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Abstract The functional traits of soil protists have been employed in ecological research to enhance comprehension of the underlying mechanisms of ecological processes. Among the numerous soil protists, testate amoebae emerge as a prominent and abundant group, playing a pivotal role in soil micro-food webs. Furthermore, they are regarded as valuable bioindicators for environmental monitoring and palaeoecological studies due to their sensitivity to environmental changes. We screened 372 testate amoebae species widely distributed across Northern Holarctic realm and collected trait data, representing the morphological and feeding characteristics of testate amoebae. The dataset would provide valuable basis for investigation of the functional diversity and ecological roles of testate amoebae, thus facilitating further research on soil protist communities and ecosystem dynamics.

In the Caucasus, the total area taken up by glaciers is known to have reduced by 23% over the last 20 years. This natural experiment allows for additive and replacement models of autogenic succession of biocoenoses within paraglacial landscapes to be tested. A certain risk of the extinction of cryophilic species also exists. However, montane paraglacial successions of invertebrate assemblages have hitherto been studied neither in the Caucasus nor in Russia as a whole. Structural changes of taxocoenoses were traced in a spatial and temporal sequence of ten properly dated paraglacial sites in the Tsey Gorge, North Ossetia − Alania (1–170-years old) among the testate amoebae, earthworms, molluscs, myriapods, mites, spiders, harvestmen, pseudoscorpions, collembolans, and beetles. As the glacier retreats, in place of bare paraglacial wastelands, grassland communities are formed that, after 10–14 years, are replaced by shrub vegetation and, on 30–35-year old surfaces, by forest communities. Most of the invertebrate groups, once “appearing” along a postglacial transect, were recorded from most older plots as well. Yet, their taxocoenoses underwent considerable transformations through increasing (or an increase turning into some decline in beetles) the species diversity and a strong, often complete change in the taxonomic composition and dominance structure. The most considerable transformations were observed at all major vegetation changes. The “appearance” of some groups in the transect was determined not only by dispersion capacities but mainly by the environmental conditions of particular habitats. When comparing the composition of the pioneer postglacial species complex of the study region with that in the mountains of Europe’s south and north, its high-degree regional specificity was noted, sometimes shown at the family level (in spiders). Spatial β-diversity of all larger taxa studied was mainly attributed to turnover (due to “the replacement model” of succession). The general level of change diminished towards the later succession stages. Endemic arthropod species were revealed both in pioneer grassland and developed forest communities.

ABSTRACT Microbiomes are integral to ecological health and human well-being; however, their ecological and evolutionary drivers have not been systematically investigated, especially in urban park ecosystems. As microbes have different levels of tolerance to environmental changes and habitat preferences, they can be categorized into habitat generalists and specialists. Here, we explored the ecological and evolutionary characteristics of both prokaryotic and microeukaryotic habitat generalists and specialists from six urban parks across five habitat types, including moss, soil, tree hole, water, and sediment. Our results revealed that different ecological and evolutionary processes maintained and regulated microbial diversity in urban park ecosystems. Under ecological perspective, community assembly of microbial communities was mainly driven by stochastic processes; however, deterministic processes were higher for habitat specialists than generalists. Microbial interactions were highly dynamic among habitats, and habitat specialists played key roles as module hubs in intradomain networks. In aquatic interdomain networks, microeukaryotic habitat specialists and prokaryotic habitat specialists played crucial roles as module hubs and connectors, respectively. Furthermore, analyzing evolutionary characteristics, our results revealed that habitat specialists had a much higher diversification potential than generalists, while generalists showed shorter phylogenetic branch lengths as well as larger genomes than specialists. This study broadens our understanding of the ecological and evolutionary features of microbial habitat generalists and specialists in urban park ecosystems across multi-habitat.IMPORTANCEUrban parks, as an important urban greenspace, play essential roles in ecosystem services and are important hotspots for microbes. Microbial diversity is driven by different ecological and evolutionary processes, while little is currently known about the distinct roles of ecological and evolutionary features in shaping microbial diversity in urban park ecosystems. We explored the ecological and evolutionary characteristics of prokaryotic and microeukaryotic habitat generalists and specialists in urban park ecosystems based on a representative set of different habitats. We found that different ecological and evolutionary drivers jointly maintained and regulated microbial diversity in urban park microbiomes through analyzing the community assembly process, ecological roles in hierarchical interaction, and species diversification potential. These findings significantly advance our understanding regarding the mechanisms governing microbial diversity in urban park ecosystems.

A recent synthesis study found 54% of the high-latitude peatlands have been drying and 32% have been wetting over the past centuries, illustrating their complex ecohydrological dynamics and highly uncertain responses to a warming climate.

