Influence of freeze-thaw stress on the structure and function of microbial communities and denitrifying populations in soil

Effects of freeze-thaw cycles on soil greenhouse gas emissions: A systematic review

In the context of global warming, increasingly widespread and frequent freezing and thawing cycles (FTCs) will have profound effects on the biogeochemical cycling of soil carbon and nitrogen. FTCs can increase soil greenhouse gas (GHG) emissions by reducing the stability of soil aggregates, promoting the release of dissolved organic carbon, decreasing the number of microorganisms, inducing cell rupture, and releasing carbon and nitrogen nutrients for use by surviving microorganisms. However, the similarity and disparity of the mechanisms potentially contributing to changes in GHGs have not been systematically evaluated. The present study consolidates the most recent findings on the dynamics of soil carbon and nitrogen, as well as GHGs, in relation to FTCs. Additionally, it analyzes the impact of FTCs on soil GHGs in a systematic manner. In this study, particular emphasis is given to the following: (i) the reaction mechanism involved; (ii) variations in soil composition in different types of land (e.g., forest, peatland, farmland, and grassland); (iii) changes in soil structure in response to cycles of freezing temperatures; (iv) alterations in microbial biomass and community structure that may provide further insight into the fluctuations in GHGs after FTCs. The challenges identified included the extension of laboratory-scale research to ecosystem scales, the performance of in-depth investigation of the coupled effects of carbon, nitrogen, and water in the freeze-thaw process, and analysis of the effects of FTCs through the use of integrated research tools. The results of this study can provide a valuable point of reference for future experimental designs and scientific investigations and can also assist in the analysis of the attributes of GHG emissions from soil and the ecological consequences of the factors that influence these emissions in the context of global permafrost warming.

Rhizosphere microbial community structure differs between constant subzero and freeze-thaw temperature regimes in a subarctic soil

In the Arctic and subarctic, climate change is causing reduced snowpack extent and earlier snowmelt. Shallower snowpack decreases the thermal insulation of underlying soil and results in more freeze-thaw conditions reflective of dynamic air temperatures. The aim of this study was to determine the effect of alternative temperature regimes on overall microbial community structure and rhizosphere recruitment across representatives of three subarctic plant functional groups. We hypothesized that temperature regime would influence rhizosphere community structure more than plant type. Planted microcosms were established using a tree, forb, grass, or no plant control and subjected to either freeze-thaw cycling or static subzero temperatures. Our results showed rhizosphere communities exhibited reduced diversity compared to bulk soils, and were influenced by temperature conditions and to a lesser extent plant type. We found that plants have a core microbiome that is persistent under different winter temperature scenarios but also have temperature regime-specific rhizosphere microbes. Freeze-thaw cycling resulted in greater community shifts from the pre-incubation soils when compared to constant subzero temperature. This finding suggests that wintertime snowpack conditions may be a significant factor for plant-microbe interactions upon spring thaw.

Responses of bacterial community and N-cycling functions stability to different wetting-drying alternation frequencies in a riparian zone

Wetting-drying alternation (WD) of the soil is one of the key characteristics of riparian zones shaped by dam construction, profoundly impacting the soil microenvironment that determines the bacterial community. Knowledge concerning the stability of bacterial community and N-cycling functions in response to different frequencies of WD remains unclear. In this study, samples were taken from a riparian zone in the Three Gorges Reservoir (TGR) and an incubation experiment was conducted including four treatments: constant flooding (W), varied wetting-drying alternation frequencies (WD1 and WD2), and constant drying (D) (simulating water level of 145 m, 155 m, 165 m, and 175 m in the riparian zone respectively). The results revealed that there was no significant difference in the diversity among the four treatments. Following the WD1 and WD2 treatments, the relative abundances of Proteobacteria increased, while those of Chloroflexi and Acidobacteriota decreased compared to the W treatment. However, the stability of bacterial community was not affected by WD. Relative to the W treatment, the stability of N-cycling functions estimated by resistance, which refers to the ability of functional genes to adapt to changes in the environment, decreased following the WD1 treatment, but showed no significant change following the WD2 treatment. Random forest analysis showed that the resistances of the nirS and hzo genes were core contributors to the stability of N-cycling functions. This study provides a new perspective for investigating the impacts of wetting-drying alternation on soil microbes.

Effects of freeze-thaw cycles on methanogenic hydrocarbon degradation: Experiment and modeling

Cold regions are warming much faster than the global average, resulting in more frequent and intense freeze-thaw cycles (FTCs) in soils. In hydrocarbon-contaminated soils, FTCs modify the biogeochemical and physical processes controlling petroleum hydrocarbon (PHC) biodegradation and the associated generation of methane (CH₄) and carbon dioxide (CO₂). Thus, understanding the effects of FTCs on the biodegradation of PHCs is critical for environmental risk assessment and the design of remediation strategies for contaminated soils in cold regions. In this study, we developed a diffusion-reaction model that accounts for the effects of FTCs on toluene biodegradation, including methanogenic biodegradation. The model is verified against data generated in a 215 day-long batch experiment with soil collected from a PHC contaminated site in Ontario, Canada. The fully saturated soil incubations with six different treatments were exposed to successive 4-week FTCs, with temperatures oscillating between -10 °C and +15 °C, under anoxic conditions to stimulate methanogenic biodegradation. We measured the headspace concentrations and ¹³C isotope compositions of CH₄ and CO₂ and analyzed the porewater for pH, acetate, dissolved organic and inorganic carbon, and toluene. The numerical model represents solute diffusion, volatilization, sorption, as well as a reaction network of 13 biogeochemical processes. The model successfully simulates the soil porewater and headspace concentration time series data by representing the temperature dependencies of microbial reaction and gas diffusion rates during FTCs. According to the model results, the observed increases in the headspace concentrations of CH₄ and CO₂ by 87% and 136%, respectively, following toluene addition are explained by toluene fermentation and subsequent methanogenesis reactions. The experiment and the numerical simulation show that methanogenic degradation is the primary toluene attenuation mechanism under the electron acceptor-limited conditions experienced by the soil samples, representing 74% of the attenuation, with sorption contributing to 11%, and evaporation contributing to 15%. Also, the model-predicted contribution of acetate-based methanogenesis to total produced CH₄ agrees with that derived from the ¹³C isotope data. The freezing-induced soil matrix organic carbon release is considered as an important process causing DOC increase following each freezing period according to the calculations of carbon balance and SUVA index. The simulation results of a no FTC scenario indicate that, in the absence of FTCs, CO₂ and CH₄ generation would decrease by 29% and 26%, respectively, and that toluene would be biodegraded 23% faster than in the FTC scenario. Because our modeling approach represents the dominant processes controlling PHC biodegradation and the associated CH₄ and CO₂ fluxes, it can be used to analyze the sensitivity of these processes to FTC frequency and duration driven by temperature fluctuations.

Differentiate responses of soil nutrient levels and enzymatic activities to freeze-thawing cycles in different layers of moss-dominated biocrusts in a temperate desert

INTRODUCTION

The biological soil crust, a widespread phenomenon in arid and semi-arid regions, influences many ecological functions, such as soil stability, surface hydrology, and biogeochemical cycling. Global climate change has significantly altered winter and spring freeze-thaw cycles (FTCs) in mid and high-latitude deserts. However, it is unclear how these changes will affect the biological soil crust and its influence on nutrient cycling and soil enzyme activity.

METHODS

We conducted this study in the Gurbantunggut Desert, a typical temperate desert, using the moss crust as an example of an evolved biological soil crust. Simulating the effects of different FTC frequencies (0, 5, and 15 times) on soil carbon, nitrogen, phosphorus-related nutrients, and extracellular enzyme activities allowed us to understand the relationship between soil environmental factors and nutrient multifunctionality during FTC changes.

RESULTS

The results showed that recurrent FTCs significantly increased the accumulation of carbon and phosphorus nutrients in the soil and decreased the effectiveness of nitrogen nutrients. These changes gradually stabilized after 15 FTCs, with available nutrients showing greater sensitivity than the previous full nutrient level. FTCs inhibited carbon, nitrogen, and phosphorus cycle-related hydrolase activities and promoted carbon cycle-related oxidase activities in the crust layer. However, in the 0-3 cm layer, the carbon and phosphorus cycle-related hydrolase activities increased, while peroxidase and urease activities decreased. Overall, the nutrient contents and enzyme activities associated with the carbon, nitrogen, and phosphorus cycles were lower in the 0-3 cm layer than in the crust layer. In addition, the multifunctionality of nutrients in the soil decreased after 15 FTCs in the crust layer and increased after 5 FTCs in the 0-3 cm layer. Structural equation modeling showed that FTC, soil water content, pH, available nutrients, and extracellular enzyme activity had opposite effects on nutrient multifunctionality in different soil layers. The change in nutrient multifunctionality in the crust layer was primarily caused by changes in total nutrients, while soil water content played a greater role in the 0-3 cm layer. Regardless of the soil layer, the contribution of total nutrients was much higher than the contribution of available nutrients and extracellular enzyme activity. In conclusion, it is essential to consider different soil layers when studying the effects of global climate change on the nutrient cycling of the biological soil crust.

