Publications by Daniel Maria Busiello

Information Propagation in Multilayer Systems with Higher-Order Interactions across Timescales

Daniel Maria Busiello, Giorgio Nicoletti

Complex systems are characterized by multiple spatial and temporal scales. A natural framework to capture their multiscale nature is that of multilayer networks, where different layers represent distinct physical processes that often regulate each other in ...

American Physical Society2024

ABC transporters are billion-year-old Maxwell Demons

Paolo De Los Rios, Solange Marie Flatt, Stefano Zamuner, Daniel Maria Busiello

ATP-Binding Cassette (ABC) transporters are a broad family of biological machines, found in most prokaryotic and eukaryotic cells, performing the crucial import or export of substrates through both plasma and organellar membranes, and maintaining a steady ...

NATURE PORTFOLIO2023

Individual and combined benefits of different nonequilibrium proofreading mechanisms

Paolo De Los Rios, Adélaïde Alice Mohr, Stefano Zamuner, Daniel Maria Busiello

Genome duplication, transcription, and translation are among many crucial cellular processes that need to be performed with high fidelity. However, those extremely low error rates cannot be explained with simple equilibrium thermodynamic considerations. Th ...

Amer Physical Soc2023

Fluctuations of entropy production of a run-and-tumble particle

Deepak Gupta, Amos Maritan, Daniel Maria Busiello

Out-of-equilibrium systems continuously generate entropy, with its rate of production being a fingerprint of nonequilibrium conditions. In small-scale dissipative systems subject to thermal noise, fluctuations of entropy production are significant. Hithert ...

AMER PHYSICAL SOC2023

Emergent thermophoretic behavior in chemical reaction systems

Paolo De Los Rios, Shiling Liang, Daniel Maria Busiello

Exposing a solution to a temperature gradient can lead to the accumulation of particles on either the cold or warm side. This phenomenon is known as thermophoresis, and its microscopic origin is still debated. Here, we show that thermophoresis can be obser ...

IOP Publishing Ltd2022

Hyperaccurate bounds in discrete-state Markovian systems

Daniel Maria Busiello

Generalized empirical currents represent a vast class of thermodynamic observables of mesoscopic systems. Their fluctuations satisfy the thermodynamic uncertainty relations (TURs), as they can be bounded by the average entropy production. Here, we derive a ...

2022

Mutual information in changing environments: Nonlinear interactions, out-of-equilibrium systems, and continuously varying diffusivities

Daniel Maria Busiello, Giorgio Nicoletti

Biochemistry, ecology, and neuroscience are examples of prominent fields aiming at describing interacting systems that exhibit nontrivial couplings to complex, ever-changing environments. We have recently shown that linear interactions and a switching envi ...

AMER PHYSICAL SOC2022

Information-driven transitions in projections of underdamped dynamics

Amos Maritan, Daniel Maria Busiello, Giorgio Nicoletti

Low-dimensional representations of underdamped systems often provide useful insights and analytical tractability. Here, we build such representations via information projections, obtaining an optimal model that captures the most information on observed spa ...

AMER PHYSICAL SOC2022

Emergence of synchronised and amplified oscillations in neuromorphic networks with long-range interactions

Samir Suweis, Daniel Maria Busiello

Neuromorphic networks can be described in terms of coarse-grained variables, where emergent sus-tained behaviours spontaneously arise if stochasticity is properly taken into account. For example it has been recently found that a directed linear chain of co ...

ELSEVIER2021

Dissipation-driven selection of states in non-equilibrium chemical networks

Paolo De Los Rios, Francesco Piazza, Shiling Liang, Daniel Maria Busiello

Life has most likely originated as a consequence of processes taking place in non-equilibrium conditions (e.g. in the proximity of deep-sea thermal vents) selecting states of matter that would have been otherwise unfavorable at equilibrium. Here we present ...

