Biological approaches for addressing the grand challenge of providing access to clean drinking water

The U.S. National Academy of Engineering (NAE) recently published a document presenting "Grand Challenges for Engineering". This list was proposed by leading engineers and scientists from around the world at the request of the U.S. National Science Foundation (NSF). Fourteen topics were selected for these grand challenges, and at least seven can be addressed using the tools and methods of biological engineering. Here we describe how biological engineers can address the challenge of providing access to clean drinking water. This issue must be addressed in part by removing or inactivating microbial and chemical contaminants in order to properly deliver water safe for human consumption. Despite many advances in technologies this challenge is expanding due to increased pressure on fresh water supplies and to new opportunities for growth of potentially pathogenic organisms.     

Grand challenges for biological engineering

Biological engineering will play a significant role in solving many of the world's problems in medicine, agriculture, and the environment. Recently the U.S. National Academy of Engineering (NAE) released a document "Grand Challenges in Engineering," covering broad realms of human concern from sustainability, health, vulnerability and the joy of living. Biological engineers, having tools and techniques at the interface between living and non-living entities, will play a prominent role in forging a better future. The 2010 Institute of Biological Engineering (IBE) conference in Cambridge, MA, USA will address, in part, the roles of biological engineering in solving the challenges presented by the NAE. This letter presents a brief outline of how biological engineers are working to solve these large scale and integrated problems of our society.     

Molecules to minds: grand challenges for the 21st century

The Institute of Medicine's Forum on Neuroscience and Nervous System Disorders established a "Grand Challenges Initiative." The goal is to help frame a broad, integrated research program that would attract substantial funding and generate additional resources to support large-scale efforts to tackle some of the most daunting but important neuroscience questions.     

Synthetic biology as a source of global health innovation

Synthetic biology has the potential to contribute breakthrough innovations to the pursuit of new global health solutions. Wishing to harness the emerging tools of synthetic biology for the goals of global health, in 2011 the Bill & Melinda Gates Foundation put out a call for grant applications to “Apply Synthetic Biology to Global Health Challenges” under its “Grand Challenges Explorations” program. A highly diverse pool of over 700 applications was received. Proposed applications of synthetic biology to global health needs included interventions such as therapeutics, vaccines, and diagnostics, as well as strategies for biomanufacturing, and the design of tools and platforms that could further global health research.     

Beyond the “Code”: A Guide to the Description and Documentation of Biodiversity in Ciliated Protists (Alveolata,Ciliophora)

Recent advances in molecular technology have revolutionized research on all aspects of the biology of organisms, including ciliates, and created unprecedented opportunities for pursuing a more integrative approach to investigations of biodiversity. However, this goal is complicated by large gaps and inconsistencies that still exist in the foundation of basic information about biodiversity of ciliates. The present paper reviews issues relating to the taxonomy of ciliates and presents specific recommendations for best practice in the observation and documentation of their biodiversity. This effort stems from a workshop that explored ways to implement six Grand Challenges proposed by the International Research Coordination Network for Biodiversity of Ciliates (IRCN‐BC). As part of its commitment to strengthening the knowledge base that supports research on biodiversity of ciliates, the IRCN‐BC proposes to populate The Ciliate Guide, an online database, with biodiversity‐related data and metadata to create a resource that will facilitate accurate taxonomic identifications and promote sharing of data.     

Evaluation of the Q-method as a method of public participation in the selection of sustainable development indicators

The complexity of sustainable development means that it is often difficult to evaluate and communicate the concept effectively. One standard method to reduce complexity and improve communication, while maintaining scientific objectivity, is to use selected indicators. The aim of this paper is to describe and evaluate a process of public participation in the selection of sustainable development indicators that utilised the Q-method for discourse analysis. The Q-method was utilised to combine public opinion with technical expertise to create a list of technically robust indicators that would be relevant to the public. The method comprises statement collection, statement analysis, Q-sorts and Q-sort analysis. The results of the Q-method generated a list of statements for which a preliminary list of indicators was then developed by a team of experts from the fields of environmental science, sustainable development and psychology. Subsequently members of the public evaluated the preliminary list of indicators, to select a final list of indicators that were both technically sound and incorporated the views of the public. The utilisation of the Q-method in this process was evaluated using previously published criteria. The application of the Q-method in this context needs to be considered not only by the quality of the indicators developed, but also from the perspective of the benefit of the process to the participants. It was concluded that the Q-method provided an effective framework for public participation in the selection of indicators as it allowed the public to discuss sustainable development in familiar language and in the context of their daily lives. By combining this information with expert input, a list of technically robust indicators that resonate with the public was developed. The results demonstrated that many citizens are not aware of sustainable development, and if it is to be successfully communicated to them, then indicators and policy need to be couched in terms familiar and relevant to citizen and communities.     

