城市湖泊退化过程中水生态系统服务功能价值演变评估——以肇庆仙女湖为例

运用市场价值法、碳税法、造林成本法和工业制氧影子价格法、影子工程法以及价格替代等方法,以肇庆仙女湖为例,对城市湖泊水生态系统自然资产价值部分的演变进行了评估。结果得出,仙女湖水生态系统退化过程中,导致水生态系统有些服务功能的大幅度降低,如大气调节功能价值由1999年的460124元降低到2004年的8元、水质净化功能价值由1999年的11480元降到2004年的904元等;但并非各项生态系统服务功能价值都降低,有些项目的生态系统服务功能可保持不变,如水资源调节功能价值;甚至升高,如物质生产价值由1999年的152400元增加到2004年的241200元。该研究给退化生态系统的修复带来很大启示,即在退化生态系统的修复过程中要针对性的就退化生态系统的结构和功能进行修复,提高生态系统的总体服务功能价值,而并非退化生态系统的各项服务均需提高,有些项目的生态系统服务价值可以保持不变,甚至降低。     

Pathways for development of a biorenewables industry

The advanced energy initiative to reduce the nation's future demand for oil has resulted in the definition of a number of pathways for the development of the bio-renewables industry. This paper gives an overview of the pathways which could lead to both ethanol and other types of bio-products. The methods that would be used for cellulose conversion also apply to adding value for the co-products of ethanol production. Process milestones and pathways for research that would enable corn dry mill operations to improve are described. A corn dry mill improvement pathway is outlined, and introduces the topics that are covered in this particular special volume.     

On an infrastructure to support sharing and aggregating pre- and post-publication systems biology research data

The move towards in silico experimentation has resulted in the use of computational models, in addition to traditional experimental models, to generate the raw data that is analysed and published as research findings. This change requires new methods to be introduced to facilitate independent validation of the underlying models and the reported results. The promotion of co-operative research has the potential to help to both validate results and explore wider problem areas. In this paper we leverage and extend two existing software frameworks to develop an infrastructure that has the potential to both promote the sharing of data between researchers pre-publication and enable access to the data for interested parties post-publication. The pre-publication sharing of data would enable larger problem spaces to be explored by distributed research groups; enabling access to the data post-publication would allow reviewers and the wider community to independently verify the published results which would, in the longer term, help to increase confidence in published results. The framework is used to perform reproducible and numerically validated individual-based computational experiments into the onset of colorectal cancer. Existing results are verified and new insights into the top-down versus bottom-up hypothesis of colorectal crypt invasion are given.     

WHAT ‘EMPIRICAL TURN IN BIOETHICS’?

Uncertainty as to how we should articulate empirical data and normative reasoning seems to underlie most difficulties regarding the ‘empirical turn’ in bioethics. This article examines three different ways in which we could understand ‘empirical turn’. Using real facts in normative reasoning is trivial and would not represent a ‘turn’. Becoming an empirical discipline through a shift to the social and neurosciences would be a turn away from normative thinking, which we should not take. Conducting empirical research to inform normative reasoning is the usual meaning given to the term ‘empirical turn’. In this sense, however, the turn is incomplete. Bioethics has imported methodological tools from empirical disciplines, but too often it has not imported the standards to which researchers in these disciplines are held. Integrating empirical and normative approaches also represents true added difficulties. Addressing these issues from the standpoint of debates on the fact‐value distinction can cloud very real methodological concerns by displacing the debate to a level of abstraction where they need not be apparent. Ideally, empirical research in bioethics should meet standards for empirical and normative validity similar to those used in the source disciplines for these methods, and articulate these aspects clearly and appropriately. More modestly, criteria to ensure that none of these standards are completely left aside would improve the quality of empirical bioethics research and partly clear the air of critiques addressing its theoretical justification, when its rigour in the particularly difficult context of interdisciplinarity is what should be at stake.     

