culture medium exchange process

IRI: https://spec.industrialontologies.org/ontology/construct/CultureMediumExchangeProcess

Defined In: https://spec.industrialontologies.org/ontology/biopharma/BiopharmaManufacturingExecution/

SubClass Of: planned process

Class Hierarchy

owl:Thing › bfo:entity › bfo:occurrent › bfo:process › planned process › culture medium exchange process

Direct subclasses:

• perfusion medium exchange process

Definition

planned process in which part or all of the spent culture medium associated with a cell culture is removed and fresh culture medium is added

Explanatory Notes

1) Culture medium exchange process includes both removal of existing culture medium or culture-medium-containing material and addition of fresh culture medium. 2) The process is distinct from feeding alone because feeding adds fresh material without requiring removal of existing culture medium. 3) Medium exchange may be partial or complete and is commonly applied in mammalian cell culture, virus production, and cell therapy to restore nutrient levels, reduce metabolite accumulation, remove inhibitory compounds, or otherwise adjust the culture environment.

Examples

• Partial medium exchange in a T-cell expansion culture to restore nutrient levels and reduce lactate; Complete media change in adherent Vero cells before virus inoculation.

Counter-Examples

• Addition of fresh medium without removal of existing culture fluid

Adapted From

• https://www.corning.com/worldwide/en/products/life-sciences/resources/stories/at-the-bench/cell-culture-media-change-protocol.html#:~:text=As%20a%20starting%20point%20for,Cell%20Culture%20Success%20with%20Corning and https://cellculturecompany.com/best-practices-for-media-preparation-and-exchange-in-mammalian-cell-culture/#:~:text=When%20and%20How%20to%20Perform,scale%2Dup%20and%20regulatory%20compliance.

Primitive Class

This class is declared primitive and it does not have necessary and sufficient condiftions defined.

Primitive Rationale

There are insufficient constructs to create a set of necessary and sufficient conditions.

Formal Axioms

First-Order Logic Axioms

CultureMediumExchangeProcess(x) → PlannedProcess(x) ∧ ∃a∃f∃t (MaterialAdditionProcess(a) ∧ hasOccurrentPart(x,a) ∧ CultureMedium(f) ∧ hasInput(a,f) ∧ TransferredMaterialRole(t) ∧ hasRole(f,t)) ∧ ∃r∃o∃m∃s (MaterialRemovalProcess(r) ∧ hasOccurrentPart(x,r) ∧ MaterialEntity(o) ∧ hasSpecifiedOutput(r,o) ∧ CultureMedium(m) ∧ SpentCultureMediumState(s) ∧ hasMaterialState(m,s) ∧ (o = m ∨ hasContinuantPartAtAllTimes(o,m))) ∧ ∃p∃c (PlannedProcess(p) ∧ occurrentPartOf(x,p) ∧ CellCulture(c) ∧ hasParticipantAtSomeTime(p,c))

Semi-Formal Natural Language Axioms

if x is a ‘culture medium exchange process’ then x is a ‘planned process’ that ‘has occurrent part’ some ‘material addition process’ that ‘has input’ some ‘culture medium’ bearing some ‘transferred material role’, ‘has occurrent part’ some ‘material removal process’ that ‘has specified output’ some ‘material entity’ that either is some ‘culture medium’ having some ‘spent culture medium state’ or ‘has continuant part at all times’ some ‘culture medium’ having some ‘spent culture medium state’, and is ‘occurrent part of’ some ‘planned process’ that ‘has participant at some time’ some ‘cell culture’

Description Logic

constr:CultureMediumExchangeProcess ⊑ constr:PlannedProcess

constr:CultureMediumExchangeProcess ⊑ ∃ bfo:has_occurrent_part .(constr:MaterialAdditionProcess ⊓ ∃ constr:hasInput .(constr:CultureMedium ⊓ ∃ constr:hasRole .constr:TransferredMaterialRole))

constr:CultureMediumExchangeProcess ⊑ ∃ bfo:has_occurrent_part .(constr:MaterialRemovalProcess ⊓ ∃ constr:hasSpecifiedOutput .((bfo:material_entity ⊓ ∃ bfo:has_continuant_part_at_all_times .(constr:CultureMedium ⊓ ∃ constr:hasMaterialState .constr:SpentCultureMediumState)) ⊔ (constr:CultureMedium ⊓ ∃ constr:hasMaterialState .constr:SpentCultureMediumState)))

constr:CultureMediumExchangeProcess ⊑ ∃ bfo:occurrent_part_of .(constr:PlannedProcess ⊓ ∃ bfo:has_participant_at_some_time .constr:CellCulture)

SubClassOf: constr:PlannedProcess

SubClassOf: bfo:has_occurrent_part some (constr:MaterialAdditionProcess and constr:hasInput some (constr:CultureMedium and constr:hasRole some constr:TransferredMaterialRole))

SubClassOf: bfo:has_occurrent_part some (constr:MaterialRemovalProcess and constr:hasSpecifiedOutput some ((bfo:material_entity and bfo:has_continuant_part_at_all_times some (constr:CultureMedium and constr:hasMaterialState some constr:SpentCultureMediumState)) or (constr:CultureMedium and constr:hasMaterialState some constr:SpentCultureMediumState)))

SubClassOf: bfo:occurrent_part_of some (constr:PlannedProcess and bfo:has_participant_at_some_time some constr:CellCulture)