Responses of Nitrous Oxide Emissions and Bacterial Communities to Experimental Freeze–Thaw Cycles in Contrasting Soil Types

Nitrous oxide (N2O) pulse emissions are detected in soils subjected to freeze–thaw cycles in both laboratory and field experiments. However, the mechanisms underlying this phenomenon are poorly understood. In this study, a laboratory incubation experiment that included freeze–thaw cycles (FTC), freezing (F) and control (CK) treatments was performed on three typical Chinese upland soils, namely, fluvo-aquic soil (FS), black soil (BS) and loess soil (LS). A higher similarity in soil properties and bacterial community structure was discovered between FS and LS than between FS and BS or LS and BS, and the bacterial diversity of FS and LS was higher than that of BS. FTC significantly increased the denitrification potential and the proportion of N2O in the denitrification gas products in FS and LS but decreased the denitrification potential in BS. Accordingly, with the increasing number of freeze–thaw cycles, the bacterial community composition in the FTC treatments in FS and LS diverged from that in CK but changed little in BS. Taxa that responded to FTC or correlated with denitrification potential were identified. Taken together, our results demonstrated that the effects of FTC on N2O emissions are soil-type-dependent and that the shift in the microbial community structure may contribute to the elevated N2O emissions.

Ecological Characteristics of Antarctic Fungi

In view of the high responsiveness of polar ecosystems to the global climate change, the research of Antarctic microorganisms has become a topical issue. The unique ecosystems that have developed under the severe climate conditions of the continent lack flowering plants but are dominated by soil mycobiota. In addition to performing their classical ecological functions, Antarctic fungi form the basis of local communities, e.g., endoliths and microbial mats. Furthermore, Antarctic fungi are a major force that mediates transformation of rock minerals in situ and makes biologically significant elements available for other organisms. For these reasons, mycobiota plays a central role in the maintenance of ecological equilibrium in Antarctica. The dominant fungal division on the continent is Ascomycota (77.1%), and not Basidiomycota (9.1%), as it is the case on other continents. For a number of reasons, yeasts and yeast-like micromycetes (mainly basidiomycetes) are more tolerant to extreme conditions in various Antarctic biotopes than filamentous fungi. Substantial evidence suggests that filamentous fungi and yeasts are better adapted to existence in ecosystems with extremely low temperatures than other microorganisms. Due to the long-term isolation of Antarctica from other continents, local biota has been evolving largely independently, which led to emergence of multiple endemic fungal taxa. The presence of eurytopes on the continent is presumably related to the global warming and growing anthropogenic pressure. This review discusses the current state of research on the structure of fungal communities of Antarctic subaerial and subaquatic biotopes, the ecological role of yeast-mycelial dimorphism in Antarctic fungi, the problem of endemism of Antarctic mycobiota, as well as the ecological and physiological adaptations of fungi to low temperatures; it also justifies the relevance of research into secondary metabolites of psychrophilic micromycetes.

Fractionation of organic C, nutrients, metals and bacteria in peat porewater and ice after freezing and thawing

To better understand freezing - thawing cycles operating in peat soils of permafrost landscapes, we experimentally modelled bi-directional freezing and thawing of peat collected from a discontinuous permafrost zone in western Siberia. We measured translocation of microorganisms and changes in porewater chemistry (pH, UV absorbance, dissolved organic carbon (DOC), and major and trace element concentrations) after thawing and two-way freezing of the three sections of 90-cm-long peat core. We demonstrate that bi-directional freezing and thawing of a peat core is capable of strongly modifying the vertical pattern of bacteria, DOC, nutrients, and trace element concentrations. Sizeable enrichment (a factor of 2 to 5) of DOC, macro- (P, K, Ca) and micro-nutrients (Ni, Mn, Co, Rb, B), and some low-mobile trace elements in several horizons of ice and peat porewater after freeze/thaw experiment may stem from physical disintegration of peat particles, leaching of peat constituents, and opening of isolated (non-connected) pores during freezing front migration. However, due to the appearance of multiple maxima of element concentration after a freeze-thaw event, the use of peat ice chemical composition as environmental archive for paleo-reconstructions is unwarranted.

Simulation of water and nitrogen movement mechanism in cold regions during freeze-thaw period based on a distributed nonpoint source pollution model closely coupled water, heat, and nitrogen processes at the watershed scale

The nitrogen cycle in cold regions during the freeze-thaw period is complex. Although previous studies have investigated the phenomenon of nitrogen transport and transformation, the underlying mechanisms are vague. Existing models have limitations in terms of loose coupling or weak physical mechanisms. Therefore, a new distributed nonpoint source pollution model, the water and energy transfer processes and nitrogen cycle processes model in cold regions, was developed in this study, with closely coupled water, heat, and nitrogen processes at the watershed scale. The model considered the driving effects of pressure, gravity, solute, and temperature potentials on water and nitrogen movement in soil and the transformation relationship among nitrogen forms. Physical evaluation and simulations were conducted for the Heidingzi River Watershed during two freeze-thaw periods: 2017-2018 and 2018-2019. The soil temperature absolute error was < 0.82 ℃. The relative errors in stratified liquid water, soil nitrogen content, river flow rate, and river nitrogen concentration were mostly < 10%. Nitrogen transport with water had an obvious "upward agglomeration effect" during the freezing period and a "concentrated release effect" during the thawing period, which was attributed to changes in soil water potential as the freezing front moved down. Disregarding the effects of solute potential and temperature potential will result in an underestimate of the outflow of pollutants during the thawing period. The model can be applied to reveal water quality deterioration in cold regions during thawing.

Effects of autumn diurnal freeze–thaw cycles on soil bacteria and greenhouse gases in the permafrost regions

Understanding the impacts of diurnal freeze–thaw cycles (DFTCs) on soil microorganisms and greenhouse gas emissions is crucial for assessing soil carbon and nitrogen cycles in the alpine ecosystems. However, relevant studies in the permafrost regions in the Qinghai-Tibet Plateau (QTP) are still lacking. In this study, we used high-throughput pyrosequencing and static chamber-gas chromatogram to study the changes in topsoil bacteria and fluxes of greenhouse gases, including carbon dioxide (CO2), methane (CH4), and nitrous oxide (N2O), during autumn DFTCs in the permafrost regions of the Shule River headwaters on the western part of Qilian Mountains, northeast margin of the QTP. The results showed that the bacterial communities contained a total of 35 phyla, 88 classes, 128 orders, 153 families, 176 genera, and 113 species. The dominant phyla were Proteobacteria, Acidobacteria, Actinobacteria, Chloroflexi, and Gemmatimonadetes. Two DFTCs led to a trend of increasing bacterial diversity and significant changes in the relative abundance of 17 known bacteria at the family, genus, and species levels. These were predominantly influenced by soil temperature, water content, and salinity. In addition, CO2 flux significantly increased while CH4 flux distinctly decreased, and N2O flux tended to increase after two DFTCs, with soil bacteria being the primary affecting variable. This study can provide a scientific insight into the impact of climate change on biogeochemical cycles of the QTP.

Responses of soil bacterial communities to precipitation change in the semi-arid alpine grassland of Northern Tibet

A change in precipitation can profoundly change the structure of soil microbial communities, especially in arid and semi-arid areas which are limited by moisture conditions. Therefore, it is crucial to explore how soil bacterial community composition and diversity will respond to variation in precipitation. Here we conducted a precipitation control experiment to simulate precipitation change by reducing and increasing rainfall by 25%, 50%, and 75% in the alpine grasslands of northern Tibet. The composition, diversity, and species interaction network of soil microbial community were studied by high-throughput sequencing, and the relationship between microbial community species and soil environmental factors was analyzed. Our results showed that Proteobacteria (45%-52%) and Actinobacteria (37%-45%) were the dominant bacteria in the soil. The alpha diversity index based on Shannon, Chao1, and Simpson indices revealed that precipitation change had no significant effect on richness and evenness of soil microbial communities. Non-metric multidimensional scaling (NMDS) and analysis of similarities (ANOSIM) showed that a clear separation of soil microbial communities between D2(-50%),D3(-75%) and W2(+50%), W3(+75%) treatments. The microbial interaction network indicated that the water-increasing treatment group had closer connections, and Proteobacteria and Actinomycetes were the core species. Furthermore, there was a stronger positive correlation between species in the water-reducing treatment group, the contribution of Proteobacteria decreased significantly, the role of connecting hub decreased, and Actinomycetes became the most important core microbial species. In addition, soil water content (SWC) and available phosphorus (AP) were closely related to the variations in soil microbial compositions. The findings of this study provide a theoretical basis for the driving mechanism of global climate change on soil microbial community and grassland ecosystem in alpine grassland.

