Quantifying shifts in topic popularity over 44 years of Austral Ecology

The Ecological Society of Australia was founded in 1959, and the society’s journal was first published in 1976. To examine how research published in the society’s journal has changed over this time, we used text mining to quantify themes and trends in the body of work published by the Australian Journal of Ecology and Austral Ecology from 1976 to 2019. We used topic models to identify 30 ‘topics’ within 2778 full‐text articles in 246 issues of the journal, followed by mixed modelling to identify topics with above‐average or below‐average popularity in terms of the number of publications or citations that they contain. We found high inter‐decadal turnover in research topics, with an early emphasis on highly specific ecosystems or processes giving way to a modern emphasis on community, spatial and fire ecology, invasive species and statistical modelling. Despite an early focus on Australian research, papers discussing South American ecosystems are now among the fastest‐growing and most frequently cited topics in the journal. Topics that were growing fastest in publication rates were not always the same as those with high citation rates. Our results provide a systematic breakdown of the topics that Austral Ecology authors and editors have chosen to research, publish and cite through time, providing a valuable window into the historical and emerging foci of the journal.     

A meta-analysis of biotic resistance to exotic plant invasions

Biotic resistance describes the ability of resident species in a community to reduce the success of exotic invasions. Although resistance is a well‐accepted phenomenon, less clear are the processes that contribute most to it, and whether those processes are strong enough to completely repel invaders. Current perceptions of strong, competition‐driven biotic resistance stem from classic ecological theory, Elton's formulation of ecological resistance, and the general acceptance of the enemies‐release hypothesis. We conducted a meta‐analysis of the plant invasions literature to quantify the contribution of resident competitors, diversity, herbivores and soil fungal communities to biotic resistance. Results indicated large negative effects of all factors except fungal communities on invader establishment and performance. Contrary to predictions derived from the natural enemies hypothesis, resident herbivores reduced invasion success as effectively as resident competitors. Although biotic resistance significantly reduced the establishment of individual invaders, we found little evidence that species interactions completely repelled invasions. We conclude that ecological interactions rarely enable communities to resist invasion, but instead constrain the abundance of invasive species once they have successfully established.     

A critique of 'countryside biogeography' as a guide to research in human‐dominated landscapes

Proliferation of redundant terms in ecology and conservation slows progress and creates confusion. ‘Countryside biogeography’ has been promoted as a new framework for conservation in production landscapes, so may offer a replacement for other concepts used by landscape ecologists. We conducted a systematic review to assess whether the 'countryside biogeography' concept provides a distinctive framing for conservation in human‐dominated landscapes relative to existing concepts. We reviewed 147 papers referring to countryside biogeography and 81 papers that did not. These papers were divided into categories representing three levels of use of countryside biogeography concepts (strong, weak, cited only) and two categories that did not use countryside biogeography at all but used similar concepts including fragmentation and matrix. We revealed few distinctions among groups of papers. Countryside biogeography papers made more frequent use of the terms 'ecosystem services', 'intensification' and 'land sparing' compared with non‐countryside biogeography papers. Papers that did not refer to countryside biogeography sampled production areas (e.g. farms) less often, and this related to their focus on habitat specialist species for which patch‐matrix assumptions were reasonable. Countryside biogeography offers a conceptual wrapper rather than a distinctive framework for advancing research in human‐modified landscapes. This and similar wrappers such as ‘conservation biogeography’ and ‘agricultural biogeography’ risk creating confusion among new researchers, and can prevent clear communication about research. To improve communication, we recommend using the suite of well‐established terms already applied to conservation in human‐modified landscapes rather than through an interceding conceptual wrapper.     

