Confinement of surface spinners in liquid metamaterials.

We show that rotating particles at the liquid-gas interface can be efficiently manipulated using the surface-wave analogue of optical lattices. Two orthogonal standing waves generate surface flows of counter-rotating half-wavelength unit cells, the liquid interface metamaterial, whose geometry is controlled by the wave phase shift. Here we demonstrate that by placing active magnetic spinners inside such metamaterials, one makes a powerful tool which allows manipulation and self-assembly of spinners, turning them into vehicles capable of transporting matter and information between autonomous metamaterial unit cells. We discuss forces acting on a spinner carried by a nonuniform flow and show how the forces confine spinners to orbit inside the same-sign vortex cells of the wave-driven flow. Reversing the spin, we move the spinner into an adjacent cell. By changing the spinning frequency or the wave amplitude, one can precisely control the spinner orbit. Multiple spinners within a unit cell self-organize into stable patterns, e.g., triangles or squares, orbiting around the center of the cell. Spinners having different frequencies can also be confined, such that the higher-frequency spinner occupies the inner orbit and the lower-frequency one circles on the outer orbit, while the orbital motions of both spinners are synchronized.

Flight-crash events in turbulence.

The statistical properties of turbulence differ in an essential way from those of systems in or near thermal equilibrium because of the flux of energy between vastly different scales at which energy is supplied and at which it is dissipated. We elucidate this difference by studying experimentally and numerically the fluctuations of the energy of a small fluid particle moving in a turbulent fluid. We demonstrate how the fundamental property of detailed balance is broken, so that the probabilities of forward and backward transitions are not equal for turbulence. In physical terms, we found that in a large set of flow configurations, fluid elements decelerate faster than accelerate, a feature known all too well from driving in dense traffic. The statistical signature of rare "flight-crash" events, associated with fast particle deceleration, provides a way to quantify irreversibility in a turbulent flow. Namely, we find that the third moment of the power fluctuations along a trajectory, nondimensionalized by the energy flux, displays a remarkable power law as a function of the Reynolds number, both in two and in three spatial dimensions. This establishes a relation between the irreversibility of the system and the range of active scales. We speculate that the breakdown of the detailed balance characterized here is a general feature of other systems very far from equilibrium, displaying a wide range of spatial scales.

Canada Source Watershed Polygons (Can-SWaP): A dataset for the protection of Canada's municipal water supply.

Over 80% of municipal (i.e., excluding industrial and agricultural) water use in Canada comes from streams, lakes, and reservoirs. These freshwater bodies and their catchments require adequate protection to secure drinking water supply for Canadians. Canada, like most countries, lacks a consolidated national dataset of municipal catchments, arguably due to gaps in data availability. Against this backdrop, we present the Canada Source Watershed Polygons dataset, or Can-SWaP. Can-SWaP was created using point locations of more than 3,300 municipal water licences defining rights to surface water withdrawal. Where possible, the resulting 1,574 catchments were assessed for accuracy in spatial coverage against provincial and local datasets. Each watershed in Can-SWaP has an estimated water volume used for municipal water purposes derived from licencing data, and several variables from RiverATLAS for investigating the integrity of surface drinking water sources in Canada. Furthermore, basing our method on the HydroSHEDS suite of global products offers a robust framework for the production of other national datasets following an established international standard.

Rolling spinners on the water surface.

Angular momentum of spinning bodies leads to their remarkable interactions with fields, waves, fluids, and solids. Orbiting celestial bodies, balls in sports, liquid droplets above a hot plate, nanoparticles in optical fields, and spinning quantum particles exhibit nontrivial rotational dynamics. Here, we report self-guided propulsion of magnetic fast-spinning particles on a liquid surface in the presence of a solid boundary. Above some critical spinning frequency, such particles generate localized 3D vortices and form composite "spinner-vortex" quasiparticles with nontrivial, yet robust dynamics. Such spinner-vortices are attracted and dynamically trapped near the boundaries, propagating along the wall of any shape similarly to "liquid wheels." The propulsion velocity and the distance to the wall are controlled by the angular velocity of the spinner via the balance between the Magnus and wall repulsion forces. Our results offer a new type of surface vehicles and provide a powerful tool to manipulate spinning objects in fluids.

