Approximating Mexican highways with slime mould

Plasmodium of Physarum polycephalum is a single cell visible by unaided eye. During its foraging behavior the cell spans spatially distributed sources of nutrients with a protoplasmic network. Geometrical structure of the protoplasmic networks allows the plasmodium to optimize transport of nutrients between remote parts of its body. Assuming major Mexican cities are sources of nutrients how much structure of Physarum protoplasmic network correspond to structure of Mexican Federal highway network? To find an answer undertook a series of laboratory experiments with living Physarum polycephalum. We represent geographical locations of major cities by oat flakes, place a piece of plasmodium in Mexico city area, record the plasmodium's foraging behavior and extract topology of nutrient transport networks. Results of our experiments show that the protoplasmic network formed by Physarum is isomorphic, subject to limitations imposed, to a network of principle highways. Ideas and results of the paper may contribute towards future developments in bio-inspired road planning

Investigation of transition frequencies of two acoustically coupled bubbles using a direct numerical simulation technique

The theoretical results regarding the ``transition frequencies'' of two acoustically interacting bubbles have been verified numerically. The theory provided by Ida [Phys. Lett. A 297 (2002) 210] predicted the existence of three transition frequencies per bubble, each of which has the phase difference of $\pi /2$ between a bubble's pulsation and the external sound field, while previous theories predicted only two natural frequencies which cause such phase shifts. Namely, two of the three transition frequencies correspond to the natural frequencies, while the remaining does not. In a subsequent paper [M. Ida, Phys. Rev. E 67 (2003) 056617], it was shown theoretically that transition frequencies other than the natural frequencies may cause the sign reversal of the secondary Bjerknes force acting between pulsating bubbles. In the present study, we employ a direct numerical simulation technique that uses the compressible Navier-Stokes equations with a surface-tension term as the governing equations to investigate the transition frequencies of two coupled bubbles by observing their pulsation amplitudes and directions of translational motion, both of which change as the driving frequency changes. The numerical results reproduce the recent theoretical predictions, validating the existence of the transition frequencies not corresponding to the natural frequency.Comment: 18 pages, 8 figures, in pres

Isoperimetric Inequalities in Simplicial Complexes

In graph theory there are intimate connections between the expansion properties of a graph and the spectrum of its Laplacian. In this paper we define a notion of combinatorial expansion for simplicial complexes of general dimension, and prove that similar connections exist between the combinatorial expansion of a complex, and the spectrum of the high dimensional Laplacian defined by Eckmann. In particular, we present a Cheeger-type inequality, and a high-dimensional Expander Mixing Lemma. As a corollary, using the work of Pach, we obtain a connection between spectral properties of complexes and Gromov's notion of geometric overlap. Using the work of Gunder and Wagner, we give an estimate for the combinatorial expansion and geometric overlap of random Linial-Meshulam complexes

Sonoluminescence as a QED vacuum effect. I: The Physical Scenario

Several years ago Schwinger proposed a physical mechanism for sonoluminescence in terms of changes in the properties of the quantum-electrodynamic (QED) vacuum state. This mechanism is most often phrased in terms of changes in the Casimir Energy: changes in the distribution of zero-point energies and has recently been the subject of considerable controversy. The present paper further develops this quantum-vacuum approach to sonoluminescence: We calculate Bogolubov coefficients relating the QED vacuum states in the presence of a homogeneous medium of changing dielectric constant. In this way we derive an estimate for the spectrum, number of photons, and total energy emitted. We emphasize the importance of rapid spatio-temporal changes in refractive indices, and the delicate sensitivity of the emitted radiation to the precise dependence of the refractive index as a function of wavenumber, pressure, temperature, and noble gas admixture. Although the physics of the dynamical Casimir effect is a universal phenomenon of QED, specific experimental features are encoded in the condensed matter physics controlling the details of the refractive index. This calculation places rather tight constraints on the possibility of using the dynamical Casimir effect as an explanation for sonoluminescence, and we are hopeful that this scenario will soon be amenable to direct experimental probes. In a companion paper we discuss the technical complications due to finite-size effects, but for reasons of clarity in this paper we confine attention to bulk effects.Comment: 25 pages, LaTeX 209, ReV-TeX 3.2, eight figures. Minor revisions: Typos fixed, references updated, minor changes in numerical estimates, minor changes in some figure

An objective comparison of cell-tracking algorithms

We present a combined report on the results of three editions of the Cell Tracking Challenge, an ongoing initiative aimed at promoting the development and objective evaluation of cell segmentation and tracking algorithms. With 21 participating algorithms and a data repository consisting of 13 data sets from various microscopy modalities, the challenge displays today's state-of-the-art methodology in the field. We analyzed the challenge results using performance measures for segmentation and tracking that rank all participating methods. We also analyzed the performance of all of the algorithms in terms of biological measures and practical usability. Although some methods scored high in all technical aspects, none obtained fully correct solutions. We found that methods that either take prior information into account using learning strategies or analyze cells in a global spatiotemporal video context performed better than other methods under the segmentation and tracking scenarios included in the challenge