Integrating major agricultural practices into the TRIPLEX-GHG model v2.0 for simulating global cropland nitrous oxide emissions: Development, sensitivity analysis and site evaluation

Nitrous oxide (N₂O) emissions from croplands are one of the most important greenhouse gas sources while the estimation of which remains large uncertainties globally. To simulate N₂O emissions from global croplands, the process-based TRIPLEX-GHG model v2.0 was improved by coupling the major agricultural activities. Sensitivity experiment was used to measure the impact of the integrated processes to modeled N₂O emission found chemical N fertilization have the highest relative effect sizes. While the coefficient of the NO₃^- consumption rate for denitrification (COE_dNO3), controlling the first step of the denitrification process was identified to be the most sensitive parameter based on sensitivity analysis of model parameters. The model performed well when simulating the magnitude of the daily N₂O emissions for 39 calibration sites and the continental mean of the parameters were used to producing reasonable estimations for the means of the measured daily N₂O fluxes (R² = 0.87, slope = 1.07) and emission factors (EFs, R² = 0.70, slope = 0.72) during the experiment periods. The model reliability was further confirmed by model validation. General trend of modeled daily N₂O emissions were reasonably consistent with the observations of selected validated sites. In addition, high correlations between the results of modeled and observed mean N₂O emissions (R² = 0.86, slope = 0.82) and EFs (R² = 0.66, slope = 0.83) from 68 validation sites were obtained. Further improvement on more detailed estimations for the variation of the environmental factors, management effects as well as accurate model input model driving data are required to reduce the uncertainties of model simulations. Consequently, our simulation results demonstrate that the TRIPLEX-GHG model v2.0 can reliably estimate N₂O emissions from various croplands at the global scale, which contributes to closing global N₂O budget and sustainable development of agriculture.

Responses of nitrous oxide fluxes to autumn freeze-thaw cycles in permafrost peatlands of the Da Xing'an Mountains, Northeast China

Climate warming has intensified changes of permafrost freeze-thaw process and postponed the starting period of soil freezing, which significantly affected the processes of N₂O production and emission from the soils. However, responses of soil N₂O fluxes to freeze-thaw cycles (FTC_S) during autumn freezing period in permafrost peatlands in field remain unclear. Therefore, the static chamber-GC techniques were used to explore the effects of autumn FTC_S on N₂O fluxes in the three permafrost peatlands [Calamagrostis angustifolia peatland (CA), Larix gmelini-Sphagnum swamp (LS), and Eriophorum vaginatum peatland (EV)] in Da Xing'an Mountains, Northeast China, from September to November 2019. The response peaks of N₂O fluxes to autumn FTC_S in CA (29.22 ± 14.90 μg m^-2 h^-1) and EV (19.70 ± 7.26 μg m^-2 h^-1) occurred in the autumn FTC_S prophase, whereas LS (11.33 ± 0.90 μg m^-2 h^-1) appeared in the autumn FTC_S metaphase. CA (394.90 μg m^-2) and EV (497.82 μg m^-2) acted as a N₂O source, and LS (- 1321.43 μg m^-2) was a N₂O sink. The effects of autumn FTC_S on N₂O fluxes were significantly different (p < 0.001) in the three permafrost peatlands. N₂O emissions during autumn FTC_S were mainly driven by soil NH₄⁺-N_0-50 cm, DOC_{30-40 cm and 40-50 cm} content and soil NO₃^--N_0-50 cm content. The results implied that autumn FTC_S could stimulate soil N₂O emissions in permafrost peatlands and confirmed the important contribution of N₂O emissions during autumn FTC_S to annual nitrogen budget. This study could improve the accuracy of regional estimates of annual nitrogen budget.

Compound changes in temperature and snow depth lead to asymmetric and nonlinear responses in landscape freeze-thaw

Cycles of freeze–thaw (FT) are among the key landscape processes in cold regions. Under current global warming, understanding the alterations in FT characteristics is of a great importance for advising land management strategies in northern latitudes. Using a generic statistical approach, we address the impacts of compound changes in air temperature and snow depth on FT responses across Québec, a Canadian province ~ 2.5 times larger than France. Our findings show significant and complex responses of landscape FT to compound changes in temperature and snow depth. We note a vivid spatial divide between northern and southern regions and point to the asymmetric and nonlinear nature of the FT response. In general, the response of FT characteristics is amplified under compound warming compared to cooling conditions. In addition, FT responses include nonlinearity, meaning that compounding changes in temperature and snow depth have more severe impacts compared to the cumulative response of each individually. These asymmetric and nonlinear responses have important implications for the future environment and socio-economic management in a thawing Québec and highlight the complexity of landscape responses to climatic changes in cold regions.

Water Quality Analysis and Evaluation of Eutrophication in a Swamp Wetland in the Permafrost Region of the Lesser Khingan Mountains, China

Wuyiling Nature Reserve is located at the edge of a frozen soil area and has abundant vegetation resources. It is an important area for evaluating the impact of frozen soil degradation on the environment. Analyzing the water quality and eutrophication characteristics of different swamps and water bodies can provide a basis for protecting the water environment of frozen soil areas. The pollution characteristics of different swamps and water bodies were analyzed and the Levenberg-Marquardt back-propagation neural network was used to evaluate water quality and eutrophication. Finally, the eutrophication evaluation was compared with the nutritional status index. The results demonstrated that (1) the highest concentrations of the total phosphorus (TP), total nitrogen, ammonia nitrogen (AN), permanganate index (PI), chemical oxygen demand, and chlorophyll were all present in the Tangwang River, which could be caused by the effects of human and agricultural activities along the river. The maximum average concentrations of TP, AN, and PI in the four wetland swamps appeared in the shrub swamp; (2) The water quality category of shrub, grass, and forest swamps in Wuyiling Nature Reserve was Class II, and the water quality category of floating swamps and the Tangwang River was Class I. The nutrient levels of the four marsh swamp wetlands and the Tangwang River were in the mid-range for many nutrients; and (3) the LM-BP neural network model, which was used to evaluate water eutrophication, and the results of a comprehensive evaluation of a nutritional status index were similar, further demonstrating the credibility of the evaluation results.

Response of bacterial communities to mining activity in the alpine area of the Tianshan Mountain region, China

Anthropogenic activities, such as mining, influence soil bacterial community composition and microbial distributions. In the current study, the patterns in microbial distribution and the environmental drivers shaping the soil bacterial community composition in the alpine mining area of the Tianshan Mountain region, China, were investigated, and the bacterial communities were analyzed using 16S rDNA pyrosequencing. The environmental factors and their relationships with the microbial community composition, structure, and diversity were also assessed. The soil organic carbon (SOC) concentration increased along the elevation gradient, with the highest concentration in the mining area, which increased microbial abundance and species richness. Some metals, like Ca, Cu, Pb, and Zn, accumulated significantly in the tailing area and were negatively correlated with the microbial community structure. Proteobacteria, Acidobacteria, Actinobacteria, and Verrucomicrobia were the dominant phyla; these dominant phyla were more abundant in the areas without mining than in the areas with mining at the same altitude. The relative abundance of Proteobacteria and Verrucomicrobia significantly increased along the elevation gradient, while that of Actinobacteria in the mining camp area was more than twice those in the other areas due to higher soil pH. Soil biomass was the highest in the valley. Collectively, these results elucidate the influence of anthropogenic mining activities on soil microbial communities in alpine mining soils and provide a basis for the future management of heavy metal-contaminated areas using the indigenous dominant bacterial phyla.

