Comparison of soil microbial communities inhabiting vineyards and native sclerophyllous forests in central Chile

Natural ecosystems provide services to agriculture such as pest control, soil nutrients, and key microbial components. These services and others in turn provide essential elements that fuel biomass productivity. Responsible agricultural management and conservation of natural habitats can enhance these ecosystem services. Vineyards are currently driving land‐use changes in many Mediterranean ecosystems. These land‐use changes could have important effects on the supporting ecosystems services related to the soil properties and the microbial communities associated with forests and vineyard soils. Here, we explore soil bacterial and fungal communities present in sclerophyllous forests and organic vineyards from three different wine growing areas in central Chile. We employed terminal restriction fragment length polymorphisms (T‐RFLP) to describe the soil microbial communities inhabiting native forests and vineyards in central Chile. We found that the bacterial community changed between the sampled growing areas; however, the fungal community did not differ. At the local scale, our findings show that fungal communities differed between habitats because fungi species might be more sensitive to land‐use change compared to bacterial species, as bacterial communities did not change between forests and vineyards. We discuss these findings based on the sensitivity of microbial communities to soil properties and land‐use change. Finally, we focus our conclusions on the importance of naturally derived ecosystem services to vineyards.     

Soil chemical properties,rather than landscape context,influence woodland fungal communities along an urban‐rural gradient

With the expansion of cities around the world there is a growing interest in the factors that influence biodiversity and ecosystem processes in urban areas. Fungi are exceptionally diverse and play key roles in ecosystem function, yet despite predictions of negative impacts due to urbanization, fungi have been generally overlooked in urban ecological studies. We surveyed fungi in 16 remnant river red gum (Eucalyptus camaldulensis: Myrtaceae) woodlands along a gradient of 4–35 km from the city of Melbourne (south‐east Australia). Using both sporocarp surveys and terminal restriction fragment length polymorphism (T‐RFLP; primer pair ITS1‐F‐ITS4), we examined relationships between fungal community composition, landscape context (i.e. urbanization) and soil physicochemical properties. Community compositions from sporocarp data were significantly correlated with those from T‐RFLP data, largely because of correlations with ectomycorrhizal sporocarps (Spearman rank correlation coefficients ρ 0.31–0.42) rather than saprotrophic fungi (ρ 0.18–0.21). Principal components analysis of soil properties and non‐metric multidimensional scaling ordinations of fungal community composition showed no clear separation of sites according to urbanization, and there were no significant correlations between fungal community composition and urbanization. However, fungal community composition was significantly correlated with soil chemical properties (ρ 0.41–0.55). These data suggest that site‐scale soil properties, and associated effects of past and current land management activities, were more important in determining fungal community composition than the landscape‐level influences of urbanization.     

Quercus rubra-associated ectomycorrhizal fungal communities of disturbed urban sites and mature forests

The presence and quality of the belowground mycorrhizal fungal community could greatly influence plant community structure and host species response. This study tests whether mycorrhizal fungal communities in areas highly impacted by anthropogenic disturbance and urbanization are less species rich or exhibit lower host root colonization rates when compared to those of less disturbed systems. Using a soil bioassay, we sampled the ectomycorrhizal fungal (EMF) communities associating with Quercus rubra (northern red oak) seedlings in soil collected from seven sites: two mature forest reference sites and five urban sites of varying levels of disturbance. Morphological and polymerase chain reaction–restriction fragment length polymorphism analyses of fungi colonizing root tips revealed that colonization rates and fungal species richness were significantly lower on root systems of seedlings grown in disturbed site soils. Analysis of similarity showed that EMF community composition was not significantly different among several urban site soils but did differ significantly between mature forest sites and all but one urban site. We identified a suite of fungal species that occurred across several urban sites. Lack of a diverse community of belowground mutualists could be a constraint on urban plant community development, especially of late-successional woodlands. Analysis of urban EMF communities can add to our understanding of urban plant community structure and should be addressed during ecological assessment before pragmatic decisions to restore habitats are framed.     

