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Urban greenspace plays an important role in buffering the threat of urbanization to biodiversity. Biodiversity research in urban greenspace is essential for understanding the impacts of human activities on biodiversity and the associated ecosystem functioning and services in urban ecosystems. However, we lack large‐scale biodiversity datasets in urban greenspace for macroecological studies. In this paper, we provided a comprehensive biodiversity dataset of vascular plant and bird species in 286 university campuses and 118 urban parks in 143 cities in China, covering a wide range with different levels of urbanization (20–50°N in latitude and 81–130°E in longitude). Plant species were classified into different growth forms, and bird species were identified as resident or migrant. In total, the dataset contains 46,558 occurrence records for 5,915 plant species (about 18% of all Chinese vascular plant species) and 6,423 records for 546 bird species (around 40% of all recorded bird species in China). This dataset provides an important data source for evaluating the anthropogenic effects of biodiversity changes and advancing urban ecology. The complete data set for this abstract published in the Data Paper section of the journal is available in electronic format in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2021-02.1/jalter-en. [ABSTRACT FROM AUTHOR]

This paper describes the species occurrence record of zooxanthellate reef‐building corals at 1047 sites on the Japanese coast, recorded from 1929 to 2017. The dataset includes 484 confirmed scientific species names compiled from 152 literature sources, most of which were written in Japanese and published as gray literature in local journals or individual reports. Scientific names were consolidated under currently accepted nomenclature based on the World Register of Marine Species. Further revision of species names was made by referring to monographs on temperate coral species of Japan, along with expert knowledge. The dataset includes the coral species recorded each year at each study site, the geographical location of each site, and the scientific names of the corals. Three supporting datasets were created, containing a list of literature, the names of the sites and synonymization and confirmation of the coral names. This up‐to‐date collection of data is a contribution to the study of coral biogeography and conservation planning, as well as long‐term changes in coral species distributions in response to climate change. The complete data set for this abstract published in the Data Paper section of the journal is available in electronic format in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2020-08.1/jalter-en. [ABSTRACT FROM AUTHOR]

This data paper presents the vascular plant biodiversity sampled from four plots on Amami‐Oshima Island, three plots on Tokunoshima Island, and one plot on Okinawa Island within the natural World Heritage site, and an additional three plots in southern Kyushu using the standardized belt‐transect survey method during July 2012 to October 2020. The dataset includes 99 families, 215 genera, and 381 species of vascular plants, and provides species occurrence among 10 subplots for all vascular plants, girth at breast height (GBH) and height of all trees and climbers with GBH ≥ 3.2 cm or height ≥ 4 m in each 5 × 100 m plot. This dataset serves as baseline data for subsequent plant diversity monitoring of the natural World Heritage site. The Darwin Core Archive is deposited in the Global Biodiversity Information Facility (GBIF) through the Japan Initiative for Biodiversity Information, and are thus accessible through the GBIF portal under the Creative Commons Attribution 4.0 International license. The detailed Metadata for this abstract published in the Data Article section of the journal is available in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP‐2022‐03.1/jalter‐en. [ABSTRACT FROM AUTHOR]

In 2016, Ecological Research ( ER) celebrated its 30th anniversary. ER's goal is to be the leading ecological, evolutionary, and biodiversity journal in Asia. This article introduces the development of ER, improvements to its editorial system and their outcomes, and the strategies designed to achieve this goal. ER has already become a leading comprehensive and international publication as shown by statistical evidence and its strong editorial foundation. However, some members of the Ecological Society of Japan (ESJ) retain impressions of an old stereotype about ER. The discrepancy between the current status of the journal and its stereotype may explain why submissions from Japan remain static. A new article category for ER, Biodiversity in Asia, was created to encourage Asian studies. In addition, the Forum category is dedicated to promoting a broad understanding of the ESJ's various activities. To promote open science, the proportion of open access articles in the journal is increasing. The publication of Data papers has been accelerated to improve the public availability of excellent open data sets. ER symposia and seminars provide good opportunities for members to participate. ER financially supports the invitation of scientists internationally to facilitate research exchanges with other countries and consequently promotes the internationalization of the ESJ. The ESJ is open to the world's ecologists, and your participation in developing ER is welcome. [ABSTRACT FROM AUTHOR]

Biodiversity informatics is the application of informatics techniques to ecology and biodiversity sciences. The premise is utilizing natural history collections/data, such as specimens and biodiversity observations, with information and communication technology. During the past two decades, biodiversity informatics has improved dramatically and has been applied increasingly in ecology science. In this paper, I review biodiversity informatics for ecology with a particular focus on the treatment of data. First, I discuss the traditional perspective of data collection and its usage in the ecological community. Then, I provide an overview of the trajectory of changing perspectives of data treatment relative to developing biodiversity informatics (i.e., the infiltration of the data reuse and sharing concepts). Specifically, I discuss the significance of data reuse, which offers numerous benefits for research, and data sharing with their supporting mechanisms and case studies. Finally, I discuss potential future developments in biodiversity informatics relative to the field of ecology. [ABSTRACT FROM AUTHOR]

The biodiversity of temperate grasslands can change considerably as a result of social and climate change. We have compiled information from published studies and created a database of Japanese semi‐natural grassland flora, which contains databases of flora of each grassland, grassland locations, and management methods. This database is useful as a basis for the analysis of changes in the flora of Japanese grasslands as well as for future monitoring. The detailed Metadata for this abstract published in the Data Article section of the journal are available in MetaCat in JaLTER at http://db.cger.nies.go.jp/JaLTER/metacat/metacat/ERDP-2023-01.1/jalter-en. [ABSTRACT FROM AUTHOR]

