Spatial smoothing techniques for the assessment of habitat suitability

Precise knowledge about factors influencing the habitat suitability of a certain species forms the basis for the implementation of effective programs to conserve biological diversity. Such knowledge is frequently gathered from studies relating abundance data to a set of influential variables in a regression setup. In particular, generalised linear models are used to analyse binary presence/absence data or counts of a certain species at locations within an observation area. However, one of the key assumptions of generalised linear models, the independence of observations is often violated in practice since the points at which the observations are collected are spatially aligned. In this paper, we describe a general framework for semiparametric spatial generalised linear models that allows for the routine analysis of non-normal spatially aligned regression data. The approach is utilised for the analysis of a data set of synthetic bird species in beech forests, revealing that ignorance of spatial dependence actually may lead to false conclusions in a number of situations.

Lead poisoning and other human-related factors cause significant mortality in white-tailed eagles

The white-tailed eagle (Haliaeetus albicilla) suffered a severe population decline due to environmental pollutants in the Baltic Sea area ca. 50 years ago but has since been recovering. The main threats for the white-tailed eagle in Finland are now often related to human activities. We examined the human impact on the white-tailed eagle by determining mortality factors of 123 carcasses collected during 2000–2014. Routine necropsy with chemical analyses for lead and mercury were done on all carcasses. We found human-related factors accounting for 60% of the causes of death. The most important of these was lead poisoning (31% of all cases) followed by human-related accidents (e.g. electric power lines and traffic) (24%). The temporal and regional patterns of occurrence of lead poisonings suggested spent lead ammunition as the source. Lead shot was found in the gizzards of some lead-poisoned birds. Scavenging behaviour exposes the white-tailed eagle to lead from spent ammunition.     

Evaluating coal tar-water partitioning coefficient estimation methods and solute-solvent molecular interactions in tar phase

Equilibrium partitioning coefficients between an industrial coal tar sample and water (K(CT/w)) were determined for 41 polar and nonpolar solutes in batch systems. Together with literature values, 69 K(CT/w) data were analyzed using the following model approaches: Raoult's law, the single parameter linear free energy relationship (SPLFER) with octanol-water partitioning coefficients (K(ow)), the linear solvation energy relationships (LSERs), SPARC and COSMOtherm. Estimations by Raoult's law and the SPLFER agreed well with the experimental log K(CT/w) values for the investigated coal tar, with root mean square errors (RMSE) of 0.31 and 0.33, respectively. LSER resulted in as good estimations (RMSE=0.29) as the previous two. The LSER analysis revealed significant hydrogen (H)-bond acceptor properties of the studied coal tar phase. Using naphthalene as a surrogate solvent for the coal tar phase, SPARC and COSMOtherm provided fairly good predictions (RMSE of 0.63 and 0.65, respectively) of log K(CT/w), without any additional empirical parameter. Further calculations using SPARC and COSMOtherm for partitioning between water and other tar-components (e.g., benzofuran, phenol and quinoline) suggested that minor components in coal tar do not significantly influence K(CT/w) of nonpolar solutes, and that Raoult's law and the SPLFER thus may be generally applied to these types of solutes, e.g., polycyclic aromatic hydrocarbons and alkylbenzenes, regardless of coal tar compositions. In contrast, partitioning of H-bonding solutes (e.g., phenols) can significantly vary depending on the amount of polar tar-components such as N-heterocyclic aromatic compounds. Therefore, the presented successful applications of Raoult's law and SPLFER to the studied coal tar could be a special case, and these simple approaches may not provide reasonable estimations for partitioning of H-bonding solutes from compositionally different coal tars.     

Abundances and flux estimates of volatile organic compounds from a dairy cowshed in Germany

Animal husbandry and manure treatment have been specifically documented as significant sources of methane, ammonia, nitrous oxide, and particulate matter. Although volatile organic compounds (VOCs) are also produced, much less information exists concerning their impact. We report on chemical ionization mass spectrometry and photo-acoustic spectroscopy measurements of mixing ratios of VOCs over a 2-wk measurement period in a large cowshed at the Federal Agricultural Research Centre (FAL) in Mariensee, Germany. The high time resolution of these measurements enables insight into the sources of the emissions in a typical livestock management setting. During feeding hours and solid manure removal, large mixing ratio spikes of several VOCs were observed and correlated with simultaneous methane, carbon dioxide, and ammonia level enhancements. The subsequent decay of cowshed concentration due to passive cowshed ventilation was used to model emission rates, which were dominated by ethanol and acetic acid, followed by methanol. Correlations of VOC mixing ratios with methane or ammonia were also used to calculate cowshed emission factors and to estimate potential nationwide VOC emissions from dairy cows. The results ranged from around 0.1 Gg carbon per year (1 Gg = 10(9) g) for nonanal and dimethylsulfide, several Gg carbon per year for volatile fatty acids and methanol, to over 10 Gg carbon per year of emitted ethanol. While some estimates were not consistent between the two extrapolation methods, the results indicate that animal husbandry VOC emissions are dominated by oxygenated compounds and may be a nationally but not globally significant emission to the atmosphere.     