Integrating C4 photosynthesis into C3 crops to increase yield potential

The growth rate of the human population is faster than improvements in crop yields. To feed people in the future, multiple strategies are required. One proposed approach is to raise the yield potential of C(3) crops by modifying photosynthesis to the more efficient C(4) pathway. Owing to complex changes associated with C(4) photosynthesis, it is no understatement to define this conversion as one of the Grand Challenges for Biology in the 21st Century. Here we outline the challenges of installing a C(4) system and assess how new approaches and knowledge may help achieve this goal.     

African Urbanization: Assimilating Urban Metabolism into Sustainability Discourse and Practice

Shaping sustainable, equitable African cities requires strengthened investigations into the cities’ current resource flows, infrastructure systems, and future resource requirements. The field of urban metabolism (UM) offers multiple forms of analysis with which to map, analyse, and visualize urban resource profiles. Challenges in assessing UM in African cities include data scarcity at the city level, difficulty in tracking informal flows, lack of standardized methods, and the open nature of cities. However, such analyses are needed at the local level, given that city practitioners cannot rely purely on urban planning traditions of the global North or the typically broad studies about urban Africa, for supporting strategies toward sustainable urban development. This article aims to draw together the concepts of sustainable development and UM and explore their application in the African context. Further, the article estimated resource profiles for 120 African cities, including consumption of biomass, fossil fuels, electricity, construction materials, and water, as well as emissions of carbon dioxide. These resource profiles serve as a baseline from which to begin assessing the current and future resource intensity of these cities. It also provides insights into the cities’ relative resource impact, future consumption trends, and potential options for sustainability interventions.     

Comparison of Concentrations of Selected Metals and Organics in Fish Tissue and Sediment in the Grand River,Ohio, and the Southern Lake Erie Drainage Basin

The purpose of this paper is to develop a database of fish tissue and sediment concentrations of selected chemicals in the southern Lake Erie drainage basin, to compare contaminant concentrations in fish tissue and sediment collected from the Grand River, Ohio, in the vicinity of a former soda ash and chromate plant with that for other waterbodies in the drainage basin, and to evaluate the potential human health risks posed by these chemicals, with special focus on chromium. The results of this study indicate that chemical concentrations in fish tissue and sediment from the Grand River are generally lower than that of other waterbodies in the southern Lake Erie drainage basin. Although arsenic and beryllium concentrations in Grand River sediment are above their respective human health-based concentrations, these concentrations are comparable with local and regional background and are not expected to pose a significant incremental risk to human health. In addition, sediment concentrations do not exceed ecological screening criteria. Although PCB and several pesticides were found to have concentrations in fish tissue from the Grand River in excess of human health based concentrations, these concentrations are among the lowest found in waterbodies in the southern Lake Erie drainage basin.     

Status of life cycle assessment and engineering research in South Africa

In view of the upcoming 2002 World Summit in Johannesburg, sustainable development is a topic of high priority in South Africa. Although the South African competency in Life Cycle Assessment (LCA) and Life Cycle Engineering (LCE) has grown to some extent over the last ten years, South African industry and government have been slow to realise the benefit of LCAs and LCE as tools to support cleaner production and sustainable development. However, the local application of these tools, as well as considerations during their use, differs from practices in developed countries. The applications of LCAs and LCE, the type of organisations involved and the limitations and common problems associated with these tools in South Africa are discussed.     

Highly covarying residues have a functional role in antibody constant domains

The ability to generate and design antibodies recognizing specific targets has revolutionized the pharmaceutical industry and medical imaging. Engineering antibody therapeutics in some cases requires modifying their constant domains to enable new and altered interactions. Engineering novel specificities into antibody constant domains has proved challenging due to the complexity of inter‐domain interactions. Covarying networks of residues that tend to cluster on the protein surface and near binding sites have been identified in some proteins. However, the underlying role these networks play in the protein resulting in their conservation remains unclear in most cases. Resolving their role is crucial, because residues in these networks are not viable design targets if their role is to maintain the fold of the protein. Conversely, these networks of residues are ideal candidates for manipulating specificity if they are primarily involved in binding, such as the myriad interdomain interactions maintained within antibodies. Here, we identify networks of evolutionarily‐related residues in C‐class antibody domains by evaluating covariation, a measure of propensity with which residue pairs vary dependently during evolution. We computationally test whether mutation of residues in these networks affects stability of the folded antibody domain, determining their viability as design candidates. We find that members of covarying networks cluster at domain‐domain interfaces, and that mutations to these residues are diverse and frequent during evolution, precluding their importance to domain stability. These results indicate that networks of covarying residues exist in antibody domains for functional reasons unrelated to thermodynamic stability, making them ideal targets for antibody design. Proteins 2013. © 2012 Wiley Periodicals, Inc.     