This paper developed statistical methods for quantitatively assessing spatial pattern of communities with abundant species richness such as in tropical forests. Based on multivariate point processes, species richness and the Simpson's diversity index can be extended to the functions illustrating basic characteristics of multispecies spatial pattern. The spatial extension of the species richness is a sum of the detectabilities of constituent species within a given distance. By means of calculating the functions for individuals belonging to specific size class, the size structure of multispecies spatial pattern can also be examined. Therefore, comprehensive analysis of species, size, and spatial pattern together with the roles of each species in a community can be conducted. This paper demonstrated its descriptive utility in exploratory analysis by applications to four subtropical forest tree communities of different ages in Okinawa Island, southern Japan, all of which have abundant species richness. The results quantitatively revealed the contrasts among the four stands ranging from a young secondary stand to an old-growth forest as well as changes of relative positions of species in communities depending on their ecologic properties. [ABSTRACT FROM AUTHOR]

There are some recommendations for the use of species diversity indices in a paper recently published in this journal by M. Ohsawa on the species richness and composition of weevils in five forest types in the middle region of Japan. Because several factors, such as small sample size, calculation of Simpson’s diversity index by the use of the original equation of Simpson’s measure of concentration D, and a weak point in the Shannon–Wiener diversity index H′, may have led to biased estimates, I recalculated these indices using combined species diversity values of the five forest types. As the general tendencies of 1− D and H′ values calculated here were similar to those in Ohsawa’s paper, there is no need to propose any change to his view. However, these recalculated diversity indices indicated that they are values which are more suitable for use. It should be noted that the characteristics and weak point associated with the diversity indices need to be taken into account in future studies. [ABSTRACT FROM AUTHOR]

Fungal decomposition of coarse woody debris has an essential role in the biodiversity and carbon and nutrient dynamics in forest ecosystems. However, our knowledge of the effects of fungal species and within-stem diversity on wood decay is limited. In this paper, I described the process of wood decay and fungal succession of pine (Pinus densiflora) snags using chronosequence method. The results showed that the decay process differed between sapwood and heartwood. Sapwood decayed faster than heartwood, despite their initial densities being the same. Sapwood decay occurred in two phases. The first phase involved a typical white-rot process wherein acid-unhydrolysable residue (lignin) and holocellulose decayed simultaneously. White-rot species, such as Trichaptum abietinum and Phanerochaete sordida, were the dominant fungi and were likely the functional decomposers in this phase. The second phase involved selective decomposition of holocellulose. The dominant fungi in this phase included soft-rot species, such as Trichoderma spp., that can decompose holocellulose in wood that was previously delignified by white-rot species. In contrast to sapwood, heartwood experienced less loss of wood density and no clear change in lignocellulose composition, even in later stages of decay. Dominant fungi in heartwood included the latent inhabitants of living pine trees, such as Ascocoryne cylichnium, which is known to reduce colonization and wood decay by strong decomposers. These results suggest that, in addition to decay-resistant chemicals present in heartwood, the differences in the fungal communities present in heartwood and sapwood were responsible for the differences in their decay rates. [ABSTRACT FROM AUTHOR]

There are growing needs to broaden and deepen our multi-faceted understanding of the ecosystems, and the networks of Long-Term Ecological Research (LTER) can play significant roles in fostering and applying ecosystem studies at regional and global scales. The International LTER Network (ILTER) is organized as a global network of field research sites and scientists to address current ecological issues such as biodiversity loss and ecosystem degradation within a globally changing environment. The ILTER East Asia-Pacific Regional Network (ILTER-EAP) is one of the four constituent ILTER regional networks. Since 1995, ILTER-EAP has been developed to promote data sharing, research collaborations and capability building in the science and to bridge gaps between societal needs and scientific imperatives on concerns in the Asia-Pacific Region. Currently, ILTER-EAP comprises nine formal ILTER members and two associate networks. Their activities involve long-term and multiple-site observations of structural, functional and developmental aspects of ecosystems, data sharing, and bridging society and ecological science. This paper presents a review of the activities of ILTER-EAP, focusing on its: (1) vision and the development following its inception, (2) scientific activities and major outputs related to selected thematic areas, (3) contributions from ILTER-EAP to the international initiatives, and (4) future challenges and opportunities relating to its development and role in facilitating regional and global research collaborations. Accordingly, regional research questions were identified that could be most effectively addressed by opening up a common research platform, integrated data management system and the network science, which is open to all interested parties. [ABSTRACT FROM AUTHOR]