Scientists' warning on extreme wildfire risks to water supply.

2020 is the year of wildfire records. California experienced its three largest fires early in its fire season. The Pantanal, the largest wetland on the planet, burned over 20% of its surface. More than 18 million hectares of forest and bushland burned during the 2019-2020 fire season in Australia, killing 33 people, destroying nearly 2500 homes, and endangering many endemic species. The direct cost of damages is being counted in dozens of billion dollars, but the indirect costs on water-related ecosystem services and benefits could be equally expensive, with impacts lasting for decades. In Australia, the extreme precipitation ("200 mm day -1 in several location") that interrupted the catastrophic wildfire season triggered a series of watershed effects from headwaters to areas downstream. The increased runoff and erosion from burned areas disrupted water supplies in several locations. These post-fire watershed hazards via source water contamination, flash floods, and mudslides can represent substantial, systemic long-term risks to drinking water production, aquatic life, and socio-economic activity. Scenarios similar to the recent event in Australia are now predicted to unfold in the Western USA. This is a new reality that societies will have to live with as uncharted fire activity, water crises, and widespread human footprint collide all-around of the world. Therefore, we advocate for a more proactive approach to wildfire-watershed risk governance in an effort to advance and protect water security. We also argue that there is no easy solution to reducing this risk and that investments in both green (i.e., natural) and grey (i.e., built) infrastructure will be necessary. Further, we propose strategies to combine modern data analytics with existing tools for use by water and land managers worldwide to leverage several decades worth of data and knowledge on post-fire hydrology.

A geospatial dataset providing first-order indicators of wildfire risks to water supply in Canada and Alaska.

First-order, high level indicators of wildfire risk to water resources are paramount to understand growing wildfire-related water security challenges in Canada and Alaska. Information pertaining to forest cover, fire activity, water availability, and location of populated places was collected from multiple institutional sources. Manual and semi-automated processes were used to clean disparate source data and create four harmonized geospatial layers whose content was summarized for each of the 1468 existing sub-sub watersheds covering Alaska and Canada. The final dataset provides a master layer based on sub-sub-watershed boundaries that contains relevant information to create spatial indicators of wildfire risk to water security. These can be used to identify potentially at-risk regions in high-latitude watersheds of North America. The dataset can be further used within a larger, general risk assessment framework considering other environmental stressors to water security, including climate change and population growth. The dataset described herein was used to make a figure in the manuscript "Wildfire impacts on hydrologic ecosystem services in North American high-latitude forests: A scoping review" by Robinne et al. [1].

Surface waves control bacterial attachment and formation of biofilms in thin layers.

Formation of bacterial biofilms on solid surfaces within a fluid starts when bacteria attach to the substrate. Understanding environmental factors affecting the attachment and the early stages of the biofilm development will help develop methods of controlling the biofilm growth. Here, we show that biofilm formation is strongly affected by the flows in thin layers of bacterial suspensions controlled by surface waves. Deterministic wave patterns promote the growth of patterned biofilms, while wave-driven turbulent motion discourages patterned attachment of bacteria. Strong biofilms form under the wave antinodes, while inactive bacteria and passive particles settle under nodal points. By controlling the wavelength, its amplitude, and horizontal mobility of the wave patterns, one can shape the biofilm and either enhance the growth or discourage the formation of the biofilm. The results suggest that the deterministic wave-driven transport channels, rather than hydrodynamic forces acting on microorganisms, determine the preferred location for the bacterial attachment.

Pandemic spotlight on urban water quality.

