Calculation of effective diffusivities for biofilms and tissues.

In this study we describe a scheme for numerically calculating the effective diffusivity of cellular systems such as biofilms and tissues. This work extends previous studies in which we developed the macroscale representations of the transport equations for cellular systems based on the subcellular-scale transport and reaction processes. A finite-difference model is used to predict the effective diffusivity of a cellular system on the basis of the subcellular-scale geometry and transport parameters. The effective diffusivity is predicted for a complex three-dimensional structure that is based on laboratory observations of a biofilm, and these numerical predictions are compared with predictions from a simple analytical solution and with experimental data. Our results indicate that, under many practical circumstances, the simple analytical solution can be used to provide reasonable estimates of the effective diffusivity.     

The particle size characteristics of fluvial suspended sediment: an overview

The particle size characteristics of suspended sediment are of fundamental importance in understanding its role in a variety of environmental processes. Existing knowledge concerning the spatial and temporal variability of the grain size composition of suspended sediment is, however, relatively limited. At the global scale, major contrasts may exist between individual rivers in the calibre of their suspended load and this may be related to a number of controls including climate, catchment geology and basin scale. Any attempt to understand the precise relationship between the grain size characteristics of suspended sediment and those of its source material must also take account of the selectivity of erosion and delivery processes. A local case study undertaken by the authors in the 1500 km² basin of the River Exe in Devon, UK is used to illustrate the considerable spatial variability that may occur within a relatively small area and the complexity of the associated controls.Available evidence concerning the temporal variability of the grain size characteristics of suspended sediment emphasises the diverse patterns of behaviour that may exist and the complexity of the controls involved. In some rivers the sediment may become coarser as flow increases, in others it may become finer, whilst in others it may exhibit a relatively constant grain size composition. Data from the local case study in the Exe basin are again used to highlight the considerable diversity in response to changing discharge that may occur within a relatively small area.Any attempt to understand the dynamics of sediment movement through a river system must also take account of the potential contrast between the ultimate and effective particle size distribution of suspended sediment in response to aggregation. Results from the Exe basin study indicate that even in rivers with relatively low solute concentrations, almost an order of magnitude difference may exist between the median particle size associated with the ultimate and effective grain size distributions.     

用Reinecke盐液曝光计检测树冠内的光合有效辐射

1 引言 传统的植物光合生理生态研究中,多用照度计来测定光照指标,它以人眼对光亮度的响应特性为基础,与植物叶片对光照的响应曲线差异很大;而太阳光谱中只有400—700nm的波段才是光合有效辐射     

Optimized Effective Potential for Atoms and Molecules

We describe the optimized effective potential method of density functional theory and the semi-analytical approximation due to Krieger, Li and Iafrate. Results for atomic and molecular systems including correlation contributions are presented and compared with conventional Kohn–Sham methods. The combination of the exact exchange energy functional with the correlation energy functional of Colle and Salvetti works extremely well for atomic systems, while further improvement is required for molecular systems.     

The mutagenicity and DNA-damaging activity of cyclic aliphatic sulfuric acid esters.

The cyclic aliphatic sulfuric acid esters 1,2-ethylene sulfate (ESF), 1,3-propylene sulfate (PSF) and 1,3-butylene sulfate (BSF) have been tested for their mutagenic and DNA-damaging activity. Mutagenicity of the compounds was established with his-auxotrophic indicator strains of Salmonella typhimurium using the in vitro plate test and the host-mediated assay technique with mice as host animals. The DNA-damaging activity was tested in a repair test with Proteus mirabilis mutants defective in DNA repair.In the repair test with a set of P. mirabilis strains (PG713 hcr^?rec^?: PG273 hcr⁺rec⁺) PSF and BSF showed a preferential growth inhibition of the repair-defective strain suggesting DNA-damaging activity of these chemicals. No such activity was found for ESF using the same concentrations of 5 and 15 μmol/plate.All cyclic sulfates revert the tester strain TA1535 of S. typhimurium in vitro indicating their ability to induce base substitutions. Compared with the reference compounds dimethyl sulfate (DMS), diethyl sulfate (DES), 1,3-propane sulfone (PPS) and 1,4-butane sulfone (BTS) the mutagenic activity in the plate test can be described as follows: PPS > PSF > BSF > BTS > ESF > DES > DMS.Dose-response studies in the host-mediated assay with tester strain TA1950 of S. typhimurium as genetic indicator system revealed a linear dosedependency of mutagenic activity. For PPS and PSF the lowest effective dose (LED) has been established as 10 μmol/kg. The LED for BSF and BTS was 50 μmol/kg, DMS and DES were mutagenic in doses of 2500 μmol/kg, while ESF was only weakly mutagenic with a LED of 5000 μmol/kg.The dose-response studies in the host-mediated assay and the results obtained in the in vitro spot test demonstrate similarities in the mutagenic action of the cyclic sulfates PSF and BSF and the respective sulfones, while the stronger alkylating compound ESF was a weak mutagen both in vitro and in vivo.     

