Use of models for integrated assessment of ecosystem health

An argument is presented for a greater use of numerical models in integrated assessment of ecosystem health. Ecosystem health has many facets which are interconnected and interact, and which can only be measured in integrated assessments. Modelling is an essential feature of integrated assessment being one of the few ways human groups can form a consensus understanding of the complex dynamics which occur. Functional assumptions are made explicit. The argument is expanded in response to a series of key questions: What is ecosystem health? How do we do integrated assessments? What is modelling? What are some successful examples? What should one conclude? The answers are illustrated with references to the International Joint Commission's program to develop and implement Remedial Action Plans for the Great Lakes' Areas of Concern, particularly in the Bay of Quinte, Lake Ontario. Three recommendations are offered: (i) Increase the use of models, (ii) Build models with existing data and hypotheses before initiating new programs, and (iii) Allow for iterative model development but be prepared to build a new model when a new problem arises.     

Implementing environmental labelling of food products in France

Consumers increasingly demand information about the environmental impacts of their food. The French government is in the process of introducing environmental labelling for all food products. A scientific council was set up, and its main conclusions are presented in this article, through six questions: What environmental issues should be considered? What objective should be targeted? What data are needed, and for whom? What methods for assessing environmental impacts? Which environmental scores should be chosen? What label format should be proposed? By answering these questions and considering the context, the available data, the proposed methods and adjustments, and the knowledge of consumer perception of formats, the scientific council considers that a labelling scheme is feasible and relevant.

     

Introduction: Who's at the bottom? Examining claims about racial hierarchy

Why do claims about racial hierarchy matter? The question whether some groups are worse off than others is highly pertinent at a time when there is growing recognition of multiple forms of racisms and racial oppression. It is widely accepted that racial hierarchies are still with us today, and this concept is peppered throughout writings on “race” and racisms, but, what, exactly, are racial hierarchies, how do racial hierarchies continue to matter, and in what ways do they operate? This special issue, which focuses on the USA and Britain, also addresses the following questions: Does the concept of racial hierarchy aid us in illuminating racial inequalities and the differential experiences of groups in Western multi-ethnic societies such as the USA and Britain? What sorts of criteria are used in arguments about the place of groups along racial hierarchies? What are the political implications of claims made about racial hierarchies?     

《生物化学》作为通识课的教学实践

生物化学研究生命的化学组成和化学变化等生命基本属性,是阐述生命奥秘的基本语言,是生命科学的基础学科。生物化学能否作为公选课?如果其作为公选课,又应包含哪些生物化学知识,如何讲授这些专业知识?本文从课程内容,教材选取以及授课方式等方面介绍了笔者在向非健康科学专业的学生开设《生物化学》公选课的实践和体会。笔者联系身边的生物化学现象讲解其中的基本生物化学原理,关注疾病发生和临床治疗中涉及的生物化学,整合本校生命和健康相关学科和最前沿的科学进展中涉及到的生物化学知识,极大地增强了学生对生物化学和生命科学的兴趣,有效提高了教学效果;并且为学生理解其它生命科学选修课程打下了良好的基础。这些策略和教学方法对于公选课和通识课,甚至专业课的教学实践,具有一定的参考价值。     

In pursuit of effective toxicogenomics

Biological systems exhibit complex responses to xenobiotics varying from generic stress responses to very specific changes closely associated with the mechanism of toxicity. Until recently our view of this complexity was obscured by the simplicity of available analysis tools which allowed determination of only a few genes in any one study. Then genome sequencing and high throughput library screening projects delivered data on the genome sequence of many organisms, and clones were collected and made available to researchers in a previously unparalleled quantity. To exploit this new resource the microarray was developed from its predecessor the dot blot. Further development has expanded the number of clones contained on any one microarray to a point where the expression of many tens of thousands of genes in a biological system can be determined in a short period of time. What these data are revealing is the full complexity of the gene expression response to stimuli such as xenobiotic exposure. Toxicogenomics seeks to use the complexity of this response as a fingerprint or signature characteristic of that xenobiotic exposure. There are though two major experimental challenges that need to be dealt with for toxicogenomics to be successful. The first is technical and relates to the intrinsic difficulties associated with the accurate measurement of gene expression. For microarrays, this problem is multiplied by the number of genes on the microarray itself. To overcome this technical variability correct experimental design is critical. The second challenge concerns the biological system used. What genetic background, time point and dose of xenobiotic should be chosen? For in vitro systems should cell lines or primary cells be used? These factors, and more, could affect the gene expression profile obtained in response to the same xenobiotic exposure. Using both our data and data from public databases these issues are explored in this paper.     