The paper describes a dataset, comprising 236 surface moss samples and 143 testate amoeba taxa. The samples were collected in 11 Sphagnum-dominated bogs during frost-free seasons of 2004, 2007, 2009, 2017, and 2022. For the whole dataset, the sampling effort was sufficient in terms of observed species richness (143 species in total), though a regional species pool is deemed to be discovered incompletely (143 species is its lower 95 % confidence limit using Chao’s estimator). The local community composition demonstrated high heterogeneity in a reduced ordination space. It supports the opinion that the high versatility of bog ecosystems should be taken into account during ecological studies.

Global climate change might result in permafrost thaw and the formation of thermokarst landscapes that release long-term carbon stocks as greenhouse into the atmosphere, thereby initiating a positive climate feedback. These processes are mediated by biological activity, including by microbes, vascular plants and animals, whereas the role of invertebrates in thermokarst ecosystems remains poorly understood. We investigated the diversity and assemblage structures of zooplankton (mainly Copepoda, Cladocera), microbenthos (testate amoebae) and meio- (Copepoda and Cladocera) and macrozoobenthos (mollusks, crustaceans, insects and annelids) from a range of water bodies representing different stages of thermokarst lake formation in the southern part of the Lena River Delta (Central Siberia). Altogether, 206 species of testate amoeba, mollusk, crustacean, insect and annelid taxa were identified. A total of 60 species of macrozoobenthos (mainly insects) and 62 species of testate amoebae were detected in the water bodies of the Lena River Delta for the first time. The species richness of zooplankton and meio- and macrozoobenthos was greater in the large thermokarst lakes than in the polygonal ponds due to the freezing of the latter in the winter. In contrast, the species richness of protists was higher in the polygonal ponds, which was related to the habitat preferences of testate amoebae. Fish grazing strongly affected the macrobenthos assemblages but not the smaller-sized organisms. Water acidity and temperature were the main environmental drivers of the assemblage structure of testate amoeba and microcrustacean. The species structure of the macroinvertebrate assemblages was significantly explained by water acidity, permafrost depth and size of the water area. It means that small size organisms with their short generation times are sensitive to more dynamic factors such as temperature and may serve as indicators of ecosystem changes due to global climate warming. In contrast, large size organisms are affected by driven factors that appear during thermokarst lakes formation and permafrost degradation.

Peatlands play an important role in the global carbon cycle but have been exploited over many centuries, which reduces their carbon storage capacity. To investigate peatland development during the late Holocene and their restoration after peat extraction, we applied a multi-proxy paleoecological (pollen, plant macrofossils, testate amoebae, loss on ignition, peat humification, etc.) approach to undisturbed and floating vegetation mat deposits of the Gorenki peatland (Meshchera Lowlands, East European Plain). Peatland development started around 2550 before the common era (BCE) as a waterlogged eutrophic birch forest (terrestrial paludification) surrounded by a broadleaf forest. Around 2400 BCE, the peatland turned into an open mire with Sphagnum mosses, sedges, and willows. During 900–800 BCE, the mire transformed into a wet mesotrophic peatland surrounded by a spruce forest. The first human settlements and deforestation around 300–400 CE coincided with oligotrophization of the mire. The growth of the Slavic population in the region in 14th century CE caused transformation of indigenous spruce–broadleaf forests into croplands, and the mire became drier and forested. Since peat extraction was abandoned in the beginning of 20th century CE, the mire has undergone self-restoration starting with the formation of a Sphagnum cuspidatum/obtusum quagmire on the floating peat remains. The Sphagnum mat stabilized during 1960–2000 CE. During the last twenty years, agricultural activity decreased and pine forests were restored in the adjacent area; the floating mat became drier and more oligotrophic, which can lead to the formation of a bog in the absence of considerable anthropogenic impact.

Understanding the interactions among the functional groups of living organisms within ecosystems is a main challenge in ecology. This question is particularly important in relation to the interactions between the above- and below-ground components of terrestrial ecosystems. We investigated the effects of macro- (geographic position and mire size) and micro-environmental (pH, water table depth, water mineralization and temperature) characteristics and vegetation composition (both vascular plants and bryophytes) on the species structure of testate amoeba assemblages in eight Sphagnum-dominated mires across the Northern Caucasus Mountains (Russia). In total, 97 testate amoeba species from 34 genera were identified. A multiple factor analysis indicated the strongest relationships between the species structure of the testate amoeba assemblages and the local vegetation, especially bryophytes, whereas the interaction with the micro-environmental characteristics was the weakest. Among the micro-environmental data, the strongest effects on the species composition of all the assemblages were detected for the pH followed by the water table depth and water temperature. The variance partitioning of the species structure of the testate amoeba assemblages in response to the abiotic and biotic data indicated that most of the variance was related to the bryophyte and vascular plant assemblages, whereas the contribution of the environmental data was lower. Moreover, most of the effects were highly related to each other, so that the proportion of the jointly explained variation was high, whereas the individual effects were much lower.

