Computer modelling of maximal displacement forces in endoluminal thoracic aortic stent graft

The objective of this study was to determine the orientation and magnitude of maximal displacement forces (DFs) in the thoracic aortic aneurysm endograft (TAA endograft) in three-dimensional (3D) space. Theoretical computer model representing the anatomically worst-case scenario with respect to DF magnitude was used to calculate the magnitude and orientation of maximal DF. A patient-specific anatomical computer model of typically seen, average size anatomy was used to analyse the progression of DF throughout the cardiac cycle. Maximal DFs were 35.01 and 37.32 N in standing and supine position, respectively, in 46-mm diameter TAA graft with 90° bend. A patient-specific model shows that a maximal DF magnitude is achieved at the peak systolic flow. In both models, the orientation of the DF vector was perpendicular to the greater curvature of the aorta, with upward (cranial) and sideways components. The effect of shearing force on the total DF that acts on the TAA endograft was found negligible due to the several orders of magnitude stronger contribution of pressure forces to the total DF relative to the wall shear stress contribution, resulting in aortic diameters and angulation being the main drivers of DF. It was discovered that the TAA endografts can be subjected to much stronger DF than previously suspected. The magnitude of maximal DF in thoracic aorta in the worst-case scenario could be as high as 35.01 N (standing) and 37.32 N (supine). This new information should be used in the process of designing new generations of TAA endografts with better migration resistance properties.     

Preservation of Protein Dynamics in Dihydrofolate Reductase Evolution

The hydride transfer reaction catalyzed by dihydrofolate reductase (DHFR) is a model for examining how protein dynamics contribute to enzymatic function. The relationship between functional motions and enzyme evolution has attracted significant attention. Recent studies on N23PP Escherichia coli DHFR (ecDHFR) mutant, designed to resemble parts of the human enzyme, indicated a reduced single turnover rate. NMR relaxation dispersion experiments with that enzyme showed rigidification of millisecond Met-20 loop motions (Bhabha, G., Lee, J., Ekiert, D. C., Gam, J., Wilson, I. A., Dyson, H. J., Benkovic, S. J., and Wright, P. E. (2011) Science 332, 234–238). A more recent study of this mutant, however, indicated that fast motions along the reaction coordinate are actually more dispersed than for wild-type ecDHFR (WT). Furthermore, a double mutant (N23PP/G51PEKN) that better mimics the human enzyme seems to restore both the single turnover rates and narrow distribution of fast dynamics (Liu, C. T., Hanoian, P., French, T. H., Hammes-Schiffer, S., and Benkovic, S. J. (2013) Proc. Natl. Acad. Sci. U.S.A. 110, 10159–11064). Here, we measured intrinsic kinetic isotope effects for both N23PP and N23PP/G51PEKN double mutant DHFRs over a temperature range. The findings indicate that although the C-H→C transfer and dynamics along the reaction coordinate are impaired in the altered N23PP mutant, both seem to be restored in the N23PP/G51PEKN double mutant. This indicates that the evolution of G51PEKN, although remote from the Met-20 loop, alleviated the loop rigidification that would have been caused by N23PP, enabling WT-like H-tunneling. The correlation between the calculated dynamics, the nature of C-H→C transfer, and a phylogenetic analysis of DHFR sequences are consistent with evolutionary preservation of the protein dynamics to enable H-tunneling from well reorganized active sites.     

