Characterization of spatio-temporal dynamics of the constrained network of the filamentous fungus Podospora anserina using a geomatics-based approach.

In their natural environment, fungi are subjected to a wide variety of environmental stresses which they must cope with by constantly adapting the architecture of their growing network. In this work, our objective was to finely characterize the thallus development of the filamentous fungus Podospora anserina subjected to different constraints that are simple to implement in vitro and that can be considered as relevant environmental stresses, such as a nutrient-poor environment or non-optimal temperatures. At the Petri dish scale, the observations showed that the fungal thallus is differentially affected (thallus diameter, mycelium aspect) according to the stresses but these observations remain qualitative. At the hyphal scale, we showed that the extraction of the usual quantities (i.e. apex, node, length) does not allow to distinguish the different thallus under stress, these quantities being globally affected by the application of a stress in comparison with a thallus having grown under optimal conditions. Thanks to an original geomatics-based approach based on the use of automatized Geographic Information System (GIS) tools, we were able to produce maps and metrics characterizing the growth dynamics of the networks and then to highlight some very different dynamics of network densification according to the applied stresses. The fungal thallus is then considered as a map and we are no longer interested in the quantity of material (hyphae) produced but in the empty spaces between the hyphae, the intra-thallus surfaces. This study contributes to a better understanding of how filamentous fungi adapt the growth and densification of their network to potentially adverse environmental changes.

Macroeconomic dynamics in a finite world based on thermodynamic potential.

This paper presents a conceptual model describing the medium and long term co-evolution of natural and socio-economic subsystems of Earth. An economy is viewed as an out-of-equilibrium dissipative structure that can only be maintained with a flow of energy and matter. The distinctive approach emphasized here consists in capturing the economic impact of natural ecosystems' depletion by human activities via a pinch of thermodynamic potentials. This viewpoint allows: (i) the full-blown integration of a limited quantity of primary resources into a non-linear macrodynamics that is stock-flow consistent both in terms of matter-energy and economic transactions; (ii) the inclusion of natural and forced recycling; (iii) the inclusion of a friction term which reflects the impossibility to produce (and recycle)goods and services without exuding energy and matter wastes, and (iv) the computation of the anthropically produced entropy as a function of metabolizing intensity and frictions. Analysis and numerical computations confirm the role played by intensity and frictions as key factors for sustainability by contrast with real GDP growth-as well as the interplay between resource scarcity, income inequality, and inflation. A more egalitarian society with moderate inflation turns out to be more sustainable than an unequal society with low inflation. Our approach is flexible enough to allow for various economic models to be embedded into our thermodynamic framework. Finally, we propose the open source ECODYCO software as a first complete realization implementing economic dynamics in a multi-resource environment.

Variable renewable energy penetration impact on productivity: A case study of poultry farming.

Like all current industrial systems, agriculture overwhelmingly relies on energy supply from controllable sources, mainly fossil fuels and grid electricity. Power supply from these sources can be adapted to perfectly match the timing of power requirements of demand systems. The energy transition largely consists in substituting renewable power-which is intermittent by nature-to controllable sources, leading to disconnection between instantaneous power production and demand. Energy storage is a potential solution for balancing production and demand and safeguarding the operating conditions of the demand system. In this paper we quantify the effects of renewable power supply (solar and wind) on the operation of a standard poultry farm. We model the balance of power generation and demand considering the growth conditions of poultry and local weather data including temperatures, wind speed and solar radiation. We assess scenarios of renewable power supply in function of the size of the power plant, the wind-to-solar power generation mix and energy storage, and assess the impact of power supply patterns on the operating intensity (productivity) of the demand system. We show that, with a limited storage capacity, it is possible to achieve non-negligible shares of renewable power penetration without major loss in farm productivity. However, a full transition to renewable power would require the combination of i)-large energy storage compared to the annual demand, ii)- significant oversizing of the power production plant, and iii)-the exclusion of power generation combinations (wind/solar) that deviate from the timing of demand. Storage and power plant oversizing is all the more critical as production and demand are uncorrelated over the year. The ratio of useful to unused energy storage by the end of the year varies with the energy mix and operating intensity (productivity) of the farm. We discuss the implications of different energy configurations on the performance of the demand system.

Prediction and experimental evidence of different growth phases of the Podospora anserina hyphal network.