Instrumental and sensory approaches for the characterization of compounds responsible for wine aroma

More than 800 aromatic compounds have been identified in wine, some of them at the ng/l level. Wine, therefore, constitutes a very complex matrix, from which it is difficult to isolate a specific aroma character. Gas chromatography-olfactometry (GC-O) applied to wine extracts is used to characterize odor-active zones that are often treated in a hierarchical way by Aroma Extract Dilution Analysis (AEDA). The aromatic impact of the volatiles is evaluated, generally by determining perception thresholds. This methodology has provided convincing results concerning wine flavors, but it does have its limitations. For instance, data on beta-damascenone have demonstrated that these methods could reach their limits for this volatile, in particular, because of the non-quantitative representation of aroma extracts of wines, and because of the difficulty to accurately determine the perception threshold in wines for a compound already present. For beta-damascenone, we have shown that its very low detection threshold with GC-O, its wide range, and its dependence on the composition of the medium resulted in overestimating its direct impact on the aroma of wine. Another way to facilitate the characterization of aromatic compounds was, therefore, investigated. High-Performance Liquid Chromatography (HPLC) methods were developed for the analysis of wine extracts. From an aromatic extract, 25 fractions with various flavors were thus obtained, and reverse-phase methodology was used for the selection and characterization of red- and black-fruit aromas in red wines.     

Gas dispersion in volume-cycled tube flow. II. Tracer bolus experiments.

We present a new method for rapid measurement of local gas dispersion in volume-cycled tube flow. After a small bolus of tracer gas (argon) was injected into the oscillating flow, the time-averaged effective diffusion coefficient (mean value of Deff/D) for axial transport of a tracer gas is evaluated from local argon concentration measurements taken by a mass spectrometer. Two methods are presented for the evaluation of mean value of Deff/D from the concentration measurements: one uses all the sampled data, and the other uses only the local peaks of the concentration. Experiments were conducted in two tubes (radius = 0.85 or 1.0 cm) over a range of frequencies (0.42 less than or equal to f less than or equal to 8.5 Hz) and tidal volumes (7 less than or equal to VT less than or equal to 48 ml). The experimental results show very good agreement with the theoretical predictions of Elad et al. (J. Appl. Physiol. 72: 312-320, 1992). In the absence of oscillations (static fluid), the resulting mean value of Deff/D converges to that of molecular diffusion. We also show that concentration data may be acquired at any radial or axial position, not necessarily at the tracer gas injection point, and the resulting mean value of Deff/D is independent of the spatial position of the sampling catheter. This method is of similar accuracy and is substantially faster than previous methods for measuring gas dispersion in oscillatory flows. The rapidity of these measurements may permit this method to be used for the in vivo assessment of gas transport properties within the pulmonary system.     

Integrating Concern for Animals into Personal Values

Recent scholarship in human–animal relationships demonstrates that new theoretical insights emerge when these relationships are seriously considered. We suggest that the most prominent measures of values in the environmental decision-making research literature, the Schwartz approach, may not adequately capture key aspects of how individuals value animals. Our research used confirmatory factor analysis and ordinary least squares regression techniques on data collected from an Amazon Mechanical Turk online survey. It expands on the values commonly used in the environmental decision-making literature to consider whether there is a distinct value dimension focused on animals. Our suggestion that a “concern for animals” value orientation constitutes a motivation that is separate from the other values commonly used in research on environmental decision-making finds support in our data. Traditional scaling methods indicate that the items we created have high reliability when used to form an unweighted additive scale. The results of confirmatory factor analysis are consistent with the argument that this “concern for animals” value orientation is distinct from biospheric altruism, humanistic altruism, self-interest, traditionalism, openness to change, and hedonism. Finally, our regressions using values and demographic, social, and political characteristics as controls show that an animal-focused value orientation and biospheric altruism have different relationships with identification with the animal rights movement than with identification with the environmental movement.     

Improving our science: the evolution of butterfly sampling and surveying methods over time

Butterflies are consistently the focus of conservation research because they contribute to ecosystem services, act as biological indicators, and are in decline worldwide. Land managers and researchers use many methods to measure butterfly populations, but this creates issues for standardization and production of comparative, rigorous data. To promote methods more appropriate for research-based conservation, we conducted a literature review focusing on the implementation and advancement of butterfly monitoring methods over time. We identified four main methods that are most frequently used in butterfly research and monitoring: (1) trapping and netting, (2) mark-recapture, (3) transects (Pollard walks), and (4) distance sampling. Although a progression of method development has occurred over time, all methods are still currently used in butterfly research, with trapping, netting, and mark-recapture used in 85% of studies. Over the last century, the amount of butterfly research has steadily increased, so it is vital to select methods that produce accurate, and comparable data. However, we found that method selection was not solely based on the type of data needed for accurate interpretation and extrapolation of results. Instead, land context, species abundance, and historically-used methods are driving method selection. As butterflies remain a high conservation priority, researchers must provide rigorous data that are necessary for creating effective conservation plans and policies by using a framework for method selection.     

