Beyond Disciplinary Boundaries: Leptospirosis as a Model of Incorporating Transdisciplinary Approaches to Understand Infectious Disease Emergence

Leptospirosis is a zoonotic infectious disease of global significance. Political, economic, demographic, ecologic, and other anthropogenically driven environmental changes have fueled the reemergence of this disease in industrialized and developing countries, and in both urban and rural settings. We argue that conventional disciplinary, even interdisciplinary, research methods are not sufficient to elucidate the complex mechanisms and causal relationships among the myriad factors responsible for infectious disease emergence. To address the significant gaps in the field of leptospirosis, an integrated research agenda is needed to guide successful public health remediation of the disease. Based on both working group analysis of literature and newly obtained information, we describe cross-disciplinary collaborative approaches that allow a novel approach to understand leptospirosis emergence with regard to mountain-to-sea ecosystems in Hawai‘i and other region-specific ecosystems. Leptospirosis research is a model for how complementary disciplines in the social, cultural, ecological, and biomedical sciences can optimally interact towards a higher understanding of emerging infectious diseases.     

Unifying functional trait approaches to understand the assemblage of ecological communities: synthesizing taxonomic divides

Functional traits have long been considered the ‘holy grail’ in community ecology due to their potential to link phenotypic variation with ecological processes. Advancements across taxonomic disciplines continue to support functional ecology's objective to approach generality in community assembly. However, a divergence of definitions, aims and methods across taxa has created discord, limiting the field's predictive capacity. Here, we provide a guide to support functional ecological comparisons across taxa. We describe advances in cross‐taxa functional research, identify gaps in approaches, synthesize definitions and unify methodological considerations. When deciding which traits to compare, particularly response traits, we advocate selecting functionally analogous traits that relate to community assembly processes. Finally, we describe at what scale and for which questions functional comparisons across taxa are useful and when other approaches may be more constructive. Our approach promotes standardized methods for integrative research across taxa to identify broad trends in community assembly.     

A global gap analysis of infectious agents in wild primates

A number of infectious diseases have emerged as threats to humans and wildlife. Despite the growing importance of georeferenced data for mitigating disease risk, information on parasite threat is patchily distributed at a global scale. In this paper, we explore the utility of gap analysis techniques to investigate the global geographical distribution of parasite sampling in non-human primates. Specifically, we identify geographical areas that are undersampled for parasites in relation to primate geographical distributions, primate taxonomic sampling, primate threat status, and parasite taxonomy. Our results reveal that East Asia (particularly China), South-East Asia, and the South American Amazon are the most deficient in sampling effort with respect to all criteria. We also identify sampling gaps based on several criteria in West and Central Africa. Future research aimed at filling these gaps is needed for both human health and primate conservation purposes.     

Humanized mice in translational biomedical research

The culmination of decades of research on humanized mice is leading to advances in our understanding of human haematopoiesis, innate and adaptive immunity, autoimmunity, infectious diseases, cancer biology and regenerative medicine. In this Review, we discuss the development of these new generations of humanized mice, how they will facilitate translational research in several biomedical disciplines and approaches to overcome the remaining limitations of these models.     

Evolutionary and ecological functional genomics

A unique combination of disciplines is emerging--evolutionary and ecological functional genomics--which focuses on the genes that affect ecological success and evolutionary fitness in natural environments and populations. Already this approach has provided new insights that were not available from its disciplinary components in isolation. However, future advances will necessitate the re-engineering of scientific attitudes, training and institutions, to achieve extensive multidisciplinarity.     

Disciplinary baptisms: a comparison of the naming stories of genetics, molecular biology, genomics, and systems biology

Understanding how scientific activities use naming stories to achieve disciplinary status is important not only for insight into the past, but for evaluating current claims that new disciplines are emerging. In order to gain a historical understanding of how new disciplines develop in relation to these baptismal narratives, we compare two recently formed disciplines, systems biology and genomics, with two earlier related life sciences, genetics and molecular biology. These four disciplines span the twentieth century, a period in which the processes of disciplinary demarcation fundamentally changed from those characteristic of the nineteenth century. We outline how the establishment of each discipline relies upon an interplay of factors that include paradigmatic achievements, technological innovation, and social formations. Our focus, however, is the baptism stories that give the new discipline a founding narrative and articulate core problems, general approaches and constitutive methods. The highly plastic process of achieving disciplinary identity is further marked by the openness of disciplinary definition, tension between technological possibilities and the ways in which scientific issues are conceived and approached, synthesis of reductive and integrative strategies, and complex social interactions. The importance--albeit highly variable--of naming stories in these four cases indicates the scope for future studies that focus on failed disciplines or competing names. Further attention to disciplinary histories could, we suggest, give us richer insight into scientific development.     