Soil microbial legacies differ following drying-rewetting and freezing-thawing cycles

Climate change alters frequencies and intensities of soil drying-rewetting and freezing-thawing cycles. These fluctuations affect soil water availability, a crucial driver of soil microbial activity. While these fluctuations are leaving imprints on soil microbiome structures, the question remains if the legacy of one type of weather fluctuation (e.g., drying-rewetting) affects the community response to the other (e.g., freezing-thawing). As both phenomenons give similar water availability fluctuations, we hypothesized that freezing-thawing and drying-rewetting cycles have similar effects on the soil microbiome. We tested this hypothesis by establishing targeted microcosm experiments. We created a legacy by exposing soil samples to a freezing-thawing or drying-rewetting cycle (phase 1), followed by an additional drying-rewetting or freezing-thawing cycle (phase 2). We measured soil respiration and analyzed soil microbiome structures. Across experiments, larger CO₂ pulses and changes in microbiome structures were observed after rewetting than thawing. Drying-rewetting legacy affected the microbiome and CO₂ emissions upon the following freezing-thawing cycle. Conversely, freezing-thawing legacy did not affect the microbial response to the drying-rewetting cycle. Our results suggest that drying-rewetting cycles have stronger effects on soil microbial communities and CO₂ production than freezing-thawing cycles and that this pattern is mediated by sustained changes in soil microbiome structures.

Short-term effects of snow cover manipulation on soil bacterial diversity and community composition

Winter snow cover is a major driver of soil microbial processes in high-latitude and high-altitude ecosystems. Warming-induced reduction in snow cover as predicted under future climate scenarios may shift soil bacterial communities with consequences for soil carbon and nutrient cycling. The underlying mechanisms, however, remain elusive. In the present study, we conducted a snow manipulation experiment in a Tibetan spruce forest to explore the immediate and intra-annual legacy effects of snow exclusion on soil bacterial communities. We analyzed bacterial diversity and community composition in the winter (i.e., the deep snow season), in the transitional thawing period, and in the middle of the growing season. Proteobacteria, Acidobacteria, and Actinobacteria were dominant phyla across the seasons and snow regimes. Bacterial diversity was generally not particularly sensitive to the absence of snow cover. However, snow exclusion positively affected Simpson diversity in the winter but not in the thawing period and the growing season. Bacterial diversity further tended to be higher in winter than in the growing season. In the winter, the taxonomic composition shifted in response to snow exclusion, while composition did not differ between exclusion and control plots in the thawing period and the growing season. Soil bacterial communities strongly varied across seasons, and the variations differed in specific groups. Both soil climatic factors (i.e., temperature and moisture) and soil biochemical variables partly accounted for the seasonal dynamics of bacterial communities. Taken together, our study indicates that soil bacterial communities in Tibetan forests are rather resilient to change in snow cover, at least at an intra-annual scale.

Linking changes in snow cover with microbial nitrogen cycling functional gene abundance and expression in agricultural soil

In eastern Canada, climate change-related warming and increased precipitation may alter winter snow cover, with potential consequences for soil conditions, nitrogen (N) cycling, and microbes. We conducted a 2-year field study aimed at determining the influence of snow removal, snow accumulation, and ambient snow in a potato-barley crop system on the abundance and expression of denitrifier (nirS, nirK, nosZ) and nitrifier (ammonium oxidizing archaeal (AOA) and bacterial (AOB) amoA) genes. Denitrifier and nitrifier abundance and expression results were compared to N2O production, soil atmosphere accumulation, and surface fluxes. In the first winter, nirK abundance was lowest while AOB abundance was greatest in snow accumulation treatments. In the second winter, greatest abundances were observed in the ambient snow treatment, which had greatest N2O accumulation and spring thaw fluxes, suggesting a link between microbial populations and biogeochemical functioning. Treatment effects on gene expression were limited, but greatest AOA, AOB, and nosZ expression was measured near 0°C and above 15°C, indicating that activity was promoted by freeze-thaw conditions and at summer temperatures. Overall, effects of changing snow depth on denitrifier and nitrifier abundance were not solely due to change in soil temperature, but also to soil moisture and/or interactions between these parameters.

Functional and Structural Responses of Arctic and Alpine Soil Prokaryotic and Fungal Communities Under Freeze-Thaw Cycles of Different Frequencies

Ongoing climate change involves increasing snow scarcity, which results in more frequent freeze-thaw cycles (FTCs) in polar and alpine soils. Although repeated FTCs have been shown to alter the structure and functions of soil microbial communities, a thorough understanding on the influence of FTCs frequency on polar and especially alpine soil microbiomes is still elusive. Here, we investigated the impact of repeated weekly vs. daily FTC frequencies on the structure and functions of prokaryotic and fungal communities from north- and south-exposed soils from two mountain ridges, one in the Arctic and one in the High-Alps. FTCs affected prokaryotic communities more strongly than fungal communities, where mainly cold-tolerant and opportunistic fungi (e.g., Mrakia, Mortierella) were responsive. Prokaryotic communities were more affected by weekly FTCs than by daily FTCs. Daily FTCs favored fast-growing bacteria (e.g., Arthrobacter), while oligotrophic and largely uncultured taxa (e.g., Verrucomicrobia) benefited from weekly FTCs. FTCs negatively affected microbial respiration but had minor impacts on C-, N- and P-acquiring enzymatic activities. Plausible pre-adaptation of the microbial communities to naturally occurring frequent FTCs at their site of origin did not show a clear influence on the microbial responses to the tested FTCs. Altogether, our study provides an integrative overview on potential structural and functional changes of soil microbial communities in polar and alpine regions in response to the projected increase in FTCs; therefore advancing our understanding on the impact of climate change in these rapidly changing ecosystems.

Soil Water Contents Control the Responses of Dissolved Nitrogen Pools and Bacterial Communities to Freeze-Thaw in Temperate Soils

Background

Freeze-thaw influences soil-dissolved nitrogen (N) pools due to variations in bacterial communities in temperate regions. The availability of soil water is important to soil biogeochemical cycles under frozen conditions. However, it is unclear how soil water content (SWC) mediates the effects of freeze-thaw on soil-dissolved N pools and bacterial communities.

Method

In this study, freeze-thaw microcosms were incubated at three levels of SWC, including 10% (air-dried soils), 15% (natural SWC), and 30% (wet soils). In addition to measuring soil-dissolved N pools, variations in bacterial communities were examined using high-throughput sequencing. Results and Conclusions. Total dissolved N (TDN), NO₃ ^--N, NH₄ ⁺-N, microbial biomass N (MBN), and net N mineralization rate (NNMR) were significantly influenced by SWC, freeze-thaw, and their interaction (NH₄ ⁺-N excluded). N immobilization was inhibited under both low and high SWC, which was accompanied by varied bacterial community composition. However, only higher SWC substantially modified the freeze-thaw effects on the soil-dissolved N pools, characterized by a decrease in N mineralization (especially for the content of NO₃ ^--N and NNMR) and an increase in N immobilization (MBN). These scenarios could be significantly correlated to variations in bacterial community composition based on redundancy analysis, especially by species belonging to Bacteroidetes, Nitrospirae, Alphaproteobacteria, Gemmatimonadetes, and Verrucomicrobia (Spearman's correlations). In conclusion, bacterial species passed through biotic (bacterial species) and abiotic filters (soil N pools) in response to freeze-thaw under varied SWC.Bacteroidetes, Nitrospirae, Alphaproteobacteria, Gemmatimonadetes, and Verrucomicrobia (Spearman's correlations). In conclusion, bacterial species passed through biotic (bacterial species) and abiotic filters (soil N pools) in response to freeze-thaw under varied SWC.Nitrospirae, Alphaproteobacteria, Gemmatimonadetes, and Verrucomicrobia (Spearman's correlations). In conclusion, bacterial species passed through biotic (bacterial species) and abiotic filters (soil N pools) in response to freeze-thaw under varied SWC.Alphaproteobacteria, Gemmatimonadetes, and Verrucomicrobia (Spearman's correlations). In conclusion, bacterial species passed through biotic (bacterial species) and abiotic filters (soil N pools) in response to freeze-thaw under varied SWC.Gemmatimonadetes, and Verrucomicrobia (Spearman's correlations). In conclusion, bacterial species passed through biotic (bacterial species) and abiotic filters (soil N pools) in response to freeze-thaw under varied SWC.Verrucomicrobia (Spearman's correlations). In conclusion, bacterial species passed through biotic (bacterial species) and abiotic filters (soil N pools) in response to freeze-thaw under varied SWC.

