The cost-effectiveness of using raptor nest sites to identify areas with high species richness of other taxa

Given the limited resources available for conservation, it is important that the areas to preserve are selected in a cost effective manner. However, the cost effectiveness of the surrogate species strategy (the use of information on one or more species to identify areas of value for other species for which there is no, or more limited, available information) has seldom been evaluated.In this study, we investigate the opportunity cost of setting aside breeding sites of two forest raptor species (the surrogate species) by evaluating their individual and combined contribution to preserve diversity of polypores (wood-decaying fungi) and birds against the contributions of previously established nature reserves. We use numeric optimization models to compare different reserve selection strategies.Site selection based on nest sites of the dominant raptor species was more cost-effective than strategies using sites of the subordinate species or those processes previously used to select nature reserves in Finland. The inclusion of both raptor species in the reserve selection model further improved its performance relative to other approaches. This indicates that the means by which Finnish reserves are selected could be enhanced by including the breeding sites of these, and maybe other species, among the criteria used to select reserves in the future.These results show that information on charismatic and well-surveyed species could be a cost-efficient add-on to help enhance conservation endeavours. Where there is inter-specific competition for biodiverse sites, and using multiple species is costly, basing reserve selection primarily on breeding sites of a dominant species may be the best strategy. However, further work is required to establish the extent to which dominant species are typically better indicators of conservation relevance.     

Mathematical modeling of the population dynamics of a distinct interactions type system with local dispersal

Distinct biotic interactions in multi-species communities are a ubiquitous force in the natural ecosystem, and this force is an essential determinant of community stability and species coexistence outcomes. We conduct numerical simulations and bifurcation analysis of partial differential equations to gain better understanding and ecological insights into how predation (a), predator handling time (h), and local dispersal affect multi-species community dynamics. This system consists of resource-mutualist-exploiter-competitor interactions and local dispersal. From the inspection of our numerical simulations and co-dimension one bifurcation analysis findings, we discover several critical values that correspond to transcritical bifurcation, subcritical and supercritical Hopf bifurcations. This occurs as we vary the bifurcation parameters a and h in this complex ecological system under symmetric and asymmetric dispersal scenarios. Furthermore, the interplay between these local bifurcation points results in an exciting co-dimension two bifurcations, i.e., Bogdanov-Takens and cusp bifurcation points, respectively, which act as the synchronization points in this complex ecological system. From an ecological viewpoint, we find that (i) the effect of the no-dispersal scenario supports the maintenance of species biodiversity when the predation strength is moderate; (ii) symmetric dispersal induces both subcritical and supercritical Hopf bifurcation and support species diversity for moderate predation strength; and (iii) asymmetric dispersal promotes species diversity as it simplifies the bifurcation changes in dynamics by eliminating the subcritical bifurcations that trigger uncertainty, and this dispersal mechanism mediates species coexistence outcomes. Fundamentally, stable limit cycles have been reported as predator handling time varies in some ecological models; however, we observed in our bifurcation analysis the emergence of the unstable limit cycle as predator handling time changes. We discover that intense predator handling time destabilizes this complex ecological community. In general, our results demonstrate the influential roles of predation, predator handling time, and local dispersal in determining this system’s coexistence dynamics. This knowledge provides a better understanding of species conservation and biological control management.     

Local cryostimulation acutely preserves maximum isometric handgrip strength following fatigue in young women

Several types of cryostimulation have been recently proposed to rapidly lower skin temperature therefore gaining a possible neuro/muscular recovery after strenuous exercise or, more generally, in sports. Local cryostimulation may be a viable and relatively portable tool to obtain physiological benefits in previously-efforted muscular districts. However, cohesive and standardized cryo-exposure protocols are lacking as well as the righteous procedure to efficaciously combine duration, treatments and temperature in relation to desirable effects on muscular strength. In this randomized-controlled study, fifty young women were tested for maximum isometric handgrip strength, before and after exhausting contractions.Following the fatiguing protocol, the intervention group (cryo, n = 25, 24.7 ± 2.5 years, BMI 21.7 ± 1.8 kg/m²) underwent a 6-min local cryostimulation (−160 °C) on the extensor-flexor muscles of the dominant arm, while control-matched peers sat rested in a thermo-neutral room (22 ± 0.5 °C). Handgrip tests were repeated at baseline (T0), after cryostimulation (T1), and 15 min after T1 (T2). Throughout the protocol, the AUC of the strength performance was significantly higher in the cryo- compared to control group (P = 0.006). In particular, following fatigue and cryostimulation, the cryo group preserved higher strength at T1 with respect to controls (26.8 ± 2.8 vs 23.9 ± 2.8 kg, Bonferroni's post-hoc, P < 0.01). Likewise, ventral and dorsal temperature, recorded with a thermal camera, were lower in cryo- than control group (P < 0.0001).In conclusion, a brief session of local cryostimulation may acutely preserve maximal isometric force in young women following a fatiguing protocol. These findings may have implications in orchestrating strategies of district muscular recovery.     

