In this paper, we establish a large deviation principle for the entropy production rate of possible non-stationary, centered stable Gauss–Markov chains, verifying the Gallavotti–Cohen symmetry. We reach this goal by developing a large deviation theory for quasi-Toeplitz quadratic functionals of multivariate centered stable Gauss–Markov chains, which differ from a perfect Toeplitz form by the addition of quadratic boundary terms.

Aims: To screen the extracellular proteolytic and lipolytic activities of Corynebacterium variabilis NCDO 2101 and to purify and characterize a proline iminopeptidase enzyme in order to investigate the role of the major component of the smear of bacterial surface-ripened cheeses. Methods and Results: Four chromatographic steps were used to purify the enzyme and a three-factor, ®ve-level Central Composite Design was used to study the interactive effects of cheese-related values of pH, NaCl and temperature. The proline iminopeptidase showed some biochemical properties different from the same enzyme puri®ed from lactic acid bacteria and other smear bacteria. It tolerated NaCl concentrations up to 7á5% and was sensitive to low values of pH especially when they were combined with low temperature. Conclusions: The proline iminopeptidase of C. variabilis NCDO 2101 may have a role in proteolysis during ripening of smear surface-ripened cheeses. Signi®cance and Impact of the Study: The ®ndings of this work contribute to the knowledge of the enzymology of smear bacteria in order to improve the ripening of bacterial surface-ripened cheeses.

We study the large deviations of the power injected by the active force for an active Ornstein–Uhlenbeck particle (AOUP), free or in a confining potential. For the free-particle case, we compute the rate function analytically in d-dimensions from a saddle-point expansion, and numerically in two dimensions by (a) direct sampling of the active work in numerical solutions of the AOUP equations and (b) Legendre–Fenchel transform of the scaled cumulant generating function obtained via a cloning algorithm. The rate function presents asymptotically linear branches on both sides and it is independent of the system’s dimensionality, apart from a multiplicative factor. For the confining potential case, we focus on two-dimensional systems and obtain the rate function numerically using both methods (a) and (b). We find a different scenario for harmonic and anharmonic potentials: in the former case, the phenomenology of fluctuations is analogous to that of a free particle, but the rate function might be non-analytic; in the latter case the rate functions are analytic, but fluctuations are realised by entirely different means, which rely strongly on the particle-potential interaction. Finally, we check the validity of a fluctuation relation for the active work distribution. In the free-particle case, the relation is satisfied with a slope proportional to the bath temperature. The same slope is found for the harmonic potential, regardless of activity, and for an anharmonic potential with low activity. In the anharmonic case with high activity, instead, we find a different slope which is equal to an effective temperature obtained from the fluctuation–dissipation theorem.

Within each human cell, different kinds of RNA polymerases and a panoply of transcription factors bind chromatin to simultaneously determine 3D chromosome structure and transcriptional programme. Experiments show that, in some cases, different proteins segregate to form specialised transcription factories; in others they mix together, binding promiscuously the same chromatin stretch. Here, we use Brownian dynamics simulations to study a polymer model for chromosomes accounting for multiple types ('colours') of chromatin-binding proteins. Our multi-colour model shows the spontaneous emergence of both segregated and mixed clusters of chromatin bound proteins, depending mainly on their size, thereby reconciling the previous experimental observations. Additionally, remarkable small-world networks emerge; in these, positive and negative correlations in activities of transcription units provide simple explanations of why adjacent units in large domains are co-transcribed so often, and how one eQTL (expression quantitative trait locus) can up-regulate some genes and down-regulate others. We also explain how local genome edits induce distant om- nigenic and pangenomic effects, and develop ways to predict activities of all transcription units on human chromosomes. All results point to 1D location being a key determinant of transcription, consistently with the conservation of synteny seen between rapidly-evolving enhancers and their more stable target genes.

The motion of a Brownian particle in the presence of Coulomb friction and an asymmetric spatial potential was evaluated in this study. The system exhibits a ratchet effect, i.e., an average directed motion even in the absence of an external force, induced by the coupling of non-equilibrium conditions with the spatial asymmetry. Both the average motion and the fluctuations of the Brownian particle were analysed. The stationary velocity shows a non-monotonic behaviour as a function of both the temperature and the viscosity of the bath. The diffusion properties of the particle, which show several time regimes, were also investigated. To highlight the role of non-linear friction in the dynamics, a comparison is presented with a linear model of a Brownian particle driven by a constant external force, which allows for analytical treatment. In particular, the study unveils that the passage times between different temporal regimes are strongly affected by the presence of Coulomb friction.