Increasingly available high-resolution digital elevation models (DEMs) facilitate the use of fine-scale topographic variables as proxies for microclimatic effects not captured by the coarse-grained macroclimate datasets. Species distributions and community assembly rules are, however directly shaped by microclimate and not by topography. DEM-derived topography, sometimes combined with vegetation structure, is thus widely used as a proxy for microclimatic effects in ecological research and conservation applications. However, the suitability of such a strategy has not been evaluated against in situ measured microclimate and species composition. Because bryophytes are highly sensitive to microclimate, they are ideal model organisms for such evaluation. To provide this much needed evaluation, we simultaneously recorded bryophyte species composition, microclimate, and forest vegetation structure at 218 sampling sites distributed across topographically complex sandstone landscape. Using a LiDAR-based DEM with a 1 m resolution, we calculated eleven topographic variables serving as a topographic proxy for microclimate. To characterize vegetation structure, we used hemispherical photographs and LiDAR canopy height models. Finally, we calculated eleven microclimatic variables from a continuous two-year time- series of air and soil temperature and soil moisture. To evaluate topography and vegetation structure as substitutes for the ecological effect of measured microclimate, we partitioned the variation in bryophyte species composition and richness explained by microclimate, topography, and vegetation structure. In situ measured microclimate was clearly the most important driver of bryophyte assemblages in temperate coniferous forests. The most bryophyte-relevant variables were growing degree days, maximum air temperature, and mean soil moisture. Our results thus showed that topographic variables, even when derived from high-resolution LiDAR data and combined with in situ sampled vegetation structure, cannot fully substitute effects of in situ measured microclimate on forest bryophytes.

• Keywords
• Forest bryophytes, Microclimate, Soil moisture, Species composition, TMS microclimate logger, Terrain analysis,
• MeSH
• Bryophyta * MeSH
• Forests MeSH
• Microclimate * MeSH
• Soil MeSH
• Trees MeSH
• Temperature MeSH
• Publication type
• Journal Article MeSH
• Names of Substances
• Soil MeSH

In order to study the relationship between human physical activity and the design of the built environment, it is important to measure the location of human movement accurately. In this study, we compared an inexpensive GPS receiver (Holux RCV-3000) and a frequently used Garmin Forerunner 35 smart watch, with a device that has been validated and recommended for physical activity research (Qstarz BT-Q1000XT). These instruments were placed on six geodetic points, which represented a range of different environments (e.g., residential, open space, park). The coordinates recorded by each device were compared with the known coordinates of the geodetic points. There were no differences in accuracy among the three devices when averaged across the six sites. However, the Garmin was more accurate in the city center and the Holux was more accurate in the park and housing estate areas compared to the other devices. We consider the location accuracy of the Holux and the Garmin to be comparable to that of the Qstarz. Therefore, we consider these devices to be suitable instruments for locating physical activity. Researchers must also consider other differences among these devices (such as battery life) when determining if they are suitable for their research studies.

• Keywords
• GPS, Garmin smart watch, accuracy, environment, geodetic point, logger,
• MeSH
• Exercise * MeSH
• Humans MeSH
• Built Environment * MeSH
• Electric Power Supplies MeSH
• Check Tag
• Humans MeSH
• Publication type
• Journal Article MeSH

Soil moisture controls environmental processes and species distributions, but it is difficult to measure and interpolate across space. Topographic Wetness Index (TWI) derived from digital elevation model is therefore often used as a proxy for soil moisture. However, different algorithms can be used to calculate TWI and this potentially affects TWI relationship with soil moisture and species assemblages. To disentangle insufficiently-known effects of different algorithms on TWI relation with soil moisture and plant species composition, we measured the root-zone soil moisture throughout a growing season and recorded vascular plants and bryophytes in 45 temperate forest plots. For each plot, we calculated 26 TWI variants from a LiDAR-based digital terrain model and related these TWI variants to the measured soil moisture and moisture-controlled species assemblages of vascular plants and bryophytes. A flow accumulation algorithm determined the ability of the TWI to predict soil moisture, while the flow width and slope algorithms had only a small effects. The TWI calculated with the most often used single-flow D8 algorithm explained less than half of the variation in soil moisture and species composition explained by the TWI calculated with the multiple-flow FD8 algorithm. Flow dispersion used in the FD8 algorithm strongly affected the TWI performance, and a flow dispersion close to 1.0 resulted in the TWI best related to the soil moisture and species assemblages. Using downslope gradient instead of the local slope gradient can strongly decrease TWI performance. Our results clearly showed that the method used to calculate TWI affects study conclusion. However, TWI calculation is often not specified and thus impossible to reproduce and compare among studies. We therefore provide guidelines for TWI calculation and recommend the FD8 flow algorithm with a flow dispersion close to 1.0, flow width equal to the raster cell size and local slope gradient for TWI calculation.

