Speaker
Namiko Mitarai
(Niels Bohr Institute)
Description
Transcription and translation are fundamental processes in
gene expression. In this talk, we first introduce the
dynamics of bacterial transcription initiation and its
effect on the cellular heterogeneity in the number of mRNAs,
with and without transcriptional regulation [1,2],
highlighting the importance of the intermediate steps in
transcription initiation [3]. A formalism parallel to this
can be applied to the ribosome initiation [4], while the
difference in the reaction rates making the occlusion time
much important for the latter.
We then discuss recent experimental results [5,6] about how
the ribosome binding and initiation can affect protein
synthesis in various ways using a stochastic model.
[1]Mitarai, N., Dodd, I. B., Crooks, M. T., & Sneppen, K.
(2008). The generation of promoter-mediated transcriptional
noise in bacteria. PLoS computational biology, 4(7), e1000109.
[2]Nakanishi, H., Mitarai, N., & Sneppen, K. (2008).
Dynamical analysis on gene activity in the presence of
repressors and an interfering promoter. Biophysical journal,
95(9), 4228-4240.
[3]McClure, W. R. (1980). Rate-limiting steps in RNA chain
initiation. Proceedings of the National Academy of Sciences,
77(10), 5634-5638.
[4] Ringquist, S., Shinedling, S., Barrick, D., Green, L.,
Binkley, J., Stormo, G. D., & Gold, L. (1992). Translation
initiation in Escherichia coli: sequences within the
ribosome‐binding site. Molecular microbiology, 6(9), 1219-1229.
[5] Eriksen, M., Mitarai, N., Sneppen, K., & Pedersen, S.
(2015). submitted.
[6] Terkelsen, T. B, Madsen, J. E.,Eriksen, M., Mitarai, N,
Runge, C., Pedersen, M., Sneppen, K., and Pedersen S. (2015)
submitted.