Impacts of different freeze-thaw treatments on the adsorption and desorption behaviors of Cd in black soil

Seasonal freeze-thaw cycle (FTC) is one of the key processes that affect heavy metal behaviors in soil. However, previous studies are mainly focused on extreme FTC treatments which may exaggerate the real FTC effects in the field. This study aimed to compare the effects of different FTC conditions on the adsorption and desorption behaviors of Cd in the surface black soil. Different minimum freezing temperatures (- 2, - 5, and - 15 °C), FTC rates (1 and 20 °C h^-1), freezing lengths (2 and 24 h), and FTC frequencies (1, 3, and 9) were investigated. The thawing temperature was set at 5 °C. The amplitude for the FTC rate, length, and frequency experiments ranged from 5 to - 2 °C. Our results indicated that the adsorption amounts of Cd presented an order of - 2 °C > - 15 °C > - 5 °C and 24 h > 2 h for different FTC amplitude- and freezing length-treated soils, and the adsorption amounts decreased with increasing FTC rate and frequency. Soil maximum adsorption amount of Cd increased with the increases of FTC frequency, freezing length, and FTC rate, while it decreased with the decreases of freezing temperature. Soil Cd desorption ratio decreased with the increases of FTC frequency, freezing length, and TFC rate, and it increased with the increasing freezing temperature. Our results suggested that FTC conditions can significantly influence the adsorption and desorption behaviors of heavy metal in soil.

Novel determination of effective freeze-thaw cycles as drivers of ecosystem change

Soil freeze-thaw cycles (FTCs) profoundly influence biophysical conditions and modify biogeochemical processes across many northern-hemisphere and alpine ecosystems. How FTCs will contribute to global processes in seasonally snow-covered ecosystems in the future is of particular importance as climate change progresses and winter snowpacks decline. Our understanding of these contributions is limited because there has been little consideration of inter- and intrayear variability in the characteristics of FTCs, in part due to a limited appreciation for which of these characteristics matters most with respect to a given biogeochemical process. Here, we introduce the concept of effective FTCs: those that are most likely linked to changes in key soil processes. We also propose a set of parameters to quantify and characterize effective FTCs using standard field soil temperature data. To put these proposed parameters into effective practice, we present FTCQuant, an R package of functions that quantifies FTCs based on a set of user-defined parameter criteria and, importantly, summarizes the individual characteristics of each FTC counted. To demonstrate the utility of these new concepts and tools, we applied the FTCQuant package to re-analyze data from two published studies to help explain over-winter changes to N₂ O emissions and wet-aggregate stability. We found that effective FTCs would be defined differently for each of these response variables and that effective FTCs provided a 76 and 33% increase in model fit for wet-aggregate stability and cumulative N₂ O emission, respectively, relative to conventional FTC quantification methods focusing on fluctuations around 0 °C. These results demonstrate the importance of identifying effective FTCs when scaling soil processes to regional or global levels. We hope our contributions will inform future deductions, hypothesis generation, and experimentation with respect to expected changes in freeze-thaw cycling globally.

Soil microbial community responses to climate extremes: resistance, resilience and transitions to alternative states

A major challenge for advancing our understanding of the functional role of soil microbial communities is to link changes in their structure and function under climate change. To address this challenge requires new understanding of the mechanisms that underlie the capacity of soil microbial communities to resist and recover from climate extremes. Here, we synthesize emerging understanding of the intrinsic and extrinsic factors that influence the resistance and resilience of soil microbial communities to climate extremes, with a focus on drought, and identify drivers that might trigger abrupt changes to alternative states. We highlight research challenges and propose a path for advancing our understanding of the resistance and resilience of soil microbial communities to climate extremes, and of their vulnerability to transitions to alternative states, including the use of trait-based approaches. We identify a need for new approaches to quantify resistance and resilience of soil microbial communities, and to identify thresholds for transitions to alternative states. We show how high-resolution time series coupled with gradient designs will enable detecting response patterns to interacting drivers. Finally, to account for extrinsic factors, we suggest that future studies should use environmental gradients to track soil microbial community responses to climate extremes in space and time. This article is part of the theme issue 'Climate change and ecosystems: threats, opportunities and solutions'.

Presence of spring-thaw N2O emissions are not linked to functional gene abundance in a drip-fertigated cropped soil in arid northwestern China

Spring-thaw represents a significant source for nitrous oxide (N₂O) emissions from fertilized croplands in temperate regions. In this study, we present surface N₂O fluxes, soil-profile N₂O concentrations at 5, 15, 30 and 60 cm depths along with the abundance of nitrifiers and denitrifiers over the winter and spring-thaw periods in an arid, drip- fertigated cotton field, which had received spring application of 240 kg N ha^-1 as urea alone (Urea), polymer-coated urea (ESN), and urea plus urease and nitrification inhibitors. Nitrous oxide emissions from December to April were generally unaffected by fertilizer treatments with a cumulative average of 186 g N ha^-1, accounting for 39% of the annual N₂O emissions. Emission peaks occurred at spring-thaw and coincided with increasing soil-profile N₂O concentrations at all depths, suggesting the burst in N₂O fluxes was due to new N₂O production, rather than a physical release of N₂O trapped in the soil profiles over winter. The abundance of nitrifier and denitrifier genes changed over the winter and spring-thaw periods but was not affected by fertilizer treatments from the previous spring, suggesting the abundance of N₂O-producing microorganism was more controlled by environmental conditions than N sources applied in the previous spring. The daily N₂O flux rate from December to April was positively correlated with soil temperature, water-filled pore space, and denitrifying enzyme activity, but not with the gene copy number of AOA, AOB, narG, nirS, nirK and nosZ, indicating that variation in the abundance of these genes was not contributing to the N₂O emissions. These results suggest that N₂O emissions in spring-thaw are substantial for drip-fertigated croplands in the arid regions and should be considered in the annual budgets. The environmental factors such as soil temperature and moisture are likely more important than the copy-numbers of N₂O-producing functional genes in driving the variability in spring-thaw emissions.

The responses of a soil bacterial community under saline stress are associated with Cd availability in long-term wastewater-irrigated field soil

Long-term wastewater irrigation impacts soil geochemical properties (salinity, pH and soil aggregates) and promotes the bioaccumulation of heavy metals to plants, which may change soil function, decrease soil health, decrease the productivity of farmland, and even cause land degradation. In this study, we explored the impact of saline stress on soil bacterial communities and Cd availability in long-term wastewater-irrigated field soil. Different amounts of saline stress by adding 0.1, 0.3 and 0.5% salts in a fixed proportion (NaCl: Na₂SO₄: NaHCO₃: Na₂CO₃ = 1:9:9:1) were applied in a 1-year, multiple cropping system with winter wheat (Triticum aestivum L.) and summer maize (Zea mays L.) in wastewater-polluted soil. Increased salinity in the soil increased Cd availability: compared with CK (no extra salts addition), addition of 0.5% mixed salts significantly increased soil available Cd up by 67.5% and grain Cd concentration by 43.7%, and adding 0.5% salts also resulted in the increases of soil pH (∼0.5 unit) and electric conductivity (97.4%). Soil saline stress significantly changed major soil microbes in Cd-contaminated soil. Increased saline stress enriched taxa in the Bacillaceae, Staphylococcaceae and Pseudomonadaceae bacterial families, while one family within Proteobacteria (Sphingomonadaceae) was the most sensitive biomarker, based on Cd contamination without saline stress in CK-treated soils. Structural equation modeling (SEM) analysis revealed that soil saline stress induced an increase in soil Cd availability that was regulated by the bacterial community.

Effects of freeze-thaw cycles on the physicochemical characteristics of animal manure and its phosphorus forms

The variations of phosphorus (P) in animal manure during freeze-thaw cycles (FTCs) profoundly influence on non-point source P loss in winter. Therefore, understanding how FTCs influence the physicochemical properties of animal manure and its P availability is crucial. In this study, the freeze-thaw treatment was performed by incubating the pig manure at -20 °C for 12 h and at 18 °C for 12 h. The freeze-only treatment was maintained at -20 °C as a control. In addition, the pig manure was kept at two moisture levels during the FTCs and sampled every five cycles. Six forms of P in the manure were extracted and analyzed. After 30 cycles, the dissolved organic carbon had increased from 10.49 to 13.56 g/kg, and the pH had decreased from 6.25 to 5.77. The particles originally >1000 μm were broken into particles <250 μm. The forms of P in manure shifted from Ca-P, occluded P, and residual P towards NH₄Cl-P, Al-P and Fe-P, resulting in a 23% increase in bioavailable P. These variations were highly coincident with the increase in moisture content and FTC frequency. The proportion of particles <38 μm increased by more than 2% after the FTCs, and the manure P was mainly concentrated in these particles, which might be readily washed away by the melt water. Overall, the study indicated that FTCs could enhance the bioavailability of P in pig manure and the mobility of particle-associated P. These findings are significant for reducing animal manure pollution in freeze-thaw season.