群落均匀度分形分析

修正了Frontier和Ricotta等关于有效物种丰富度指数A与物种丰富度指数S之间幂律关系的定义．探讨了A与S之间分形关系的生态学意义．认为分形维数D是群落均匀度测度值在物种数S不断增加的过程中．向其逼近的一个理论值;提出了利用双对数坐标上建立的A与S拟合直线的方程．对群落均匀度的4种变化趋势进行描述的方法。以广东黑石顶自然保护区森林演替系列为例．研究了针阔叶混交林和常绿阔叶林样带上．随着样带观察长度的逐渐增加群落均匀度的变化情况。结果表明．230m长的混交林样带只存在一个线性无标度区间．群落均匀度随样带长度的不断增加而逐渐降低．向分形维数D=0．810趋近。170m长的常绿阔叶林样带存在两个线性无标度区问．在0～25m的尺度域内．随着样带长度的逐渐增加均匀度不断降低．向分形维数D=0．525逼近;在30～170m的尺度域内．随着样带观察长度的增加．群落均匀度也逐渐增加．向分形维数D=0．920趋近。     

Resource diversity promotes among‐individual diet variation,but not genomic diversity,in lake stickleback

Many generalist species consist of specialised individuals that use different resources. This within‐population niche variation can stabilise population and community dynamics. Consequently, ecologists wish to identify environmental settings that promote such variation. Theory predicts that environments with greater resource diversity favour ecological diversity among consumers (via disruptive selection or plasticity). Alternatively, niche variation might be a side‐effect of neutral genomic diversity in larger populations. We tested these alternatives in a metapopulation of threespine stickleback. Stickleback consume benthic and limnetic invertebrates, focusing on the former in small lakes, the latter in large lakes. Intermediate‐sized lakes support generalist stickleback populations using an even mixture of the two prey types, and exhibit greater among‐individual variation in diet and morphology. In contrast, genomic diversity increases with lake size. Thus, phenotypic diversity and neutral genetic polymorphism are decoupled: trophic diversity being greatest in intermediate‐sized lakes with high resource diversity, whereas neutral genetic diversity is greatest in the largest lakes.     

On the genetic parameter determining the efficiency of purging: an estimate for Drosophila egg‐to‐pupae viability

The consequences of inbreeding on fitness can be crucial in evolutionary and conservation grounds and depend upon the efficiency of purging against deleterious recessive alleles. Recently, analytical expressions have been derived to predict the evolution of mean fitness, taking into account both inbreeding and purging, which depend on an ‘effective purging coefficient (d_e)’. Here, we explore the validity of that predictive approach and assay the strength of purging by estimating d_e for egg‐to‐pupae viability (EPV) after a drastic reduction in population size in a recently captured base population of Drosophila melanogaster. For this purpose, we first obtained estimates of the inbreeding depression rate (δ) for EPV in the base population, and we found that about 40% was due to segregating recessive lethals. Then, two sets of lines were founded from this base population and were maintained with different effective size throughout the rest of the experiment (N = 6; N = 12), their mean EPV being assayed at different generations. Due to purging, the reductions in mean EPV experienced by these lines were considerably smaller than the corresponding neutral predictions. For the 60% of δ attributable to nonlethal deleterious alleles, our results suggest an effective purging coefficient d_e > 0.02. Similarly, we obtain that d_e > 0.09 is required to roughly account for purging against the pooled inbreeding depression from lethal and nonlethal deleterious alleles. This implies that purging should be efficient for population sizes of the order of a few tens and larger, but might be inefficient against nonlethal deleterious alleles in smaller populations.     

Assessment of the total effective xenoestrogen burden in extracts of human placentas

We have standardized a method to assess the total effective xenoestrogen burden (TEXB) in human placentas by the extraction and separation by high-performance liquid chromatography of two fractions containing lipophilic xenoestrogens (alpha) and endogenous hormones (beta), followed by assessing their estrogenicity in MCF-7 breast cancer cell-based E-Screen and Yeast Estrogen Screen (YES) bioassays. The means of TEXB alpha concentrations (in estradiol equivalent (Eeq) units) were 1.32 and 0.77 Eeq pM g^?1 placenta in the E-Screen and YES, respectively; TEXB beta concentrations were 6.97 and 11.56 Eeq pM g^?1 placenta, respectively. The interclass correlation coefficient was low and a fair level of agreement was observed after kappa test correction. According to the E-Screen and YES, TEXB alpha was ≥LOD in 70.0 and 55.0% of the placentas and 92.5 and 82.5% in beta, respectively. Although both bioassays can be recommended for assessing TEXB, there is greater experience with the use of the E-Screen for estrogenic assessment after extensive extraction of complex human matrices.     

Proteome analysis of the plant-pathogenic bacterium Xanthomonas oryzae pv. oryzae

The plant-pathogenic bacterium Xanthomonas oryzae pv. oryzae (Xoo) is the causal agent of bacterial blight, which is one of the most serious diseases of rice. Xoo has been studied for over one century, and much has been learned about it, but proteomic investigation has been neglected. In this study, proteome reference maps of Xoo were constructed by two-dimensional gel electrophoresis, and 628 spots in the gels representing 469 different protein species were identified with MALDI-TOF/TOF MS. The identified spots were assigned to 15 functional categories according to the Kyoto Encyclopedia of Genes and Genomes (KEGG) database and the annotations from the National Center for Biotechnology Information (NCBI) database. The data set has been deposited in the World-2DPAGE database (Database ID: 0044). In addition, comparative proteomic analysis revealed that proteins related to the TonB-dependent transportation system and energy metabolism are involved in the phenazine-1-carboxylic acid resistance in Xoo. In conclusion, we have established a proteome database for Xoo and have used this database in a comparative proteomic analysis that identified proteins potentially contributing to phenazine-1-carboxylic acid resistance in Xoo.