Molecular biology and gene transfer in atherosclerosis in the stenting era

Atherosclerosis is the major cause of death in the developed world. Understanding the pathogenesis of atherosclerosis has been a major challenge to cardiovascular research over the past several decades. During this period a number of advances in various scientific disciplines has increased our understanding of this disease. These include improved understanding of the structural and functional components of normal vessel wall and more recently the use of cell biology and molecular biology techniques to elucidate the pathogenesis of atherosclerosis. None of these advances has been more dramatic nor has potentially more far reaching consequences as the application of molecular biology and gene technology to the practice of cardiovascular medicine. These developments have already opened new and exciting areas of vascular research and may in the future provide for earlier identification of genetic predisposition to atherosclerosis, strategic planning of preventive therapy and more tailored pharmacologic approaches for established disease.     

Elements of disease in a changing world: modelling feedbacks between infectious disease and ecosystems

An overlooked effect of ecosystem eutrophication is the potential to alter disease dynamics in primary producers, inducing disease‐mediated feedbacks that alter net primary productivity and elemental recycling. Models in disease ecology rarely track organisms past death, yet death from infection can alter important ecosystem processes including elemental recycling rates and nutrient supply to living hosts. In contrast, models in ecosystem ecology rarely track disease dynamics, yet elemental nutrient pools (e.g. nitrogen, phosphorus) can regulate important disease processes including pathogen reproduction and transmission. Thus, both disease and ecosystem ecology stand to grow as fields by exploring questions that arise at their intersection. However, we currently lack a framework explicitly linking these disciplines. We developed a stoichiometric model using elemental currencies to track primary producer biomass (carbon) in vegetation and soil pools, and to track prevalence and the basic reproduction number (R₀) of a directly transmitted pathogen. This model, parameterised for a deciduous forest, demonstrates that anthropogenic nutrient supply can interact with disease to qualitatively alter both ecosystem and disease dynamics. Using this element‐focused approach, we identify knowledge gaps and generate predictions about the impact of anthropogenic nutrient supply rates on infectious disease and feedbacks to ecosystem carbon and nutrient cycling.     

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.     

A Position Paper on the Electronic Publication of Nematode Taxonomic Manuscripts

Several nematode species have now attained ‘model organism’ status, yet there remain many niches in basic biological inquiry for which nematodes would be ideal model systems of study. However, furthering the model system approach is hindered by lack of information on nematode biodiversity. The shortage of taxonomic resources to inventory and characterize biodiversity hinders research programs in invasion biology, ecosystem functioning, conservation biology, and many others. The disproportion between numbers of species to be described and numbers of available taxonomic specialists is greater for Nematoda than for any other metazoan phylum. A partial solution to the taxonomic impediment is the adoption of recent advances in electronic publishing. Electronic publishing has the potential to increase the rate at which taxonomic papers are published, the breadth of their distribution, and the type, quantity, quality, and accessibility of data. We propose that the Journal of Nematology implement the advantageous aspects of electronic publication as a means to help ameliorate the limitations of an underdeveloped taxonomy and empower the nematological disciplines currently hindered by it.     

Insights from a Cross‐Disciplinary Seminar: 10 Pivotal Papers for Ecological Restoration

Restoration ecology is a deepening and diversifying field with current research incorporating multiple disciplines and infusing long‐standing ideas with fresh perspectives. We present a list of 10 recent pivotal papers exemplifying new directions in ecological restoration that were selected by students in a cross‐disciplinary graduate seminar at the University of California, Berkeley. We highlight research that applies ecological theory to improve restoration practice in the context of global change (e.g. climate modeling, evaluation of novel ecosystems) and discuss remaining knowledge gaps. We also discuss papers that recognize the social context of restoration and the coupled nature of social and ecological systems, ranging from the incorporation of cultural values and Traditional Ecological Knowledge into restoration, to the consideration of the broader impacts of markets on restoration practices. In addition, we include perspectives that focus on improving communication between social and natural scientists as well as between scientists and practitioners, developing effective ecological monitoring, and applying more integrated, whole‐landscape approaches to restoration. We conclude with insights on recurrent themes in the papers regarding planning restoration in human‐modified landscapes, application of ecological theory, improvements to restoration practice, and the social contexts of restoration. We share lessons from our cross‐disciplinary endeavor, and invite further discussion on the future directions of restoration ecology through contributions to our seminar blog site http://restecology.blogspot.com .     