采用稳定同位素技术判定喀斯特地区植物水分来源的挑战与可能应对方案

占全球陆地面积约15%的喀斯特地区,有着不同于绝大多数非喀斯特地区的水文地质结构,使得许多在非喀斯特地区行之有效的研究方法难以直接用于喀斯特地区,而且这种限制在植物水分来源的研究上体现得尤为明显.本文从为什么要在喀斯特地区开展植物水分来源的研究、为什么一定要用稳定同位素的方法、使用该方法在喀斯特地区有何挑战,以及应对这些挑战的可能解决方案是什么等4个方面,综述了喀斯特地区植物水分来源研究普遍关注问题的由来和可能应对方案.文中重点阐述了与其他方法相比,稳定同位素技术在喀斯特地区植物水分来源研究中的优势以及难以完全满足其前提条件的挑战,结合现有相关研究的有益探索,提出在喀斯特地区的研究不必过分追求对各水源在具体深度上的细致划分,从水源特性的角度进行区分是更为适宜的途径.     

As we come to the end of 2011, several members of the Genome Biology Editorial Board give their views on the state of play in genomics

As we come to the end of 2011, Genome Biology has asked some members of our Editorial Board for their views on the state of play in genomics. What was their favorite paper of 2011? What are the challenges in their particular research area? Who has had the biggest influence on their careers? What advice would they give to young researchers embarking on a career in research?     

Genomics in 2011: challenges and opportunities

As we come to the end of 2011, Genome Biology has asked some members of our Editorial Board for their views on the state of play in genomics. What was their favorite paper of 2011? What are the challenges in their particular research area? Who has had the biggest influence on their careers? What advice would they give to young researchers embarking on a career in research?     

Developmental origins of pregnancy-induced cardiac changes: establishment of a novel model using the atrial natriuretic peptide gene-disrupted mice

Molecular and Cellular Biochemistry - Pregnancy evokes many challenges on the maternal cardiovascular system that may unmask predispositions for future disease. This is particularly evident for...     

The how and why of adult neurogenesis

Brain plasticity refers to the brain’s ability to change structure and/or function during maturation, learning, environmental challenges, or disease. Multiple and dissociable plastic changes in the adult brain involve many different levels of organization, ranging from molecules to systems, with changes in neural elements occurring hand-in-hand with changes in supportive tissue elements, such as glia cells and blood vessels. There is now substantial evidence indicating that new functional neurons are constitutively generated from endogenous pools of neural stem cells in restricted areas of the mammalian brain, throughout life. So, in addition to all the other known structural changes, entire new neurons can be added to the existing network circuitry. This addition of newborn neurons provides the brain with another tool for tinkering with the morphology of its own functional circuitry. Although the ongoing neurogenesis and migration have been extensively documented in non-mammalian species, its characteristics in mammals have just been revealed and thus several questions remain yet unanswered. Is adult neurogenesis an atavism, an empty-running leftover from evolution? What is adult neurogenesis good for and how does the brain ‘know’ that more neurons are needed? How is this functional demand translated into signals a precursor cell can detect? Adult neurogenesis may represent an adaptive response to challenges imposed by an environment and/or internal state of the animal. To ensure this function, the production, migration, and survival of newborn neurons must be tightly controlled. We attempt to address some of these questions here, using the olfactory bulb as a model system.     