Land-sea ecological connectivity refers to the interaction (convenience or hindrance) of certain physical, chemical and biological processes between terrestrial and marine ecosystems. Research on land-sea ecological connectivity can provide important scientific bases for the conservation and restoration of biodiversity and ecosystems in terrestrial and coastal areas. On the basis of a literature summary of ecological connectivity, this paper focuses on the following: (1) summarizing basic concepts, representative phenomena on multiple spatiotemporal scales, and analysis methods of land-sea ecological connectivity; (2) discussion of the applications of land-sea ecological connectivity; (3) discussion of the relationship between human activities and land-sea ecological connectivity; (4) presentation of perspectives and recommendations on ecological restoration, protection, and biodiversity research, with emphasis on the principle of land-sea ecological connectivity. On the whole, we believe such connectivity in a region varies with changes in multiple physical and artificial factors, such as climate, land cover, biotic community and human activities. Human activities such as land use, engineering construction, urbanization and industrialization have continuously increased and cause irreversible disturbance and destruction of land-sea ecological connectivity, thereby threatening biodiversity and ecosystem services at various spatiotemporal scales. Hence, achievements of theoretical research and practical experience in ecological connectivity should be fully applied in coastal areas to maintain and restore land-sea ecological connectivity and remedy various problems that arise from the blockage and damage of ecosystem services. [ABSTRACT FROM AUTHOR]

The Evolutionarily Significant Unit (ESU) was conceptualized in 1986 as a conservation unit below the species level, theoretically applicable to a wide range of taxa. The concept has gained support, and various definitions or criteria, some of which are inconsistent with each other, have since been proposed. Recent critiques of the ESU have pointed out the dominance of definitions biased to the identification of long-term isolation or neutral genetic variation, which has largely ignored the adaptive components. We present here the validity of such claims and show how the ESU definitions have actually been applied in research. We surveyed scientific journals for original papers supporting ESU designations and determined who among the proponents of ESU definitions have gained wider support. Our results indicate that indeed there are inconsistencies with the original concept and with the existing definitions. Although the original concept recommended both ecological and genetic data as the basis for identification of ESUs, which reflect true evolutionary variation, recent definitions have become biased to either neutral genetic variation or adaptive variation. The definition which uses genetic data to assess neutral genetic variation (long-term isolation) has gained major support, and therefore validates the earlier claims. To bridge the gap between the original concept and the practical application, we propose the use of partial ESU and full ESU designations. The application of full ESU should be limited solely to when both information about neutral genetic variation and adaptive variation are available. In other cases, in which only a part of the variation is examined, we should use the term partial ESU (e.g., molecular-based ESU) and continue to investigate focal populations from other aspects of variations to designate full ESU. [ABSTRACT FROM AUTHOR]

Human activities are having major impact on biogeochemical cycles and ecosystems worldwide. Rapid urbanization and changes in rural populations are affecting ecosystems in often-drastic ways. Ecologists are using long term monitoring and experimental studies to understand and to help mitigate the effects of these changes. The collection of 15 papers in this special volume “global changes in terrestrial ecosystems” describes some of these studies, particularly concentrating on effects on terrestrial ecosystems and landscapes, and demonstrating the importance of understanding the problems at both the multi-scale and international levels. [ABSTRACT FROM AUTHOR]

This data paper reports tree census data collected in a network of 34 forest sites in Japan. This is the largest forest data set freely available in Japan to date. The network is a part of the Monitoring Sites 1000 Project launched by the Ministry of the Environment, Japan. It covers subarctic to subtropical climate zones and the four major forest types in Japan. Forty-two permanent plots, usually 1 ha in size, were established in old-growth or secondary natural forests. Censuses of woody species ≥15 cm girth at breast height were conducted every year or once during 2004 to 2009. The data provide species abundance, survivorship and stem girth growth of 52,534 individuals of 334 tree and liana species. The censuses adopted common census protocol, which provide good opportunities for meta-analyses and comparative studies among forests. The data have been used for ecological studies as well as for the biodiversity reports published by the Ministry of the Environment. [ABSTRACT FROM AUTHOR]

This paper describes the flora of habitat-forming seaweeds (fucoids and temperate kelps) at 7673 sites of the Japanese coast encompassing its warm to cold temperate zone, recorded from 1887 to 2014. The data set includes 86 species (21,168 presence and 20,845 absence records), compiled from 355 literature sources, most of which were written in Japanese and published as grey literature in local journals or individual reports. Scientific names were consolidated under currently-accepted nomenclature based on Algaebase (). The data set compiled the seaweed flora at each study site each year, the geographical location and the scientific names. Additionally, three supporting data sets were created respectively including name of each site, synonyms of the seaweeds, and the corresponding literature list. This rich collection of data can be used to study the biogeography and long-term changes of particular species and the diversity of habitat-forming seaweeds of the Japanese coast. [ABSTRACT FROM AUTHOR]

In the 21st century, researchers have attempted a synthesis between community ecology and evolutionary biology. This emerging research area, which aims to synthesize community ecology and evolutionary biology, is evolutionary community ecology. Evolutionary community ecology addresses how intraspecific trait variation in community members is essential for predicting community properties and, how community properties are a key component of the selective forces that determine genetic and phenotypic variation in a community member. In this paper, I review recent findings in evolutionary community ecology in plant-associated arthropods in terrestrial ecosystems. I discuss roles of both genetic variation and phenotypic plasticity as a source of trait variation in plants in shaping plant-associated arthropod communities. Also, I discuss effects of genetic variation in herbivores on plant-associated arthropod communities. Furthermore, I highlight community context evolution in which multiple species interactions and community composition affect trait evolution of a community member. Finally, I argue that future studies should investigate a feedback loop between community and evolutionary dynamics beyond unidirectional studies on effects of evolution on a community or vice versa. This approach will provide major insights into mechanistic principles for making predictions of community ecology. [ABSTRACT FROM AUTHOR]