猪瘟疫苗研究进展

猪瘟是猪的一种重要传染病,给世界养猪业造成了巨大的经济损失。疫苗免疫是预防该病的主要手段。本文综述了猪瘟流行现状、传统疫苗、亚单位疫苗、活载体疫苗、标记疫苗、核酸疫苗的研究进展,并对它们的发展趋势作了初步探讨和展望。     

Biotic homogenization: a new research agenda for conservation biogeography

Aim Biotic homogenization describes the process by which species invasions and extinctions increase the genetic, taxonomic or functional similarity of two or more biotas over a specified time interval. The study of biotic homogenization is a young and rapidly emerging research area in the budding field of conservation biogeography, and this paper aims to synthesize our current knowledge of this process and advocate a more systematic approach to its investigation. Methods Based on a comprehensive examination of the primary literature this paper reviews the process of biotic homogenization, including its definition, quantification, underlying ecological mechanisms, environmental drivers, the empirical evidence for different taxonomic groups, and the potential ecological and evolutionary implications. Important gaps in our knowledge are then identified, and areas of new research that show the greatest promise for advancing our current thinking on biotic homogenization are highlighted. Results Current knowledge of the patterns, mechanisms and implications of biotic homogenization is highly variable across taxonomic groups, but in general is incomplete. Quantitative estimates are almost exclusively limited to freshwater fishes and plants in the United States, and the principal mechanisms and drivers of homogenization remain elusive. To date research has focused on taxonomic homogenization, and genetic and functional homogenization has received inadequate attention. Trends over the past decade, however, suggest that biotic homogenization is emerging as a topic of greater research interest. Main conclusions My investigation revealed a number of important knowledge gaps and priority research needs in the science of biotic homogenization. Future studies should examine the homogenization process for different community properties (species occurrence and abundance) at multiple spatial and temporal scales, with careful attention paid to the various biological mechanisms (invasions vs. extinctions) and environmental drivers (environmental alteration vs. biotic interactions) involved. Perhaps most importantly, this research should recognize that there are multiple possible outcomes resulting from the accumulation of species invasions and extinctions, including biotic differentiation whereby genetic, taxonomic or functional similarity of biotas decreases over time.     

All Hands on Deck: Transdisciplinary Approaches to Emerging Infectious Disease

The increasing burden of emerging infectious diseases worldwide confronts us with numerous challenges, including the imperative to design research and responses that are commensurate to understanding the complex social and ecological contexts in which infectious diseases occur. A diverse group of scientists met in Hawaii in March 2005 to discuss the linked social and ecological contexts in which infectious diseases emerge. A subset of the meeting was a group that focused on “transdisciplinary approaches” to integrating knowledge across and beyond academic disciplines in order to improve prevention and control of emerging infections. This article is based on the discussions of that group. Here, we outline the epidemiological legacy that has dominated infectious disease research and control up until now, and introduce the role of new, transdisciplinary and systems-based approaches to emerging infectious diseases. We describe four cases of transboundary health issues and use them to discuss the potential benefits, as well as the inherent difficulties, in understanding the social–ecological contexts in which infectious diseases occur and of using transdisciplinary approaches to deal with them. The views expressed here by Marian McDonald and Josh Rosenthal are those of the authors and do not represent official views or policies of the U.S. Centers for Disease Control and Prevention or the National Institutes of Health.     