Occupancy patterns of the introduced,predatory sugar glider in Tasmanian forests

Introduced mammals pose serious threats to native island fauna, and understanding their distribution is fundamental to evaluating their conservation impact. Introduced sugar gliders (Petaurus breviceps) are the main predator of critically endangered swift parrots (Lathamus discolor) on mainland Tasmania. We surveyed sugar glider occurrence over ~800 km² in an important swift parrot breeding area, the Southern Forests. During 4–5 visits per site, we used call broadcast of predatory owls to elicit sugar glider alarm calls and surveyed 100 sites during February/March 2016. Naïve occupancy by sugar gliders was high (0.79), as was detectability (0.52 ± 0.03 SE), resulting in a cumulative detection probability of effectively 1. Occupancy modelling indicated a positive effect of the proportion of mature forest cover on occupancy. The best model, based on AIC scores, included the proportion of mature forest cover within a 500 m radius with constant detectability. Our study revealed surprisingly high rates of occupancy of available forest habitat throughout the heavily logged study area, such that even when mature forest cover was <10%, sugar glider occupancy was >0.5; where forest cover approached 100% (i.e. in the best quality breeding habitat for swift parrots), occupancy by sugar gliders approached 1. Our results reveal that sugar gliders are widespread across the study area which may be indicative of occupancy rates elsewhere in the breeding range of the critically endangered swift parrot. As a result, the risk of predation by sugar gliders for small birds may be widespread across logged Tasmanian forests. Additional work to identify whether population densities of sugar gliders vary with forest cover (and whether this may impact predation likelihood) is critical to understanding the conservation consequences of deforestation in the breeding range of the swift parrot.     

Urban Development Consequences on the Wetland Ecosystems Transformations—Case Study: Pančevački Rit,Serbia

The article analyzes the consequences of one century long human influences on vegetation of the wetland ecosystem, on the example of Pan?eva?ki Rit in Belgrade, Serbia. The autochthonous, non-altered ecosystem was formed in the alluvial plain between Danube and Timis River in the formation of connected swamps and bogs with periodically flooded patches. The major transformation of the wetland ecosystem started with the construction of the embankment and dense canal system followed by settlements development, increasing of population density, intensification of agriculture activities etc. The study area transformation factors were identified in the first phase of research, while the second phase includes analyses of their influences on habitat conversion using GIS, with the purpose to preserve fragments of indigenous wetland vegetation, mostly fragile wetland meadows from further degradation.     

All the eggs in one basket: Are island refuges securing an endangered passerine?

Refuges for threatened species are important to prevent species extinction. They provide protection from a range of environmental and biotic stressors, and ideally provide protection against all threatening processes. However, for some species it may not be clear why some areas are refuges and others are not. The forty‐spotted pardalote (Pardalotus quadragintus) is an endangered, sedentary, cryptic and specialised bird endemic to the island of Tasmania, Australia. Having undergone an extreme range contraction over the past century the species is now mostly confined to a few small offshore island refuges. Key threatening processes to the species include habitat loss, wildfire, competition and predation. The ways in which these processes have molded the species’ contemporary range have not been clearly evaluated. Furthermore, the security of the remnant population within refuges is uncertain. To overcome this uncertainty we assessed key threats and established the population status in known refuges by developing a robust survey protocol within an occupancy modelling framework. We discuss our results in the context of planning trial reintroductions of this endangered species in suitable habitat across its former range. We found very high occupancy rates (0.75–0.96) at two refuges and in suitable conditions, the species was highly detectable (p, 0.43–0.77). At a third location our surveys indicated a local extinction, likely due to recent wildfire. We demonstrate that all refuges are at high risk of one or more threatening processes and the current distribution across island refuges is unlikely to secure the species from extinction. We identified large areas of potential habitat across the species’ former mainland range, but these are likely too distant from source populations for natural recolonisation. We propose that establishing new populations of forty‐spotted pardalotes via reintroduction is essential to secure the species and that this is best achieved while robust source populations still exist.     

The effect of substrate polarity on the lipase-catalyzed synthesis of aroma esters in solvent-free systems

The aim of this study was to compare activities of commercial lipases in synthesis of various esters in solvent-free system and in isooctane. Moreover, the effect of substrate polarity (expressed as log P) on solvent-free synthesis was investigated. The decrease of yields of esters of butanoic acid in absence of organic solvent was observed, while similarly high yields were noticed in synthesis of esters of octanoic acid in both systems (solvent-free and organic solvent). The kinetic analysis has shown that ester synthesis can be described with Ping-pong bi-bi kinetics. In a case of esterification of butanoic acid in solvent-free system additional term, which represents enzyme inactivation by acid substrate, must be included. It was found out that log P of initial substrate mixture was in linear correlation with kcat of ester synthesis, while final yields depend only on type of acid substrate. Each of the examined lipases showed similar properties, although immobilized lipase from Rhizomucor miehei was slightly more resistant to harmful influence of butanoic acid. Finally, it was also shown that detrimental influence of butanoic acid could be circumvented by two-step addition of acid substrate in reaction catalyzed with immobilized lipase from R. miehei.     