Exposure to Freeze-Thaw Conditions Increases Virulence of Pseudomonas aeruginosa to Drosophila melanogaster

Groundwater contamination by pathogenic bacteria present in land-applied manure poses a threat to public health. In cold climate regions, surface soil layers experience repeated temperature fluctuations around the freezing point known as freeze-thaw (FT) cycles. With global climate change, annual soil FT cycles have increased, and this trend is expected to continue. It is therefore of interest to understand how FT cycles impact soil microbial communities. This study investigates the influence of FT cycles on the growth, culturability, biofilm formation, and virulence of the bacterial opportunistic pathogen Pseudomonas aeruginosa, a ubiquitous bacterium found in soil and water, responsible for infections in immunocompromised hosts. Our findings demonstrate that exposure to FT had no significant effect on growth or culturability of the bacteria. However, FT treatment significantly increased biofilm formation and delayed the onset of swimming motility, factors that are important for the pathogenicity of P. aeruginosa. An in vivo study using a chronic infection model revealed an increase in the virulence of P. aeruginosa after FT exposure. These results suggest that the impact of climate change on natural FT cycles may be affecting the ecology of soil-borne pathogens and host-pathogen interactions in unexpected ways.

Niche Separation of Ammonia Oxidizers in Mudflat and Agricultural Soils Along the Yangtze River, China

Nitrification driven by ammonia oxidizers is a key step of nitrogen removal in estuarine environments. Spatial distribution characteristics of ammonia-oxidizers have been well understood in mudflats, but less studied in the agricultural soils next to mudflats, which also play an important role in nitrogen cycling of the estuarine ecosystem. In the present research, we investigated ammonia oxidizers' distributions along the Yangtze River estuary in Jiangsu Province, China, sampling soils right next to the estuary (mudflats) and the agricultural soils 100 m away. We determined the relationship between the abundance of amoA genes of ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) and the potential nitrification rates of the mudflats and agricultural soils. We also identified the environmental variables that correlated with the composition of the ammonia oxidizers' communities by 16S rRNA gene pyrosequencing. Results indicated that agricultural soils have significantly higher potential nitrification rates as well as the AOA abundance, and resulted in strong phylogenetic clustering only in AOA communities. The ammonia oxidizers' community compositions differed dramatically among the mudflat and agricultural sites, and stochasticity played a dominant role. The AOA communities were dominated by the Group 1.1a cluster at the mudflat, whereas the 54D9 and 29i4 clusters were dominant in agriculture soils. The dominant AOB communities in the mudflat were closely related to the Nitrosospira lineage, whereas the agricultural soils were dominated by the Nitrosomonas lineage. Soil organic matter and salinity were correlated with the ammonia oxidizers' community compositions.

Effects of snow depth manipulation on the releases of carbon, nitrogen and phosphorus from the foliar litter of two temperate tree species

The effect of snow depth on litter decomposition in cold regions has attracted substantial attention, but the importance of snow depth to the releases of carbon (C), nitrogen (N), and phosphorus (P) and the underlying mechanisms remain unclear. The releases of C, N, and P from the foliar litter of Pinus koraiensis and Quercus mongolica in response to snow depth changes were examined for 12 months in a temperate forest of Northeast China via a snow depth manipulation experiment that included snow-addition (SA), snow-removal (SR), and control (CK) treatments. We found that the SA treatment promoted the releases of C, N, and P from the foliar litter during the snow-covered season but slowed these processes during the following snow-free season; however, the SR treatment produced the opposite results. Compared with the CK treatment, the SA treatment increased the annual releases of C, N, and P by 2.52%, 0.50%, and 4.68%, respectively, whereas the SR treatment decreased the corresponding values. The elemental release during the snow-covered season was associated with the freeze-thaw cycle (FTC) and microbial biomass, whereas that during the snow-free season was mainly controlled by the temperature of the litter layer. Our findings indicated that the snow depth promoted the releases of C, N and P from the foliar litter of the two tree species, especially during the snow-covered season. These results deepen the understanding of the biogeochemical cycling in cold regions under global climate change scenarios.

Compounded Disturbance Chronology Modulates the Resilience of Soil Microbial Communities and N-Cycle Related Functions

There is a growing interest of overcoming the uncertainty related to the cumulative impacts of multiple disturbances of different nature in all ecosystems. With global change leading to acute environmental disturbances, recent studies demonstrated a significant increase in the possible number of interactions between disturbances that can generate complex, non-additive effects on ecosystems functioning. However, how the chronology of disturbances can affect ecosystems functioning is unknown even though there is increasing evidence that community assembly history dictates ecosystems functioning. Here, we experimentally examined the importance of the disturbances chronology in modulating the resilience of soil microbial communities and N-cycle related functions. We studied the impact of 3-way combinations of global change related disturbances on total bacterial diversity and composition, on the abundance of N-cycle related guilds and on N-cycle related activities in soil microcosms. The model pulse disturbances, i.e., short-term ceasing disturbances studied were heat, freeze-thaw and anaerobic cycles. We determined that repeated disturbances of the same nature can either lead to the resilience or to shifts in N-cycle related functions concomitant with diversity loss. When considering disturbances of different nature, we demonstrated that the chronology of compounded disturbances impacting an ecosystem determines the aggregated impact on ecosystem properties and functions. Thus, after 3 weeks the impact of the 'anoxia/heat/freeze-thaw' sequence was almost two times stronger than that of the 'heat/anoxia/freeze-thaw' sequence. Finally, we showed that about 29% of the observed variance in ecosystem aggregated impact caused by series of disturbances could be attributed to changes in the microbial community composition measured by weighted UniFrac distances. This indicates that surveying changes in bacterial community composition can help predict the strength of the impact of compounded disturbances on N-related functions and properties.

Effect of Freeze-Thaw on a Midtemperate Soil Bacterial Community and the Correlation Network of Its Members

Freeze-thaw (FT) events can influence soil functions. However, the overall impact of FTs on soil bacterial communities, especially in temperate regions, remains unclear. In this study, soil samples were collected from a midtemperate region in the northeast of China, and three incubation tests were then designed with varied FT amplitudes (i.e., at a freezing temperature of −15, −9, and −3°C, respectively), frequencies of FT cycles (i.e., under one, six, and 15 FT cycles, respectively) and soil water content (SWC) values (i.e., at 10 and 30% SWC, respectively). High-throughput sequencing of 16S rRNA gene amplicons was performed and the functional profile was further predicted based on these data, in addition to examinations of bulk microbial properties. Data analyses suggested that, first of all, the FT amplitude significantly influenced the bulk microbial properties and bacterial community (composition and function); certain taxa showed a nonlinear response to the three amplitudes. Next, compared to a single FTC, multiple FT cycles had only minor effects on the bacterial functional capabilities, although the bulk microbial properties changed significantly after multiple FT cycles. In addition, the bacterial response to FTs was influenced by the SWC, characterized by the significantly different bacterial community structures (composition and function) and the opposite trends of enzyme activities. Finally, RDA plots and a correlation network assembled data from all soil samples across the three tests and suggested that bacterial response trajectories changed because some species were influenced mainly by other species (i.e., biotic environment) during FT processes.

Vertical variation of a black soil's properties in response to freeze-thaw cycles and its links to shift of microbial community structure

Soil freeze-thaw cycles (FTCs) change soil physical, chemical, and biological properties, however information regarding their vertical variations in response to FTCs is limited. In this work, black soil (silty loam) packed soil columns were exposed to 8 FTCs, and soil properties were determined for each of vertical layer of soil columns. The results revealed that after FTCs treatment, moisture and electrical conductivity (EC) salinity tended to increase in upper soil layers. Increments of ammonium nitrogen (NH₄⁺-N) and nitrate nitrogen (NO₃^--N) in top layers (0-10cm) were greater than those in other layers, and increments of water soluble organic carbon (WSOC) and decrease of microbial biomass carbon (MBC) in middle layers (10-20cm) were greater than those in both ends. Overall, microbial community structure was mainly influenced by soil physical properties (moisture and EC) and chemical properties (pH and WSOC). For bacterial (archaeal) and fungal communities, soil physical properties, chemical properties and their interaction explained 79.73% and 82.66% of total variation, respectively. Our results provided insights into the vertical variation of soil properties caused by FTCs, and such variation had a major impact on the change of structure and composition of soil bacterial and fungal communities.