Bacterial Sub-Species Typing Using Matrix-Assisted Laser Desorption/Ionization Time of Flight Mass Spectrometry: What Is Promising?

Matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) is routinely used for bacterial identification. It would be highly beneficial to also be able to use the technology as a fast way to detect clinically relevant clones of bacterial species. However, studies to this aim have often had limited success. The methods used for data acquisition, processing and data interpretation are highly diverse amongst studies on MALDI-TOF MS sub-species typing. In addition to this, feasibility may depend on the bacterial species and strains investigated, making it difficult to determine what methods may or may not work. In our paper, we have reviewed recent research on MALDI-TOF MS typing of bacterial strains. Although we found a lot of variation amongst the methods used, there were approaches shared by multiple research groups. Multiple spectra of the same isolate were often combined before further analysis for strain distinction. Many groups used a protein extraction step to increase resolution in their MALDI-TOF MS results. Peaks at a high mass range were often excluded for data interpretation. Three groups have found ways to determine feasibility of MALDI-TOF MS typing for their set of strains at an early stage of their project.     

林木蒸腾耗水量测算方法的比较与应用

本文简述了林木蒸腾耗水的概念、研究价值和研究进展,从实测法和估测法的角度,综述了林木蒸腾耗水量的主要测算方法,对比了各方法的优缺点、适用性、局限性、应用现状以及适用尺度。本研究认为: 实测法可应用于多种空间尺度耗水量的测定,估测法常应用于大空间尺度蒸散量的测算。实测法是估测法的基础,因此应对实测法的测定结果进行合理的质量控制与评价,为校正估测法的估算结果提供数据基础。不管是同一大空间尺度还是不同空间尺度,实测法和估测法的结合能够提高蒸散量测算结果的准确性。提升复杂下垫面和恶劣气候环境下大空间尺度林木蒸散量的测算精度将成为未来的研究热点与难点。随着科学技术的不断进步,现有的测定装置和测算方法将被改进,精确测定林木蒸腾耗水量的新方法也将随之诞生。     

Uncertainty in life cycle costing for long-range infrastructure. Part II: guidance and suitability of applied methods to address uncertainty

Life cycle costing (LCC) is the state-of-the-art method to economically evaluate long-term projects over their life spans. However, uncertainty in long-range planning raises concerns about LCC results. In Part I of this series, we developed a holistic framework of the different types of uncertainty in infrastructure LCCs. We also collected methods to address these uncertainties. The aim of Part II is to evaluate the suitability of methods to cope with uncertainty in LCC. Part I addressed two research gaps. It presented a systematic collection of uncertainties and methods in LCC and, furthermore, provided a holistic categorization of both. However, Part I also raised new issues. First, a combined analysis of sources and methods is still outstanding. Such an investigation would reveal the suitability of different methods to address a certain type of uncertainty. Second, what has not been assessed so far is what types of uncertainty are insufficiently addressed in LCC. This would be a feature to improve accuracy of LCC results within LCC, by suggesting options to better cope with uncertainty. To address these research gaps, we conducted a systematic literature review. Part II analyzed the suitability of methods to address uncertainties. The suitability depends on data availability, type of data (tangible, intangible, random, non-random), screened hotspots, and tested modeling specifications. We identified types of uncertainties and methods that have been insufficiently addressed. The methods include probabilistic modeling such as design of experiment or subset simulation and evolutionary algorithm and Bayesian modeling such as the Bayesian latent Markov decision process. Subsequently, we evaluated learning potential from other life cycle assessment (LCA) and life cycle sustainability assessment (LCSA). This analysis revealed 28 possible applications that have not yet been used in LCC. Lastly, we developed best practices for LCC practitioners. This systematic review complements prior research on uncertainty in LCC for infrastructure, as laid out in Part I. Part II concludes that all relevant methods to address uncertainty are currently applied in LCC. Yet, the level of application is different. Moreover, not all methods are equally suited to address different categories of uncertainty. This review offers guidance on what to do for each source and type of uncertainty. It illustrates how methods can address both based on current practice in LCC, LCA, and LCSA. The findings of Part II encourage a dialog between practitioners of LCC, LCA, and LCSA to advance research and practice in uncertainty analysis.     

