Plant functional classifications: from general groups to specific groups based on response to disturbance

Predicting the effects of anthropogenic changes in climate, atmospheric composition and land use on vegetation patterns has been a central concern of recent ecological research. This aim has revived the search for classification schemes that can be to group plant species according to their response to specified environmental factors. One way forward is to adopt a hierarchical classification, where different sets of traits are examined depending on growth form. Also, at the level of interpretation, the environmental context and purpose of functional classifications need to be specified explicitly, so that global generalizations can be made by comparing across environments functional classifications derived from similar methodologies.     

Towards a simple logic in the determination of biological groups: the species and supraspecific groups

In this paper we discuss about the utility of the species concept as real definition, particularly the Mayr concept. We propose a method for the logical separation of taxa based in the statements of the logical mathematics and the application of the sets theory to the concepts in systematic. We attempt to provide an objective methodology for the interpretation of natural groups in biology including the species as a basic group in evolution. We introduce the concept of the hypothetical ancestor as a mathematical possibility derived from the use of matrix calculations for non square matrix.     

Methane indicator values for peatlands: a comparison of species and functional groups

Previous studies have shown a correspondence between the abundance of particular plant species and methane flux. Here, we apply multivariate analyses, and weighted averaging, to assess the suitability of vegetation composition as a predictor of methane flux. We developed a functional classification of the vegetation, in terms of a number of plant traits expected to influence methane production and transport, and compared this with a purely taxonomic classification at species level and higher. We applied weighted averaging and indirect and direct ordination approaches to six sites in the United Kingdom, and found good relationships between methane flux and vegetation composition (classified both taxonomically and functionally). Plant species and functional groups also showed meaningful responses to management and experimental treatments. In addition to the United Kingdom, we applied the functional group classification across different geographical regions (Canada and the Netherlands) to assess the generality of the method. Again, the relationship appeared good at the site level, suggesting some general applicability of the functional classification. The method seems to have the potential for incorporation into large‐scale (national) greenhouse gas accounting programmes (in relation to peatland condition/management) using vegetation mapping schemes. The results presented here strongly suggest that robust predictive models can be derived using plant species data (for use in national‐scale studies). For trans‐national‐scale studies, where the taxonomic assemblage of vegetation differs widely between study sites, a functional classification of plant species data provides an appropriate basis for predictive models of methane flux.     

Decline of soil microbial diversity does not influence the resistance and resilience of key soil microbial functional groups following a model disturbance

Analysing the consequences of the decrease in biodiversity for ecosystem functioning and stability has been a major concern in ecology. However, the impact of decline in soil microbial diversity on ecosystem sustainability remains largely unknown. This has been assessed for decomposition, which is insured by a large proportion of the soil microbial community, but not for more specialized and less diverse microbial groups. We determined the impact of a decrease in soil microbial diversity on the stability (i.e. resistance and resilience following disturbance) of two more specialized bacterial functional groups: denitrifiers and nitrite oxidizers. Soil microbial diversity was reduced using serial dilutions of a suspension obtained from a non-sterile soil that led to loss of species with low cell abundance, inoculation of microcosms of the same sterile soil with these serial dilutions, and subsequent incubation to enable establishment of similar cell abundances between treatments. The structure, cell abundance and activity of denitrifying and nitrite-oxidizing communities were characterized after incubation. Increasing dilution led to a progressive decrease in community diversity as assessed by the number of denaturating gradient gel electrophoresis (DGGE) bands, while community functioning was not impaired when cell abundance recovered after incubation. The microcosms were then subjected to a model disturbance: heating to 42 degrees C for 24 h. Abundance, structure and activity of each community were measured 3 h after completion of the disturbance to assess resistance, and after incubation of microcosms for 1 month to assess resilience. Resistance and resilience to the disturbance differed between the two communities, nitrite oxidizers being more affected. However, reducing the diversity of the two microbial functional groups did not impair either their resistance or their resilience following the disturbance. These results demonstrate the low sensitivity of the resistance and resilience of both microbial groups to diversity decline provided that cell abundance is similar between treatments.     

基于随机森林模型的国家重点保护陆生脊椎动物物种优先保护区的识别

准确可靠地识别国家重点保护陆生脊椎动物物种的优先保护区,是生物多样性保护的热点问题之一。采用随机森林(random forests)模型,基于12个环境变量,对中国263种国家重点保护陆生脊椎动物建模,并预测各个物种在背景点的适生概率,迭加计算得到国家重点保护陆生脊椎动物物种的生境适宜性指数。此外,基于对生境适宜性指数的空间自相关分析,识别和确定国家重点保护陆生脊椎动物物种优先保护区,并对优先保护区目前的被保护情况进行分析。结果表明,国家重点保护陆生脊椎动物物种的优先保护区的面积为103.16万km~2,约占我国国土面积的10.90%。优先保护区主要分布在我国的西部地区,包括西南地区的秦岭-大巴山山区、云南省与印度及缅甸的交界地区、武陵山山区、喜马拉雅山-横断山脉山区、阿尔泰山脉山区、天山山脉山区、昆仑山山脉山区;东北的大、小兴安岭、东北-华南沿海地区及长江中下游地区有少量分布。优先保护区中被保护的面积为50.40万km~2,占优先保护区总面积的48.86%,保护率偏低,未被充分保护。利用系统聚类分析,将未被保护的优先保护区划分成3种优先保护顺序,以期为相关部门的决策提供科学依据,更好地保护生物多样性。     