• Keywords
• Compound topographic index, FD8 flow routing algorithm, Forest bryophytes, SAGA wetness index, TMS microclimate logger, Volumetric water content,
• MeSH
• Soil * MeSH
• Plants * MeSH
• Water analysis   MeSH
• Publication type
• Journal Article MeSH
• Names of Substances
• Soil * MeSH
• Water MeSH

This article presents and offers Toggle Toolkit, which is an original collection of Unity scripts designed to control various aspects of interactive 3D experiments. The toolkit enables researchers in different fields to design, conduct and evaluate experiments and include interactive elements in immersive virtual environments. This was achieved by using the internal functionalities of the Unity engine and solutions of our own design. The structure of Toggle Toolkit allows triggers and toggles to be allocated to existing virtual objects and throughout the Unity scene. Once a trigger is executed (with a pre-described action, such as colliding with a virtual object, pressing a key, gazing at an object, etc.), the toggles associated with the trigger are activated and then change the attributes or behaviors of linked objects. All interactive behavior is logged and made available for further statistical analysis. Examples of applications in research are presented and discussed. The Toggle Toolkit's utility lies in its simplicity and modularity. The Toolkit was especially produced for experimenters with few coding skills and high customization requirements in their experiments. The tool is freely available for use in research and can be enhanced with custom scripts. A video tutorial is provided to facilitate use of the tool. The paper aims to not only introduce beginners to experimentation with VR but also offers more experienced researchers who are potentially interested in using and adjusting the features the Toolkit a deeper insight into its structure.

• Keywords
• 3D visualization, Behavioral analysis, Dynamic visualization, Event logger, Experiment design, Interactivity, Virtual environment, Virtual reality,
• MeSH
• Humans MeSH
• User-Computer Interface MeSH
• Virtual Reality * MeSH
• Check Tag
• Humans MeSH
• Publication type
• Journal Article MeSH
• Research Support, Non-U.S. Gov't MeSH

How blood parasite infections influence the migration of hosts remains a lively debated issue as past studies found negative, positive, or no response to infections. This particularly applies to small birds, for which monitoring of detailed migration behavior over a whole annual cycle has been technically unachievable so far. Here, we investigate how bird migration is influenced by parasite infections. To this end, we tracked great reed warblers (Acrocephalus arundinaceus) with multisensor loggers, characterized general migration patterns as well as detailed flight bout durations, resting times and flight heights, and related these to the genus and intensity of their avian haemosporidian infections. We found migration distances to be shorter and the onset of autumn migration to be delayed with increasing intensity of blood parasite infection, in particular for birds with Plasmodium and mixed-genus infections. Additionally, the durations of migratory flight bout were prolonged for infected compared to uninfected birds. But since severely infected birds and particularly birds with mixed-genus infections had shorter resting times, initial delays seemed to be compensated for and the timing in other periods of the annual cycle was not compromised by infection. Overall, our multisensor logger approach revealed that avian blood parasites have mostly subtle effects on migratory performance and that effects can occur in specific periods of the year only.