Paleoecological reconstructions of hydrological regimes in tropical peatlands during the Holocene are important for the estimation of their responses to changing environments. However, the application of some widely used proxies, such as testate amoebae, is hampered by poor knowledge of their morphology and ecological preferences in the region. The aim of this study is to describe the morphospecies composition of sub-fossil testate amoebae in deposits of a tropical peatland in Central Sumatra (Indonesia) during the Holocene and reconstruct the hydrological regime using morphospecies- and functional-trait-based approaches. In total, 48 testate amoeba morphospecies were observed. Based on morphospecies composition, we distinguished three main periods of peatland development (13,400–8000, 8000–2000, 2000 cal yr BP–present). The application of the morphospecies-based transfer function provided a more reliable reconstruction of the water regime in comparison to the functional trait-based one. The weak performance of the latter might be related to the poor preservation of shells and the greater variation in the functional traits in sub-fossil communities as compared to the training set and linear modeling approach. These results call for future studies on the functional and morphospecies composition of testate amoebae in a wider range of tropical peatlands to improve the quality of hydrological reconstructions.

Testate amoebae (TA) are important components of soil ecosystems, where they play an essential role in belowground food webs. In this study, we examined species composition, diversity, and structure of TA assemblages in soils beneath tree crowns (microscale) at three slope positions (mesoscale) in subtropical urban parks in Shenzhen, China. Forty-two species of TA belonging to 18 genera were identified in 81 samples. TA assemblages were the most diverse and abundant in the center of the tree crown comparing with other under-tree habitats. Foot of the hills harbored higher TA abundance and diversity comparing with upper locations along the hillslopes. The distribution of TA was mostly driven by under-crown and hillside positions but not by elementary environmental conditions such as pH, moisture content and thickness of leaf litter layer. None of later factors were sufficient in shaping TA assemblage composition. The findings of our study suggest that in regional studies of soil microbial eukaryotes both micro- (i.e., under-crown) and mesoscale (i.e., the slope position) heterogeneity should be considered.

Testate amoebae are widely used as proxies in paleoecological reconstructions of lacustrine environments; however, our knowledge on their distribution along depth gradients are limited. This study investigates the distribution of benthic testate amoebae along a sampling depth gradient (0 to 57 m) and related environmental characteristics in Lake Valdayskoe, Russia. In total, 101 species belonging to twenty-one genera were identified. Four types of testate amoeba assemblages (littoral, sublittoral, bottom slope and profundal) were distinguished that corresponded well to the bottom zones of the lake. The results of redundancy analysis indicated that sampling depth, temperature, pH and bottom inclination significantly explained 40.2% of the total variance in the species composition. Temperature and sampling depth had the largest individual contributions of 19.2 and 7.4% (p < 0.001), respectively. The minimal values of species diversity were observed on the littoral and at the lower boundary of the thermocline. We estimated depth optima and ranges for the species with high occurrences and distinguish stenobathic and eurybathic species. These data might improve the interpretations of paleoecological records of subfossil testate amoeba assemblages in lacustrine surface sediments and serve as basis for the development of a transfer function for reconstruction of lake depths.

This study aimed to reconstruct the climatic moisture conditions of the Mid- Russian Upland through the Holocene. Surface moisture conditions in the study region were inferred from published pollen records from the Klukva peatland, in the north-west of the Mid-Russian Upland. Three climatic indices were derived from previously- published reconstructions of mean annual temperature and precipitation: the Climate Moisture Index, the Aridity Index and the Budyko Dryness Index. A simple modeling approach to reconstruct annual potential evapotranspiration and net radiation was developed and used to estimate the indices for different periods of the Holocene. The moisture indices were compared with independent proxies of climate moisture such as peatland surface wetness, reconstructed from testate amoebae and regional fire activity, reconstructed from charcoal. Results show that the surface moisture conditions in the study region were characterized by large variability. Periods of mild temperature and moderately wet conditions were followed by dry periods, which resulted in significant changes in palaeoenvironments. The method developed for calculation of potential evapotranspiration and indices of surface moisture conditions could be a useful tool for climate reconstructions. Our results demonstrate the detailed and nuanced palaeoclimate data which can be derived from pollen data.