Interactions between intrinsic membrane protein and electric field. An approach to studying nerve excitability

We have approached the problem of nerve excitability through three questions: (a) What is the diagram for a channel? That is, what conformational states can the protein assume, and what transitions between these conformations are permitted? (b) What is the channel conductance associated with each conformation the channel can assume? (c) How do the rates for conformational transition depend upon membrane potential? These three questions arise from a standard statistical mechanical treatment of a nerve membrane containing several classes of identical, independent channels. Gating of channels, in this view, is associated with conformational changes of the channel protein, and it is assumed these conformations are distinct. The precise formulation of these questions is presented in terms of the theoretical treatment, and the approaches we have taken to answer the questions are indicated. Our present results indicate: Transition rates should depend exponentially on membrane potential over a limited voltage range, but probably will show a more complex dependence for extremes of the range; channels probably can take on only two conductances, open and shut, but more complicated situations are not entirely excluded; the diagram for a channel cannot be determined from standard voltage clamp data alone, but by studying gating currents and conductance fluctuations, it should be possible to select between alternative plausible physical mechanisms.     

Long‐term effects of drainage and initial effects of hydrological restoration on rich fen vegetation

Questions: What vegetational changes does a boreal rich fen (alkaline fen) undergo during a time period of 24 years after drainage? How is plant species richness affected, and what are the changes in composition of ecological groups of species? Is it possible to recover parts of the original flora by rewetting the rich fen? Which are the initial vegetation changes in the flora after rewetting? What are the major challenges for restoration of rich fen flora after rewetting? Location: Eastern central Sweden, southern boreal vegetational zone. Previously rich fen site, drained for forestry purposes during 1978–1979. The site was hydrologically restored (rewetted) in 2002. Method: Annual vegetation survey in permanent plots during a period of 28 years. Results: There were three successional stages in the vegetational changes. In the first stage there was a rapid (< 5 years) loss of rich fen bryophytes. The second step was an increase of sedges and early successional bryophytes, which was followed by an increase of a few emerging dominants, such as Molinia caerulea, Betula pubescens and Sphagnum spp. After rewetting, there are indications of vegetation recovery, albeit at slow rates. Depending on, for instance, initial species composition different routes of vegetation change were observed in the flora after drainage, although after 24 years, species composition became more homogenous and dominated by a few species with high cover. Conclusion: Major changes have occurred after changes in the hydrology (drainage and rewetting) with a severe impact on the biodiversity among vascular plants and bryophytes. Several rich fen bryophytes respond quickly to the changes in water level (in contrast to vascular plants). The recovery after rewetting towards the original rich fen vegetation is slow, as delayed by substrate degradation, dispersal limitation and presence of dominant species.     

Ecological vulnerability indicators

Indicators provide easy and quick information on the status or condition of an object of interest and are therefore widely used in policy-making. In recent years, policy interest in vulnerability research has increased and a growing number of studies have been aimed at developing vulnerability indicators. Some of these studies have been done within the social–ecological system (SES) framework, taking into account both social vulnerability and ecological vulnerability. A particular challenged faced, however, is with regard to the incorporation of indicators to capture the latter, especially as the concept of vulnerability as applied in ecology is relatively new and not yet well-explored. This paper expounds on this problem by answering the following questions: (1) How are the concept of vulnerability and thereby ecological vulnerability currently understood? (2) What are the challenges in the development and use of ecological vulnerability indicators? (3) What are the current efforts to overcome these challenges? One insight gathered is that due to the complexity, nonlinearity, and multiplicity of dynamics of natural systems, development of sufficiently general indicators of ecological vulnerability may not be realizable. Rather, ecological vulnerability assessment and the development of indicators thereof, whether done independent of the human system or within the SES, should be conducted at smaller scales and must be context-specific.     

旧石器时代石制品热处理研究:回顾与展望

热处理技术作为旧石器时代古人类提高石器制作工艺水平的代表性技能, 一直以来倍受国际学术界的重视, 在已经开展的40余年工作中积累了丰硕的研究成果。由于我国旧石器时代石料的特点及热处理研究的某些技术手段本身存在局限性, 尚未在考古遗址中发现热处理行为及相关遗物, 目前我国热处理研究仍处于空白阶段。本文主要介绍旧石器时代热处理技术的原理与工艺及相关研究手段, 特别是针对热处理技术的实验研究。相信随着认识的加深, 石制品热处理研究会在我国旧石器考古学研究中发挥重要作用。     

Artophagy: The art of autophagy—Macroautophagy

Many of us have sketched (by hand or on the computer) depictions of macroautophagy; however, how often have we considered which elements in the drawing are key to illustrating the process? These types of illustrations are easily modified and/or discarded. On the other hand, if you plan to depict the process of macroautophagy in a more permanent medium you need to be more thoughtful about the composition. What items must be included? How should they be situated? What should be the size of each component? Here, we consider one example of an artist’s approach to depicting macroautophagy in a mixed-medium sculpture.     