Surface water improvements associated with the COVID-19 economic slowdown illustrate environmental resiliency and societal control over urban water quality.

Characterisation and correction of signal fluctuations in successive acquisitions of microarray images.

BACKGROUND: There are many sources of variation in dual labelled microarray experiments, including data acquisition and image processing. The final interpretation of experiments strongly relies on the accuracy of the measurement of the signal intensity. For low intensity spots in particular, accurately estimating gene expression variations remains a challenge as signal measurement is, in this case, highly subject to fluctuations. RESULTS: To evaluate the fluctuations in the fluorescence intensities of spots, we used series of successive scans, at the same settings, of whole genome arrays. We measured the decrease in fluorescence and we evaluated the influence of different parameters (PMT gain, resolution and chemistry of the slide) on the signal variability, at the level of the array as a whole and by intensity interval. Moreover, we assessed the effect of averaging scans on the fluctuations. We found that the extent of photo-bleaching was low and we established that 1) the fluorescence fluctuation is linked to the resolution e.g. it depends on the number of pixels in the spot 2) the fluorescence fluctuation increases as the scanner voltage increases and, moreover, is higher for the red as opposed to the green fluorescence which can introduce bias in the analysis 3) the signal variability is linked to the intensity level, it is higher for low intensities 4) the heterogeneity of the spots and the variability of the signal and the intensity ratios decrease when two or three scans are averaged. CONCLUSION: Protocols consisting of two scans, one at low and one at high PMT gains, or multiple scans (ten scans) can introduce bias or be difficult to implement. We found that averaging two, or at most three, acquisitions of microarrays scanned at moderate photomultiplier settings (PMT gain) is sufficient to significantly improve the accuracy (quality) of the data and particularly those for spots having low intensities and we propose this as a general approach. For averaging and precise image alignment at sub-pixel levels we have made a program freely available on our web-site http://bioinfome.cgm.cnrs-gif.fr to facilitate implementation of this approach.

A major sea-level drop briefly precedes the Toarcian oceanic anoxic event: implication for Early Jurassic climate and carbon cycle.

Sea-level change is an important parameter controlling the expansion of oxygen-depleted conditions in neritic settings during oceanic anoxic events (OAEs). Despite this fundamental role, it remains on a short timescale (<1 Myr) one of the least constrained parameters for numerous OAEs. Here we present sedimentological and geochemical evidence from Morocco and East Greenland showing that a forced regression shortly precedes (ca.102 kyr) the major transgression associated with the Toarcian OAE. The forced regression can be correlated over distances greater than 3000 km in numerous Tethyan and Boreal basins, indicating that the relative sea-level change was driven by eustastic fluctuations. The major amplitude (>50 m) and short duration of the forced regression suggests that it was most likely related to the transient waxing and waning of polar ice sheet. We suggest that this short-lived glaciation might have a genetic link with the inception of the Toarcian OAE. Indeed, during the deglaciation and the accompanying sea-level rise, the thawing permafrost may have released important quantities of methane into the atmosphere that would have contributed to the Toarcian OAE rapid warming and its characteristic negative carbon isotope excursion. This study offers a hypothesis on how some hyperthermal events might be rooted in short-lived "cold-snap" episodes.

Expression ratio evaluation in two-colour microarray experiments is significantly improved by correcting image misalignment.

MOTIVATION: Two-colour microarrays are widely used to perform transcriptome analysis. In most cases, it appears that the 'red' and 'green' images resulting from the scan of a microarray slide are slightly shifted one with respect to the other. To increase the robustness of the measurement of the fluorescent emission intensities, multiple acquisitions with the same or different PMT gains can be used. In these cases, a systematic correction of image shift is required. RESULTS: To accurately detect this shift, we first developed an approach using cross-correlation. Second, we evaluated the most appropriate interpolation method to be used to derive the registered image. Then, we quantified the effects of image shifts on spot quality, using two different quality estimators. Finally, we measured the benefits associated with a systematic image registration. In this study, we demonstrate that registering the two images prior to data extraction provides a more reliable estimate of the two colours' ratio and thus increases the accuracy of measurements of variations in gene expression. AVAILABILITY: http://bioinfome.cgm.cnrs-gif.fr/.