Spatial dispersion patterns of trees at different life stages are an important aspect to investigate in understanding the mechanisms that facilitate species co-existence. In this paper, Ripley’s univariate L( r) and bivariate L12( r) functions were used to analyze spatial distribution patterns and spatial associations across different life stages of 131 tree species in a 20-ha plot of a tropical rainforest in Xishuangbanna, southwest China. Our results show that: (1) Saplings of 109 (83.2%) species have a significant clumped distribution, which confirms the ubiquity of clumped spatial distributions among tropical tree species. (2) Adults of 126 (96.2%) species have a random distribution suggesting that density-dependent mortality can make the spatial pattern of tropical trees more regular with time. (3) At small scales (0–10 m), 95 (72.5%) species have a neutral or negative sapling-adult association, implying that there is recruitment limitation within the vicinity of their conspecific adults. The reduction in spatial clumping in going from younger to older life stages and the neutral or negative sapling-adult association imply density-dependent mortality in the vicinity of adult trees. In accordance with the Janzen–Connell hypothesis, such density-dependent mortality can free up space for other species to colonize, contributing to the maintenance of species diversity. [ABSTRACT FROM AUTHOR]

Numerous experiments have been established to examine the effect of plant diversity on the soil microbial community. However, the relationship between plant diversity and microbial functional diversity along broad spatial gradients at a large scale is still unexplored. In this paper, we examined the relationship of plant species diversity with soil microbial biomass C, microbial catabolic activity, catabolic diversity and catabolic richness along a longitudinal gradient in temperate grasslands of Hulunbeir, Inner Mongolia, China. Preliminary detrended correspondence analysis (DCA) indicated that plant composition showed a significant separation along the axis 1, and axis 1 explained the main portion of variability in the data set. Moreover, DCA-axis 1 was significantly correlated with soil microbial biomass C ( r = 0.735, P = 0.001), microbial catabolic activity (average well color development; r = 0.775, P < 0.001) and microbial functional diversity (catabolic diversity: r = 0.791, P < 0.001 and catabolic richness: r = 0.812, P < 0.001), which suggested thatsome relationship existed between plant composition and the soil microbial community along the spatial gradient at a large scale. Soil microbial biomass C, microbial catabolic activity, catabolic diversity and catabolic richness showed a significant, linear increase with greater plant species richness. However, many responses that we observed could be explained by greater aboveground plant biomass associated with higher levels of plant diversity, which suggested that plant diversity impacted the soil microbial community mainly through increases in plant production. [ABSTRACT FROM AUTHOR]

Human domination of the Earth has resulted in dramatic changes to global and local patterns of biodiversity. Biodiversity is critical to human sustainability because it drives the ecosystem services that provide the core of our life-support system. As we, the human species, are the primary factor leading to the decline in biodiversity, we need detailed information about the biodiversity and species composition of specific locations in order to understand how different species contribute to ecosystem services and how humans can sustainably conserve and manage biodiversity. Taxonomy and ecology, two fundamental sciences that generate the knowledge about biodiversity, are associated with a number of limitations that prevent them from providing the information needed to fully understand the relevance of biodiversity in its entirety for human sustainability: (1) biodiversity conservation strategies that tend to be overly focused on research and policy on a global scale with little impact on local biodiversity; (2) the small knowledge base of extant global biodiversity; (3) a lack of much-needed site-specific data on the species composition of communities in human-dominated landscapes, which hinders ecosystem management and biodiversity conservation; (4) biodiversity studies with a lack of taxonomic precision; (5) a lack of taxonomic expertise and trained taxonomists; (6) a taxonomic bottleneck in biodiversity inventory and assessment; and (7) neglect of taxonomic resources and a lack of taxonomic service infrastructure for biodiversity science. These limitations are directly related to contemporary trends in research, conservation strategies, environmental stewardship, environmental education, sustainable development, and local site-specific conservation. Today’s biological knowledge is built on the known global biodiversity, which represents barely 20% of what is currently extant (commonly accepted estimate of 10 million species) on planet Earth. Much remains unexplored and unknown, particularly in hotspots regions of Africa, South Eastern Asia, and South and Central America, including many developing or underdeveloped countries, where localized biodiversity is scarcely studied or described. "Backyard biodiversity", defined as local biodiversity near human habitation, refers to the natural resources and capital for ecosystem services at the grassroots level, which urgently needs to be explored, documented, and conserved as it is the backbone of sustainable economic development in these countries. Beginning with early identification and documentation of local flora and fauna, taxonomy has documented global biodiversity and natural history based on the collection of "backyard biodiversity" specimens worldwide. However, this branch of science suffered a continuous decline in the latter half of the twentieth century, and has now reached a point of potential demise. At present there are very few professional taxonomists and trained local parataxonomists worldwide, while the need for, and demands on, taxonomic services by conservation and resource management communities are rapidly increasing. Systematic collections, the material basis of biodiversity information, have been neglected and abandoned, particularly at institutions of higher learning. Considering the rapid increase in the human population and urbanization, human sustainability requires new conceptual and practical approaches to refocusing and energizing the study of the biodiversity that is the core of natural resources for sustainable development and biotic capital for sustaining our life-support system. In this paper we aim to document and extrapolate the essence of biodiversity, discuss the state and nature of taxonomic demise, the trends of recent biodiversity studies, and suggest reasonable approaches to a biodiversity science to facilitate the expansion of global biodiversity knowledge and to create useful data on backyard biodiversity worldwide towards human sustainability. [ABSTRACT FROM AUTHOR]