Under ideal conditions, the growth of the mycelial network of a filamentous fungus is monotonous, showing an ever increasing complexity with time. The components of the network growth are very simple and based on two mechanisms: the elongation of each hypha, and their multiplication by successive branching. These two mechanisms are sufficient to produce a complex network, and could be localized only at the tips of hyphae. However, branching can be of two types, apical or lateral, depending on its location on the hyphae, therefore imposing the redistribution of the necessary material in the whole mycelium. From an evolutionary point of view, maintaining different branching processes, with additional energy needs for structure and metabolism, is intriguing. We propose in this work to discuss the advantages of each branching type using a new observable for the network growth, allowing us to compare growth configurations. For this purpose, we build on experimental observations of the Podospora anserina mycelium growth, enabling us to feed and constrain a lattice-free modeling of this network based on a binary tree. First, we report the set of statistics related to the branches of P. anserina that we have implemented into the model. Then, we build the density observable, allowing us to discuss the succession of growth phases. We predict that density over time is not monotonic, but shows a decay growth phase, clearly separated from an other one by a stationary phase. The time of appearance of this stable region appears to be driven solely by the growth rate. Finally, we show that density is an appropriate observable to differentiate growth stress.

Prediction and experimental evidence of the optimisation of the angular branching process in the thallus growth of Podospora anserina.

Based upon apical growth and hyphal branching, the two main processes that drive the growth pattern of a fungal network, we propose here a two-dimensions simulation based on a binary-tree modelling allowing us to extract the main characteristics of a generic thallus growth. In particular, we showed that, in a homogeneous environment, the fungal growth can be optimized for exploration and exploitation of its surroundings with a specific angular distribution of apical branching. Two complementary methods of extracting angle values have been used to confront the result of the simulation with experimental data obtained from the thallus growth of the saprophytic filamentous fungus Podospora anserina. Finally, we propose here a validated model that, while being computationally low-cost, is powerful enough to test quickly multiple conditions and constraints. It will allow in future works to deepen the characterization of the growth dynamic of fungal network, in addition to laboratory experiments, that could be sometimes expensive, tedious or of limited scope.

Adapted or Adaptable: How to Manage Entropy Production?

Adaptable or adapted? Whether it is a question of physical, biological, or even economic systems, this problem arises when all these systems are the location of matter and energy conversion. To this interdisciplinary question, we propose a theoretical framework based on the two principles of thermodynamics. Considering a finite time linear thermodynamic approach, we show that non-equilibrium systems operating in a quasi-static regime are quite deterministic as long as boundary conditions are correctly defined. The Novikov-Curzon-Ahlborn derivation applied to non-endoreversible systems then makes it possible to precisely determine the conditions for obtaining characteristic operating points. As a result, power maximization principle (MPP), entropy minimization principle (mEP), efficiency maximization, or waste minimization states are only specific modalities of system operation. We show that boundary conditions play a major role in defining operating points because they define the intensity of the feedback that ultimately characterizes the operation. Armed with these thermodynamic foundations, we show that the intrinsically most efficient systems are also the most constrained in terms of controlling the entropy and dissipation production. In particular, we show that the best figure of merit necessarily leads to a vanishing production of power. On the other hand, a class of systems emerges, which, although they do not offer extreme efficiency or power, have a wide range of use and therefore marked robustness. It therefore appears that the number of degrees of freedom of the system leads to an optimization of the allocation of entropy production.

Characterization of three multicopper oxidases in the filamentous fungus Podospora anserina: A new role of an ABR1-like protein in fungal development?

The Podospora anserina genome contains a large family of 15 multicopper oxidases (MCOs), including three genes encoding a FET3-like protein, an ABR1-like protein and an ascorbate oxidase (AO)-like protein. FET3, ABR1 and AO1 are involved in global laccase-like activity since deletion of the relevant genes led to a decrease of activity when laccase substrate (ABTS) was used as substrate. However, contrary to the P. anserina MCO proteins previously characterized, none of these three MCOs seemed to be involved in lignocellulose degradation and in resistance to phenolic compounds and oxidative stress. We showed that the bulk of ferroxidase activity was clearly due to ABR1, and only in minor part to FET3, although ABR1 does not contain all the residues typical of FET3 proteins. Moreover, we showed that ABR1, related to the Aspergillus fumigatus ABR1 protein, was clearly and specifically involved in pigmentation of ascospores. Surprisingly, phenotypes were more severe in mutants lacking both abr1 and ao1. Deletion of the ao1 gene led to an almost total loss of AO activity. No direct involvement of AO1 in fungal developmental process in P. anserina was evidenced, except in a abr1Δ background. Overall, unlike other previously characterized MCOs, we thus evidence a clear involvement of ABR1 protein in fungal development.

Cavitation in heavy water and other liquids.

We report on measurements of the cavitation pressure in several liquids subjected to tension in an acoustic wave and compare the results to classical nucleation theory (CNT). This study is motivated by the sizable discrepancy between the acoustic cavitation threshold measured in water and the value predicted by CNT. We find that the same discrepancy is present for heavy water, whereas the agreement is better for ethanol and heptane and intermediate in the case of dimethyl sulfoxide. It is well-known that water is an anomalous liquid, a consequence of its hydrogen-bonded network. The other liquids studied represent very different molecular interactions. Our results indicate that the cavitation threshold approaches the prediction of CNT as the surface tension gets smaller. Conversely, this raises the question of the validity of a simple theory such as CNT to account for high surface tension liquids and suggests that an appropriate microscopic model of such liquids may be necessary to correctly predict the cavitation threshold.

