Project description:Bark contributes approximately 20% to the total above-ground biomass of trees, yet bark is not properly accounted for when estimating carbon sequestered by trees. Current allometric functions estimate tree volume from diameter measured over the bark, and derive bark density and carbon content from estimates for wood. As the bark density of hardwood species is 40%-50% lower than the wood density, but nearly equivalent in conifers, bark carbon is overestimated for most species. The latter is further exacerbated by variation in bark volume with bark surface morphology.Fissured bark volume is overestimated by diameter over bark measurements by up to 40%. The vacant space in fissures can be accounted for by a bark fissure index (BFI). We calculate bark carbon for Australian species from a non-destructive and effective BFI using bark thickness measured in the field.Bark volume, and in turn bark carbon, scaled inversely with tree size (diameter) so that bark volume comprised 42% of small trees (10 cm diameter at breast height, DBH) but 23% of large trees (50 cm DBH). Our BFI method using a bark thickness gauge (BGM) yielded similar results than using the less time-efficient contour gauge method (CM) to estimate BFI (bias BGM-CM -1.3%, non-significant at p = 0.72). Both BGM and CM had an error of <4% compared to digitized BFI from destructive sampled stem disks. An average of 15 bark gauge measurements per tree estimated bark thickness (and inconsequence BFI) for both fissured and unfissured bark with <20% error relative to the exact value.Using the bark gauge method, BFI can be rapidly measured from large numbers of trees needed for estimating bark carbon at the community level and modelling carbon uptake, storage and cycling in woody biomes.
Project description:Plant growth chambers produce controlled environments, which are crucial in making reproducible observations in experimental plant biology research. Commercial plant growth chambers can provide precise controls of environmental parameters, such as temperature, humidity, and light cycle, and the capability via complex programming to regulate these environmental parameters. But they are expensive. The high cost of maintaining a controlled growth environment is often a limiting factor when determining experiment size and feasibility. To overcome the limitation of commercial growth chambers, we designed and constructed an inexpensive plant growth chamber with consumer products for a material cost of $2,300. For a comparable growth space, a commercial plant growth chamber could cost $40,000 or more. Our plant growth chamber had outside dimensions of 1.5 m (W) x 1.8 m (D) x 2 m (H), providing a total growth area of 4.5 m2 with 40-cm high clearance. The dimensions of the growth area and height can be flexibly changed. Fluorescent lights with large reflectors provided a relatively spatially uniform photosynthetically active radiation intensity of 140-250 μmoles/m2/sec. A portable air conditioner provided an ample cooling capacity, and a cooling water mister acted as a powerful humidifier. Temperature, relative humidity, and light cycle inside the chamber were controlled via a z-wave home automation system, which allowed the environmental parameters to be monitored and programmed through the internet. In our setting, the temperature was tightly controlled: 22.2°C±0.8°C. The one-hour average relative humidity was maintained at 75%±7% with short spikes up to ±15%. Using the interaction between Arabidopsis and one of its bacterial pathogens as a test experimental system, we demonstrate that experimental results produced in our chamber were highly comparable to those obtained in a commercial growth chamber. In summary, our design of an inexpensive plant growth chamber will tremendously increase research opportunities in experimental plant biology.
Project description:Understanding hypoxia/hyperoxia exposure requires either a high-altitude research facility or a chamber in which gas concentrations are precisely and reproducibly controlled. Hypoxia-induced conditions such as hypoxic-ischemic encephalopathy (HIE), obstructive or central apneas, and ischemic stroke present unique challenges for the development of models with acute or chronic hypoxia exposure. Many murine models exist to study these conditions; however, there are a variety of different hypoxia exposure protocols used across laboratories. Experimental equipment for hypoxia exposure typically includes flow regulators, nitrogen concentrators, and premix oxygen/nitrogen tanks. Commercial hypoxia/hyperoxia chambers with environmental monitoring are incredibly expensive and require proprietary software with subscription fees or highly expensive software licenses. Limitations exist in these systems as most are single animal systems and not designed for extended or intermittent hypoxia exposure. We have developed a simple hypoxia chamber with off-the-shelf components, and controlled by open-source software for continuous data acquisition of oxygen levels and other environmental factors (temperature, humidity, pressure, light, sound, etc.). Our chamber can accommodate up to two mouse cages and one rat cage at any oxygen level needed, when using a nitrogen concentrator or premixed oxygen/nitrogen tank with a flow regulator, but is also scalable. Our system uses a Python-based script to save data in a text file using modules from the sensor vendor. We utilized Python or R scripts for data analysis, and we have provided examples of data analysis scripts and acquired data for extended exposure periods (≤7 days). By using FLOS (Free-Libre and open-source) software and hardware, we have developed a low-cost and customizable system that can be used for a variety of exposure protocols. This hypoxia/hyperoxia exposure chamber allows for reproducible and transparent data acquisition and increased consistency with a high degree of customization for each experimenter's needs.
