An agent-based model for mRNA export through the nuclear pore complex.
Bottom Line: On running the model, we observed that mRNA export is sensitive to the number and distribution of transport receptors coating the mRNA and that there is a rate-limiting step in the nuclear basket that is potentially associated with the mRNA reconfiguring itself to thread into the central channel.Of note, our results also suggest that using a single location-monitoring mRNA label may be insufficient to correctly capture the time regime of mRNA threading through the pore and subsequent transport.This has implications for future experimental design to study mRNA transport dynamics.
Affiliation: Molecular Cell Biomechanics Laboratory, Departments of Bioengineering and Mechanical Engineering, Graduate Program in Chemical Biology, Berkeley, Berkeley, CA 94720.Show MeSH
Related in: MedlinePlus
Mentions: More-granular representations of single-tag and double-tag mRNA residence times are shown in Figure 4 for the nuclear basket and Figure 5 for the central channel. A nonparametric Wilcoxon rank-sum test comparing residence times obtained using the two different mRNA- tracking approaches confirmed that residence times were significantly different for all affinities, with the exception of 120 μM for the nuclear basket and 160 μM for the central channel. We suspect that there was a lack of significance at those affinities partly due to sparse sampling of successful transport events.
Affiliation: Molecular Cell Biomechanics Laboratory, Departments of Bioengineering and Mechanical Engineering, Graduate Program in Chemical Biology, Berkeley, Berkeley, CA 94720.