Biodiversity has both intraspecific and interspecific components, and speciation is the process through which the former is converted to the latter. Ecological factors can cause population divergence and differentiation. In this paper, we investigate the interplay between top-down effects from natural enemies and bottom-up effects from host plants in an aphid model system. Pea aphids, Acyrthosiphon pisum, are known to form host-adapted races on Trifolium and Medicago. Here, replicate clones of pea aphids collected from a broader set of five host plant genera are screened for their performance on the same set of host plants and also for their resistance to four natural enemies: the parasitoids Aphidius eadyi and Aphidius ervi, and the entomopathogenic fungi Pandora (= Erynia) neoaphidis and Zoophthora phalloides. The populations showed clear adaptation to their host plant from which they were collected, but they also performed well on Vicia. Performance on the other three plant species was poor. The aphid population collected from Lotus was significantly better at defending itself against the parasitoid A. eadyi, and there was a tendency for the clones from Trifolium to be resistant to the pathogen P. neoaphidis. These patterns highlight the importance of understanding the ecological processes influencing speciation in the context of the web of ecological adaptations within which a species is embedded. [ABSTRACT FROM AUTHOR]

Human-caused habitat destruction, the major cause of species diversity losses, can be classified into two basic types, instantaneous destruction and continuous destruction. Thus, a universal model should be established to simulate and forecast the effects of different kinds of habitat destruction on species diversity during different historical periods. In this paper, we explore a multi-time-scale n-species model to study and compare species responses to instantaneous and continuous destruction. We find that (1) under instantaneous destruction, there are two different mechanisms of species extinction: one is a time-delayed deterministic extinction of superior competitors in order from the best to the poorest; the other is the extinction in a short time of inferior competitors. The survivors will experience three phases: decline, adjustment, and equilibrium. (2) When the total amounts of habitat destruction for both instantaneous and continuous cases are equal, the oscillation amplitudes of species abundances under instantaneous destruction are much greater than under continuous destruction, especially for inferior competitors, which make inferior competitors under instantaneous destruction more prone to stochastic extinction. Therefore instantaneous destruction is more detrimental to the survival of inferior competitors. (3) Under continuous destruction with habitat eventually being destroyed completely, there also are two types of species extinction mechanisms: the first is extinction in order from the best competitors to the poorest before complete destruction; the second is collective extinction due to complete destruction. [ABSTRACT FROM AUTHOR]

Changes in both the environment and environmental research have led to the development of new protocols and approaches. These new approaches consider both the effects of changes in the global environment on living organisms (i.e. the responses of ecosystems to environmental processes) and the feedback responses of these organisms and ecosystems (i.e. the effects of living organisms on the environment). The present paper focuses on pelagic food webs in aquatic ecosystems. We examine three major effects of global environmental changes on aquatic organisms: (i) the release of pollutants and biological agents in lakes and nearshore marine waters; (ii) the loss of biodiversity and the collapse of commercially exploited resources that were heretofore renewable. We develop detailed examples of the effects of human activities on marine organisms (i.e. the effects of nutrient supply on the structure of pelagic food webs in marine systems. Finally, we examine (iii) the food-web-controlled exchanges of CO2 between the atmosphere and the ocean, as a feedback effect of pelagic ecosystems on the global environment with respect to the ongoing climate change. [ABSTRACT FROM AUTHOR]

The objective of the present paper, using decomposer food webs as a tool, is to explore the levels of the ecological hierarchy (trophic groups, feeding guilds, species populations) at which reduction in complexity brings about significant changes in ecosystem performance. A review is given of various mini-ecosystem studies that have recently been conducted at the University of Jyväskylä. It is hypothesized that the typical features of soils as a habitat, and the peculiarities of belowground food webs, such as the commonness of indirect interactions (mediated through abiotic resources) among the biota, together with the high frequency of polyphagy/omnivory among soil organisms, produce a diversity-ecosystem functioning relationship that is likely to differ from those of aquatic and aboveground food webs. Experiments showed that alterations in ‘trophic levels’ were reflected in significant changes in decomposition processes, which, in turn, had substantial impact on primary production. Similarly, heterogeneity within ‘trophic levels’ was shown to be associated with increased growth of birch and pine seedlings. In contrast, species diversity within a feeding guild had little or no influence on ecosystem-level processes. However, the species-specific properties of individual taxa were shown to be more influential in affecting plant growth than species number per se. For example, the presence of an omnivorous enchytraeid species in the mini-ecosystems was observed to consistently be associated with high biomass production of tree seedlings. It is concluded that the so-called trophic dynamic models based on direct feeding interactions are of limited value in predicting the outcomes of interactions taking place belowground. [ABSTRACT FROM AUTHOR]

Prokaryotes and viruses play critical roles in marine ecosystems, where they are both highly abundant and active. Although early work on both prokaryotes and viruses revealed little of their diversity, molecular biological approaches now allow us to break apart these ‘black boxes.’ The most revealing methods have been cloning and sequencing of 16S rRNA genes, community fingerprinting (such as terminal restriction fragment length polymorphism; TRFLP), and fluorescent in situ hybridization. Viral diversity can now be analyzed by pulsed field gel electrophoresis (PFGE) of viral genomes. The present paper summarizes recent advances in bacterial and virus diversity studies, and presents examples of measurements from polar, tropical, and temperate marine waters. Terminal restriction fragment length polymorphism shows that many of the same operationally defined prokaryotic taxa are present in polar and tropical waters, but there are also some unique to each environment. By one measure, a sample from over a Philippine coral reef had about 100 operationally defined taxa, whereas one from the open tropical Atlantic had about 50 and from the icy Weddell Sea, about 60. Pulsed field gel electrophoresis of two depth profiles, to 500 m, from Southern California, measured 2 months apart, shows striking similarities in viral genome length diversity over time, and some distinct differences with depth. The euphotic zone samples had extremely similar apparent diversity, but samples from 150 m and 500 m were different. An obvious next step is to compare the bacterial and viral diversity patterns, because theory tells us they should be related. [ABSTRACT FROM AUTHOR]

