Data on 30-year stand dynamics in an old-growth broad-leaved forest in the Kaluzhskie Zaseki State Nature Reserve, Russia

The article provides primary data on repeated tree measurements collected during two censuses on a permanent sampling plot (440 m × 200 m) established in the old-growth polydominant broad-leaved forest in the Kaluzhskie Zaseki State Nature Reserve (centre of European Russia). The time span between the inventories was 30 years, and a total of 11 578 individuals of ten tree, one shrub species, and several undefined tree species of three known genera were registered. During the surveys, tree identity, stem diameter at breast height (DBH) of 1.3 m, and life status (alive or dead) were recorded for every tree individual with DBH ≥ 5 cm. Additional attributes were determined for some individuals. Field data were digitised and compiled into the PostgreSQL database. An accurate data quality assessment, validation, and cleaning (with documentation of changes) have been performed before data standardisation according to the Darwin Core standard. Standardised data were published through the GBIF repository. From 1986 to 1988, 9811 individuals were recorded within the initial census, including 3920 Corylus avellana individual shrubs. Corylus avellana shrubs were recorded without measuring DBH. From 2016 to 2018, 7658 stems were recorded in the recensus, including 3090 living trees marked during the initial census, and 1641 other living trees reaching the DBH of at least 5 cm. Corylus avellana was not included in the recensus. Thus, over 30 years, about 65% of living tree individuals have survived, but the total number of living trees has not changed considerably. The mean diameter of shade-intolerant tree species (Quercus robur, Fraxinus excelsior, Populus tremula, and Betula spp.) has increased the most remarkably during 30 years. For these species, the increase in average diameter, along with the decrease in numbers, is associated with the death of young trees, presumably due to low illumination under the canopy. Contrastingly, shade-tolerant tree species (Ulmus glabra, Tilia cordata, Acer platanoides) increased in number, while their mean diameter increased slightly or even decreased, that evidences the successful regeneration of these species under the canopy. These data are relevant for investigating forest ecology questions at spatiotemporal scales as a model of natural succession

Analysis of Spatial Point Patterns in Nuclear Biology

There is considerable interest in cell biology in determining whether, and to what extent, the spatial arrangement of nuclear objects affects nuclear function. A common approach to address this issue involves analyzing a collection of images produced using some form of fluorescence microscopy. We assume that these images have been successfully pre-processed and a spatial point pattern representation of the objects of interest within the nuclear boundary is available. Typically in these scenarios, the number of objects per nucleus is low, which has consequences on the ability of standard analysis procedures to demonstrate the existence of spatial preference in the pattern. There are broadly two common approaches to look for structure in these spatial point patterns. First a spatial point pattern for each image is analyzed individually, or second a simple normalization is performed and the patterns are aggregated. In this paper we demonstrate using synthetic spatial point patterns drawn from predefined point processes how difficult it is to distinguish a pattern from complete spatial randomness using these techniques and hence how easy it is to miss interesting spatial preferences in the arrangement of nuclear objects. The impact of this problem is also illustrated on data related to the configuration of PML nuclear bodies in mammalian fibroblast cells

Pilot optical alignment

PILOT (Polarized Instrument for Long wavelength Observations of the Tenuous interstellar medium) is a balloonborne astronomy experiment designed to study the polarization of dust emission in the diffuse interstellar medium in our Galaxy. The PILOT instrument allows observations at wavelengths 240 μm and 550 μm with an angular resolution of about two arcminutes. The observations performed during the two first flights performed from Timmins, Ontario Canada, and from Alice-springs, Australia, respectively in September 2015 and in April 2017 have demonstrated the good performances of the instrument. Pilot optics is composed of an off axis Gregorian type telescope combined with a refractive re-imager system. All optical elements, except the primary mirror, which is at ambient temperature, are inside a cryostat and cooled down to 3K. The whole optical system is aligned on ground at room temperature using dedicated means and procedures in order to keep the tight requirements on the focus position and ensure the instrument optical performances during the various phases of a flight. We’ll present the optical performances and the firsts results obtained during the two first flight campaigns. The talk describes the system analysis, the alignment methods, and finally the inflight performances

Reconstructing the reproductive mode of an Ediacaran macro-organism.