鼠疫疫苗研究的现状与展望

鼠疫（Plague）是由鼠疫耶尔森菌(Yersina pestis，Y. pestis)（简称鼠疫菌）引起的一种烈性传染病，属甲类传染病，具有高度传染性和致病性。在过去的鼠疫大流行中近2亿感染者死亡。疫苗接种是疾病预防控制的重要方法。现就鼠疫疫苗的研究进展作一综述，为新疫苗的研制提供参考。     

伪狂犬病新型疫苗研究进展

伪狂犬病是多种家畜和野生动物的一种重要传染病,给世界畜牧业特别是养猪业造成了巨大的经济损失,疫苗免疫是预防控制该病的主要手段。综述了伪狂犬病亚单位疫苗,核酸疫苗,重组疫苗,基因缺失疫苗等新型疫苗的研究进展。     

Functional Diversity as a New Framework for Understanding the Ecology of an Emerging Generalist Pathogen

Emerging infectious disease outbreaks are increasingly suspected to be a consequence of human pressures exerted on natural ecosystems. Previously, host taxonomic communities have been used as indicators of infectious disease emergence, and the loss of their diversity has been implicated as a driver of increased presence. The mechanistic details in how such pathogen–host systems function, however, may not always be explained by taxonomic variation or loss. Here we used machine learning and methods based on Gower’s dissimilarity to quantify metrics of invertebrate functional diversity, in addition to functional groups and their taxonomic diversity at sites endemic and non-endemic for the model generalist pathogen Mycobacterium ulcerans, the causative agent of Buruli ulcer. Changes in these metrics allowed the rapid categorisation of the ecological niche of the mycobacterium’s hosts and the ability to relate specific host traits to its presence in aquatic ecosystems. We found that taxonomic diversity of hosts and overall functional diversity loss and evenness had no bearing on the mycobacterium’s presence, or whether the site was in an endemic area. These findings, however, provide strong evidence that generalist environmentally persistent bacteria such as M. ulcerans can be associated with specific functional traits rather than taxonomic groups of organisms, increasing our understanding of emerging disease ecology and origin.     

Co-evolution of physical and social sciences in synthetic biology

Emerging technologies research often covers various perspectives in disciplines and research areas ranging from hard sciences, engineering, policymaking, and sociology. However, the interrelationship between these different disciplinary domains, particularly the physical and social sciences, often occurs many years after a technology has matured and moved towards commercialization. Synthetic biology may serve an exception to this idea, where, since 2000, the physical and the social sciences communities have increasingly framed their research in response to various perspectives in biological engineering, risk assessment needs, governance challenges, and the social implications that the technology may incur. This paper reviews a broad collection of synthetic biology literature from 2000–2016, and demonstrates how the co-development of physical and social science communities has grown throughout synthetic biology’s earliest stages of development. Further, this paper indicates that future co-development of synthetic biology scholarship will assist with significant challenges of the technology’s risk assessment, governance, and public engagement needs, where an interdisciplinary approach is necessary to foster sustainable, risk-informed, and societally beneficial technological advances moving forward.     

Mind the gaps when using science to address conservation concerns

Conservation science and conservation action are assumed to have identical goals. However, in reality, there is a strong divide between research and practical conservation that has been mostly discussed with respect to the ‘knowing-doing gap’, i.e. the results from science are not being translated into practical management. In this commentary, we argue that there is not one but there are at least three different types of gaps impeding a positive impact of science on conservation: (1) the knowing-doing gap; (2) the thematic gap that exists between the topics addressed by conservation science and the problems faced in conservation; and (3) the disciplinary gap, i.e. the lack of communication and cooperation between different fields of science, e.g. between fundamental biodiversity research and conservation research. These different gaps have different origins and require different means to be overcome. In a survey, scientists from the field of conservation research (all contributing to this special issue on European grasslands) assessed the importance of these three gaps. They highlight that the disciplinary gap is just as relevant as the knowing-doing gap, while the importance of the thematic gap between practical conservation needs and theoretical conservation science is, in the view of the authors, of less importance. Also, the respondents identified the complexity of academic content in scientific publications as an additional cause for knowing-doing gaps. Based on our survey and various other studies analysing these gaps, we suggest two ways to overcome the gaps: if you consider yourself to be a conservation scientist make sure to address questions of relevance for conservation issues, if you are a scientist interested in fundamental issues, be open to mutual interaction and translation of scientific results with conservation scientists. The knowing-doing gap could be addressed by more readily translating the theoretical findings into practical advice. “Conservation Journals” could, for instance, require a second “Conservation Management Abstract”, which has to be published open-access, and back-to-back with the conventional abstract.