This data paper describes the native vascular aquatic plant floras of 268 Japanese lakes recorded from 1899-2011. The data were compiled from 201 literature sources, most of which were written in Japanese and published in local journals or individual reports rather than in major scientific journals. The literature was searched using web-based services (i.e., Google Scholar, ; CiNii, ; JDreamII, ; and ISI, ) and by private communication with experts or local governments. Scientific names were consolidated under currently-accepted nomenclature. Four datasets, FloraDB, LakeDB, SpeciesDB, and LiteratureDB, were created to include records of the flora of each lake in each year, the names and locations of the lakes, the scientific names and synonyms of the aquatic vascular plants, and a literature list, respectively. These data can be used to study long-term changes in the species composition and/or richness of aquatic plants in Japanese lakes. [ABSTRACT FROM AUTHOR]

Typhoon No. 15 in 1954 (Marie) caused catastrophic windthrow in Hokkaido, northern Japan. The Tomakomai District of the National Forest was one of the forests severely damaged. A study site was established in a stand of the National Forest within the jurisdiction of the Iburi East District Forest Office. The stand was located on the eastern slope of Mt. Tarumae at an elevation of approximately 300-310 m a.s.l. at an angle of approximately 5°. Two belts sized 4 m × 40 m, crossing at right angles at the center, were established within the site in 1957, and censuses on regeneration were conducted in 1957, 1970, 1973, 1978, 1983, 1990, 1996, 2001, 2006, 2011, and 2016. All stems of coniferous tree species (height ≥ 10 cm) that regenerated in the belts were marked. For broadleaved tree species, all stems with height ≥ 1.3 m were marked in 1957-1990, but stems with height ≥ 10 cm were marked after 1996. Height was measured for all marked stems, and the diameter at breast height was measured for stems with height ≥ 1.3 m. During the censuses, 27 coniferous and broadleaved tree species were identified and three more species were identified to the genus level. There are 2152 records for the occurrence data and 10,660 records for the measurement data, including missing values. The stem occurrence data were compiled following the Darwin Core format, and the measurement data were compiled following the Darwin Core Measurement or Fact Extension format. Finally all data were compiled for the Darwin Core Archive, an international standard format for biodiversity data. These data can help in understanding the succession of forests following large-scale disturbance and in managing this type of forest properly. [ABSTRACT FROM AUTHOR]

The idea of the diversity–productivity relationship in ecology was originated by Charles Darwin more than 100 years ago and was highlighted by McNaughton in 1993. There have been extensive studies on this relationship, mostly conducted in grasslands. Many studies assert that a high level of biodiversity leads to high primary productivity, in accord with Darwin. However, these studies have mostly been done in grasslands (primary producer) and do not take into account effects from other trophic levels. The possibility remains that the positive diversity–production relationship does not hold in other types of ecological systems and that multitrophic effects influence and modify the relationship. In the present study, the diversity–productivity relationship is examined for freshwater foodwebs, including whole trophic compartments, by using indices of diversity and productivity more suitable for a whole systemic study on ecological systems. It seems that there are two trends in the relationship: productivity increases with the increase of diversity in ecosystems when diversity is small, and decreases with diversity in ecosystems when diversity is large. The first trend may be due to nutrient-limiting characteristics and the second trend may be due to photosynthetically active radiation–limiting characteristics. Also, both higher trophic and whole-systemic productivities are found to increase relative to primary productivity with the increase of diversity. Stability indices introduced previously, combined with the present results, reveal a positive correlation between relative productivity and stability in freshwater foodwebs, including all trophic compartments. [ABSTRACT FROM AUTHOR]

The Asia‐Pacific Biodiversity Observation Network (APBON) was launched in 2009, in response to the establishment of the Biodiversity Observation Network under the Group on Earth Observations in 2008. APBON's mission is to increase exchange of knowledge and know‐how between institutions and researchers concerning biodiversity science research in the Asia‐Pacific (AP) region and thereby contribute to evidence‐based decision‐making and policy‐making. Here we summarize APBON activities and achievements in its first 10 years. We review how APBON has developed networks, facilitated communication for sharing knowledge, and built capacity of researchers and stakeholders through workshops and publications as well as discuss the network plan. Key findings by APBON members include descriptions of species new to science, mapping tropical forest cover change, evaluating impacts of hydropower dams and climate change on fish species diversity in the Mekong, and mapping "Ecologically and Biologically Significant Areas" in the oceans. APBON has also contributed to data collection, sharing, analysis, and synthesis for regional and global biodiversity assessment. A highlight was contributing to the "Intergovernmental Science‐Policy Platform on Biodiversity and Ecosystem Services" regional report. New strategic plans target the development of national‐level BONs and interdisciplinary research to address the data and knowledge gaps and increase data accessibility for users and for meeting societal demands. Strengthening networks in AP region and capacity building through APBON meetings will continue. By promoting monitoring and scientific research and facilitating the dialogue with scientists and policymakers, APBON will contribute to the implementation of conservation and sustainable use of biodiversity in the entire AP region. [ABSTRACT FROM AUTHOR]

