Optimal localization patterns in bacterial protein synthesis

In $\textit{Escherichia coli}$ bacterium, the molecular compounds involved in protein synthesis, messenger RNAs (mRNAs) and ribosomes, show marked intracellular localization patterns. Yet a quantitative understanding of the physical principles which would allow one to control protein synthesis by designing, bioengineering, and optimizing these localization patterns is still lacking. In this study, we consider a scenario where a synthetic modification of mRNA reaction-diffusion properties allows for controlling the localization and stoichiometry of mRNAs and polysomes$\mathrm{-}$complexes of multiple ribosomes bound to mRNAs. Our analysis demonstrates that protein synthesis can be controlled, e.g., optimally enhanced or inhibited, by leveraging mRNA spatial localization and stoichiometry only, without resorting to alterations of mRNA expression levels. We identify the physical mechanisms that control the protein-synthesis rate, highlighting the importance of colocalization between mRNAs and freely diffusing ribosomes, and the interplay between polysome stoichiometry and excluded-volume effects due to the DNA nucleoid. The genome-wide, quantitative predictions of our work may allow for a direct verification and implementation in cell-biology experiments, where localization patterns and protein-synthesis rates may be monitored by fluorescence microscopy in single cells and populations

Non-perturbative effects in spin glasses

We present a numerical study of an Ising spin glass with hierarchical interactions - the hierarchical Edwards-Anderson model with an external magnetic field (HEA). We study the model with Monte Carlo (MC) simulations in the mean-field (MF) and non-mean-field (NMF) regions corresponding to $d\geq4$ and $d<4$ for the $d$-dimensional ferromagnetic Ising model respectively. We compare the MC results with those of a renormalization-group (RG) study where the critical fixed point is treated as a perturbation of the MF one, along the same lines as in the $\epsilon$-expansion for the Ising model. The MC and the RG method agree in the MF region, predicting the existence of a transition and compatible values of the critical exponents. Conversely, the two approaches markedly disagree in the NMF case, where the MC data indicates a transition, while the RG analysis predicts that no perturbative critical fixed point exists. Also, the MC estimate of the critical exponent $\nu$ in the NMF region is about twice as large as its classical value, even if the analog of the system dimension is within only $\sim 2\%$ from its upper-critical-dimension value. Taken together, these results indicate that the transition in the NMF region is governed by strong non-perturbative effects

A renormalization group computation of the critical exponents of hierarchical spin glasses

The infrared behaviour of a non-mean field spin-glass system is analysed, and the critical exponent related to the divergence of the correlation length is computed at two loops within the epsilon-expansion technique with two independent methods. Both methods yield the same result confirming that the infrared behaviour of the theory if well-defined and the underlying ideas of the Renormalization Group hold also in such non-mean field disordered model. By pushing such calculation to high orders in epsilon, a consistent and predictive non-mean field theory for such disordered system could be established