城郊生态系统土壤安全:问题与挑战

土壤作为地球表层系统物质和能量迁移转化的关键节点,其生态功能受到城市化快速发展的严重影响,土壤安全面临严峻的挑战。城郊生态系统受到城市和乡村的双重影响,具有复杂的景观结构和剧烈的动态变化,土壤安全问题更为突出和复杂。基于文献计量学方法,对1990—2017年发表的相关文献进行了统计,梳理和总结了城郊生态系统土壤安全研究的趋势和热点问题,对城郊生态系统中土壤安全面临的问题,及其特殊性、复杂性进行了重点论述,明确了当前快速城市化发展过程中城郊土壤安全研究面临的问题和挑战。建议今后的城郊生态系统土壤安全研究应加强区域尺度上的综合和不同城市发展模式下地区之间的比较,明确城市扩张对城郊生态系统土壤安全的影响机制;建立和完善基于"土壤安全"的城郊生态系统服务评价框架,深入研究城郊生态系统格局-过程-服务之间的关系;明确解析城郊土壤主要污染物来源及其复合污染状况,并结合区域特征,因地制宜开展科学的生态规划,优化城郊景观格局,提升城郊地区土壤安全与生态系统服务功能;明确土壤安全在城郊生态系统可持续发展目标中的重要性,建立科学合理的管理政策。     

城市菌根真菌多样性、变化机制及功能应用

菌根真菌能够与大多数陆生植物的根系形成菌根共生体,具有改善宿主植物矿质营养、增强抗逆性、改良土壤结构等重要生态功能。城市化过程中气候、土壤、植被、土地利用等因素的改变,对菌根真菌的多样性产生了直接或间接的影响。目前城市菌根真菌的研究多侧重对其空间分布及群落组成的简单描述,缺乏针对城市典型生态现象及生态问题系统性的探讨。分别从城市菌根真菌的多样性变化、影响机制及功能应用等3方面进行了综述,全面揭示城市菌根真菌的研究现状及研究的复杂性,发现当前研究存在多样性评估简单化、研究层次单一化、内在机制现象化及功能应用停滞化等问题,认为今后应建立更为系统、综合、标准的研究体系以深刻而准确地认识与理解城市化对菌根真菌多样性的影响,为城市微生物资源的保存及绿地系统维持提供理论依据。     

城市化鸟类群落变化及其与城市植被的关系

持续而快速的城市化进程正在助长全球生物多样性的丧失,其中鸟类是城市生态系统的重要环节和城市生物多样性保护的重点目标,同时也是研究的热点内容。从城市环境变化压力下,鸟类群落组成与结构、空间分布和繁殖营巢方式的改变分析,重点介绍了支持城市地区鸟类多样性的植物环境因素与影响机制的最新研究成果。结果表明：1）城市中的植被和绿色空间为城市鸟类提供生存空间和食物资源,是城市鸟类最主要的栖息地。2）保留原生乡土植物和大型树木的地区能支持更丰富的鸟类物种。3）植被的结构和盖度对鸟类群落有显著影响。林冠覆盖率增加,复杂的垂直空间和多样的植物种类的组合产生各种不同类型的植物空间和栖息地类型,吸引不同的鸟类物种,相应地也会导致更丰富的鸟类群落。总之,保持和加强城市中植物环境良好和稳定是保护城市生物多样性的有效手段。据此,提出城市环境与鸟类群落关系研究的未来发展方向,指出了其在鸟类多样性保护和城市可持续发展等领域的应用前景。     

Spatio-temporal assessment of urbanization impacts on ecosystem services: Case study of Nanjing City,China

Rapid urbanization is a global phenomenon that has altered many ecosystems, causing a decline in many ecosystem services, generating ecological risks such as water shortages, air pollution, and soil pollution. Here, we present a conceptual framework quantifying how urbanization influences the ecosystem services in a typical city (Nanjing) of China. Between 2000 and 2010, we separated the city into three urbanization categories (developing urban, developed urban, and rural areas) and quantified the status of six critical ecosystem services (food supply, carbon sequestration, soil water storage, air pollution removal, habitat suitability, and recreation potential). Our results show that urbanization significantly impacted all ecosystem services, with detected changes in ecosystem services being spatially heterogeneous due to urban expansion and population mobility. Developed areas contained greater amounts of green infrastructure, which improved carbon storage and reduced air pollution. In contrast, the rapid expansion of urban and industrial land in developing urban areas led to lower food supply, carbon sequestration, soil water storage, and habitat suitability. The expansion of rural residential areas led to lower soil water storage, carbon sequestration, and food supply, while greater amounts of abandoned cropland resulted in increased carbon sequestration, but decreased food supply in rural areas. Analysis of the interactions between pairs of ecosystem services identified urbanization development problems, including abandoned cropland and the expansion of rural residential land. Lastly, we proposed four key urban planning measures to mitigate the loss of ecosystem services during rapid urbanization. Acquiring quantitative knowledge about how rapid urbanization drives changes to ecosystem changes may help guide sustainable urban planning with respect to ecosystem service use, urban development, and human welfare benefits.     