Erratum: Tumour expression of leptin is associated with chemotherapy resistance and therapy-independent prognosis in gastro-oesophageal adenocarcinomas

Correction to: Corrigendum: British Journal of Cancer (2015) 113, 1641–1641. doi:10.1038/bjc.2015.391; published online 1 December 2015 Upon publication of the above corrigendum in the British Journal of Cancer, the authors noted that author KM Matula had been placed in the incorrect position on the author listing. The publishers would like to apologise for this mistake. The full and correct author listing is reproduced above

Where are we now with European forest multi-taxon biodiversity and where can we head to?

The European biodiversity and forest strategies rely on forest sustainable management (SFM) to conserve forest biodiversity. However, current sustainability assessments hardly account for direct biodiversity indicators. We focused on forest multi-taxon biodiversity to: i) gather and map the existing information; ii) identify knowledge and research gaps; iii) discuss its research potential. We established a research network to fit data on species, standing trees, lying deadwood and sampling unit description from 34 local datasets across 3591 sampling units. A total of 8724 species were represented, with the share of common and rare species varying across taxonomic classes: some included many species with several rare ones (e.g., Insecta); others (e.g., Bryopsida) were represented by few common species. Tree-related structural attributes were sampled in a subset of sampling units (2889; 2356; 2309 and 1388 respectively for diameter, height, deadwood and microhabitats). Overall, multi-taxon studies are biased towards mature forests and may underrepresent the species related to other developmental phases. European forest compositional categories were all represented, but beech forests were over-represented as compared to thermophilous and boreal forests. Most sampling units (94%) were referred to a habitat type of conservation concern. Existing information may support European conservation and SFM strategies in: (i) methodological harmonization and coordinated monitoring; (ii) definition and testing of SFM indicators and thresholds; (iii) data-driven assessment of the effects of environmental and management drivers on multi-taxon forest biological and functional diversity, (iv) multi-scale forest monitoring integrating in-situ and remotely sensed information

Global maps of soil temperature

Research in global change ecology relies heavily on global climatic grids derived from estimates of air temperature in open areas at around 2 m above the ground. These climatic grids do not reflect conditions below vegetation canopies and near the ground surface, where critical ecosystem functions occur and most terrestrial species reside. Here, we provide global maps of soil temperature and bioclimatic variables at a 1-km2 resolution for 0\u20135 and 5\u201315 cm soil depth. These maps were created by calculating the difference (i.e. offset) between in situ soil temperature measurements, based on time series from over 1200 1-km2 pixels (summarized from 8519 unique temperature sensors) across all the world's major terrestrial biomes, and coarse-grained air temperature estimates from ERA5-Land (an atmospheric reanalysis by the European Centre for Medium-Range Weather Forecasts). We show that mean annual soil temperature differs markedly from the corresponding gridded air temperature, by up to 10\ub0C (mean = 3.0 \ub1 2.1\ub0C), with substantial variation across biomes and seasons. Over the year, soils in cold and/or dry biomes are substantially warmer (+3.6 \ub1 2.3\ub0C) than gridded air temperature, whereas soils in warm and humid environments are on average slightly cooler ( 120.7 \ub1 2.3\ub0C). The observed substantial and biome-specific offsets emphasize that the projected impacts of climate and climate change on near-surface biodiversity and ecosystem functioning are inaccurately assessed when air rather than soil temperature is used, especially in cold environments. The global soil-related bioclimatic variables provided here are an important step forward for any application in ecology and related disciplines. Nevertheless, we highlight the need to fill remaining geographic gaps by collecting more in situ measurements of microclimate conditions to further enhance the spatiotemporal resolution of global soil temperature products for ecological applications

Global data on earthworm abundance, biomass, diversity and corresponding environmental properties

14 p.Earthworms are an important soil taxon as ecosystem engineers, providing a variety of crucial ecosystem functions and services. Little is known about their diversity and distribution at large spatial scales, despite the availability of considerable amounts of local-scale data. Earthworm diversity data, obtained from the primary literature or provided directly by authors, were collated with information on site locations, including coordinates, habitat cover, and soil properties. Datasets were required, at a minimum, to include abundance or biomass of earthworms at a site. Where possible, site-level species lists were included, as well as the abundance and biomass of individual species and ecological groups. This global dataset contains 10,840 sites, with 184 species, from 60 countries and all continents except Antarctica. The data were obtained from 182 published articles, published between 1973 and 2017, and 17 unpublished datasets. Amalgamating data into a single global database will assist researchers in investigating and answering a wide variety of pressing questions, for example, jointly assessing aboveground and belowground biodiversity distributions and drivers of biodiversity change