Observation of the nonlinear dispersion relation and spatial statistics of wave turbulence on the surface of a fluid.

We report experiments on gravity-capillary wave turbulence on the surface of a fluid. The wave amplitudes are measured simultaneously in time and space by using an optical method. The full space-time power spectrum shows that the wave energy is localized on several branches in the wave-vector-frequency space. The number of branches depends on the power injected within the waves. The measurement of the nonlinear dispersion relation is found to be well described by a law suggesting that the energy transfer mechanisms involved in wave turbulence are restricted not only to purely resonant interaction between nonlinear waves. The power-law scaling of the spatial spectrum and the probability distribution of the wave amplitudes at a given wave number are also measured and compared to the theoretical predictions.

Energy-based adaptive focusing of waves: application to noninvasive aberration correction of ultrasonic wavefields.

An aberration correction method based on the maximization of the wave intensity at the focus of an emitting array is presented. The potential of this new adaptive focusing technique is investigated for ultrasonic focusing in biological tissues. The acoustic intensity is maximized noninvasively through direct measurement or indirect estimation of the beam energy at the focus for a series of spatially coded emissions. For ultrasonic waves, the acoustic energy at the desired focus can be indirectly estimated from the local displacements induced in tissues by the ultrasonic radiation force of the beam. Based on the measurement of these displacements, this method allows determination of the precise estimation of the phase and amplitude aberrations, and consequently the correction of aberrations along the beam travel path. The proof of concept is first performed experimentally using a large therapeutic array with strong electronic phase aberrations (up to 2pi). Displacements induced by the ultrasonic radiation force at the desired focus are indirectly estimated using the time shift of backscattered echoes recorded on the array. The phase estimation is deduced accurately using a direct inversion algorithm which reduces the standard deviation of the phase distribution from sigma = 1.89 radian before correction to sigma = 0.53 radian following correction. The corrected beam focusing quality is verified using a needle hydrophone. The peak intensity obtained through the aberrator is found to be -7.69 dB below the reference intensity obtained without any aberration. Using the phase correction, a sharp focus is restored through the aberrator with a relative peak intensity of -0.89 dB. The technique is tested experimentally using a linear transmit/receive array through a real aberrating layer. The array is used to automatically correct its beam quality, as it both generates the radiation force with coded excitations and indirectly estimates the acoustic intensity at the focus with speckle tracking. This technique could have important implications in the field of high-intensity focused ultrasound even in complex configurations such as transcranial, transcostal, or deep seated organs.

Cavitation in plants at low temperature: is sap transport limited by the tensile strength of water as expected from Briggs' Z-tube experiment?

Xylem cavitation in plants is thought to be caused by a loss of adhesion at the conduit wall surface because a rupture in the body of the water column was implicitly ruled out by an experiment by Lyman J. Briggs with Z-tube capillaries. However, Briggs reported a drastic increase in cavitation pressure of water below 5 degrees C which, if it were also true in xylem conduits, would suggest that water transport in plants could be limited by water cohesion at low temperature. In this study we have repeated Briggs' experiment using stem segments. Xylem vulnerability curves were obtained with a centrifuge technique at 1, 25 and 50 degrees C on yew (Taxus baccata). Contrary to Briggs' finding, vulnerability to cavitation, measured as per cent loss conductance, did not increase sharply at 1 degrees C and was even less than at 25 degrees C and 50 degrees C. Moreover, the onset of cavitation in yew at 1 degrees C was measured at a much more negative pressure than Briggs' value. This points out an artefact in Brigg's experiment at low temperature possibly related to imperfections in the tube walls which act as cavitation nuclei.

Cavitation pressure in water.

We investigate the limiting mechanical tension (negative pressure) that liquid water can sustain before cavitation occurs. The temperature dependence of this quantity is of special interest for water, where it can be used as a probe of a postulated anomaly of its equation of state. After a brief review of previous experiments on cavitation, we describe our method which consists in focusing a high amplitude sound wave in the bulk liquid, away from any walls. We obtain highly reproducible results, allowing us to study in detail the statistics of cavitation, and to give an accurate definition of the cavitation threshold. Two independent pressure calibrations are performed. The cavitation pressure is found to increase monotonically from -26 MPa at 0 degrees C to -17 MPa at 80 degrees C. While these values lie among the most negative pressures reported in water, they are still far away from the cavitation pressure expected theoretically and reached in the experiment by Angell and his group [Zheng, Science 254, 829 (1991)] (around -120 MPa at 40 degrees C). Possible reasons for this discrepancy are considered.