A spatial evaluation of global wildfire-water risks to human and natural systems.

The large mediatic coverage of recent massive wildfires across the world has emphasized the vulnerability of freshwater resources. The extensive hydrogeomorphic effects from a wildfire can impair the ability of watersheds to provide safe drinking water to downstream communities and high-quality water to maintain riverine ecosystem health. Safeguarding water use for human activities and ecosystems is required for sustainable development; however, no global assessment of wildfire impacts on water supply is currently available. Here, we provide the first global evaluation of wildfire risks to water security, in the form of a spatially explicit index. We adapted the Driving forces-Pressure-State-Impact-Response risk analysis framework to select a comprehensive set of indicators of fire activity and water availability, which we then aggregated to a single index of wildfire-water risk using a simple additive weighted model. Our results show that water security in many regions of the world is potentially vulnerable, regardless of socio-economic status. However, in developing countries, a critical component of the risk is the lack of socio-economic capability to respond to disasters. Our work highlights the importance of addressing wildfire-induced risks in the development of water security policies; the geographic differences in the components of the overall risk could help adapting those policies to different regional contexts.

[Oncological results of 117 consecutive radical prostatectomies]. / Résultats carcinologiques de 117 prostatectomies radicales consécutives.

INTRODUCTION: The objective of this study was to evaluate the risk factors of biochemical recurrence in patients with prostate cancer treated by retropubic prostatectomy. MATERIAL AND METHODS: Retrospective analysis of 121 consecutive retropubic radical prostatectomies performed between January 1994 and December 1997. Biochemical recurrence was defined by PSA > or = 0.2 ng/ml. Biochemical recurrence-free survival rates were calculated by the actuarial method. Univariate and multivariate analysis of prognostic factors of biochemical recurrence was performed. RESULTS: The actuarial biochemical recurrence-free survival was 71% at 5 year and 63% at 7.5 years. Kaplan-Meier analysis did not reveal any difference for the risk of biochemical recurrence between patients with doubtful margins and those with positive margins. These two groups were therefore combined. Significant risk factors on univariate analysis were: pathological stage, grade of the predominant cell contingent on the specimen, margins, highest cell grade on biopsies, clinical stage, PSA level, perineural invasion and Gleason score. Significant risk factors for biochemical recurrence on multivariate analysis were: pathological stage, PSA > 10 ng/ml, the highest grade on biopsies, positive margins and perineural invasion. CONCLUSION: Doubtful margins and positive margins appear to be associated with the same risk of biochemical recurrence. The prognostic value of Gleason grade on the specimen is higher than that of the Gleason score. A high Gleason grade on biopsies is associated with a particularly poor prognosis.

Braid Entropy of Two-Dimensional Turbulence.

The evolving shape of material fluid lines in a flow underlies the quantitative prediction of the dissipation and material transport in many industrial and natural processes. However, collecting quantitative data on this dynamics remains an experimental challenge in particular in turbulent flows. Indeed the deformation of a fluid line, induced by its successive stretching and folding, can be difficult to determine because such description ultimately relies on often inaccessible multi-particle information. Here we report laboratory measurements in two-dimensional turbulence that offer an alternative topological viewpoint on this issue. This approach characterizes the dynamics of a braid of Lagrangian trajectories through a global measure of their entanglement. The topological length NE of material fluid lines can be derived from these braids. This length is found to grow exponentially with time, giving access to the braid topological entropy SBraid. The entropy increases as the square root of the turbulent kinetic energy and is directly related to the single-particle dispersion coefficient. At long times, the probability distribution of NE is positively skewed and shows strong exponential tails. Our results suggest that SBraid may serve as a measure of the irreversibility of turbulence based on minimal principles and sparse Lagrangian data.