Microanatomy and life history in <Emphasis Type="Italic">Palaeopleurosaurus</Emphasis> (Rhynchocephalia: Pleurosauridae) from the Early Jurassic of Germany

The tuatara (Sphenodon punctatus) from New Zealand is often—erroneously—identified as a ‘living fossil’, although it is the lone survivor of a large, successful radiation of Rhynchocephalia, sister taxon to squamates (lizards and snakes), that thrived through the Mesozoic and Cenozoic and experienced an intricate evolution of life histories and feeding habits. Within Rhynchocephalia, only Pleurosauridae are thought to be marine and piscivorous. Here, we present bone histological data of the Jurassic pleurosaurid Palaeopleurosaurus, showing osteosclerosis (i.e. bone mass increase) in its gastralia, and some osteosclerosis in its rib but no increase in bone mass in the femur, supporting a gradual skeletal specialization for an aquatic way of life. Similar to Sphenodon, the bone tissue deposited in Palaeopleurosaurus is lamellar zonal bone. The femoral growth pattern in Palaeopleurosaurus differs from that of terrestrial Sphenodon in a more irregular spacing of growth marks and deposition of non-annual (i.e. non-continuous) rest lines, indicating strong dependency on exogenous factors. The annual growth mark count in adult but not yet fully grown Palaeopleurosaurus is much lower when compared to adult individuals of Sphenodon, which could indicate a lower lifespan for Palaeopleurosaurus. Whereas the gastral ribs of Palaeopleurosaurus and Sphenodon are similar in composition, the ribs of Sphenodon differ profoundly in being separated into a proximal tubular rib part with a thick cortex, and an elliptical, flared ventral part characterised by extremely thin cortical bone. The latter argues against a previously inferred protective function of the ventral rib parts for the vulnerable viscera in Sphenodon.     

Amniotic fluid pregnancy-specific β1-glycoprotein (SP1) in Meckel's syndrome: A new test for prenatal diagnosis?

Amniotic fluid levels of pregnancy-specific β₁-glycoprotein (SP₁) were elevated in four pregnancies with Meckel's syndrome at 16 and 26 weeks, and the levels of hCG were also elevated in three out of four cases. These findings suggest a potential new application of SP₁ measurement for prenatal diagnosis.     

Direct and indirect fossil records of megachilid bees from the Paleogene of Central Europe (Hymenoptera: Megachilidae)

Aside from pollen and nectar, bees of the subfamily Megachilinae are closely associated with plants as a source of materials for nest construction. Megachilines use resins, masticated leaves, trichomes and other plant materials sometimes along with mud to construct nests in cavities or in soil. Among these, the leafcutter bees (Megachile s.l.) are the most famous for their behaviour to line their brood cells with discs cut from various plants. We report on fossil records of one body fossil of a new non-leafcutting megachiline and of 12 leafcuttings from three European sites—Eckfeld and Messel, both in Germany (Eocene), and Menat, France (Paleocene). The excisions include the currently earliest record of probable Megachile activity and suggest the presence of such bees in the Paleocene European fauna. Comparison with extant leafcuttings permits the interpretation of a minimal number of species that produced these excisions. The wide range of size for the leafcuttings indirectly might suggest at least two species of Megachile for the fauna of Messel in addition to the other megachiline bee described here. The presence of several cuttings on most leaves from Eckfeld implies that the preferential foraging behaviour of extant Megachile arose early in megachiline evolution. These results demonstrate that combined investigation of body and trace fossils complement each other in understanding past biodiversity, the latter permitting the detection of taxa not otherwise directly sampled and inferences on behavioural evolution.     

Improvements in anisotropic models of single tree effects in Cartesian coordinates

For anisotropic density functions of e.g. fruit or leaf dispersal, most mathematical research is only done in polar coordinates. However, in software solutions aiming to derive inverse models for real world dispersal data, Cartesian coordinates may be preferred for several reasons. Thus, we introduce an anisotropic model in Cartesian coordinates following the approach in Wälder et al. (2009) with the von Mises approach. By introducing a correction factor, we thereby consider the fundamental attribute, that the integral over a density function with respect to the Cartesian coordinates has to be equal 1. It may have been overlooked so far that guaranteeing for this attribute needs different approaches whether working in polar or Cartesian coordinates. One result is that our approach can be used also for other anisotropic models rather than models from the von Mises approach.     

Mortality factors, helminth burden, and contaminant residues in white-tailed sea eagles (Haliaeetus albicilla) from Finland

Eleven white-tailed sea eagles (WSEs) (Haliaeetus albicilla) collected in Finland between 1994 and 2001 were examined for their causes of death, including analyses of ubiquitous environmental contaminants and parasites. Four WSEs died due to electrocution. Two were lead poisoned and another had fragments of a lead bullet in its gizzard. An 11-year-old female drowned entangled in fishing gear, but also had mercury levels in its liver and kidneys known for detrimental physiological effects. One WSE was evidently killed by an intraspecific conflict, which was also assumed to be with another bird. The mortality factors of two WSEs could not be clarified, but one had a lead level of 4.604 microg g(-1) in its liver, indicating high lead exposure at a clinically relevant concentration. All organ levels of chlorinated pesticides, polychlorinated biphenyls, and cadmium were moderate and not harmful for birds of prey. Seven helminth species, but no ectoparasites or coccidians, were found in 8 of 10 WSEs investigated for parasites. The highest prevalence of 40% was found for the liver fluke Metorchis billis, but no severe parasitosis was diagnosed for the eagles. The two acanthocephalan species Corynosoma semerme and Polymorphus meyeri are both new records for WSEs.