The future of education in the molecular life sciences

The changing landscape of education in biochemistry and molecular biology presents many challenges for the future, for students and educators alike. The exponential increase in knowledge, the genomics, proteomics and computing revolutions, and the merging of once separate fields in biology, chemistry, physics and mathematics, mean that we need to rethink how we should be preparing today's science undergraduates for the future. What do we need to change, and how will we implement it?     

Lipreading and audio-visual speech perception.

This paper reviews progress in understanding the psychology of lipreading and audio-visual speech perception. It considers four questions. What distinguishes better from poorer lipreaders? What are the effects of introducing a delay between the acoustical and optical speech signals? What have attempts to produce computer animations of talking faces contributed to our understanding of the visual cues that distinguish consonants and vowels? Finally, how should the process of audio-visual integration in speech perception be described; that is, how are the sights and sounds of talking faces represented at their conflux?     

Modelling the cardiac transverse-axial tubular system

The transverse-axial tubular system (TATS) of cardiac ventricular myocytes is a complex network of tubules that arises as invaginations of the surface membrane; it appears to form a specialised region of cell membrane that is particularly important for excitation–contraction coupling. However, much remains unknown about the structure and role of the TATS. In this brief review we use experimental data and computer modelling to address the following key questions: (i) What fraction of the cell membrane is within the TATS? (ii) Is the composition of the TATS membrane the same as the surface membrane? (iii) How good is electrical coupling between the surface and TATS membranes? (iv) What fraction of each current is within the TATS? (v) How important is the complex structure of the TATS network? (vi) What is the effect of current inhomogeneity on lumenal ion concentrations? (vii) Does the TATS contribute to the functional changes observed in heart failure? Although there are many areas in which experimental evidence is lacking, computer models provide a method to assess and predict the possible function of the TATS; such models suggest that although the surface and TATS membranes are electrically well coupled, concentration of ion flux pathways within the TATS, coupled to restricted diffusion, may result in the ionic composition in the TATS lumen being different from that in the bulk extracellular space, and varying with activity and in pathological conditions.     

《生物多样性公约》下我国珊瑚礁养护履约进程与改善建议

珊瑚礁生态系统是《生物多样性公约》(下称《公约》)的重点保护对象。自1998年珊瑚礁出现大规模白化现象以来, 珊瑚礁养护议题一直受到《公约》缔约方大会的关注。本文通过梳理我国珊瑚礁养护管理的法律法规和相关履约措施, 结合海南、广西、广东三省的珊瑚礁资源变化状况, 评价我国在履约方面的表现并识别存在的主要差距。研究发现, 总体上我国积极采取了多种措施进行珊瑚礁的养护和管理, 活珊瑚覆盖度和种类数量有一定程度的恢复, 但仍存在相关立法分散、综合性治理方案缺乏、气候变化适应不足、跨部门协调机制不完善、海洋保护区管理有效性不足、资金缺乏且当地社区参与度低、珊瑚礁监测标准和规范简单且不统一、监测数据不足以进行有效评估、国际合作程度低、公众参与度不高等问题。建议我国结合履约要求, 与《公约》的目标和精神基本保持一致, 并考虑正在讨论的《2020后全球生物多样性保护框架》, 进一步完善珊瑚礁养护立法、行动计划和气候变化适应方案, 加强综合管理和协调机制建设, 提升海洋保护区的管理实效性, 改进珊瑚礁监测和数据采集, 提升国际合作, 进一步提高公众参与度, 从而不断提升履约能力, 构建更加完善的珊瑚礁养护体系。