Population Cycles,Disease, and Networks of Ecological Knowledge

Wildlife populations in the northern reaches of the globe have long been observed to fluctuate or cycle periodically, with dramatic increases followed by catastrophic crashes. Focusing on the early work of Charles S. Elton, this article analyzes how investigations into population cycles shaped the development of Anglo-American animal ecology during the 1920s–1930s. Population cycling revealed patterns that challenged ideas about the “balance” of nature; stimulated efforts to quantify population data; and brought animal ecology into conversation with intellectual debates about natural selection. Elton used the problem of understanding wildlife population cycles to explore a central tension in ecological thought: the relative influences of local conditions (food supply, predation) and universal forces (such as climate change and natural selection) in regulating wild animal populations. He also sought patronage and built research practices and the influential Bureau of Animal Population around questions of population regulation during the 1930s. Focusing on disease as a local population regulator that could interact with global climatic influences, Elton facilitated an interdisciplinary and population-based approach in early animal ecology. Elton created a network of epidemiologists, conservationists, pathologists and mathematicians, who contributed to population cycle research. I argue that, although these people often remained peripheral to ecology, their ideas shaped the young discipline. Particularly important were the concepts of abundance, density, and disease; and the interactions between these factors and natural selection. However, Elton’s reliance on density dependence unwittingly helped set up conditions conducive to the development of controversies in animal ecology in later years. While ecologists did not come to consensus on the ultimate causes of population cycles, this phenomenon was an important early catalyst for the development of theory and practice in animal ecology.     

Another call for the end of invasion biology

The restriction of invasion biology to non‐native species has been laid down as one founding principle of the discipline by many researchers. However, this split between native and non‐native species is highly controversial. Using a phenomenological approach and a more pragmatic examination of biological invasions, the present paper discusses how this dichotomy has restricted the relevance of the field, both from theoretical and practical viewpoints. We advocate the emergence of a broader disciplinary field.     

Species invasions and the changing biogeography of Australian freshwater fishes

Aim By dissolving natural physical barriers to movement, human‐mediated species introductions have dramatically reshuffled the present‐day biogeography of freshwater fishes. The present study investigates whether the antiquity of Australia's freshwater ichthyofauna has been altered by the widespread invasion of non‐indigenous fish species. Location Australia. Methods Using fish presence–absence data for historical and present‐day species pools, we quantified changes in faunal similarity among major Australian drainage divisions and among river basins of north‐eastern Australia according to the Sørensen index, and related these changes to major factors of catchment disturbance that significantly alter river processes. Results Human‐mediated fish introductions have increased faunal similarity among primary drainages by an average of 3.0% (from 17.1% to 20.1% similarity). Over three‐quarters of the pairwise changes in drainage similarity were positive, indicating a strong tendency for taxonomic homogenization caused primarily by the widespread introduction of Carassius auratus, Gambusia holbrooki, Oncorhynchus mykiss and Poecilia reticulata. Faunal homogenization was highest in drainages subjected to the greatest degree of disturbance associated with human settlement, infrastructure and change in land use. Scenarios of future species invasions and extinctions indicate the continued homogenization of Australian drainages. In contrast, highly idiosyncratic introductions of species in river basins of north‐eastern Australia have decreased fish faunal similarity by an average of 1.4%. Main conclusions We found that invasive species have significantly changed the present‐day biogeography of fish by homogenizing Australian drainages and differentiating north‐eastern river basins. Decreased faunal similarity at smaller spatial scales is a result of high historical similarity in this region and reflects the dynamic nature of the homogenization process whereby sporadic introductions of new species initially decrease faunal similarity across basins. Our study points to the importance of understanding the role of invasive species in defining patterns of present‐day biogeography and preserving the antiquity of Australia's freshwater biodiversity.     

How wide is the “knowing-doing” gap in invasion biology?

Invasion biology is a growing discipline with clear ecological, social and economic implications. A wide range of research effort is thus required to address the invasion problem, and literature on the topic is extensive. However, the extent to which the invasion biology research is addressing the challenges associated with management and mitigation of the impacts of invasions has been questioned. Using bibliometric analysis, we investigated the extent to which the literature on the subject contributes to implementation of knowledge generated, by addressing aspects of management, policy, and/or implementation; the impact of these papers as indicated by the number of citations they attract; and the geopolitical scale of focus of invasion ecology papers, particularly those that attempt to bridge the knowing-doing gap. We then compared these findings with the information needs of conservation practitioners. We first looked globally at popular search engines and then narrowed our focus to South Africa—one of three regions outside USA where researchers producing highly cited papers in invasion ecology are well represented. At this level, we conducted a content analysis of invasion ecology-related papers, of which at least one author was affiliated to a South African institution. The knowledge base in the field of invasion biology is comprised largely of research oriented towards “knowing”, while research aimed at strategically applying or implementing that knowledge is poorly represented in the scientific literature, and the scale of its emphasis is not local. Conservation practitioners clearly indicate a need for basic knowledge. However, invasion science must develop channels for effective engagement to ensure that the research is contextualised, and will deal with the complex ecological, social and economic challenges posed by invasions.     