CellMAC: a novel technology for encapsulation of mammalian cells in cellulose sulfate/pDADMAC capsules assembled on a transient alginate/Ca2+ scaffold.

Microencapsulation of desired mammalian cell phenotypes in biocompatible polymer matrices represents a powerful technology for cell-based therapies and biopharmaceutical manufacturing of protein therapeutics. We have pioneered a novel jet break-up-compatible process for encapsulation of mammalian cells in cellulose sulfate (CS)/poly-diallyl-dimethyl-ammoniumchloride (pDADMAC) (CellMAC) capsules. CS and pDADMAC polymerize on a transient ad hoc co-assembled Ca2+/alginate scaffold and form homogenous capsules following dissolution of the alginate core by Ca2+ chelating agents. CellMAC capsules exhibited excellent mechanical properties and showed a molecular weight cut-off between 43 and 77kDa. Chinese hamster ovary cells engineered for constitutive production of the glycohormone erythropoietin reached high viable cell densities when grown inside CellMAC capsules, while specific erythropoietin (EPO) productivities matched those of conventional non-encapsulated control cultures. CellMAC-encapsulated EPO-production cell lines induced increased EPO serum levels when implanted intraperitoneally into mice and provided robust glycoprotein production during standard stirred-tank bioreactor operation. We expect the CellMAC technology to foster advances in therapeutic encapsulation of engineered cell lines as well as manufacturing of protein pharmaceuticals.

Lagrangian scale of particle dispersion in turbulence.

Transport of mass, heat and momentum in turbulent flows by far exceeds that in stable laminar fluid motions. As turbulence is a state of a flow dominated by a hierarchy of scales, it is not clear which of these scales mostly affects particle dispersion. Also, it is not uncommon that turbulence coexists with coherent vortices. Here we report on Lagrangian statistics in laboratory two-dimensional turbulence. Our results provide direct experimental evidence that fluid particle dispersion is determined by a single measurable Lagrangian scale related to the forcing scale. These experiments offer a new way of predicting dispersion in turbulent flows in which one of the low energy scales possesses temporal coherency. The results are applicable to oceanographic and atmospheric data, such as those obtained from trajectories of free-drifting instruments in the ocean.

Gas-inducible product gene expression in bioreactors.

Inducible transgene expression technologies are of unmatched potential for biopharmaceutical manufacturing of unstable, growth-impairing and cytotoxic proteins as well as conditional metabolic engineering to improve desired cell phenotypes. Currently available transgene dosing modalities which rely on physical parameters or small-molecule drugs for transgene fine-tuning compromise downstream processing and/or are difficult to implement technologically. The recently designed gas-inducible acetaldehyde-inducible regulation (AIR) technology takes advantage of gaseous acetaldehyde to modulate product gene expression levels. At regulation effective concentrations gaseous acetaldehyde is physiologically inert and approved as food additive by the Federal Drug Administration (FDA). During standard bioreactor operation, gaseous acetaldehyde could simply be administered using standard/existing gas supply tubing and eventually eliminated by stripping with inducer-free air. We have determined key parameters controlling acetaldehyde transfer in three types of bioreactors and designed a mass balance-based model for optimal product gene expression fine-tuning using gaseous acetaldehyde. Operating a standard stirred-tank bioreactor set-up at 10 L scale we have validated AIR technology using CHO-K1-derived serum-free suspension cultures transgenic for gas-inducible production of human interferon-beta (IFN-beta). Gaseous acetaldehyde-inducible IFN-beta production management was fully reversible while maintaining cell viability at over 95% during the entire process. Compatible with standard bioreactor design and downstream processing procedures AIR-based technology will foster novel opportunities for pilot and large-scale manufacturing of difficult-to-produce protein pharmaceuticals.