持续发展指标研究简介

1　背景《21世纪议程》(第40章)号召建立持续发展的指标体系,它特别要求各国在国家水平,各国际组织和非政府组织在国际水平上建立持续发展指标的概念。因此,在联合国持续发展委员会(ＣＳＤ)第一次全会上,就提出了持续发展指标的工作规划,并获准通过。那时候,有很多国家一再强调建立指标的迫切性,另外一些国家则表示了某些关注并坚持在建立指标的过程中必须与政府部门密切联系。这个工作计划的目标是通过对指标的定义,方法论的阐述,提供培训和其它相应的能力建设,为各国决策者在国家水平上提供持续发展指标。有许多国家正在建立他们自己的指…     

An inventory of all known specimens of the coelacanth Latimeria chalumnae,with comments on trends in the catches

Synopsis A list is presented of all known specimens of the coelacanth Latimeria chalumnae based on a survey of the literature and of museum, aquarium and university holdings. Details are given of the date, place, time and depth of capture, the name and age of the fisherman, the length, weight and sex of the fish, the first literature record, the method of preservation and the present location of specimens, if known. A new number is assigned to each specimen. At least 172 coelacanths are known to have been caught since 1938. The first coelacanth was caught off South Africa but all properly documented, subsequent specimens have been caught off the islands of Grand Comoro and Anjouan in the Comoros. An appeal is made to the Comoran authorities for each specimen that is caught to be made available for scientific study. Museum authorities are also encouraged to allow their specimens to be X-rayed or dissected so that vital information can be obtained on fecundity, foetal nutrition and dietary preferences. It is essential for the coelacanth conservation effort that this inventory is maintained by the Coelacanth Conservation Council.     

物种分布模型在大型真菌红色名录评估及保护中的应用: 以冬虫夏草为例

我国大型真菌资源丰富, 由于受气候变化和人类活动等的影响, 近年来很多物种受到不同程度的威胁, 亟待保护。红色名录评估是物种保护的第一步, 为有效保护我国大型真菌多样性, 2016年生态环境部和中国科学院联合启动中国大型真菌红色名录评估项目。合理的评估依赖于完善的物种地理分布、种群数量规模及其动态变化信息。大型真菌评估信息较少, 需要引入新的方法解决评估信息不足的问题。冬虫夏草(Ophiocordyceps sinensis)是一种重要的食药用菌, 具有较高的经济价值, 受到全世界的广泛关注, 评估信息相对充足, 此次被评为易危物种。利用物种分布模型对冬虫夏草未来分布区变化的预测在评估过程中发挥了重要作用。为了将物种分布模型分析方法引入大型真菌的受威胁等级评估, 本文以此前我们利用物种分布模型预测冬虫夏草的潜在分布区及其对气候变化响应的研究为例, 介绍了应用物种分布模型预测大型真菌的潜在分布区、未来气候变化情景下分布区变化趋势的方法和流程, 以及在应用中可能存在的问题和解决方案。通过本文的分析, 我们认为物种分布模型在大型真菌的红色名录评估和保护中具有重要的应用潜力, 值得推广应用。     

科学史视角下的“基因工程”课程思政探索与实践

课程思政是新时期高校思想政治教育的重要途径之一。科学史记载了科学知识从产生到持续发展的过程,蕴含着丰富的育人价值,能够为专业课的课程思政教学提供新的视角和思路。本文从科学史丰富的育人价值中选择科学精神、科学思维、科学兴趣和科学伦理4个方面的素材;依托"基因工程"课程内容,对有关诺贝尔奖的科学史进行梳理;然后,以4个方面的素材为育人载体,深挖其中蕴含的思政元素,通过实施课程思政教学,帮助学生达成课程思政目标;最后,综合运用问卷和深度访谈相结合的方式评价教学效果。借此引领学生树立正确的价值观,提高思想政治水平,以期为生物学专业的课程思政体系建设提供参考。     

Review of metabolic pathways activated in cancer cells as determined through isotopic labeling and network analysis