Shifts in leaf litter breakdown along a forest–pasture–urban gradient in Andean streams

Tropical montane ecosystems of the Andes are critically threatened by a rapid land‐use change which can potentially affect stream variables, aquatic communities, and ecosystem processes such as leaf litter breakdown. However, these effects have not been sufficiently investigated in the Andean region and at high altitude locations in general. Here, we studied the influence of land use (forest–pasture–urban) on stream physico‐chemical variables (e.g., water temperature, nutrient concentration, and pH), aquatic communities (macroinvertebrates and aquatic fungi) and leaf litter breakdown rates in Andean streams (southern Ecuador), and how variation in those stream physico‐chemical variables affect macroinvertebrates and fungi related to leaf litter breakdown. We found that pH, water temperature, and nutrient concentration increased along the land‐use gradient. Macroinvertebrate communities were significantly different between land uses. Shredder richness and abundance were lower in pasture than forest sites and totally absent in urban sites, and fungal richness and biomass were higher in forest sites than in pasture and urban sites. Leaf litter breakdown rates became slower as riparian land use changed from natural to anthropogenically disturbed conditions and were largely determined by pH, water temperature, phosphate concentration, fungal activity, and single species of leaf‐shredding invertebrates. Our findings provide evidence that leaf litter breakdown in Andean streams is sensitive to riparian land‐use change, with urban streams being the most affected. In addition, this study highlights the role of fungal biomass and shredder species (Phylloicus; Trichoptera and Anchytarsus; Coleoptera) on leaf litter breakdown in Andean streams and the contribution of aquatic fungi in supporting this ecosystem process when shredders are absent or present low abundance in streams affected by urbanization. Finally, we summarize important implications in terms of managing of native vegetation and riparian buffers to promote ecological integrity and functioning of tropical Andean stream ecosystems.     

Increasing N deposition impacts neither diversity nor functions of deadwood‐inhabiting fungal communities,but adaptation and functional redundancy ensure ecosystem function

Nitrogen deposition can strongly affect biodiversity, but its specific effects on terrestrial microbial communities and their roles for ecosystem functions and processes are still unclear. Here, we investigated the impacts of N deposition on wood‐inhabiting fungi (WIF) and their related ecological functions and processes in a highly N‐limited deadwood habitat. Based on high‐throughput sequencing, enzymatic activity assay and measurements of wood decomposition rates, we show that N addition has no significant effect on the overall WIF community composition or on related ecosystem functions and processes in this habitat. Nevertheless, we detected several switches in presence/absence (gain/loss) of wood‐inhabiting fungal OTUs due to the effect of N addition. The responses of WIF differed from previous studies carried out with fungi living in soil and leaf‐litter, which represent less N‐limited fungal habitats. Our results suggest that adaptation at different levels of organization and functional redundancy may explain this buffered response and the resistant microbial‐mediated ecosystem function and processes against N deposition in highly N‐limited habitats.     

Fungi associated with beetles dispersing from dead wood – Let's take the beetle bus!

Spore characteristics of wood-inhabiting fungi suggest that wind is their predominant dispersal vector. However, since they are restricted to ephemeral habitats, colonizing new patches should benefit from dispersal by animals with similar habitat preferences because the directed, resource-searching movement of animals increases the likelihood of reaching suitable habitats. Here we determine which fungal guilds are carried by wood-inhabiting beetles and what influences beetle-associated fungal communities. High-throughput sequencing identified >1800 fungal taxa from beetle communities that emerged from 64 experimental logs. Beetle-associated fungi included mutualistic, decomposing, pathogenic and mycorrhizal fungi; decomposers were the most diverse. Partial-procrustes analysis revealed that the total beetle-associated community and mutualists were correlated (p ≤ 0.05) with beetle community composition and decomposers were marginally correlated (p ≤ 0.10) with beetle community composition. All three groups were marginally correlated with the total fungal communities that inhabit the dead wood. Our results show that beetles carry a broad range of wood-inhabiting fungi and beetle-associated fungal communities are determined by environmental factors and the vectoring beetle community and to some degree by the fungal source community. This suggests that wood-inhabiting beetles contribute to fungal dispersal, including directed dispersal, which could affect fungal community assembly and ecosystem processes like wood decomposition.     

