Spatial and temporal variations in species occurrence rate affect the accuracy of occurrence models

Aim Predictive models of species occurrence have potential for prioritizing areas for competing land uses. Before widespread application, however, it is necessary to evaluate performance using independent data and effective accuracy measures. The objectives of this study were to (1) compare the effects of species occurrence rate on model accuracy, (2) assess the effects of spatial and temporal variation in occurrence rate on model accuracy, and (3) determine if the number of predictor variables affected model accuracy. Location We predicted the distributions of breeding birds in three adjacent mountain ranges in the Great Basin (Nevada, USA). Methods For each of 18 species, we developed separate models using five different data sets — one set for each of 2 years (to address the effects of temporal variation), and one set for each of three possible pairs of mountain ranges (to address the effects of spatial variation). We evaluated each model with an independent data set using four accuracy measures: discrimination ability [area under a receiver operating characteristic curve (AUC)], correct classification rate (CCR), proportion of presences correctly classified (sensitivity), and proportion of absences correctly classified (specificity). Results Discrimination ability was not affected by occurrence rate, whereas the other three accuracy measures were significantly affected. CCR, sensitivity and specificity were affected by species occurrence rate in the evaluation data sets to a greater extent than in the model‐building data sets. Discrimination ability was the only accuracy measure affected by the number of variables in a model. Main conclusions Temporal variation in species occurrence appeared to have a greater impact than did spatial variation. When temporal variation in species distributions is great, the relative costs of omission and commission errors should be assessed and long‐term census data should be examined before using predictive models of occurrence in a management setting.     

Intrinsic pKas of ionizable residues in proteins: An explicit solvent calculation for lysozyme

Molecular dynamics simulations of triclinic hen egg white lysozyme in aqueous solution were performed to calculate the intrinsic pK_as of 14 ionizable residues. An all-atom model was used for both solvent and solute, and a single 180 ps simulation in conjunction with a Gaussian fluctuation analysis method was used. An advantage of the Gaussian fluctuation method is that it only requires a single simulation of the system in a reference state to calculate all the pK_as in the protein, in contrast to multiple simulations for the free energy perturbation method. pK_int shifts with respect to reference titratable residues were evaluated and compared to results obtained using a finite difference Poisson-Boltzmann (FDPB) method with a continuum solvent model; overall agreement with the direction of the shifts was generally observed, though the magnitude of the shifts was typically larger with the explicit solvent model. The contribution of the first solvation shell to the total charging free energies of the titratable groups was explicitly evaluated and found to be significant. Dielectric shielding between pairs of titratable groups was examined and found to be smaller than expected. The effect of the approximations used to treat the long-range interactions on the pK_int shifts is discussed. © 1994 Wiley-Liss, Inc.     

木本植物水力学结构之导管长度研究进展

导管作为多数被子植物木质部水分运输的主要通道, 了解其结构及功能对研究被子植物水力学特性及植物对环境的适应性有着重要的作用。导管长度作为导管解剖特征之一, 对水分运输的安全性及有效性有着重要的影响。该文概述了导管长度测量及计算的方法, 导管长度在种内及种间的分布, 导管长度与导管直径的关系, 导管长度与导水率的关系及导管长度对建立栓塞脆弱曲线的影响, 并对未来导管长度的研究工作重点提出了建议: 1)改进灌注物质, 使灌注更加充分且更利于观察、提高计算精度、发展活体动态测量技术; 2)建立导管在植物不同器官及整体的分布网络以及不同生活型、不同地区的导管长度数据库; 3)对导管直径在导管方向的变化, 导管长度与其他导管特性之间的关系进行研究; 4)光学测量建立栓塞脆弱曲线技术的兴起, 可为解决离心机法建立栓塞脆弱曲线的真实与准确与否的争议提供新的方向。更深入地了解导管长度在植物水力功能中担负的角色, 可以为耐旱、抗旱品种选育提供理论基础。     

光响应曲线的指数改进模型与常用模型比较

光响应曲线的参数是研究植物生理状态的重要指标, 常用的光响应曲线模型无法准确地计算出光饱和点和最大净光合速率。该文利用光响应曲线新模型——指数改进模型、直角双曲线模型、直角双曲线修正模型、非直角双曲线模型和指数模型, 拟合高粱(Sorghum bicolor)、苋(Amaranthus tricolor)、大麦(Hordeum vulgare)和半夏(Pinellia ternata)的光响应曲线, 并随机选取部分数据进行检验, 得到了各模型计算出的主要生理参数, 并对这些数据进行了比较分析, 讨论了各模型之间的优缺点和准确性, 描述了C₃、C₄植物光响应的适宜性。结果表明, 基于C₃植物得到的指数改进模型和直角双曲线修正模型能较准确地计算出C₃、C₄植物饱和光强和最大净光合速率, 并在描述光响应曲线时比另外3个模型具有更高的精确性和适宜性。实验结果可为光响应曲线模型在C₃和C₄光合途径植物中的应用提供参考。     

Bicuculline对小鼠中脑下丘听神经元

采用微电泳技术考察了GABAA受体拮抗剂荷包牡丹碱（bicuculline）,对小鼠中脑下丘听神经元强度-放电率曲线、频率调谐曲线和听空间反应域的影响。结果表明,微电泳bicuculline使听神经元的放电率显著提高,多数神经元的强度-放电率曲线变为单调型;听神经元频率调谐曲线加宽,并且对曲线上部的作用更加明显;听神经元的听空间反应域增大,方向敏感性降低。实验结果提示了GABA能抑制在下丘听信息处理中的重要作用。     