Japanese kelps are important because they perform a valuable ecosystem function of coastal kelp forest formation, and they are important food resources. The present study aimed to predict future shifts in major kelp species in northern Japan under different climate change scenarios. From a database of cold temperate kelp species in Japan, we extracted 1,958 data points to estimate the distribution of 11 kelp species that inhabit the waters around northern Japan. Distributions of the past (1980s) and the future (2040s and 2090s) were estimated using a species distribution model (MaxEnt). Variation in summer and winter sea surface temperatures was the factor most responsible for the estimated distribution patterns for most species; the length of natural rocky coasts and wave height were also important for some species. A forecast of shifts in distributions based on different Intergovernmental Panel on Climate Change scenarios showed that kelp species diversity in Japan would significantly decrease. By the 2090s, their habitat range overall was estimated to decline to 30–51% of that of the 1980s with moderate warming (Representative concentration pathways [RCP] 4.5) and to 0–25% with severe warming (RCP 8.5). The model predicted that 6 of 11 cold temperate kelp species may become extinct around Japan by the 2090s (RCP 8.5). Commercially important species, such as Saccharina japonica, are also expected to decline greatly, which may affect kelp fisheries and aquaculture in northern Japan. [ABSTRACT FROM AUTHOR]

Climate change projections in southern Africa show a drier and a warmer future climate. It is not yet clear how these changes are going to affect the suitable habitat of bush encroacher woody species in southern African savannas. Maximum Entropy niche modelling technique was used to test the extent to which climate change is likely to affect the suitable habitat of Vachellia karroo in Zimbabwe based on six Global Climate Models (GCMs) from Coupled Model Intercomparison Project Phase 5 (CMIP5) and two Representative Concentration Pathways (RCPs) for the 2070s. An overlay analysis was then performed in a Geographic Information System based on the current and future bioclimatically suitable areas for the respective GCMs and RCPs. This was done to determine the potential effect of climate change on the focal species. Results show that temperature related variables are more important in explaining the spatial distribution of V. karroo than precipitation related variables. In addition, results indicate an overall increase in the modelled suitable habitat for V. karroo by the 2070s across the GCMs and RCPs considered in this study. Specifically, the suitable habitat of V. Karroo is projected to increase by a maximum of 57,594 km2 signifying a 69% increase from the current suitable habitat (83,674 km2). The suitable areas are projected to increase in eastern, western and south eastern parts of Zimbabwe. These results imply that improved understanding of the response of woody species to a changing climate is important for managing bush encroachment in savanna ecosystems. [ABSTRACT FROM AUTHOR]

Freshwater calanoid copepods develop abundant populations in lentic water bodies such as lakes, reservoirs and lagoons. In this study, we examined the potential habitat value of edges in lotic systems such as creeks and rivers where waters tend to stagnate, providing lentic-like environments. We examined a total of 353 edge samples collected from 321 sites across the state of New South Wales, Australia, with latitudes in the range 28.3-37.4°S and elevations in the range 2-1834 m above sea level. Of the total samples examined, calanoid copepods were found in 94 samples, with the frequency of occurrences of species decreasing in the order: Boeckella fluvialis Henry, B. triarticulata (Thomson), Gladioferens spinosus Henry, G. pectinatus (Brady), B. major Searle, B. minuta Sars, and Calamoecia lucasi Brady. The probability of occurrence of the calanoid copepods was related negatively to both latitude (as absolute values) and elevation, based on logistic regression models. We conclude that the edges of many lotic systems provide additional habitats for some species of freshwater calanoid copepods, with constraints on their distributions along latitudinal and elevational gradients. [ABSTRACT FROM AUTHOR]

Factors that influence reproduction in nectar-feeding non-flying mammals are poorly described. We investigated factors that may influence the breeding traits of the eastern pygmy-possum (Cercartetus nanus), a small (25 g) nectar-feeding marsupial from eastern Australia. Females at our coastal site produced 1-3 litters (frequently of 5-6 young) over an 8-month period within the flowering period of the dominant food plant (Banksia ericifolia). The number of lactating females over time was highly correlated (R = 0.9) with the abundance of flowers on B. ericifolia, suggesting that flower availability has a substantial influence on breeding. To assess the generality of these findings and investigate whether elevation or latitude influence breeding in this species, we examined the breeding traits previously described at three other locations. Females on the tableland 70 km away produced one litter of 3-4 young over a 4-month period within the flowering period of B. ericifolia, the dominant food plant. At other coastal and tableland locations 500 km away, coastal females produced larger numbered litters more often than tableland females. A hypothesis relating to minimum temperature appears the most plausible explanation for this pattern that reflects elevation but not latitude. The mean minimum temperature drops below 5 °C for 2-5 months each year at the tableland locations but not at all at the coastal locations. Low temperatures are known to reduce nectar secretion in the dominant food plants. Thus, although the breeding traits of the eastern pygmy-possum are influenced by flowering in their dominant food plants, low temperature appears to impose a constraint on reproductive output. [ABSTRACT FROM AUTHOR]