Species diversity and life history traits in calcareous grasslands vary along an urbanization gradient

Calcareous grasslands are among the most species-rich plant communities in Europe with a particularly high nature conservation value. During the past centuries their distribution has markedly decreased, at least partly due to urbanization. Thus we investigated the effects of urbanization on species diversity along a spatio-temporal urbanization gradient from traditionally managed grassland to areas affected by urban developments, which was situated in the plains northwest of Munich, Germany. Both a RLQ analysis linking species and environmental traits, and a redundancy analysis of the plant community features showed that soil disturbance, soil sealing and mean temperature explained most of the environmental variation along the gradient. The species in urban habitats showed increased insect pollination, earlier flowering and prolonged seed longevity. While urbanization favored short-lived species with dysochorous dispersal, the reference grasslands harbored more wind-pollinated perennials with effective vegetative spread and relatively large, short-lived seeds. Compared to the urban sites, traditionally used grasslands had a higher species diversity, more threatened species and a lower proportion of non-natives. We conclude that even under conservation management, urban habitats are not capable of maintaining the original biodiversity. However, we also found threatened species occurring exclusively in urban sites. Hence, urbanization decreased the area and diversity of traditional calcareous grasslands, but it also established niches for endangered species which are not adapted to the living conditions in calcareous grasslands.     

Abrupt changes in the composition and function of fungal communities along an environmental gradient in the high Arctic

Fungi play a key role in soil–plant interactions, nutrient cycling and carbon flow and are essential for the functioning of arctic terrestrial ecosystems. Some studies have shown that the composition of fungal communities is highly sensitive to variations in environmental conditions, but little is known about how the conditions control the role of fungal communities (i.e., their ecosystem function). We used DNA metabarcoding to compare taxonomic and functional composition of fungal communities along a gradient of environmental severity in Northeast Greenland. We analysed soil samples from fell fields, heaths and snowbeds, three habitats with very contrasting abiotic conditions. We also assessed within‐habitat differences by comparing three widespread microhabitats (patches with high cover of Dryas, Salix, or bare soil). The data suggest that, along the sampled mesotopographic gradient, the greatest differences in both fungal richness and community composition are observed amongst habitats, while the effect of microhabitat is weaker, although still significant. Furthermore, we found that richness and community composition of fungi are shaped primarily by abiotic factors and to a lesser, though still significant extent, by floristic composition. Along this mesotopographic gradient, environmental severity is strongly correlated with richness in all fungal functional groups: positively in saprotrophic, pathogenic and lichenised fungi, and negatively in ectomycorrhizal and root endophytic fungi. Our results suggest complex interactions amongst functional groups, possibly due to nutrient limitation or competitive exclusion, with potential implications on soil carbon stocks. These findings are important in the light of the environmental changes predicted for the Arctic.     

Tipping point in plant–fungal interactions under severe drought causes abrupt rise in peatland ecosystem respiration

Ecosystems are increasingly prone to climate extremes, such as drought, with long‐lasting effects on both plant and soil communities and, subsequently, on carbon (C) cycling. However, recent studies underlined the strong variability in ecosystem's response to droughts, raising the issue of nonlinear responses in plant and soil communities. The conundrum is what causes ecosystems to shift in response to drought. Here, we investigated the response of plant and soil fungi to drought of different intensities using a water table gradient in peatlands—a major C sink ecosystem. Using moving window structural equation models, we show that substantial changes in ecosystem respiration, plant and soil fungal communities occurred when the water level fell below a tipping point of ?24 cm. As a corollary, ecosystem respiration was the greatest when graminoids and saprotrophic fungi became prevalent as a response to the extreme drought. Graminoids indirectly influenced fungal functional composition and soil enzyme activities through their direct effect on dissolved organic matter quality, while saprotrophic fungi directly influenced soil enzyme activities. In turn, increasing enzyme activities promoted ecosystem respiration. We show that functional transitions in ecosystem respiration critically depend on the degree of response of graminoids and saprotrophic fungi to drought. Our results represent a major advance in understanding the nonlinear nature of ecosystem properties to drought and pave the way towards a truly mechanistic understanding of the effects of drought on ecosystem processes.     