Comparison of Diagnostic Accuracy of Biomarkers With Pooled Assessments

New biomarkers are frequently being developed in laboratory settings for the early diagnosis of diseases. However, the assay can be so expensive to assess in some cases that the evaluation of a large number of assays becomes unfeasible. Under this setting pooling biospecimens becomes an appealing alternative. In this paper, we present the methodology to allow for general pooling strategies and different data structures, which include balanced and unbalanced pooling cases. An estimate of the area under the ROC curve of a single biomarker with its asymptotic mean and variance is provided. Furthermore, we develop a test statistic for comparing the areas under the ROC curves of two biomarkers. The methods are illustrated with data from a study evaluating biomarkers for coronary heart disease.     

扁桃幼果发育的形态解剖学研究

以普通扁桃品种‘纸皮’为研究对象,观察测定了扁桃幼果生长发育动态,并采用石蜡切片法研究了扁桃幼果发育过程。结果表明,扁桃幼果鲜重、体积及果径增长均呈单“S”曲线。大体可分为3个生长时期,增长速率为:第Ⅱ期>第I期>第Ⅲ期。扁桃果实由单心皮上位子房发育而成,边缘胎座,横生胚珠。果皮由外果皮、中果皮和内果皮构成:外果皮是一种复合结构,由表皮毛和表皮细胞组成;中果皮主要是由薄壁细胞和分布其中的维管束组成;内果皮也有丰富的维管束组织分布,其木质化顺序由外向内。中果皮细胞分裂终止早于内果皮。     

Habitat fragmentation may not matter to species diversity

Conservation biologists worry that fragmenting a bloc of natural habitat might reduce its species diversity. However, they also recognize the difficulty and importance of isolating the effect of fragmentation from that of simple loss of area. Using two different methods (species-area curve and Fisher's alpha index of diversity) to analyse the species diversities of plants, tenebrionid beetles and carabid beetles in a highly fragmented Mediterranean scrub landscape, we decoupled the effect of degree of fragmentation from that of area loss. In this system, fragmentation by itself seems not to have influenced the number of species. Our results, obtained at the scale of hectares, agree with similar results at island and continent scales.     

Acclimation to light in seedlings of <Emphasis Type="Italic">Quercus petraea</Emphasis> (Mattuschka) Liebl. and <Emphasis Type="Italic">Quercus pyrenaica</Emphasis> Willd. planted along a forest-edge gradient

Photosynthetic acclimation of two co-occurring deciduous oaks (Quercus petraea and Quercus pyrenaica) to a natural light gradient was studied during one growing season. In the spring of 2003, 90 seedlings per species were planted along a transect resulting from a dense Pinus sylvestris stand, an adjacent thinned area and a 10-m-wide firebreak (16.5–60.9% Global Site Factor (GSF)). In two dates of the following summer, we measured leaf gas exchange, carboxylation efficiency (CE), chlorophyll and nitrogen content, light–response curves of chlorophyll a fluorescence parameters, and leaf mass per area (LMA). Summer was mild, as evidenced by leaf predawn water potential (Ψ_pd), which reduced the interactive effect of water stress on the response of seedlings to light. Q. pyrenaica had higher LMA, CE, stomatal conductance (g _{s max}) and photosynthesis per unit area than Q. petraea at all growth irradiances. , LMA, g _{s max} and electron transport rate (ETR) all increased with light availability (GSF) in a similar fashion in both species. Light had also a clear effect on the organization of Photosystem II (PS II), as deduced by chlorophyll a fluorescence curves. Chlorophyll concentration (Chl_m) decreased with increasing light availability in Q. pyrenaica but it did not in Q. petraea. Seedlings of Q. petraea acclimated to higher irradiances showed a greater non-photochemical quenching (NPQ) than those of Q. pyrenaica. This suggests a higher susceptibility to high light in Q. petraea, which would be consistent with a better adaptation to shade, inferred from the lower LMA or the lower rate of photosynthesis.     

Improved immunocytochemical detection of daunomycin

Improved immunocytochemical (ICC) detection of the anthracycline anticancer antibiotic daunomycin (DM) has been achieved by use of hydrogen peroxide oxidation prior to ICC staining for DM. The new method greatly enhanced the localization of DM accumulation in cardiac, smooth and skeletal muscle of rats after a single i.v. dose of the drug. DM accumulated in the nuclei as well as in the sarcoplasm, where it occurred in the form of small granules, which were particularly evident in cardiac muscle cells. The distribution of the granules coincided with that of mitochondria. Uptake of DM in nuclei and mitochondria of heart muscle cells may help to improve our understanding of the cardiac toxicity of DM and related anthracyclin antibiotics. A number of ELISA tests were carried out in order to elucidate the mechanims of H₂O₂−assisted antigen retrieval. A possible mechanism is that DM is reduced and converted to its semiquinone and/or hydroquinone derivative in vivo. Oxidation by hydrogen peroxide acts to convert these derivatives back to the native antigen. The improved ICC methodology using oxidation to recreate native antigens from reduced metabolites may be helpful also with respect to the localization of other drugs.