内蒙草原不同植物功能群及物种对土壤微生物组成的影响

为了分析不同植物群落组成对内蒙古典型草原土壤微生物群落组成的影响,本研究利用植物功能群剔除处理实验平台,采用荧光定量PCR(real-timePCR)和自动核糖体间隔区基因分析(automated ribosomal intergenic spacer analysis,ARISA)技术,对不同植物功能群组成的非根际土壤和常见物种的根际土壤中细菌和真菌的数量及群落结构进行了分析。结果表明,在非根际土壤中,不同植物功能群组成对细菌数量有显著影响,而对真菌数量及细菌和真菌的群落结构影响不明显;在根际土壤中,不同植物物种对细菌、真菌的数量都有显著影响。此外,聚类分析表明,不同物种的根际土中细菌和真菌的群落结构也有所不同,尤其以细菌的群落结构变化较为明显。研究结果表明不同植物物种可以通过根系影响土壤微生物群落组成。     

Indicator species and functional groups as predictors of proximity to ecological thresholds in Mongolian rangelands

We focused on responses to grazing by individual species and functional groups in relation to ecological thresholds in Mongolian rangelands, with repeated measures from the same ecological sites to account for rainfall variability. At all sites, even under rainfall fluctuations, there were robust combinations of indicator species that could be used to forewarn managers to take action to minimize the probability of crossing ecological thresholds. Depending on the landscape condition of each site, the cover of functional groups, which shared traits of perennial life history, grass or forb growth form, linear leaf shape, and alternate leaf attachment, or the cover of functional groups of woody shrubs dramatically decreased before an ecological threshold was crossed. Thus, across all sites, the responses of certain functional groups to grazing appeared to predict the crossing of an ecological threshold. The ecological indicators derived in this study should help to improve land managers’ ability to prevent adverse changes in states before ecological thresholds are reached.     

Protein abundance is key to distinguish promiscuous from functional phosphorylation based on evolutionary information

In eukaryotic cells, protein phosphorylation is an important and widespread mechanism used to regulate protein function. Yet, of the thousands of phosphosites identified to date, only a few hundred at best have a characterized function. It was recently shown that these functional sites are significantly more conserved than phosphosites of unknown function, stressing the importance of considering evolutionary conservation in assessing the global functional landscape of phosphosites. This leads us to review studies that examined the impact of phosphorylation on evolutionary conservation. While all these studies have shown that conservation is greater among phosphorylated sites compared with non-phosphorylated ones, the magnitude of this difference varies greatly. Further, not all studies have considered key factors that may influence the rate of phosphosite evolution. Such key factors are their localization in ordered or disordered regions, their stoichiometry or the abundance of their corresponding protein. Here we take into account all of these factors simultaneously, which reveals remarkable evolutionary patterns. First, while it is well established that protein conservation increases with abundance, we show that phosphosites partly follow an opposite trend. More precisely, Saccharomyces cerevisiae phosphosites present among abundant proteins are 1.5 times more likely to diverge in the closely related species Saccharomyces bayanus when compared with phosphosites present in the 5 per cent least abundant proteins. Second, we show that conservation is coupled to stoichiometry, whereby sites frequently phosphorylated are more conserved than those rarely phosphorylated. Finally, we provide a model of functional and noisy or 'accidental' phosphorylation that explains these observations.     

帚霉属三个新种及中国土壤中已知种的分种检索表（英文）

从中国不同地区的土壤中分离获得3个帚霉属新种及一个中国新记录种:长梗帚霉Scopulariopsis longipes sp.nov.、青霉状帚霉S.penicillioides sp.nov.,具瘤帚霉S.verrucifera sp.nov.和雪白帚霉S.nivea。对新种作了详细的描述。主模式、干制培养物及活菌种均保存在山东农业大学植物病理学标本室(HSAUP);等模式标本(干制培养物)保存在中国科学院菌物标本馆(HMAS)。提供了已知中国土壤中帚霉属真菌13个种的分种检索表。     