Research agenda on biodiversity and ecosystem functions and services in European cities

Cities are challenging environments for human life, because of multiple environmental issues driven by urbanization. These can sometimes be mitigated through ecosystem services provided by different functions supported by biodiversity. However, biodiversity in cities is affected by numerous factors, namely habitat loss, degradation, and fragmentation, as well as pollution, altered climate, and new biotic challenges. To better understand the link between biodiversity and ecosystem functions and services, we need to improve our mechanistic knowledge of these relationships. Trait-based ecology is a promising approach for unravelling the causes and consequences of biodiversity filtering on ecosystem processes and underlying services, but large gaps remain unexplored.Here, we present a series of research directions that are aimed at extending the current knowledge of the relationship between trait-based biodiversity and ecosystem functions and services in cities. These directions are based on: (1) improving urban habitat mapping; (2) considering often neglected urban habitats and ecological niches; (3) integrating multiple urban gradients; (4) using trait-based approaches to improve our mechanistic understanding of the relationships between biodiversity and ecosystem functions and services; and (5) extending the involvement of citizens.Pursuing these research directions may support the sustainable management of urban ecosystems and the long-term provision of ecosystem services, ultimately enhancing the well-being of urban populations.     

城市化对土壤生态环境的影响研究进展

城市土壤是城市生态系统中最重要的组成部分之一,发挥着重要的生态系统服务功能。在全球快速城市化的背景下,城市土壤受到人类活动的强烈干扰,土壤物理、化学性质发生改变,土壤退化与污染日益加重。城市土壤退化导致土壤动物生态特征与行为模式发生变化,城市景观格局与土地利用类型的变化强烈影响了土壤动物的栖息地,为土壤动物的生存与生物多样性带来潜在威胁;另一方面,城市化过程改变了土壤微生物群落组成与功能特征。城市化直接影响了城市土壤维持植物生长、土壤自然消减能力以及碳储存功能等重要的生态系统服务功能。针对城市化过程对土壤生态环境产生的一系列影响,需要采用科学的管理方式,改善土壤理化性质,提高土壤环境质量,保护和恢复土壤生物多样性,从而增强城市土壤的生态系统服务功能。     

The annual invasive plant Impatiens glandulifera reduces hyphal biomass of soil fungi in deciduous forests

Soil fungi play a crucial role in ecosystem functioning and there is increasing evidence that exotic plants invading forests can affect soil fungal communities. We examined potential effects of the invasive plant Impatiens glandulifera on hyphal biomass of ectomycorrhizal fungi, their genetic diversity and the diversity of other soil fungi in deciduous forests in Switzerland. We compared invaded patches with patches where I. glandulifera had been removed, by establishing pairs of 3-m long transect lines at the edge of seven areas of either type. Along the transects we assessed the length of ectomycorrhizal fungal hyphae using the ‘ingrowth mesh bag method’, and used terminal restriction fragment length polymorphism (T-RFLP) analysis to examine fungal genetic diversity. The invasive plant reduced fungal hyphal biomass by 30–80%: the reduction was largest in the centre of the patch. I. glandulifera did not alter fungal richness, but affected the composition of fungal communities. This is probably the result of a decrease of mycorrhizal fungi, coupled with an increase of saprotrophic fungi. Our findings demonstrate the adverse impacts of an annual invasive plant species on both fungal hyphal biomass and the composition of soil fungal communities. This may negatively affect forest nutrient and carbon cycling, soil stability and the functionality of the fungal community, with major consequences for forest ecosystem functioning.     

