Process_RNADecay – RNA decay

Name
WID Process_RNADecay
Name RNA decay
 
Implementation
Initialization order 23 View in model
 
Reactions
Chemical reactions View in model
 
Parameters
Parameters View in model
 
Comments
Comments First, transcripts are hydrolytically cleaved into 10-30 nucleotide fragments by ribonuclease R (MG_104_MONOMER) in an energy-dependent fashion [PUB_0039]. Second, RNA fragments are hydrolytically and spontaneously degraded, producing individual NMPs. RNA decay is modeled as a Poisson process. First, RNAs are stochastically selected for degradation with Poisson parameters equal to the experimentally measured decay rates. Second, available ribonuclease R and energy are distributed among the selected transcripts according to the length of each transcript and the measured kinetics of ribonuclease R, and transcripts are degraded. Models decay of RNA molecules as a poisson process with rate parameter, lambda = RNAs .* decayRates * object.simulationStep
References
  1. Nicholson AW. Function, mechanism and regulation of bacterial ribonucleases. FEMS Microbiol Rev 23, 371-90 (1999). WholeCell: PUB_0039, PubMed: 10371039

 
Metadata
Created 2012-10-01 15:07:35
Last updated 2012-10-01 15:14:00