气候变化背景下生物入侵研究态势的文献计量分析

生物入侵严重威胁生物多样性与生态系统健康,对全球环境、经济造成极大损失,而快速的气候变化显著影响外来生物的扩散和入侵进程。探讨气候变化背景下生物入侵研究态势能够从宏观上把握该领域的国际研究现状与热点,为深入理解外来种入侵机制和制定合理的防治策略提供参考。该文基于最近27 a间(1990—2016年)科学文献数据库Web of Science中科学引文索引扩展版(SCI-E)数据,利用TDA等统计工具对气候变化下生物入侵方面的研究进行了文献计量分析。结果表明:27 a间共发表论文1 736篇,论文数量整体保持增长态势,2009年开始进入快速发展阶段;该领域的研究涉及环境科学与生态学、生物多样性保护、植物学等多个学科;澳大利亚莫纳什大学Chown SL教授发文量最高(35篇);美国的总发文量(708篇)和高被引、高影响因子论文数量均居世界首位;发文量最多的研究机构是加利福尼亚大学(93篇),中国科学院发文量居世界第10位(27篇);Biological Invasions是刊文量最大的学术杂志;物种分布模型、生物多样性、全球变暖、风险评估等是近年来该领域的研究热点;中国共发表论文52篇,中国科学院是国内最大的发文机构,其中,动物研究所、武汉植物园、植物研究所的发文量居中科院科研系统前三名;中国在气候变化下生物入侵领域的高被引、高影响因子论文数量及国际合作强度亟待提升。未来需重点关注气候变化下生物入侵的预测与风险评估、生物入侵与生物多样性关系、入侵物种的系统进化、入侵生态系统的多营养级关系、海洋生物入侵、生物入侵与人类健康等问题。     

The importance of biological inertia in plant community resistance to invasion

Abstract. Insights into the ecology of historic invasions by introduced species can be gained by studying long‐term patterns of invasions by native species. In this paper, we review literature in palaeo‐ecology, forest‐stand simulation modelling, and historical studies of plant species invasions to illustrate the relevance of biological inertia in plant communities to invasion ecology. Resistance to invasion occurs in part because of environmental, demographic, and biotic factors influencing the arrival and establishment of invading species. We propose that biological inertia within the resident community is a fourth component of resistance to invasion, because of the lag time inherent in eliminating resident species and perhaps their traces after environmental conditions become suitable for invasion by immigrating species. Whether or not an introduced species invades can be conditioned by the presence of the pre‐existing community (and/or its legacy) in addition to the other biotic and abiotic factors.     

Species richness and interacting factors control invasibility of a marine community

Anthropogenic vectors have moved marine species around the world leading to increased invasions and expanded species'' ranges. The biotic resistance hypothesis of Elton (in The ecology of invasions by animals and plants, 1958) predicts that more diverse communities should have greater resistance to invasions, but experiments have been equivocal. We hypothesized that species richness interacts with other factors to determine experimental outcomes. We manipulated species richness, species composition (native and introduced) and availability of bare space in invertebrate assemblages in a marina in Monterey, CA. Increased species richness significantly interacted with both initial cover of native species and of all organisms to collectively decrease recruitment. Although native species decreased recruitment, introduced species had a similar effect, and we concluded that biotic resistance is conferred by total species richness. We suggest that contradictory conclusions in previous studies about the role of diversity in regulating invasions reflect uncontrolled variables in those experiments that modified the effect of species richness. Our results suggest that patches of low diversity and abundance may facilitate invasions, and that such patches, once colonized by non-indigenous species, can resist both native and non-indigenous species recruitment.     