Biofumigation potential of brassicas

The relationship of global climate change to plant growth and the role of forests as sites of carbon sequestration have encouraged the refinement of the estimates of root biomass and production. However, tremendous controversy exists in the literature as to which is the best method to determine fine root biomass and production. This lack of consensus makes it difficult for researchers to determine which methods are most appropriate for their system. The sequential root coring method was the most commonly used method to collect root biomass data in the past and is still commonly used. But within the last decade the use of minirhizotrons has become a favorite method of many researchers. In addition, due to the high labor-intensive requirements of many of the direct approaches to determine root biomass, there has been a shift to develop indirect methods that would allow fine root biomass and production to be predicted using data on easily monitored variables that are highly correlated to root dynamics. Discussions occur as to which method should be used but without gathering data from the same site using different methods, these discussions can be futile. This paper discusses and compares the results of the most commonly used direct and indirect methods of determining root biomass and production: sequential root coring, ingrowth cores, minirhizotrons, carbon fluxes approach, nitrogen budget approach and correlations with abiotic resources. No consistent relationships were apparent when comparing several sites where at least one of the indirect and direct methods were used on the same site. Until the different root methods can be compared to some independently derived root biomass value obtained from total carbon budgets for systems, one root method cannot be stated to be the best and the method of choice will be determined from researcher's personal preference, experiences, equipment, and/or finances.     

Stereoisomeric flavour compounds LXVIII. 2-, 3-, and 4-Alkyl-branched acids,part 2: Chirospecific analysis and sensory evaluation

Enantioselective GC analysis of 4-ethyloctanoic and 4-methylheptanoic acid, using heptakis(2,3-di-O-methyl-6-O-tert-butyldimethylsilyl)-β-cyclodextrin as the chiral stationary phase, is described and the sensory properties of several 4-alkyl-branched acids, using gas chromatography-olfactometry (GC-O) equipment and octakis(2,3-di-O-methyl-6-tert-butyldimethylsilyl)-γ-cyclodextrin as the stationary phase, are evaluated. The chirospecific analysis of various 2-, 3-, and 4-alkyl-branched acids from commercially available Roman chamomile (Chamaemelum nobile (L.) Allioni), Parmesan cheese, and subcutaneous mutton adipose tissue, using either GC-GC (MDGC) or GC-MS analytical methods, is described. © 1994 Wiley-Liss, Inc.     

The Trajectory of Dispersal Research in Conservation Biology. Systematic Review

Dispersal knowledge is essential for conservation management, and demand is growing. But are we accumulating dispersal knowledge at a pace that can meet the demand? To answer this question we tested for changes in dispersal data collection and use over time. Our systematic review of 655 conservation-related publications compared five topics: climate change, habitat restoration, population viability analysis, land planning (systematic conservation planning) and invasive species. We analysed temporal changes in the: (i) questions asked by dispersal-related research; (ii) methods used to study dispersal; (iii) the quality of dispersal data; (iv) extent that dispersal knowledge is lacking, and; (v) likely consequences of limited dispersal knowledge. Research questions have changed little over time; the same problems examined in the 1990s are still being addressed. The most common methods used to study dispersal were occupancy data, expert opinion and modelling, which often provided indirect, low quality information about dispersal. Although use of genetics for estimating dispersal has increased, new ecological and genetic methods for measuring dispersal are not yet widely adopted. Almost half of the papers identified knowledge gaps related to dispersal. Limited dispersal knowledge often made it impossible to discover ecological processes or compromised conservation outcomes. The quality of dispersal data used in climate change research has increased since the 1990s. In comparison, restoration ecology inadequately addresses large-scale process, whilst the gap between knowledge accumulation and growth in applications may be increasing in land planning. To overcome apparent stagnation in collection and use of dispersal knowledge, researchers need to: (i) improve the quality of available data using new approaches; (ii) understand the complementarities of different methods and; (iii) define the value of different kinds of dispersal information for supporting management decisions. Ambitious, multi-disciplinary research programs studying many species are critical for advancing dispersal research.     