Comparison of blood pro/antioxidant levels before and after acute exercise in athletes and non-athletes

The aims of our study were to assess the redox state of adolescent athletes and non-athletes both at rest and after acute exposure to physical load and to find relations between parameters of redox state and morphofunctional characteristics of subjects. 58 young handball players and 37 non-athletes were subjected to body composition analysis, measuring of maximal oxygen consumption and blood sampling immediately before and after a maximal progressive exercise test. At rest, athletes had significantly higher superoxide dismutase (SOD) and catalase (CAT) activity, higher levels of glutathione (GSH) and nitric oxide (NO) and lower levels of lipid peroxidation (TBARS) compared with non-athletes. A maximal exercise test induced statistically significant rise of superoxide anion radical (O2-), hydrogen peroxide (H2O2) and NO levels in non-athletes, while TBARS levels decreased. Athletes experienced the fall in NO levels and the fall in CAT activity. After exercise, athletes had significantly lower levels of O2- compared with non-athletes. Two way repeated measures ANOVA showed that the response of O2-, NO and TBARS to the exercise test was dependent on the sports engagement (training experience) of subjects. Significant correlations between morphofunctional and redox parameters were found. These results suggest that physical fitness affects redox homeostasis.     

Spatial autocorrelation in two Iris pumila populations estimated on morphological data from natural clones and their samples grown in two different habitats

Morphological data from two Iris pumila populations (measured on native clones, on their replants into the same habitat, and on their transplants into alternative habitat) were combined with native clones spatial position and spatial autocorrelations (SA) were calculated. Naturally growing I. pumila clones revealed significant SA that were positive on small distances and negative on medium ones in both open Hillock and shaded Woodland populations. No significant SA were detected when calculated with original clone positions, but with morphometric data from replants into the experimental plot in the same habitat. Some significant SA were, however, detected when morphometric data from transplants to alternative habitat were used. Detected SA on I. pumila clones were primarilly a consequence of spatial structuring of environmental factors but also, in lesser degree, a result of genetic spatial arrangements (most probably due to patterns of gene flow).     

Respiratory sinus arrhythmia as a second order system

The presented study describes the influence of respiration on heart rate, under controlled respiration conditions. In addition, this study makes a comparison of a simple physical model, the spring-mass system, with the biophysics of respiration. It is possible to use the equations describing the behaviour of the respiratory system, under certain conditions, and analyse them in a way similar to the equations that describe the physical spring-mass system. The results of the heart rate and respiration measurements effected on 10 subjects at various respiration frequencies show us that the heart rate behaves as a second order system within the boundary conditions during a longer period of constant respiration. The results also show that the heart rate behaves as a second order system within the intermediate mode during short time intervals when there is no respiration.     

Absolutely conserved tryptophan in M49 family of peptidases contributes to catalysis and binding of competitive inhibitors

The role of the unique fully conserved tryptophan in metallopeptidase family M49 (dipeptidyl peptidase III family) was investigated by site-directed mutagenesis on human dipeptidyl peptidase III (DPP III) where Trp300 was subjected to two substitutions (W300F and W300L). The mutant enzymes showed thermal stability equal to the wild-type DPP III. Conservative substitution of the Trp300 with phenylalanine decreased enzyme activity 2-4 fold, but did not significantly change the K_m values for two dipeptidyl 2-naphthylamide substrates. However, the K_m for the W300L mutant was elevated 5-fold and the k_cat value was reduced 16-fold with Arg-Arg-2-naphthylamide. Both substitutions had a negative effect on the binding of two competitive inhibitors designed to interact with S1 and S2 subsites.These results indicate the importance of the aromatic nature of W300 in DPP III ligand binding and catalysis, and contribution of this residue in maintaining the functional integrity of this enzyme’s S2 subsite.