2021

Light‐switchable buffers

Kay Severin, Rosario Scopelliti, Cristian Pezzato, Farzaneh Fadaei Tirani, Stefano Zamuner, Cesare Berton, Daniel Maria Busiello

A visible light-switchable buffer system based on a protonated merocyanine photoacid is presented. Para -substitution of the indolium side with a methoxy group affords a compound suitable for making hydrolytically stable aqueous buffers whose pH can be tun ...

Wiley-VCH Verlag GmbH2021

Bidirectional propagation of low frequency oscillations over the human hippocampal surface

Paolo De Los Rios, Shiling Liang, Daniel Maria Busiello

The hippocampus is diversely interconnected with other brain systems along its axis. Cycles of theta-frequency activity are believed to propagate from the septal to temporal pole, yet it is unclear how this one-way route supports the flexible cognitive cap ...

Nature Research2021

Equilibrium and non-equilibrium furanose selection in the ribose isomerisation network

Paolo De Los Rios, Francesco Piazza, Shiling Liang, Daniel Maria Busiello

The exclusive presence of beta -D-ribofuranose in nucleic acids is still a conundrum in prebiotic chemistry, given that pyranose species are substantially more stable at equilibrium. However, a precise characterisation of the relative furanose/pyranose fra ...

Nature Research2021

Inducing and optimizing Markovian Mpemba effect with stochastic reset

Daniel Maria Busiello

A hot Markovian system can cool down faster than a colder one: this is known as the Mpemba effect. Here, we show that a non-equilibrium driving via stochastic reset can induce this phenomenon, when absent. Moreover, we derive an optimal driving protocol si ...

IOP Publishing Ltd2021

Mutual Information Disentangles Interactions from Changing Environments

Daniel Maria Busiello, Giorgio Nicoletti

Real-world systems are characterized by complex interactions of their internal degrees of freedom, while living in ever-changing environments whose net effect is to act as additional couplings. Here, we introduce a paradigmatic interacting model in a switc ...

AMER PHYSICAL SOC2021

Dissipation-Driven Selection under Finite Diffusion: Hints from Equilibrium and Separation of Time Scales

Paolo De Los Rios, Shiling Liang, Daniel Maria Busiello

When exposed to a thermal gradient, reaction networks can convert thermal energy into the chemical selection of states that would be unfavourable at equilibrium. The kinetics of reaction paths, and thus how fast they dissipate available energy, might be do ...

MDPI2021

Tighter thermodynamic bound on the speed limit in systems with unidirectional transitions

Deepak Gupta, Daniel Maria Busiello

We consider a general discrete state-space system with both unidirectional and bidirectional links. In contrast to bidirectional links, there is no reverse transition along the unidirectional links Herein, we first compute the statistical length and the th ...

2020

Coarse-grained entropy production with multiple reservoirs: Unraveling the role of time scales and detailed balance in biology-inspired systems

Deepak Gupta, Amos Maritan, Daniel Maria Busiello

A general framework to describe a vast majority of biology-inspired systems is to model them as stochastic processes in which multiple couplings are in play at the same time. Molecular motors, chemical reaction networks, catalytic enzymes, and particles ex ...

2020

Thermodynamics and kinetics of protonated merocyanine photoacids in water

Kay Severin, Rosario Scopelliti, Euro Solari, Cristian Pezzato, Farzaneh Fadaei Tirani, Stefano Zamuner, Cesare Berton, Daniel Maria Busiello

Metastable-state photoacids (mPAHs) are chemical species whose photo-activated state is long-lived enough to allow for proton diffusion. Liao's photoacid (1) represents the archetype of mPAHs, and is being widely used on account of its unique capability to ...

2020

Entropy production in systems with unidirectional transitions

Amos Maritan, Daniel Maria Busiello

The entropy production is one of the most essential features for systems operating out of equilibrium. The formulation for discrete-state systems goes back to the celebrated Schnakenberg's work and hitherto can be carried out when for each transition betwe ...

2020