Cancer metabolism has emerged as an indispensable part of contemporary cancer research. During the past 10 years, the use of stable isotopic tracers and network analysis have unveiled a number of metabolic pathways activated in cancer cells. Here, we review such pathways along with the particular tracers and labeling observations that led to the discovery of their rewiring in cancer cells. The list of such pathways comprises the reductive metabolism of glutamine, altered glycolysis, serine and glycine metabolism, mutant isocitrate dehydrogenase (IDH) induced reprogramming and the onset of acetate metabolism. Additionally, we demonstrate the critical role of isotopic labeling and network analysis in identifying these pathways. The alterations described in this review do not constitute a complete list, and future research using these powerful tools is likely to discover other cancer-related pathways and new metabolic targets for cancer therapy.     

Evaluation of existing sustainable infrastructure rating systems for their application in developing countries

Several sustainable building rating systems were created worldwide during the last decades due to economic growth and the significance of environmental impact associated with the building industry. Similar infrastructure rating tools have started to be developed and implemented, being highly necessary to promote its development. Even though the existing sustainable infrastructure rating systems are focused on advanced economies, growing environmental concerns are increasing the need for new systems in the Developing World. This research analyses some of the mainstream infrastructure rating frameworks such as Envision (USA), Civil Engineering Environmental Quality (CEEQUAL) assessment (UK) and Infrastructure Sustainability (IS) Rating Tool (Australia) from the perspective of the Triple Bottom Line (economy, environment and society), in order to determine the effectiveness of their application in the context of the least developed countries. The analysis revealed that the three tools are biased towards the environmental dimension and are mainly oriented to developed countries. Consequently, the foundations on which these systems are based need to be further developed and enhanced to be of real relevance in poorer nations by balancing the weight of sustainable pillars, incorporating effective management guidelines and development goals set by United Nations declarations, and considering impacts beyond the single project framework.     

Coral associations of the Pleistocene Ironshore Formation,Grand Cayman

The 125-ka sea level, which was approximately 6 m above present-day sea level, led to the partial flooding of many Caribbean islands. On Grand. Cayman, this event led to the formation of the large Ironshore Lagoon that covered most of the western half of the island and numerous, small embayments along the south, east, and north coasts. At that time, at least 33 coral species grew in waters around Grand Cayman. This fauna, like the modern coral fauna of Grand Cayman, was dominated byMontastrea annularis, Porites porites, Acropora polmata, andA. cervicornis. Scolymia cubensis andMycetophyllia ferox, not previously identified from the Late Pleistocene, are found in the Pleistocene patch reefs.Madracis mirabilis, Colpophyllia breviserialis, Agaricia tenuifolia, A. lamarcki, A. undata, Millepora spp., Mycetophyllia reesi, M. aliciae, andM. danaana, found on modern reefs, have not been identified from the Late Pleistocene reefs. Conversely,Pocillopora sp. cf.P. palmata, which is found in Late Pleistocene reefs, is absent on the modern reefs around Grand Cayman. The corals in the Ironshore Formation of Grand Cayman have been divided into 10 associations according to their dominant species, overall composition, and faunal diversity. Many of these associations are similar to the modern associations around Grand Cayman. Each of the Pleistocene coral associations, which can be accurately located on the known Late Pleistocene paleogeography of Grand Cayman, developed in distinct environmental settings. Overall trends identified in the modern settings are also apparent in the Late Pleistocene faunas. Thus, the diversity of the coral faunas increased from the interior of the Ironshore Lagoon to the reef crest. Similarly, the coral diversity in the Pleistocene patch reefs was related to the size of the reefs and their position relative to breaks in the barrier reef. The barrier reef included corals that are incapable of sediment rejection; whereas the patch reefs lacked such corals.     

Measuring the sustainability of cities: An analysis of the use of local indicators

We analyze 17 studies of the use of urban sustainable development indicators (SDI) in developed western countries. The analysis reveals a lack of consensus not only on the conceptual framework and the approach favored, but also on the selection and optimal number of indicators. First, by performing different classifications and categorizations of SDI we identify problems inherent in territorial practices that use SDI. Second, we argue that the lack of consensus in several steps of the creation of SDI stems notably from the ambiguity in the definitions of sustainable development, objectives for the use of such indicators, the selection method and the accessibility of qualitative and quantitative data. Third, based on the reviewed studies, we propose a selection strategy for SDI through which we demonstrate the need to adopt a parsimonious list of SDI covering the sustainable development components and their constituent categories as broadly as possible while minimizing the number of indicators retained.