城市生物多样性分布格局研究进展

城市生物多样性分布格局由自然生态环境和城市化过程所决定;其动态和机理与自然生态系统迥然不同.城市生物多样性为城市生态系统提供了诸多生态系统功能和服务,对改善城市环境、维持城市可持续发展有着重要的意义和作用.城市化过程深刻改变了城市的生物多样性分布格局,导致了诸如本地物种多样性降低、外来物种多样性增加、物种同质化等一系列问题.近年来,城市生物多样性受到学界高度关注,大量研究结果既回答了一些关键性问题,又提出了诸多新的论题和挑战.分析了当前城市生物多样性分布格局研究的若干热点问题,总结了影响城市生物多样性格局的主要因素,探讨了城市生物多样性格局研究方法的关键问题,指出了未来城市生物多样性研究的发展方向,特别强调了城市生物多样性的生态系统功能研究在未来城市生物多样性研究中的重要地位.     

城市化对土壤动物群落结构和多样性的影响

城市化进程加快带来的环境挑战正威胁着地球上的生物多样性。土壤动物是生物多样性的重要组成部分, 对维持土壤健康及城市生态系统稳定性具有重要意义。近年来, 城市土壤动物群落结构和多样性的研究已经取得了一定进展, 但是仍缺乏系统的总结和综述。基于此, 本文梳理归纳了国内外已有的相关文献, 总结了城市化影响土壤动物的主要途径, 并阐述了城市中不同体型大小的优势土壤动物类群对城市化的响应。本文建议未来应利用分子生物学手段深入解析城市土壤动物多样性, 明晰城市土壤食物网的结构与功能, 关注土壤动物群落的保护与恢复, 揭示城市土壤动物肠道微生物组特征, 并挖掘城市土壤动物抑制人类致病菌的潜力, 以期为城市生物多样性保护、生态系统稳定和人类健康维持提供相关科学依据。     

Spatial factors and plant attributes influence soil fungal community distribution patterns in the lower reaches of the Heihe River Basin,Northwest China

Inland river basins include critical habitats and provide various ecosystem services in extremely arid lands. However, we know little about the distribution patterns of soil fungal communities in these river basins. We investigated the distribution patterns of soil fungal communities from the riparian oasis zone (ROZ) to the circumjacent desert zone (CDZ) at the lower reaches of the Heihe River. The results indicated that soil fungal communities were mainly dominated by the phyla Ascomycota and Basidiomycota across all samples. The dominant soil fungi taxa were significantly different between ROZ and CDZ habitats at both the phylum and genus levels. Fungal alpha diversity was mainly affected by spatial factors and plant functional traits, and Pearson correlation analysis revealed that fungal alpha diversity was more closely related to plant functional traits than soil properties. Furthermore, fungal community structure was best explained by spatial factors and plant attributes (including plant diversity and plant functional traits). Together, our findings provide new insights into the significance of spatial factors and plant attributes for predicting distributions of fungal communities in arid inland river basins, which will help us better understand the functions and services of these ecosystems.     

Fungal soil communities in a young transgenic poplar plantation form a rich reservoir for fungal root communities

Fungal communities play a key role in ecosystem functioning. However, only little is known about their composition in plant roots and the soil of biomass plantations. The goal of this study was to analyze fungal biodiversity in their belowground habitats and to gain information on the strategies by which ectomycorrhizal (ECM) fungi form colonies. In a 2-year-old plantation, fungal communities in the soil and roots of three different poplar genotypes (Populus × canescens, wildtype and two transgenic lines with suppressed cinnamyl alcohol dehydrogenase activity) were analyzed by 454 pyrosequencing targeting the rDNA internal transcribed spacer 1 (ITS) region. The results were compared with the dynamics of the root-associated ECM community studied by morphotyping/Sanger sequencing in two subsequent years. Fungal species and family richness in the soil were surprisingly high in this simple plantation ecosystem, with 5944 operational taxonomic units (OTUs) and 186 described fungal families. These findings indicate the importance that fungal species are already available for colonization of plant roots (2399 OTUs and 115 families). The transgenic modification of poplar plants had no influence on fungal root or soil communities. Fungal families and OTUs were more evenly distributed in the soil than in roots, probably as a result of soil plowing before the establishment of the plantation. Saprophytic, pathogenic, and endophytic fungi were the dominating groups in soil, whereas ECMs were dominant in roots (87%). Arbuscular mycorrhizal diversity was higher in soil than in roots. Species richness of the root-associated ECM community, which was low compared with ECM fungi detected by 454 analyses, increased after 1 year. This increase was mainly caused by ECM fungal species already traced in the preceding year in roots. This result supports the priority concept that ECMs present on roots have a competitive advantage over soil-localized ECM fungi.