• Keywords
• Haemoproteus, Plasmodium, activity, biologging, bird migration, flight height, great reed warbler, migration timing, parasites, resting,
• Publication type
• Journal Article MeSH

BACKGROUND: Electroporation is an effective technique for genetic manipulation of cells, both in vitro and in vivo. In utero electroporation (IUE) is a special case, which represents a fine application of this technique to genetically modify specific tissues of embryos during prenatal development. Commercially available electroporators are expensive and not fully customizable. We have designed and produced an inexpensive, open-design, and customizable electroporator optimized for safe IUE. We introduce NeuroPorator. METHOD: We used off-the-shelf electrical parts, a single-board microcontroller, and a cheap data logger to build an open-design electroporator. We included a safety circuit to limit the applied electrical current to protect the embryos. We added full documentation, design files, and assembly instructions. RESULT: NeuroPorator output is on par with commercially available devices. Furthermore, the adjustable current limiter protects both the embryos and the uterus from overcurrent damage. A built-in data acquisition module provides real-time visualization and recordings of the actual voltage/current pulses applied to each embryo. Function of NeuroPorator has been demonstrated by inducing focal cortical dysplasia in mice. SIGNIFICANCE AND CONCLUSION: The simple and fully open design enables quick and cheap construction of the device and facilitates further customization. The features of NeuroPorator can accelerate the IUE technique implementation in any laboratory and speed up its learning curve.

• Keywords
• Current-limited, Electroporator, Focal cortical dysplasia, Gene transfer, In utero electroporation, NeuroPorator, Pulse generator,
• MeSH
• Equipment Design MeSH
• Electroporation * methods   instrumentation   MeSH
• Embryo, Mammalian MeSH
• Mice MeSH
• Gene Transfer Techniques * instrumentation   MeSH
• Pregnancy MeSH
• Uterus MeSH
• Animals MeSH
• Check Tag
• Mice MeSH
• Pregnancy MeSH
• Female MeSH
• Animals MeSH
• Publication type
• Journal Article MeSH
• Research Support, Non-U.S. Gov't MeSH

Each year, billions of songbirds cross large ecological barriers during their migration. Understanding how they perform this incredible task is crucial to predict how global change may threaten the safety of such journeys. Earlier studies based on radar suggested that most songbirds cross deserts in intermittent flights at high altitude, stopping in the desert during the day, while recent tracking with light loggers suggested diurnal prolongation of nocturnal flights and common non-stop flights for some species. We analyzed light intensity and temperature data obtained from geolocation loggers deployed on 130 individuals of ten migratory songbird species, and show that a large variety of strategies for crossing deserts exists between, but also sometimes within species. Diurnal stopover in the desert is a common strategy in autumn, while most species prolonged some nocturnal flights into the day. Non-stop flights over the desert occurred more frequently in spring than in autumn, and more frequently in foliage gleaners. Temperature recordings suggest that songbirds crossed deserts with flight bouts performed at various altitudes according to species and season, along a gradient ranging from low above ground in autumn to probably >2000 m above ground level, and possibly at higher altitude in spring. High-altitude flights are therefore not the general rule for crossing deserts in migrant songbirds. We conclude that a diversity of migration strategies exists for desert crossing among songbirds, with variations between but also within species.

• MeSH
• Time Factors MeSH
• Circadian Rhythm physiology   MeSH
• Species Specificity MeSH
• Geographic Information Systems MeSH
• Flight, Animal physiology   MeSH
• Animal Migration physiology   MeSH
• Altitude MeSH
• Desert Climate * MeSH
• Seasons MeSH
• Light MeSH
• Temperature MeSH
• Environment * MeSH
• Songbirds classification   physiology   MeSH
• Animals MeSH
• Check Tag
• Animals MeSH
• Publication type
• Journal Article MeSH
• Research Support, Non-U.S. Gov't MeSH

To understand the environmental determinants of physical activity (PA), precise spatial localization is crucial. This cross-sectional study focuses on the spatiotemporal distribution of PA among Czech adolescents (n = 171) using Global Positioning System loggers and accelerometers. The results showed that adolescents spent most of their time in sedentary behavior, with 57.2% and 58.5% of monitored time at home and school, respectively. The park and playground had the lowest proportion of sedentary behavior but also the lowest amount of moderate to vigorous PA (MVPA). However, when considering the time spent in each domain, the highest proportion of MVPA was seen in publicly accessible playgrounds (13.3% of the time). Chi-square analysis showed that the relative distribution of different PA intensities did not differ across spatial domains. Based on these results, the authors propose 2 key strategies for increasing MVPA in adolescents: Increase the time spent in activity-supportive environments, such as parks and playgrounds, and design techniques to increase MVPA at home and school settings.

