Context dependency in biodiversity patterns of central German stream metacommunities

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Bulked sample analysis in genetics,genomics and crop improvement

Biological assay has been based on analysis of all individuals collected from sample populations. Bulked sample analysis (BSA), which works with selected and pooled individuals, has been extensively used in gene mapping through bulked segregant analysis with biparental populations, mapping by sequencing with major gene mutants and pooled genomewide association study using extreme variants. Compared to conventional entire population analysis, BSA significantly reduces the scale and cost by simplifying the procedure. The bulks can be built by selection of extremes or representative samples from any populations and all types of segregants and variants that represent wide ranges of phenotypic variation for the target trait. Methods and procedures for sampling, bulking and multiplexing are described. The samples can be analysed using individual markers, microarrays and high‐throughput sequencing at all levels of DNA, RNA and protein. The power of BSA is affected by population size, selection of extreme individuals, sequencing strategies, genetic architecture of the trait and marker density. BSA will facilitate plant breeding through development of diagnostic and constitutive markers, agronomic genomics, marker‐assisted selection and selective phenotyping. Applications of BSA in genetics, genomics and crop improvement are discussed with their future perspectives.     

Factor scoring models of the Pittsburgh Sleep Quality Index: a comparative confirmatory factor analysis

The Pittsburgh Sleep Quality Index (PSQI) is a rigorously validated questionnaire with extensive use in sleep assessment. Findings from numerous factor analytic studies of the PSQI have been interpreted to support a heterogeneous factor structure model for the test. Nevertheless, the literature continues to lack a focused evaluation of whether this heterogeneous factor structure is justified. A consideration of this issue led to a conclusion that a closer analysis of the PSQI’s factor structure was merited. To address this need a comparative confirmatory factor analysis for assessing the performance of the accepted factors models of the PSQI was conducted. A sample of university students (n = 418), age = 20.92 ± 1.81 years, BMI = 23.30 ± 2.57 kg/m² completed the multi-structured sleep survey at Jamia Millia Islamia, New Delhi, India. Seventeen putative factor structures (three 1-Factor, eight 2-Factor, and six 3-Factor) of the PSQI from the existing literature were selected for analysis. Fourteen models (82.35%) had almost similar values for model fit indices. Two models were misfits, and one model was a poor fit. The two misfit models incorporated gender and age as covariates. The third poor fit model was used to produce a unique path diagram, which made it distinct from the remaining 16 models. The overlapping values in the fit range of the model fit indices did not support the often projected heterogeneous factor structures of the PSQI for the vast majority of the models.     

The implementation of an environmental flow regime results in ecological recovery of regulated rivers

Environmental flows are the main restoration technique used to ameliorate the ecological effects of regulation in rivers. However, their effectiveness has yet to be unanimously accepted. This study assessed the potential ecological benefits of the application of an environmental flow regime downstream of four dams and two weirs in the Upper Nepean River system, Sydney, Australia. Aquatic macroinvertebrates in three habitat types were sampled at water‐supply and low‐flow sites and unregulated sites in 1995 and 1996, prior to the environmental flows and in 2013 and 2014, approximately 13 years following the environmental flows. The macroinvertebrate assemblage structure was significantly different between regulated and reference sites and the number of taxa lower at water‐supply sites prior to the implementation of the environmental flows. Following the environmental flows, the assemblage structure became more similar to, although still significantly different from, the unregulated sites and the number of taxa was not significantly different between regulated and unregulated sites. Thirteen or approximately 30% of taxa indicative of unregulated rivers increased in frequency at regulated sites following the environmental flows. Despite potentially similar dispersal capabilities the remainder of the taxa failed to respond the new flow regimes. The mechanisms resulting in recovery of some taxa but not others remain unclear and require further investigation as the basis of future research and monitoring. Such information and knowledge would support the application of future environmental flow regimes as the primary mechanism to ameliorate the ecological effects of river regulation.     

管网雨水补给河道用水的人工湿地水质净化流程研究

中国北方部分地区水资源短缺,河道干涸,但夏季雨水资源潜力丰富。虽径流受到一定污染,但较于生活污水和工业废水,其污染程度更低,成分更简单。雨水通过低运行成本的人工湿地净化系统,可以实现较好的净化效果,满足河道景观需求和生态补水。城市管网雨水承载能力过重的城市边缘区,建设更新过程中进行雨污分流制度,更适于采用人工水质净化的方式将城市雨水管网中的雨水进行就近消纳,减轻城市雨水管网压力,并利用表面负荷率（ALR）来确定并校核人工湿地面积。在综合现在人工水质净化主流程预处理单元、人工湿地单元和消毒存储单元3个环节的基础上,以低运营成本、低管理成本、最优净水量为指向,引入物联网技术智能管控系统,行程具有能控制各级出水水质监测、多级管控、净水生态功能与游览景观功能相结合等多重优点的人工水质净化全流程,达到符合河道水质标准的净化效果。该流程为缓解北方城镇河道缺水现状、解决城市雨洪问题提供新思路。     

A Fast and Economical Sample Preparation Protocol for Interaction Proteomics Analysis

A simple and fast immunoprecipitation (IP) protocol is designed with the sample preparation incorporated, applicable to both low and high throughput. This new protocol combines two procedures based on magnetic beads in 96‐well plate format. Protein complexes are captured by antibodies and magnetic beads conjugated with protein A. Proteins are washed and on‐bead digested by using Single‐Pot solid‐phase sample preparation (SP3). The whole IP‐SP3 approach can be completed in one day, which is considerably faster compared to the classical approach. No major quantitative differences are found between SP3 and FASP (filter‐aided sample preparation) or a longer incubation protocol. Taken together, the IP‐SP3 protocol is a fast and economical approach easily applicable for large‐scale protein interactome analysis.