-13T06:19:47.383203Z culturemech-id-assigner-v1.0 Assigned CultureMech ID Assigned stable identifier: CultureMech:007282
2026-03-17T06:29:47.000000Z mediaingredientmech-enrichment-v1.0 Added MediaIngredientMech links Linked ingredients to MediaIngredientMech identifiers
2026-03-17T19:46:05.602685+00:00 normalize_media_names_to_snake_case.py NAME_NORMALIZED Normalized name from "'Complete Seed Medium (Liu 2004" to "complete_seed_medium_liu_2004" for consistent matching
2026-06-05T07:40:54.761096+00:00 mim-legacy-to-chebi-migration-v1.0 Refreshed legacy MediaIngredientMech links to CHEBI keying Replaced 8 legacy mediaingredientmech_term link(s) with mediaingredientmech_chebi_term (id-safe: ingredient's own CHEBI + label). MIM deprecated the MediaIngredientMech:NNNNNN id scheme.
2026-06-08T23:19:36.453331+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).
2026-08-31T06:17:24.617524+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.