• Keywords
• GPS, environment, public playgrounds, school environment, spatiotemporal distribution,
• MeSH
• Accelerometry * MeSH
• Residence Characteristics MeSH
• Adolescent Behavior psychology   MeSH
• Exercise * MeSH
• Transportation methods   MeSH
• Geographic Information Systems * MeSH
• Play and Playthings MeSH
• Humans MeSH
• Adolescent MeSH
• Cross-Sectional Studies MeSH
• Sedentary Behavior * MeSH
• Schools MeSH
• Parks, Recreational MeSH
• Environment Design MeSH
• Check Tag
• Humans MeSH
• Adolescent MeSH
• Male MeSH
• Female MeSH
• Publication type
• Journal Article MeSH
• Geographicals
• Czech Republic MeSH

Dark-pigmented microscopic fungi are worldwide-spread soil saprophytes often found on plant remnants. In chromoblastomycosis, infectious particles of these fungi enter the human body at the site of injury and may cause chronic infection, mainly in tropical and subtropical endemic areas. Chromoblastomycosis is almost exclusively diagnosed in patients with fully functioning immunity, with typically muriform cells present in infected tissue distinguishing this condition from phaeohyphomycosis. Phaeohyphomycosis, a less specific disease caused by dark-pigmented fungi, usually makes tissue necrotize rather than proliferate, involves a broader range of pathogens of the kingdom Fungi and is mainly associated with immune disorders. Chromoblastomycosis is usually a threat to male adults, globally considered an occupational disease affecting farmers, gardeners, loggers, agricultural commodity traders and other workers exposed to contaminated soil or handling materials of plant origin. In the Czech Republic, immunocompetent patients may be at risk of chromoblastomycosis as imported infection. In the past, however, the infection was also rarely documented as autochthonous in the country.

• MeSH
• Antifungal Agents therapeutic use   MeSH
• Chromoblastomycosis * diagnosis   drug therapy   MeSH
• Adult MeSH
• Humans MeSH
• Occupational Diseases microbiology   MeSH
• Phaeohyphomycosis * drug therapy   MeSH
• Check Tag
• Adult MeSH
• Humans MeSH
• Male MeSH
• Publication type
• Journal Article MeSH
• Geographicals
• Czech Republic MeSH
• Names of Substances
• Antifungal Agents MeSH

During the season of hibernation, temperate bats alternate between prolonged bouts of torpor with reduced body temperature and short arousals with a return to normothermy. Hibernating bats are sensitive to non-tactile stimuli and arouse following changes in microclimatic conditions or disturbance from other bats, potential predators, or humans. Here, we used temperature data loggers to register the skin temperature of 38 Myotis myotis bats over two winters (between January and March), during which regular visits were made to the hibernaculum. Two kinds of arousal were observed, normothermic (Tsk > 25 °C) and cold (Tsk < 15 °C). Although bats responded to the presence of a researcher by arousals of both kinds, cold arousals were more frequent (63.8%). We found that mass loss was not affected by the number of disturbances, however it was in positive relationship with the mass at the beginning of the observation and differed between sex and age categories. Furthermore normothermic bats crawling among cluster-mates initiated arousal cascades, which mainly consisted of cold arousals. We failed to detect any effect of age or sex on the number of arousals initiated by normothermic individuals. Warming by only a few degrees requires less energy than a normothermic arousal and we propose it is sufficient to activate the sensory system in order to assess the relevance of external stimuli. Our results indicate that cold arousals reflect a physiological and behavioural adaptation aimed at avoiding the energetic costs of disturbance that can lead to depletion of fat reserves.

• Keywords
• Hibernation, Myotis myotis, Normothermic arousal, Thermal profile, Torpor,
• MeSH
• Arousal physiology   MeSH
• Chiroptera physiology   MeSH
• Energy Metabolism MeSH
• Hibernation MeSH
• Cold Temperature * MeSH
• Skin Temperature MeSH
• Animals MeSH
• Check Tag
• Male MeSH
• Female MeSH
• Animals MeSH
• Publication type
• Journal Article MeSH