Synergistic use of Sentinel-2 and UAV-derived data for plant fractional cover distribution mapping of coastal meadows with digital elevation models

Coastal wetlands provide a range of ecosystem services, yet they are currently under threat from global change impacts. Thus, their monitoring and assessment is vital for evaluating their status, extent and distribution. Remote sensing provides an excellent tool for evaluating coastal ecosystems, whether with small-scale studies using drones or national-/regional-/global-scale studies using satellite-derived data. This study used a fine-scale plant community classification of coastal meadows in Estonia derived from a multispectral camera on board unoccupied aerial vehicles (UAVs) to calculate the plant fractional cover (PFC) in Sentinel-2 MultiSpectral Instrument (MSI) sensor grids. A random forest (RF) algorithm was trained and tested with vegetation indices (VIs) calculated from the spectral bands extracted from the MSI sensor to predict the PFC. Additional RF models were trained and tested after adding a digital elevation model (DEM). After comparing the models, results show that using DEM with VIs can increase the prediction accuracy of PFC up to 2 times (R2 58%-70%). This suggests the use of ancillary data such as DEM to improve the prediction of empirical machine learning models, providing an appropriate approach to upscale local studies to wider areas for management and conservation purposes

Catalogue of new Herbig Ae/Be and classical Be stars - A machine learning approach to Gaia DR2

Context. The intermediate-mass pre-main sequence Herbig Ae/Be stars are key to understanding the differences in formation mechanisms between low- and high-mass stars. The study of the general properties of these objects is hampered by the lack of a well-defined, homogeneous sample, and because few and mostly serendipitously discovered sources are known. Aims. Our goal is to identify new Herbig Ae/Be candidates to create a homogeneous and well defined catalogue of these objects. Methods. We have applied machine learning techniques to 4 150 983 sources with data from Gaia DR2, 2MASS, WISE, and IPHAS or VPHAS+. Several observables were chosen to identify new Herbig Ae/Be candidates based on our current knowledge of this class, which is characterised by infrared excesses, photometric variabilities, and Hα emission lines. Classical techniques are not efficient for identifying new Herbig Ae/Be stars mainly because of their similarity with classical Be stars, with which they share many characteristics. By focusing on disentangling these two types of objects, our algorithm has also identified new classical Be stars. Results. We have obtained a large catalogue of 8470 new pre-main sequence candidates and another catalogue of 693 new classical Be candidates with a completeness of 78.8 ± 1.4% and 85.5 ± 1.2%, respectively. Of the catalogue of pre-main sequence candidates, at least 1361 sources are potentially new Herbig Ae/Be candidates according to their position in the Hertzsprung-Russell diagram. In this study we present the methodology used, evaluate the quality of the catalogues, and perform an analysis of their flaws and biases. For this assessment, we make use of observables that have not been accounted for by the algorithm and hence are selection-independent, such as coordinates and parallax based distances. The catalogue of new Herbig Ae/Be stars that we present here increases the number of known objects of the class by an order of magnitude

Gaia DR2 study of Herbig Ae/Be stars

Aims. We use Gaia Data Release 2 (DR2) to place 252 Herbig Ae/Be stars in the Hertzsprung–Russell diagram and investigate their characteristics and properties. Methods. For all known Herbig Ae/Be stars with parallaxes in Gaia DR2, we collected their atmospheric parameters and photometric and extinction values from the literature. To these data we added near-infrared and mid-infrared photometry, and collected Hα emission line properties such as equivalent widths and line profiles, and their binarity status. In addition, we developed a photometric variability indicator from Gaia’s DR2 information. Results. We provide masses, ages, luminosities, distances, photometric variabilities and IR excesses homogeneously derived for the most complete sample of Herbig Ae/Be stars to date. We find that high-mass stars have a much smaller IR excess and have much lower optical variabilities compared to lower-mass stars, with the break at around 7 M⊙. Hα emission is generally correlated with IR excess, with the correlation being stronger for IR emission at wavelengths tracing the hot dust closest to the star. The variability indicator as developed by us shows that ∼25% of all Herbig Ae/Be stars are strongly variable. We observe that the strongly variable objects display doubly peaked Hα line profiles, indicating an edge-on disk. Conclusions. The fraction of strongly variable Herbig Ae stars is close to that found for A-type UX Ori stars. It had been suggested that this variability is in most cases due to asymmetric dusty disk structures seen edge-on. The observation here is in strong support of this hypothesis. Finally, the difference in dust properties occurs at 7 M⊙, while various properties traced at UV/optical wavelengths differ at a lower mass, 3 M⊙. The latter has been linked to different accretion mechanisms at work, whereas the differing IR properties and photometric variabilities are related to different or differently acting (dust-)disk-dispersal mechanisms

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

Fitness Ranking of Individual Mutants Drives Patterns of Epistatic Interactions in HIV-1

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited

Association between free testosterone levels and anal human papillomavirus Types 16/18 infections in a cohort of men who have sex with men