A comparison of phasing algorithms for trios and unrelated individuals

Knowledge of haplotype phase is valuable for many analysis methods in the study of disease, population, and evolutionary genetics. Considerable research effort has been devoted to the development of statistical and computational methods that infer haplotype phase from genotype data. Although a substantial number of such methods have been developed, they have focused principally on inference from unrelated individuals, and comparisons between methods have been rather limited. Here, we describe the extension of five leading algorithms for phase inference for handling father-mother-child trios. We performed a comprehensive assessment of the methods applied to both trios and to unrelated individuals, with a focus on genomic-scale problems, using both simulated data and data from the HapMap project. The most accurate algorithm was PHASE (v2.1). For this method, the percentages of genotypes whose phase was incorrectly inferred were 0.12%, 0.05%, and 0.16% for trios from simulated data, HapMap Centre d'Etude du Polymorphisme Humain (CEPH) trios, and HapMap Yoruban trios, respectively, and 5.2% and 5.9% for unrelated individuals in simulated data and the HapMap CEPH data, respectively. The other methods considered in this work had comparable but slightly worse error rates. The error rates for trios are similar to the levels of genotyping error and missing data expected. We thus conclude that all the methods considered will provide highly accurate estimates of haplotypes when applied to trio data sets. Running times differ substantially between methods. Although it is one of the slowest methods, PHASE (v2.1) was used to infer haplotypes for the 1 million-SNP HapMap data set. Finally, we evaluated methods of estimating the value of r(2) between a pair of SNPs and concluded that all methods estimated r(2) well when the estimated value was >or=0.8.     

Biotechnological aspects of sulfate reduction with methane as electron donor

Biological sulfate reduction can be used for the removal and recovery of oxidized sulfur compounds and metals from waste streams. However, the costs of conventional electron donors, like hydrogen and ethanol, limit the application possibilities. Methane from natural gas or biogas would be a more attractive electron donor. Sulfate reduction with methane as electron donor prevails in marine sediments. Recently, several authors succeeded in cultivating the responsible microorganisms in vitro. In addition, the process has been studied in bioreactors. These studies have opened up the possibility to use methane as electron donor for sulfate reduction in wastewater and gas treatment. However, the obtained growth rates of the responsible microorganisms are extremely low, which would be a major limitation for applications. Therefore, further research should focus on novel cultivation techniques.     

Cell Surface Profiling Using High-Throughput Flow Cytometry: A Platform for Biomarker Discovery and Analysis of Cellular Heterogeneity

Cell surface proteins have a wide range of biological functions, and are often used as lineage-specific markers. Antibodies that recognize cell surface antigens are widely used as research tools, diagnostic markers, and even therapeutic agents. The ability to obtain broad cell surface protein profiles would thus be of great value in a wide range of fields. There are however currently few available methods for high-throughput analysis of large numbers of cell surface proteins. We describe here a high-throughput flow cytometry (HT-FC) platform for rapid analysis of 363 cell surface antigens. Here we demonstrate that HT-FC provides reproducible results, and use the platform to identify cell surface antigens that are influenced by common cell preparation methods. We show that multiple populations within complex samples such as primary tumors can be simultaneously analyzed by co-staining of cells with lineage-specific antibodies, allowing unprecedented depth of analysis of heterogeneous cell populations. Furthermore, standard informatics methods can be used to visualize, cluster and downsample HT-FC data to reveal novel signatures and biomarkers. We show that the cell surface profile provides sufficient molecular information to classify samples from different cancers and tissue types into biologically relevant clusters using unsupervised hierarchical clustering. Finally, we describe the identification of a candidate lineage marker and its subsequent validation. In summary, HT-FC combines the advantages of a high-throughput screen with a detection method that is sensitive, quantitative, highly reproducible, and allows in-depth analysis of heterogeneous samples. The use of commercially available antibodies means that high quality reagents are immediately available for follow-up studies. HT-FC has a wide range of applications, including biomarker discovery, molecular classification of cancers, or identification of novel lineage specific or stem cell markers.