Project description:Dairy foods are complex ecosystems composed of microorganisms from different origins that can affect flavor and safety of final products. The objective of this paper is to assess the in-house microbiota of two Brazilian dairies and to discuss the possible implications of the taxa determined for food protection. In total, 27 samples from dairies were cultured in selective (Baird Parker, de Man, Rogosa and Sharpe) and non-selective (Brain Heart Infusion) media, and the isolates were identified by Sanger sequencing. Moreover, metagenomic DNA was directly extracted from samples and the structure of the bacterial community was determined by massive DNA sequencing followed by bioinformatics analyses. The results showed the majority of isolates belonged to the group of lactic acid bacteria, but Enterobacteriaceae, Staphylococcacceae, Bacillaceae, Pseudomonadaceae and Moraxellaceae were also detected. From the reads obtained in metataxonomics analyses, a heatmap was constructed and the top 20 OTUs (operational taxonomic units) were determined. Besides, 12 most prevalent bacterial taxa were assigned to the core microbiota of the dairies evaluated, which included Thiomonas thermosulfata, Alkalibacillus salilacus, Pseudomonas clemancea, Erythrobacter aquimans, Tetragenococcus doogicus, Macrococcus brunensis, Pseudomonas ludensis, Streptococcus dentinousetti, Serratia entomophila, Vagococcus teuberi, Lactococcus fujiensis and Tolumonas auensis. In conclusion, the results reveal the presence of bacteria that may be related to spoilage and also foodborne diseases, in microbial niches that also present rare taxa, highlighting the importance to consider culture-independent results to evaluate and improve food safety.
Project description:BackgroundUnderstanding the factors that shape the distribution of tropical tree species at large scales is a central issue in ecology, conservation and forest management. The aims of this study were to (i) assess the importance of environmental factors relative to historical factors for tree species distributions in the semi-evergreen forests of the northern Congo basin; and to (ii) identify potential mechanisms explaining distribution patterns through a trait-based approach.Methodology/principal findingsWe analyzed the distribution patterns of 31 common tree species in an area of more than 700,000 km(2) spanning the borders of Cameroon, the Central African Republic, and the Republic of Congo using forest inventory data from 56,445 0.5-ha plots. Spatial variation of environmental (climate, topography and geology) and historical factors (human disturbance) were quantified from maps and satellite records. Four key functional traits (leaf phenology, shade tolerance, wood density, and maximum growth rate) were extracted from the literature. The geological substrate was of major importance for the distribution of the focal species, while climate and past human disturbances had a significant but lesser impact. Species distribution patterns were significantly related to functional traits. Species associated with sandy soils typical of sandstone and alluvium were characterized by slow growth rates, shade tolerance, evergreen leaves, and high wood density, traits allowing persistence on resource-poor soils. In contrast, fast-growing pioneer species rarely occurred on sandy soils, except for Lophira alata.Conclusions/significanceThe results indicate strong environmental filtering due to differential soil resource availability across geological substrates. Additionally, long-term human disturbances in resource-rich areas may have accentuated the observed patterns of species and trait distributions. Trait differences across geological substrates imply pronounced differences in population and ecosystem processes, and call for different conservation and management strategies.
Project description:In vitro quantification of the effect of mechanical loads on cells by live microscopy requires precise control of load and culture environment. Corresponding systems are often bulky, their setup and maintenance are time consuming, or the cell yield is low. Here, we show the design and initial testing of a new cell culture system that fits on standard light microscope stages. Based on the parallel plate principle, the system allows for live microscopy of cells exposed to flow-induced shear stress, features short setup time and requires little user interaction. An integrated feedback-controlled heater and a bubble trap enable long observation times. The key design feature is the possibility for quick exchange of the cultured cells. We present first test results that focus on verifying the robustness, biocompatibility, and ease of use of the device.
Project description:PurposeWe introduce a novel technique for closed chamber iridodialysis repair.Materials and methodsWe use a 2.8-mm paracentesis knife to penetrate into the anterior chamber and create interrupted incisions in the sclera. The wounds are 1.5 mm distant from the limbus, at consistent 2.8-mm intervals along the dialysis area. After injecting viscocohesive ophthalmic viscosurgical device through a side port to relieve the synechia and to push the iris toward the incisions, the iris is then grasped by Kelman forceps through the sclera, dragged carefully, and incarcerated. After adjusting the tension of the iris according to the pupil shape, the sclera and the incarcerated iris tissue were sutured together with 10-0 nylon.ResultsThe technique was effective in six patients with traumatic iridodialysis.ConclusionOur surgical technique repairs the iris, restores the shape of pupil, as well as avoids creating a large incision in the limbus in patients suffering from iridodialysis.
Project description:We present the case of a 75-year-old man with incidental finding of a left ventricular false chamber at echocardiography. A multimodality imaging approach including also transesophageal echocardiography and cardiac magnetic resonance imaging allowed to better characterize the lesion and identify it as a pseudoaneurysm. Surgery showed an infective aetiology, which is rare, due to the finding of a large abscess in the cavity.