Background Human papillomavirus (HPV) types 16 and 18 cause invasive cervical cancer and most invasive anal cancers (IACs). Overall, IAC rates are highest among men who have sex with men (MSM), especially MSM with HIV infection. Testosterone is prescribed for men showing hypogonadism and HIV-related wasting. While there are direct and indirect physiological effects of testosterone in males, its role in anal HPV16/18 infections in men is unknown. Methods Free testosterone (FT) was measured in serum from 340 Multicenter AIDS Cohort Study (MACS) participants who were tested for anal HPV16/18-DNA approximately 36 months later. The effect of log10-transformed current FT level on anal HPV16/18 prevalence was modeled using Poisson regression with robust error variance. Multivariate models controlled for other HPV types, cumulative years of exogenous testosterone use, race, age, lifetime number of receptive anal intercourse partnerships, body mass index, tobacco smoking, HIV-infection and CD4+ T-cell counts among HIV-infected, and blood draw timing. Results Participants were, on average, 60 (+5.4) years of age, White (86%), and HIV-uninfected (56%); Twenty-four percent tested positive for anal HPV16 and/or 18-DNA (HPV16 prevalence= 17.1%, HPV18=9.1%). In adjusted analysis, each half-log10 increase of FT was associated with a 1.9-fold (95% Confidence Interval: 1.11, 3.24) higher HPV16/18 prevalence. Additionally, other Group 1 high-risk HPVs were associated with a 1.56-fold (1.03, 2.37) higher HPV16/18 prevalence. Traditional risk factors for HPV16/18 infection (age, tobacco smoking; lifetime number of sexual partners, including the number of receptive anal intercourse partnerships within 24 months preceding HPV testing) were poorly correlated with one another and not statistically significantly associated with higher prevalence of HPV16/ 18 infection in unadjusted and adjusted analyses. Conclusions Higher free testosterone was associated with increased HPV16/18 prevalence measured approximately three years later, independent of sexual behavior and other potential confounders. The mechanisms underlying this association remain unclear and warrant further study

Methodological considerations in the analysis of fecal glucocorticoid metabolites in tufted capuchins (Cebus apella)

Analysis of fecal glucocorticoid (GC) metabolites has recently become the standard method to monitor adrenocortical activity in primates noninvasively. However, given variation in the production, metabolism, and excretion of GCs across species and even between sexes, there are no standard methods that are universally applicable. In particular, it is important to validate assays intended to measure GC production, test extraction and storage procedures, and consider the time course of GC metabolite excretion relative to the production and circulation of the native hormones. This study examines these four methodological aspects of fecal GC metabolite analysis in tufted capuchins (Cebus apella). Specifically, we conducted an adrenocorticotrophic hormone (ACTH) challenge on one male and one female capuchin to test the validity of four GC enzyme immunoassays (EIAs) and document the time course characterizing GC me- tabolite excretion in this species. In addition, we compare a common field-friendly technique for extracting fecal GC metabolites to an established laboratory extraction methodology and test for effects of storing “field extracts” for up to 1 yr. Results suggest that a corticosterone EIA is most sensitive to changes in GC production, provides reliable measures when extracted according to the field method, and measures GC metabolites which remain highly stable after even 12 mo of storage. Further, the time course of GC metabolite excretion is shorter than that described yet for any primate taxa. These results provide guidelines for studies of GCs in tufted capuchins, and underscore the importance of validating methods for fecal hormone analysis for each species of interest

Microglia-Secreted Factors Enhance Dopaminergic Differentiation of Tissue- and iPSC-Derived Human Neural Stem Cells

In this article, Schmidt and colleagues show that differentiating human NSCs in co-culture with microglia enhance dopaminergic differentiation. The effect is consistent across different NSC and microglial cell lines but restricted to microglia of embryonic origin. TNFα, IL-1β, and IGF1 are identified as key mediators of the effect, providing new insights into factors stimulating dopaminergic differentiation.Microglia have recently been established as key regulators of brain development. However, their role in neuronal subtype specification remains largely unknown. Using three different co-culture setups, we show that microglia-secreted factors enhance dopaminergic differentiation of somatic and induced pluripotent stem cell-derived human neural stem cells (NSCs). The effect was consistent across different NSC and microglial cell lines and was independent of prior microglial activation, although restricted to microglia of embryonic origin. We provide evidence that the effect is mediated through reduced cell proliferation and decreased apoptosis and necrosis orchestrated in a sequential manner during the differentiation process. tumor necrosis factor alpha, interleukin-1β, and insulinlike growth factor 1 are identified as key mediators of the effect and shown to directly increase dopaminergic differentiation of human NSCs. These findings demonstrate a positive effect of microglia on dopaminergic neurogenesis and may provide new insights into inductive and protective factors that can stimulate in vitro derivation of dopaminergic neurons.Innovation Fund Denmark (BrainStem; www.brainstem.dk), the Lundbeck Foundation, the Danish Parkinson Foundation, the Jascha Foundation, IMK Almene Fond, the A.P. Møller Foundation, and the Faculty of Health Sciences, University of Southern Denmar