Container Subsystem: Difference between revisions
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The container subsystem is responsible for spatial organization of the synthetic cell. In its simplest form, it consists of a biocompatible material that encapsulates the cytoplasm. More complicated container subsystems might include additional internal spatial structure. In some cases, the boundary of the container subsystem may not be completely distinct from the surrounding environment, as is the case with a condensate or other non-membrane-bound method of spatial organization. | The container subsystem is responsible for spatial organization of the synthetic cell. In its simplest form, it consists of a biocompatible material that encapsulates the cytoplasm. More complicated container subsystems might include additional internal spatial structure (localization, sub-compartments, etc). In some cases, the boundary of the container subsystem may not be completely distinct from the surrounding environment, as is the case with a condensate or other non-membrane-bound method of spatial organization. | ||
== Vesicle-Based Systems == | == Vesicle-Based Systems == | ||
=== Phospholipid Vesicles === | === Phospholipid Vesicles === | ||
== Polymerosome-Based Systems == | |||
== Droplet-Based Systems == | == Droplet-Based Systems == | ||
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== Condensate-Based Systems == | == Condensate-Based Systems == | ||
== Implementation in BioCRNpyler == | == Modeling and Specification == | ||
=== Implementation in BioCRNpyler === | |||
[[BioCRNpyler]] contains two separate capabilities that are needed for defining containers. The first is the ability to model separate compartments that contain isolated sets of chemical reactions. The second is a set of mechanisms for transport across membranes, including passive diffusion, pores, and transporters. This latter functionality is defined more careful in the [[Transport Subsystem]] chapter, and we focus here on the container functionality. | |||
=== Subsystem specifications === | |||
[[Category:Subsystem]] | |||
Latest revision as of 20:36, 12 September 2025
The container subsystem is responsible for spatial organization of the synthetic cell. In its simplest form, it consists of a biocompatible material that encapsulates the cytoplasm. More complicated container subsystems might include additional internal spatial structure (localization, sub-compartments, etc). In some cases, the boundary of the container subsystem may not be completely distinct from the surrounding environment, as is the case with a condensate or other non-membrane-bound method of spatial organization.
Vesicle-Based Systems
Phospholipid Vesicles
Polymerosome-Based Systems
Droplet-Based Systems
Condensate-Based Systems
Modeling and Specification
Implementation in BioCRNpyler
BioCRNpyler contains two separate capabilities that are needed for defining containers. The first is the ability to model separate compartments that contain isolated sets of chemical reactions. The second is a set of mechanisms for transport across membranes, including passive diffusion, pores, and transporters. This latter functionality is defined more careful in the Transport Subsystem chapter, and we focus here on the container functionality.