A novel 3D shape context method based strain analysis on a rat stomach model

The stomach has the ability to change its geometry and volume during digestion. Thus, the stomach shape changes dynamically due to changes in contents and due to pressure from adjacent organs. Full-field strain analysis is therefore important for accurate estimation of the true deformation in this highly non-homogeneous, anisotropic organ. The aim of this study is to introduce a modified non-rigid image registration based 3D shape context method combined with a full-field strain analysis method to describe a distension-induced 3D gastric deformation. The geometry of a normal rat stomach at distension pressures from 0.05 kPa to 0.8 kPa were obtained by ultrasonic scanning. The full-field strain distribution of the 3D gastric model between the reference state and the distended state were computed on the basis of the improved 3D shape context method and full-field strain analysis method. The registered surface showed a good agreement with the real deformed surface for all distension states. However, the errors increased with the distension pressure due to increasing dissimilarity between the deformed and the reference surface. The strain distributions on the stomach surface were non-uniform with the largest deformation in the non-glandular part and the greater and lesser curvature when the pressure was higher than 0.2 kPa. The wall stiffness of the non-glandular part was softer than that of the glandular part. The modelling analysis method which is closely allied with the non-rigid image registration and strain analysis provides a kinematically possible deformation mode of the gastric wall. This method can be potentially used for clinical data estimating the kinematical properties of the human visceral organs in health and disease.     

草坪无脊椎动物群落物种多样性及功能群研究

本文采用扫网和样方法对草坪固定样地无脊椎动物群落进行了调查,根据不同种类的营养情况进行了功能群的划分,并采用物种丰富度、Shannon-Wiener指数、Hulbert种间相遇概率、Pielou均匀度指数等四种多样性指数对群落及功能群的物种多样性进行了测度和分析,结果表明：草坪无脊椎动物功能群组成具有一定的垂直分化;不同植被生长情况下功能群的组成及多样性具有一定的差异,但无明显的规律性;各功能群中,捕食寄生性功能群的多样性最高,而植食性功能群的种类、数量最多,但由于个别种数量的异常,其多样性反而较低,植食性功能群与捕食寄生性功能群在多样性、种类数及数量上呈现一定的互为消长关系。     

Design and verification of a simple 3D dynamic model of speed skating which mimics observed forces and motions

Advice about the optimal coordination pattern for an individual speed skater, could be addressed by simulation and optimization of a biomechanical speed skating model. But before getting to this optimization approach one needs a model that can reasonably match observed behaviour. Therefore, the objective of this study is to present a verified three dimensional inverse skater model with minimal complexity, which models the speed skating motion on the straights. The model simulates the upper body transverse translation of the skater together with the forces exerted by the skates on the ice. The input of the model is the changing distance between the upper body and the skate, referred to as the leg extension (Euclidean distance in 3 D space). Verification shows that the model mimics the observed forces and motions well. The model is most accurate for the position and velocity estimation (respectively 1.2% and 2.9% maximum residuals) and least accurate for the force estimations (underestimation of 4.5–10%). The model can be used to further investigate variables in the skating motion. For this, the input of the model, the leg extension, can be optimized to obtain a maximal forward velocity of the upper body.     

基于植物功能群的生态系统服务形成与维持机制研究

生态系统可以从“结构-功能-服务”3个层次来理解,其中服务是人类的主观感受或效用。维持高质量的生态系统服务还需从生态系统的自然属性入手。结构和功能是生态系统服务形成和维持的内在机制,而植物是生态系统结构和功能的核心驱动力。植物功能群具有特定功能的植物组合,其中优势植物功能群控制着生态系统的结构和功能。生态系统服务的概念、分类与植物功能群密切相关,植物功能群是生态系统与生态系统服务间更直接的桥梁。建立生态系统服务与植物功能群间的联系,使相关研究有更明确的指向,在深化理论研究的同时使研究成果更容易落地。生态系统服务的形成、维持机制与植物功能群的内在联系主要体现在4个主要方面：(1)植物功能群的内在适应性特征和外在效应是生态系统服务形成的基础;(2)植物功能群的多功能特性为生态系统服务协同提供了可能;(3)植物功能群间替代和互补效应可以提升生态系统服务质量和稳定性;(4)植物功能群能够提供基于自然的生态系统服务修复问题解决方案。     

A 3D damage model for trabecular bone based on fabric tensors

Motivated by the role of damage in normal and pathological conditions of trabecular bone, a novel 3D constitutive law was developed that describes anisotropic elasticity and the rate-independent degradation in mechanical properties resulting from the growth of cracks or voids in the trabecular tissue. The theoretical model was formulated within the framework of continuum damage mechanics and based on two fabric tensors characterizing the local trabecular morphology. Experimental validation of the model was achieved by uniaxial and torsional testing of waisted bovine trabecular bone specimens. Strong correlations were found between cumulated permanent strain, reduction in elastic moduli and nonlinear postyield stress which support the hypothesis that these variables reflect the same underlying damage process.