Responses of terrestrial nitrogen pools and dynamics to different patterns of freeze-thaw cycle: A meta-analysis

Altered freeze-thaw cycle (FTC) patterns due to global climate change may affect nitrogen (N) cycling in terrestrial ecosystems. However, the general responses of soil N pools and fluxes to different FTC patterns are still poorly understood. Here, we compiled data of 1519 observations from 63 studies and conducted a meta-analysis of the responses of 17 variables involved in terrestrial N pools and fluxes to FTC. Results showed that under FTC treatment, soil NH₄⁺ , NO₃^- , NO₃^- leaching, and N₂ O emission significantly increased by 18.5%, 18.3%, 66.9%, and 144.9%, respectively; and soil total N (TN) and microbial biomass N (MBN) significantly decreased by 26.2% and 4.7%, respectively; while net N mineralization or nitrification rates did not change. Temperate and cropland ecosystems with relatively high soil nutrient contents were more responsive to FTC than alpine and arctic tundra ecosystems with rapid microbial acclimation. Therefore, altered FTC patterns (such as increased duration of FTC, temperature of freeze, amplitude of freeze, and frequency of FTC) due to global climate warming would enhance the release of inorganic N and the losses of N via leaching and N₂ O emissions. Results of this meta-analysis help better understand the responses of N cycling to FTC and the relationships between FTC patterns and N pools and N fluxes.

Shifts in soil bacterial and archaeal communities during freeze-thaw cycles in a seasonal frozen marsh, Northeast China

Diurnal freeze-thaw cycles (FTCs) occur in the spring and autumn in boreal wetlands as soil temperatures rise above freezing during the day and fall below freezing at night. A surge in methane emissions from these systems is frequently documented during spring FTCs, accounting for a large portion of annual emissions. In boreal wetlands, methane is produced as a result of syntrophic microbial processes, mediated by a consortium of fermenting bacteria and methanogenic archaea. Further research is needed to determine whether FTCs enhance microbial metabolism related to methane production through the cryogenic decomposition of soil organic matter. Previous studies observed large methane emissions during the spring thawed period in the Sanjiang seasonal frozen marsh of Northeast China. To investigate how FTCs impact the soil microbial community and methanogen abundance and activity, we collected soil cores from the Sanjiang marsh during the FTCs of autumn 2014 and spring 2015. Methanogens were investigated based on expression level of the methyl coenzyme reductase (mcrA) gene, and soil bacterial and archaeal community structures were assessed by 16S rRNA gene sequencing. The results show that a decrease in bacteria and methanogens followed autumns FTCs, whereas an increase in bacteria and methanogens was observed following spring FTCs. The bacterial community structure, including Firmicutes and certain Deltaproteobacteria, was changed following autumn FTCs. Temperature and substrate were the primary factors regulating the abundance and composition of the microbial communities during autumn FTCs, whereas no factors significantly contributing to spring FTCs were identified. Acetoclastic methanogens from order Methanosarcinales were the dominant group at the beginning and end of both the autumn and spring FTCs. Active methanogens were significantly more abundant during the diurnal thawed period, indicating that the increasing number of FTCs predicted to occur with global climate change could potentially promote CH₄ emissions in seasonal frozen marshes.

Effects of warming and nitrogen fertilization on GHG flux in an alpine swamp meadow of a permafrost region

Uncertainties in the seasonal changes of greenhouse gases (GHG) fluxes in wetlands limit our accurate understanding of the responses of permafrost ecosystems to future warming and increased nitrogen (N) deposition. Therefore, in an alpine swamp meadow in the hinterland of the Qinghai-Tibet Plateau, a simulated warming with N fertilization experiment was conducted to investigate the key GHG fluxes (ecosystem respiration [Re], CH₄ and N₂O) in the early (EG), mid (MG) and late (LG) growing seasons. Results showed that warming (6.2 °C) increased the average seasonal Re by 30.9% and transformed the alpine swamp meadow from a N₂O sink to a source, whereas CH₄ flux was not significantly affected. N fertilization (4 g N m^-2 a^-1) alone had no significant effect on the fluxes of GHGs. The interaction of warming and N fertilization increased CH₄ uptake by 69.6% and N₂O emissions by 26.2% compared with warming, whereas the Re was not significantly affected. During the EG, although the soil temperature sensitivity of the Re was the highest, the effect of warming on the Re was the weakest. The primary driving factor for Re was soil surface temperature, whereas soil moisture controlled CH₄ flux, and the N₂O flux was primarily affected by rain events. The results indicated: (i) increasing N deposition has both positive and negative feedbacks on GHG fluxes in response to climate warming; (ii) during soil thawing process at active layer, low temperature of deep frozen soils have a negative contribution to Re in alpine ecosystems; and (iii) although these alpine wetland ecosystems are buffers against increased temperature, their feedbacks on climate change cannot be ignored because of the large soil organic carbon pool and high temperature sensitivity of the Re.

Decoupling of microbial carbon, nitrogen, and phosphorus cycling in response to extreme temperature events

Predicted changes in the intensity and frequency of climate extremes urge a better mechanistic understanding of the stress response of microbially mediated carbon (C) and nutrient cycling processes. We analyzed the resistance and resilience of microbial C, nitrogen (N), and phosphorus (P) cycling processes and microbial community composition in decomposing plant litter to transient, but severe, temperature disturbances, namely, freeze-thaw and heat. Disturbances led temporarily to a more rapid cycling of C and N but caused a down-regulation of P cycling. In contrast to the fast recovery of the initially stimulated C and N processes, we found a slow recovery of P mineralization rates, which was not accompanied by significant changes in community composition. The functional and structural responses to the two distinct temperature disturbances were markedly similar, suggesting that direct negative physical effects and costs associated with the stress response were comparable. Moreover, the stress response of extracellular enzyme activities, but not that of intracellular microbial processes (for example, respiration or N mineralization), was dependent on the nutrient content of the resource through its effect on microbial physiology and community composition. Our laboratory study provides novel insights into the mechanisms of microbial functional stress responses that can serve as a basis for field studies and, in particular, illustrates the need for a closer integration of microbial C-N-P interactions into climate extremes research.

Microbial Diversity of Browning Peninsula, Eastern Antarctica Revealed Using Molecular and Cultivation Methods

Browning Peninsula is an ice-free polar desert situated in the Windmill Islands, Eastern Antarctica. The entire site is described as a barren landscape, comprised of frost boils with soils dominated by microbial life. In this study, we explored the microbial diversity and edaphic drivers of community structure across this site using traditional cultivation methods, a novel approach the soil substrate membrane system (SSMS), and culture-independent 454-tag pyrosequencing. The measured soil environmental and microphysical factors of chlorine, phosphate, aspect and elevation were found to be significant drivers of the bacterial community, while none of the soil parameters analyzed were significantly correlated to the fungal community. Overall, Browning Peninsula soil harbored a distinctive microbial community in comparison to other Antarctic soils comprised of a unique bacterial diversity and extremely limited fungal diversity. Tag pyrosequencing data revealed the bacterial community to be dominated by Actinobacteria (36%), followed by Chloroflexi (18%), Cyanobacteria (14%), and Proteobacteria (10%). For fungi, Ascomycota (97%) dominated the soil microbiome, followed by Basidiomycota. As expected the diversity recovered from culture-based techniques was lower than that detected using tag sequencing. However, in the SSMS enrichments, that mimic the natural conditions for cultivating oligophilic “k-selected” bacteria, a larger proportion of rare bacterial taxa (15%), such as Blastococcus, Devosia, Herbaspirillum, Propionibacterium and Methylocella and fungal (11%) taxa, such as Nigrospora, Exophiala, Hortaea, and Penidiella were recovered at the genus level. At phylum level, a comparison of OTU's showed that the SSMS shared 21% of Acidobacteria, 11% of Actinobacteria and 10% of Proteobacteria OTU's with soil. For fungi, the shared OTUs was 4% (Basidiomycota) and <0.5% (Ascomycota). This was the first known attempt to culture microfungi using the SSMS which resulted in an increase in diversity from 14 to 57 microfungi OTUs compared to standard cultivation. Furthermore, the SSMS offers the opportunity to retrieve a greater diversity of bacterial and fungal taxa for future exploitation.

Effects of a controlled freeze-thaw event on dissolved and colloidal soil organic matter

This study investigated the effects of the freezing and thawing that accompany the warming process on the composition of the soil organic matter in the dissolved and colloidal fractions. Temperate soil samples were incubated in a refrigerator at 2 °C for 4 weeks and compared with those frozen at -20 °C in the second week followed by thawing at 2 °C to study a freeze-thaw effect with minimal effect from the thawing temperature. The freeze-thaw group was compared with those incubated at 25 °C in the last week to investigate a warming effect after thawing. Thawing at 2 °C after freezing at -20 °C increased the dissolved organic carbon (DOC), but decreased colloidal Ca. The subsequent warming condition greatly increased both DOC and colloidal Ca. The colloidal organic carbon (COC) and dissolved Ca showed rather subtle changes in response to the freeze-thaw and warming treatments compared to the changes in DOC and colloidal Ca. The fluorescence excitation-emission matrix (EEM) and Fourier transformation-infrared spectrometry (FT-IR) results showed that the freeze-thaw and warming treatments gave the opposite effects on the compositions of dissolved humic-like substances, polysaccharides or silicates, and aliphatic alcohols. A principal component analysis (PCA) with the DOC, fluorescence EEM, and FT-IR spectra produced two principal components that successfully distinguished the effects of the freeze-thaw and warming treatments. Due to the contrasting effects of the freeze-thaw and warming treatments, the overall effects of freeze-thaw events in nature on the dissolved and colloidal soil organic matter could vary depending on the thawing temperature.