Jane goodall and the chimpanzees of gombe: An analysis of publications and their impact on teaching science

Five types of introductory university textbooks (N=37) were analyzed for references and citations pertaining to research on wild chimpanzees. Jane Goodall's publications were cited about three times as often as the publications from field sites other than Gombe and approximately five times more often than other Gombe researchers. Biological anthropology textbooks cited Goodall's work most often, followed by textbooks in general anthropology and cultural anthropology. Psychology and biology textbooks cited Goodall least often. Goodall's most comprehensive work, The Chimpanzees of Gombe: Patterns of Behavior (1986), was the most often cited publication about Gombe's apes, and tool-use was the most cited topic. The number of citations to wild chimpanzees tripled from publications in the 1960s to those in the 1980s, suggesting a growing recognition of primatology in the teaching of science.     

Habitat invasion research: where vegetation science and invasion ecology meet

In the last decade, habitat‐oriented studies of plant invasions, performed at broad scales and using large data sets of vegetation plots, have focused on quantifying the representation of alien species in vegetation or habitat types, identifying factors underlying invasions, and exploring the pools of species available for invasion into particular habitats. In this essay we summarize what we have learned, discuss constraints associated with this kind of data and outline promising research topics to which a macroecological perspective of habitat invasions can contribute. Such topics include, among others: integrating species‐specific information on invasion status, residence time in the region, biological and ecological traits and phylogenetic relationships into habitat invasion research to better capture the context‐dependence of invasions; focusing on the functional role that alien species, relative to natives, play in plant communities; and obtaining insights into the role of pre‐adaptation for invasion by comparing the functional composition of habitat species pools in the native range. There is still a strong geographic bias, with detailed assessments across broader ranges of habitat types in large regions available only from Europe, the United States and New Zealand, which call for extension of this research to other continents.     

The elephant in the room: the role of failed invasions in understanding invasion biology

Most species introductions are not expected to result in invasion, and species that are invasive in one area are frequently not invasive in others. However, cases of introduced organisms that failed to invade are reported in many instances as anecdotes or are simply ignored. In this analysis, we aimed to find common characteristics between non‐invasive populations of known invasive species and evaluated how the study of failed invasions can contribute to research on biological invasions. We found intraspecific variation in invasion success and several recurring explanations for why non‐native species fail to invade; these included low propagule pressure, abiotic resistance, biotic resistance, genetic constraints and mutualist release. Furthermore, we identified key research topics where ignoring failed invasions could produce misleading results; these include studies on historical factors associated with invasions, distribution models of invasive species, the effect of species traits on invasiveness, genetic effects, biotic resistance and habitat invasibility. In conclusion, we found failed invasions can provide fundamental information on the relative importance of factors determining invasions and might be a key component of several research topics. Therefore, our analysis suggests that more specific and detailed studies on invasion failures are necessary.     

中国入侵生物学学科的构建与发展

自英国生态学家查尔斯.艾尔顿1958年撰写的《动植物的入侵生态学》出版至今,半个世纪已经过去,这部著作被公认为是生物入侵在科学研究方面的开端。这期间生物入侵研究经历了萌芽期（20世纪80年代之前）、成长期（20世纪80年代）和快速发展期（20世纪90年代末期至今）。在这个过程中,越来越多的概念、假说、方法和技术被提出和整合到生物入侵研究之中,由此催生了一门生态学领域的新兴学科——入侵生物学。本文在对近50年来生物入侵专著和论文的统计分析基础上,介绍了国际生物入侵研究的发展脉络和现状。同时综述了中国入侵生物学在基础和应用研究方面的相关进展,着重阐述了主要科学问题（＂入侵潜力与成功入侵的关系＂、＂入侵种种群的扩张与扩散＂、＂入侵种的生态适应性与进化＂及＂本地生态系统对入侵的响应及可入侵性＂）和预防与控制的技术体系（风险评估与早期预警、检测与监测、狙击与灭除、生物防治、生态修复与干扰调控）,并进一步介绍了中国入侵生物学学科体系的构建和框架,提出入侵生物学是研究外来物种的入侵性与生态系统的可入侵性,以及外来物种预防与控制的科学,是一门多领域交叉的学科。最后展望和讨论了中国入侵生物学学科发展可能遇到的一些问题。     

