MIL-CELL: a tool for multi-scale simulation of yeast replication and prion transmission.
[PIN+]
[PSI+]
[URE3]
amyloid
computer model
kinetics
yeast prion
Journal
European biophysics journal : EBJ
ISSN: 1432-1017
Titre abrégé: Eur Biophys J
Pays: Germany
ID NLM: 8409413
Informations de publication
Date de publication:
Nov 2023
Nov 2023
Historique:
received:
08
05
2023
accepted:
14
08
2023
revised:
08
08
2023
medline:
28
11
2023
pubmed:
6
9
2023
entrez:
5
9
2023
Statut:
ppublish
Résumé
The single-celled baker's yeast, Saccharomyces cerevisiae, can sustain a number of amyloid-based prions, the three most prominent examples being [URE3], [PSI+], and [PIN+]. In the laboratory, haploid S. cerevisiae cells of a single mating type can acquire an amyloid prion in one of two ways (i) spontaneous nucleation of the prion within the yeast cell, and (ii) receipt via mother-to-daughter transmission during the cell division cycle. Similarly, prions can be lost due to (i) dissolution of the prion amyloid by its breakage into non-amyloid monomeric units, or (ii) preferential donation/retention of prions between the mother and daughter during cell division. Here we present a computational tool (Monitoring Induction and Loss of prions in Cells; MIL-CELL) for modelling these four general processes using a multiscale approach describing both spatial and kinetic aspects of the yeast life cycle and the amyloid-prion behavior. We describe the workings of the model, assumptions upon which it is based and some interesting simulation results pertaining to the wave-like spread of the epigenetic prion elements through the yeast population. MIL-CELL is provided as a stand-alone GUI executable program for free download with the paper. MIL-CELL is equipped with a relational database allowing all simulated properties to be searched, collated and graphed. Its ability to incorporate variation in heritable properties means MIL-CELL is also capable of simulating loss of the isogenic nature of a cell population over time. The capability to monitor both chronological and reproductive age also makes MIL-CELL potentially useful in studies of cell aging.
Identifiants
pubmed: 37670150
doi: 10.1007/s00249-023-01679-4
pii: 10.1007/s00249-023-01679-4
pmc: PMC10682183
doi:
Substances chimiques
Saccharomyces cerevisiae Proteins
0
Prions
0
Amyloid
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
673-704Subventions
Organisme : JSPS
ID : 21K20633
Organisme : JSPS
ID : 23K05712
Informations de copyright
© 2023. The Author(s).
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