A better understanding of past climate change is vital to our ability to predict possible future environmental dynamics. This study attempts to investigate the dynamic features of the temporal variability of peat humification, water table depth and air temperature by analyzing palaeoecological data from the Valdai Uplands region (Central European Russia). The regression analysis revealed the presence of a periodicity of about 6000 years in the reconstructed peat humification timeseries. Nonlinear analysis showed that humification time variability, water table depth and air temperature exhibit persistent long-range correlations of 1/f type. This indicates that a fluctuation in these variables in the past is very likely to be followed by a similar one in the future, but is magnified by 1/f power-law. In addition, it dictates that humification, water table depth and temperature are key parameters of a system that implies the existence of a special structure, such as self-organized criticality, operating close to a minimum stability configuration, and achieves it without any fine adjustment by external forcing. These conclusions point to new avenues for modeling future ecosystem disturbances and, in particular, for predicting relevant extreme events.

This review provides a synthesis of current knowledge on the morphological and functional traits of testate amoebae, a polyphyletic group of protists commonly used as proxies of past hydrological changes in paleoecological investigations from peatland, lake sediment and soil archives. A trait-based approach to understanding testate amoebae ecology and paleoecology has gained in popularity in recent years, with research showing that morphological characteristics provide complementary information to the commonly used environmental inferences based on testate amoeba (morpho-)species data. We provide a broad overview of testate amoeba morphological and functional traits and trait-environment relationships in the context of ecology, evolution, genetics, biogeography, and paleoecology. As examples we report upon previous ecological and paleoecological studies that used trait-based approaches, and describe key testate amoebae traits that can be used to improve the interpretation of environmental studies. We also highlight knowledge gaps and speculate on potential future directions for the application of trait-based approaches in testate amoeba research.

Tropical peatlands play an important role in carbon storage and in water regulation on a landscape level. However, our understanding of their ecology and long-term hydrological dynamics remains limited. Transfer functions, constructed on the basis of biological indicators (proxies) with known ecological preferences, allow us to infer past environmental conditions and serve as a basis for prediction of future changes in peatlands. Here, we use testate amoebae to develop the first species- and functional trait-based transfer functions for the Southeast Asia. This provides a valuable tool for future reconstructions of past hydrological changes in tropical peatlands, their development, and climatic changes. Surface samples for testate amoeba analysis were taken in various biotopes along two transects across the Sungai Buluh peatland in Central Sumatra. The following environmental characteristics were measured: water table depth (WTD), light intensity, pH, total C and N concentrations. The analysis of the surface samples revealed 145 morphotypes of testate amoebae belonging to 25 genera. A significant fraction of the variance in testate amoeba morphotypes and functional trait composition was explained by WTD and pH. The wide WTD range (0–120 cm) seems more valuable for reconstruction than the extremely short pH gradient (2.5–3.8). Thus, transfer functions were developed only for WTD, based on weighted averaging model for morphotypes and multiple linear regression for functional traits. Both species- and trait-based model have a predictive ability for WTD reconstruction. For traits, the best performance of the model was reached by including five morphological traits: shell width, aperture shape, aperture invagination, shell shape and shell compression. We discuss the ecology of several taxa and highlight the traits, which reflect hydrological changes in this system. Though the hydrological preferences of some species are similar to those in high and middle latitude peatlands, we argue that latitudinal differences in morphospecies composition and variations in environmental relationships of species require the development of region-specific transfer functions. Moreover, our results indicate that ecological preferences of morphotypes within morphospecies also need to be considered and included in future studies.

Peatlands are remarkable for their specific biodiversity, crucial role in carbon cycling and climate change. Their deposits preserve organism remains that can be used to reconstruct long-term ecosystem and environmental changes as well as human impact in the prehistorical and historical past. This study presents a new multi-proxy reconstruction of the peatland and vegetation development investigating climate dynamics and human impact at the border between mixed and boreal forests in the Valdai Uplands (the East European Plain, Russia) during most of the Holocene. We performed plant macrofossil, pollen, testate amoeba, Cladocera, diatom, peat humification, loss on ignition, carbon and nitrogen content, δ13C and δ15N analyses supported by radiocarbon dating of the peat deposits from the Krivetskiy Mokh mire. The results of the study indicate that the wetland ecosystem underwent a classic hydroserial succession from a lake (8300 BC–900 BC) terrestrialized through a fen (900 BC–630 AD) to an ombrotrophic bog (630 AD–until present) and responded to climate changes documented over the Holocene. Each stage was associated with clear changes in local diversity of organisms responding mostly to autogenic successional changes during the lake stage and to allogenic factors at the fen-bog stage. The latter can be related to increased human impact and greater sensitivity of peatland ecosystems to external, especially climatic, drivers as compared to lakes.