The risk of marine bioinvasion caused by global shipping

The rate of biological invasions has strongly increased during the last decades, mostly due to the accelerated spread of species by increasing global trade and transport. Here, we combine the network of global cargo ship movements with port environmental conditions and biogeography to quantify the probability of new primary invasions through the release of ballast water. We find that invasion risks vary widely between coastal ecosystems and classify marine ecoregions according to their total invasion risk and the diversity of their invasion sources. Thereby, we identify high‐risk invasion routes, hot spots of bioinvasion and major source regions from which bioinvasion is likely to occur. Our predictions agree with observations in the field and reveal that the invasion probability is highest for intermediate geographic distances between donor and recipient ports. Our findings suggest that network‐based invasion models may serve as a basis for the development of effective, targeted bioinvasion management strategies.     

Mapping Interdisciplinary Fields: Efficiencies,Gaps and Redundancies in HIV/AIDS Research

While interdisciplinarity continues to increase in popularity among funders and other scientific organizations, its potential to promote scientific advances remains under-examined. For HIV/AIDS research, we examine the dynamics of disciplinary integration (or lack thereof) providing insight into a field''s knowledge base and those questions that remain unresolved. Drawing on the complete histories of two interdisciplinary journals, we construct bibliographic coupling networks based on overlapping citations to identify segregation into research clusters and estimate topic models of research content. We then compare how readily those bibliographic coupling clusters account for the structuring of topics covered within the field as it evolves over two decades. These comparisons challenge one-dimensional and/or cross-sectional approaches to interdisciplinarity. Some topics are increasingly coordinated across disciplinary boundaries (e.g., vaccine development); others remain relatively segmented into disconnected disciplinary domains for the full period (e.g., drug resistance). This divergence indicates heterogeneity in interdisciplinarity and emphasizes the need for critical approaches to studying the organization of science.     

Adaptations: Using Darwin's Origin to teach biology and writing

Charles Darwin's On the Origin of Species is at once familiar and unfamiliar. Everyone knows that the Origin introduced the world to the idea of evolution by natural selection, but few of us have actually read it. We suggest that it is worth taking the time not only to read what Darwin had to say, but also to use the Origin to teach both biology and writing. It provides scientific lessons in areas beyond evolutionary biology, such as ecology and biogeography. In addition, it provides valuable rhetorical lessons—how to construct an argument, write persuasively, make use of evidence, know your audience, and anticipate counterarguments. We have been using the Origin in various classes for several years, introducing new generations to Darwin, in his own words.     

Oceanic island biogeography through the lens of the general dynamic model: assessment and prospect

The general dynamic model of oceanic island biogeography (GDM) has added a new dimension to theoretical island biogeography in recognizing that geological processes are key drivers of the evolutionary processes of diversification and extinction within remote islands. It provides a dynamic and essentially non‐equilibrium framework generating novel predictions for emergent diversity properties of oceanic islands and archipelagos. Its publication in 2008 coincided with, and spurred on, renewed attention to the dynamics of remote islands. We review progress, both in testing the GDM's predictions and in developing and enhancing ecological–evolutionary understanding of oceanic island systems through the lens of the GDM. In particular, we focus on four main themes: (i) macroecological tests using a space‐for‐time rationale; (ii) extensions of theory to islands following different patterns of ontogeny; (iii) the implications of GDM dynamics for lineage diversification and trait evolution; and (iv) the potential for downscaling GDM dynamics to local‐scale ecological patterns and processes within islands. We also consider the implications of the GDM for understanding patterns of non‐native species diversity. We demonstrate the vitality of the field of island biogeography by identifying a range of potentially productive lines for future research.