Ecologists have many ways to measure and monitor ecosystems, each of which can reveal details about the processes unfolding therein. Acoustic recording combined with machine learning methods for species detection can provide remote, automated monitoring of species richness and relative abundance. Such recordings also open a window into how species behave and compete for niche space in the sensory environment. These opportunities are associated with new challenges: the volume and velocity of such data require new approaches to species identification and visualization. Here we introduce a newly-initiated acoustic monitoring network across the subtropical island of Okinawa, Japan, as part of the broader OKEON (Okinawa Environmental Observation Network) project. Our aim is to monitor the acoustic environment of Okinawa's ecosystems and use these space-time data to better understand ecosystem dynamics. We present a pilot study based on recordings from five field sites conducted over a one-month period in the summer. Our results provide a proof of concept for automated species identification on Okinawa, and reveal patterns of biogenic vs. anthropogenic noise across the landscape. In particular, we found correlations between forest land cover and detection rates of two culturally important species in the island soundscape: the Okinawa Rail and Ruddy Kingfisher. Among the soundscape indices we examined, NDSI, Acoustic Diversity and the Bioacoustic Index showed both diurnal patterns and differences among sites. Our results highlight the potential utility of remote acoustic monitoring practices that, in combination with other methods can provide a holistic picture of biodiversity. We intend this project as an open resource, and wish to extend an invitation to researchers interested in scientific collaboration. [ABSTRACT FROM AUTHOR]

Although DNA barcoding is a promising tool for the identification of organisms, it requires the development of a specific reference sequence library for sample application. In the present study we developed a Lake Kasumigaura, Japan, zooplankton DNA barcode library to increase the sensitivity of future zooplankton monitoring for detecting lake ecosystem condition changes. Specifically, the mitochondrial cytochrome c oxidase subunit I (mtCOI) haplotype, i.e., the primary DNA barcode, was examined for each zooplankton taxon. In crustaceans, 37 mtCOI haplotypes were obtained from 99 individuals, representing four and 15 morpho-species of Copepoda and Cladocera, respectively. Comparing these sequences with those in GenBank shows that the lake harbors putative non-indigenous species, such as Daphnia ambigua. In rotifers, 132 mtCOI haplotypes were obtained from 302 individuals, representing 11 genera and one unclassified taxon. The automatic barcode gap discovery (ABGD) algorithm separated these haplotypes into 43 species. Brachionus cf. calyciflorus was divided into five ABGD species, and different ABGD species tended to occur in different seasons. Seasonal ABGD-species succession was also observed within Polyarthra spp. and Synchaeta spp. These seasonal successions were not detected by inspections of external morphology alone. Accepting up to 7% sequence divergence within the same species, mtCOI reference sequences were available in GenBank for three, 13, and 17 species in Copepoda, Cladocera, and Rotifera, respectively. The present results, therefore, reveal the serious shortage of mtCOI reference sequences for rotifers, and underscore the urgency of developing rotifer mtCOI barcode libraries on a global scale. [ABSTRACT FROM AUTHOR]

Many biodiversity databases have been launched in recent years. Various species of certain developed taxa, such as fish, quadrupeds, and butterflies, are currently able to be photographically identified, in particular for ecological and biogeographic studies. However, there are problems that result from registration of images from countries with different primary languages. In this study, we provide an example of the challenges associated with registering fish images, specifically one case that has functioned as a voucher for the range extension of Labrisomus jenkinsi (Heller and Snodgrass, 1903) (Perciformes: Labrisomidae) from the Galapagos Islands to the Pacific coast of Costa Rica. The fish image database in question belongs to a Japanese public museum [the Kanagawa Prefectural Museum of Natural History; the online version (FishPix) is provided by the museum and the National Museum of Nature and Science]. We propose that there are problems associated with image registration caused by using different languages. Furthermore, these challenges should be a common subject for discussion among museums as they attempt to accumulate biodiversity data from citizens in the future. [ABSTRACT FROM AUTHOR]

The article studies the relationships between biodiversity and ecosystem functioning. The spatial and temporal scales of the biodiversity examined vary widely among individual studies. A symposium was organized in which four researchers presented biodiversity studies carried out at different scales using different approaches.

Selective herbivory can influence both spatial and temporal vegetation heterogeneity. For example, many northern European populations of free-ranging ungulates have reached unprecedented levels, which can influence plant species turnover, long-term maintenance of biodiversity and the subsequent stability of boreal ecosystems. However, the mechanisms by which large herbivores affect spatial and temporal vegetation heterogeneity remain poorly understood. Here, we combined a 10-year exclusion experiment with a herbivore intensity gradient to investigate how red deer ( Cervus elaphus) acts as a driver of temporal and spatial heterogeneity in the understory of a boreal forest. We measured the two dimensions of heterogeneity as temporal and spatial species turnover. We found that temporal heterogeneity was positively related to herbivory intensity, and we found a similar trend for spatial heterogeneity. Removing red deer (exclosure) from our study system caused a distinct shift in species composition, both spatially (slow response) and temporally (quick response). Vegetation from which red deer had been excluded for 10 years showed the highest spatial heterogeneity, suggesting that the most stable forest understory will occur where there are no large herbivores. However, excluding red deer resulted in lower species diversity and greater dominance by a low number of plant species. If both stable but species rich ecosystems are the management goal, these findings suggest that naturally fluctuating, but moderate red deer densities should be sustained. [ABSTRACT FROM AUTHOR]