Emergence,evolution, and vaccine production approaches of SARS-CoV-2 virus: Benefits of getting vaccinated and common questions

The emergence of coronavirus disease 2019 (COVID-19) pandemic in Wuhan city, China at the end of 2019 made it urgent to identify the origin of the causal pathogen and its molecular evolution, to appropriately design an effective vaccine. This study analyzes the evolutionary background of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2 or SARS-2) in accordance with its close relative SARS-CoV (SARS-1), which was emerged in 2002. A comparative genomic and proteomic study was conducted on SARS-2, SARS-1, and Middle East respiratory syndrome coronavirus (MERS), which was emerged in 2012. In silico analysis inferred the genetic variability among the tested viruses. The SARS-1 genome harbored 11 genes encoding 12 proteins, while SARS-2 genome contained only 10 genes encoding for 10 proteins. MERS genome contained 11 genes encoding 11 proteins. The analysis also revealed a slight variation in the whole genome size of SARS-2 comparing to its siblings resulting from sequential insertions and deletions (indels) throughout the viral genome particularly ORF1AB, spike, ORF10 and ORF8. The effective indels were observed in the gene encoding the spike protein that is responsible for viral attachment to the angiotensin-converting enzyme 2 (ACE2) cell receptor and initiating infection. These indels are responsible for the newly emerging COVID-19 variants αCoV, βCoV, γCoV and δCoV. Nowadays, few effective COVID-19 vaccines developed based on spike (S) glycoprotein were approved and become available worldwide. Currently available vaccines can relatively prevent the spread of COVID-19 and suppress the disease. The traditional (killed or attenuated virus vaccine and antibody-based vaccine) and innovated vaccine production technologies (RNA- and DNA-based vaccines and viral vectors) are summarized in this review. We finally highlight the most common questions related to COVID-19 disease and the benefits of getting vaccinated.     

基因外显子连接序列与相应内含子序列的相互作用

剪接后的内含子与相应mRNA序列的相互作用在基因表达调控过程中起着非常重要的作用。基于27个物种的核糖核蛋白基因序列,采用Smith—Waterman局域比对方法得到外显子连接序列与相应内含子序列的最佳匹配片段,分析了外显子连接序列上的匹配频率分布和匹配片段的序列特征。发现一些低等真核生物EJC结合区域的匹配频率明显低于其它区域,所有物种EJC结合区域的序列构成呈现出相对低的结构序。最佳匹配片段的平均长度和配对率分布与siRNA和miRNA的结合特征相同。推测EJC和内含子在与外显子序列结合的过程中存在相互竞争和相互协作的关系,内含子中部序列在基因表达调控过程中起着重要的作用。     

Kriging with nonparametric variance function estimation

A method for fitting regression models to data that exhibit spatial correlation and heteroskedasticity is proposed. It is well known that ignoring a nonconstant variance does not bias least-squares estimates of regression parameters; thus, data analysts are easily lead to the false belief that moderate heteroskedasticity can generally be ignored. Unfortunately, ignoring nonconstant variance when fitting variograms can seriously bias estimated correlation functions. By modeling heteroskedasticity and standardizing by estimated standard deviations, our approach eliminates this bias in the correlations. A combination of parametric and nonparametric regression techniques is used to iteratively estimate the various components of the model. The approach is demonstrated on a large data set of predicted nitrogen runoff from agricultural lands in the Midwest and Northern Plains regions of the U.S.A. For this data set, the model comprises three main components: (1) the mean function, which includes farming practice variables, local soil and climate characteristics, and the nitrogen application treatment, is assumed to be linear in the parameters and is fitted by generalized least squares; (2) the variance function, which contains a local and a spatial component whose shapes are left unspecified, is estimated by local linear regression; and (3) the spatial correlation function is estimated by fitting a parametric variogram model to the standardized residuals, with the standardization adjusting the variogram for the presence of heteroskedasticity. The fitting of these three components is iterated until convergence. The model provides an improved fit to the data compared with a previous model that ignored the heteroskedasticity and the spatial correlation.     

Escherichia coli adenylate kinase dynamics: comparison of elastic network model modes with mode-coupling (15)N-NMR relaxation data

The dynamics of adenylate kinase of Escherichia coli (AKeco) and its complex with the inhibitor AP(5)A, are characterized by correlating the theoretical results obtained with the Gaussian Network Model (GNM) and the anisotropic network model (ANM) with the order parameters and correlation times obtained with Slowly Relaxing Local Structure (SRLS) analysis of (15)N-NMR relaxation data. The AMPbd and LID domains of AKeco execute in solution large amplitude motions associated with the catalytic reaction Mg(+2)*ATP + AMP --> Mg(+2)*ADP + ADP. Two sets of correlation times and order parameters were determined by NMR/SRLS for AKeco, attributed to slow (nanoseconds) motions with correlation time tau( perpendicular) and low order parameters, and fast (picoseconds) motions with correlation time tau( parallel) and high order parameters. The structural connotation of these patterns is examined herein by subjecting AKeco and AKeco*AP(5)A to GNM analysis, which yields the dynamic spectrum in terms of slow and fast modes. The low/high NMR order parameters correlate with the slow/fast modes of the backbone elucidated with GNM. Likewise, tau( parallel) and tau( perpendicular) are associated with fast and slow GNM modes, respectively. Catalysis-related domain motion of AMPbd and LID in AKeco, occurring per NMR with correlation time tau( perpendicular), is associated with the first and second collective slow (global) GNM modes. The ANM-predicted deformations of the unliganded enzyme conform to the functional reconfiguration induced by ligand-binding, indicating the structural disposition (or potential) of the enzyme to bind its substrates. It is shown that NMR/SRLS and GNM/ANM analyses can be advantageously synthesized to provide insights into the molecular mechanisms that control biological function.