Enigmatic macrofossils of late Ediacaran age (580-541 million years ago) provide the oldest known record of diverse complex organisms on Earth, lying between the microbially dominated ecosystems of the Proterozoic and the Cambrian emergence of the modern biosphere. Among the oldest and most enigmatic of these macrofossils are the Rangeomorpha, a group characterized by modular, self-similar branching and a sessile benthic habit. Localized occurrences of large in situ fossilized rangeomorph populations allow fundamental aspects of their biology to be resolved using spatial point process techniques. Here we use such techniques to identify recurrent clustering patterns in the rangeomorph Fractofusus, revealing a complex life history of multigenerational, stolon-like asexual reproduction, interspersed with dispersal by waterborne propagules. Ecologically, such a habit would have allowed both for the rapid colonization of a localized area and for transport to new, previously uncolonized areas. The capacity of Fractofusus to derive adult morphology by two distinct reproductive modes documents the sophistication of its underlying developmental biology.This work has been supported by the Natural Environment Research Council [grant numbers NE/I005927/1 to C.G.K., NE/J5000045/1 to J.J.M., NE/L011409/1 to A.G.L. and NE/G523539/1 to E.G.M.], and a Henslow Junior Research Fellowship from Cambridge Philosophical Society to A.G.L.This is the author accepted manuscript. The final version is available from NPG via http://dx.doi.org/10.1038/nature1464

Bayesian spatial NBDA for diffusion data with home-base coordinates

Network-based diffusion analysis (NBDA) is a statistical method that allows the researcher to identify and quantify a social influence on the spread of behaviour through a population. Hitherto, NBDA analyses have not directly modelled spatial population structure. Here we present a spatial extension of NBDA, applicable to diffusion data where the spatial locations of individuals in the population, or of their home bases or nest sites, are available. The method is based on the estimation of inter-individual associations (for association matrix construction) from the mean inter-point distances as represented on a spatial point pattern of individuals, nests or home bases. We illustrate the method using a simulated dataset, and show how environmental covariates (such as that obtained from a satellite image, or from direct observations in the study area) can also be included in the analysis. The analysis is conducted in a Bayesian framework, which has the advantage that prior knowledge of the rate at which the individuals acquire a given task can be incorporated into the analysis. This method is especially valuable for studies for which detailed spatially structured data, but no other association data, is available. Technological advances are making the collection of such data in the wild more feasible: for example, bio-logging facilitates the collection of a wide range of variables from animal populations in the wild. We provide an R package, spatialnbda, which is hosted on the Comprehensive R Archive Network (CRAN). This package facilitates the construction of association matrices with the spatial x and y coordinates as the input arguments, and spatial NBDA analyses

Pilot optical alignment

PILOT (Polarized Instrument for Long wavelength Observations of the Tenuous interstellar medium) is a balloonborne astronomy experiment designed to study the polarization of dust emission in the diffuse interstellar medium in our Galaxy. The PILOT instrument allows observations at wavelengths 240 μm (1.2THz) with an angular resolution about two arc-minutes. The observations performed during the first flight in September 2015 at Timmins, Ontario Canada, have demonstrated the optical performances of the instrument

Analysis of tree stand horizontal structure using random point field methods

This paper uses the model approach to analyze the horizontal structure of forest stands. The main types of models of random point fields and statistical procedures that can be used to analyze spatial patterns of trees of uneven and even-aged stands are described. We show how modern methods of spatial statistics can be used to address one of the objectives of forestry – to clarify the laws of natural thinning of forest stand and the corresponding changes in its spatial structure over time. Studying natural forest thinning, we describe the consecutive stages of modeling: selection of the appropriate parametric model, parameter estimation and generation of point patterns in accordance with the selected model, the selection of statistical functions to describe the horizontal structure of forest stands and testing of statistical hypotheses. We show the possibilities of a specialized software package, spatstat, which is designed to meet the challenges of spatial statistics and provides software support for modern methods of analysis of spatial data. We show that a model of stand thinning that does not consider inter-tree interaction can project the size distribution of the trees properly, but the spatial pattern of the modeled stand is not quite consistent with observed data. Using data of three even-aged pine forest stands of 25, 55, and 90-years old, we demonstrate that the spatial point process models are useful for combining measurements in the forest stands of different ages to study the forest stand natural thinning