Atmospheric emission of nitric oxide and processes involved in its biogeochemical transformation in terrestrial environment

Nitric oxide (NO) is an intra- and intercellular gaseous signaling molecule with a broad spectrum of regulatory functions in biological system. Its emissions are produced by both natural and anthropogenic sources; however, soils are among the most important sources of NO. Nitric oxide plays a decisive role in environmental-atmospheric chemistry by controlling the tropospheric photochemical production of ozone and regulates formation of various oxidizing agents such as hydroxyl radical (OH), which contributes to the formation of acid of precipitates. Consequently, for developing strategies to overcome the deleterious impact of NO on terrestrial ecosystem, it is mandatory to have reliable information about the exact emission mechanism and processes involved in its transformation in soil-atmospheric system. Although the formation process of NO is a complex phenomenon and depends on many physicochemical characteristics, such as organic matter, soil pH, soil moisture, soil temperature, etc., this review provides comprehensive updates about the emission characteristics and biogeochemical transformation mechanism of NO. Moreover, this article will also be helpful to understand the processes involved in the consumption of NO in soils. Further studies describing the functions of NO in biological system are also discussed.

Nitrogen deposition may enhance soil carbon storage via change of soil respiration dynamic during a spring freeze-thaw cycle period

As crucial terrestrial ecosystems, temperate forests play an important role in global soil carbon dioxide flux, and this process can be sensitive to atmospheric nitrogen deposition. It is often reported that the nitrogen addition induces a change in soil carbon dioxide emission in growing season. However, the important effects of interactions between nitrogen deposition and the freeze-thaw-cycle have never been investigated. Here we show nitrogen deposition delays spikes of soil respiration and weaken soil respiration. We found the nitrogen addition, time and nitrogen addition×time exerted the negative impact on the soil respiration of spring freeze-thaw periods due to delay of spikes and inhibition of soil respiration (p < 0.001). The values of soil respiration were decreased by 6% (low-nitrogen), 39% (medium-nitrogen) and 36% (high-nitrogen) compared with the control. And the decrease values of soil respiration under medium- and high-nitrogen treatments during spring freeze-thaw-cycle period in temperate forest would be approximately equivalent to 1% of global annual C emissions. Therefore, we show interactions between nitrogen deposition and freeze-thaw-cycle in temperate forest ecosystems are important to predict global carbon emissions and sequestrations. We anticipate our finding to be a starting point for more sophisticated prediction of soil respirations in temperate forests ecosystems.

Temperature effects on net greenhouse gas production and bacterial communities in arctic thaw ponds

One consequence of High Arctic permafrost thawing is the formation of small ponds, which release greenhouse gases (GHG) from stored carbon through microbial activity. Under a climate with higher summer air temperatures and longer ice-free seasons, sediments of shallow ponds are likely to become warmer, which could influence enzyme kinetics or select for less cryophilic microbes. There is little data on the direct temperature effects on GHG production and consumption or on microbial communities' composition in Arctic ponds. We investigated GHG production over 16 days at 4°C and 9°C in sediments collected from four thaw ponds. Consistent with an enzymatic response, production rates of CO2 and CH4 were significantly greater at higher temperatures, with Q10 varying from 1.2 to 2.5. The bacterial community composition from one pond was followed through the incubation by targeting the V6-V8 variable regions of the 16S rRNA gene and 16S rRNA. Several rare taxa detected from rRNA accounted for significant community compositional changes. At the higher temperature, the relative community contribution from Bacteroidetes decreased by 15% with compensating increases in Betaproteobacteria, Alphaproteobacteria, Firmicutes, Acidobacteria, Verrucomicrobia and Actinobacteria. The increase in experimental GHG production accompanied by changes in community indicates an additional factor to consider in sediment environments when evaluating future climate scenarios.

Diversity, structure, and size of N(2)O-producing microbial communities in soils--what matters for their functioning?

Nitrous oxide (N(2)O) is mainly generated via nitrification and denitrification processes in soils and subsequently emitted into the atmosphere where it causes well-known radiative effects. How nitrification and denitrification are affected by proximal and distal controls has been studied extensively in the past. The importance of the underlying microbial communities, however, has been acknowledged only recently. Particularly, the application of molecular methods to study nitrifiers and denitrifiers directly in their habitats enabled addressing how environmental factors influence the diversity, community composition, and size of these functional groups in soils and whether this is of relevance for their functioning and N(2)O production. In this review, we summarize the current knowledge on community-function interrelationships. Aerobic nitrification (ammonia oxidation) and anaerobic denitrification are clearly under different controls. While N(2)O is an obligatory intermediate in denitrification, its production during ammonia oxidation depends on whether nitrite, the end product, is further reduced. Moreover, individual strains vary strongly in their responses to environmental cues, and so does N(2)O production. We therefore conclude that size and structure of both functional groups are relevant with regard to production and emission of N(2)O from soils. Diversity affects on function, however, are much more difficult to assess, as it is not resolved as yet how individual nitrification or denitrification genotypes are related to N(2)O production. More research is needed for further insights into the relation of microbial communities to ecosystem functions, for instance, how the actively nitrifying or denitrifying part of the community may be related to N(2)O emission.

The subzero microbiome: microbial activity in frozen and thawing soils

Most of the Earth's biosphere is characterized by low temperatures (<5°C) and cold-adapted microorganisms are widespread. These psychrophiles have evolved a complex range of adaptations of all cellular constituents to counteract the potentially deleterious effects of low kinetic energy environments and the freezing of water. Microbial life continues into the subzero temperature range, and this activity contributes to carbon and nitrogen flux in and out of ecosystems, ultimately affecting global processes. Microbial responses to climate warming and, in particular, thawing of frozen soils are not yet well understood, although the threat of microbial contribution to positive feedback of carbon flux is substantial. To date, several studies have examined microbial community dynamics in frozen soils and permafrost due to changing environmental conditions, and some have undertaken the complicated task of characterizing microbial functional groups and how their activity changes with changing conditions, either in situ or by isolating and characterizing macromolecules. With increasing temperature and wetter conditions microbial activity of key microbes and subsequent efflux of greenhouse gases also increase. In this review, we aim to provide an overview of microbial activity in seasonally frozen soils and permafrost. With a more detailed understanding of the microbiological activities in these vulnerable soil ecosystems, we can begin to predict and model future expectations for carbon release and climate change.

Impact of dry-wet and freeze-thaw events on pesticide mineralizing populations and their activity in wetland ecosystems: A microcosm study

Riparian wetlands are proposed to mitigate diffuse pollution of surface water by pesticides in agricultural landscapes. Wetland ecosystems though are highly dynamic environments and seasonal disturbances such as freezing and drying can affect microbial population sizes in the sediment and their functionality including pesticide biodegradation, which has hardly been studied. This study examined the effect of artificially induced dry-wet or freeze-thaw events on the mineralization of the pesticides isoproturon (IPU) and 2-methoxy-4-chlorophenoxy acetic acid (MCPA) in wetland microcosms, either without or with prior enrichment of IPU/MCPA degrading populations. Without prior enrichment, mineralization of IPU and MCPA was significantly reduced after exposure to especially freeze-thaw events, as evidenced by lower mineralization rates and longer lag times compared to non-exposed microcosms. However, herbicide mineralization kinetics correlated poorly with cell numbers of herbicide mineralizers as estimated by a most probable number (MPN) approach and the number of IPU and MCPA mineralizers was unexpectedly higher in freeze-thaw and dry-wet cycle exposed setups compared to the control setups. This suggested that the observed effects of season-bound disturbances were due to other mechanisms than decay of pesticide mineralizers. In addition, in systems in which the growth of pesticide mineralizing bacteria was stimulated by amendment of IPU and MCPA, exposure to a freeze-thaw or dry-wet event only marginally affected the herbicide mineralization kinetics. Our results show that season bound environmental disturbances can affect pesticide mineralization kinetics in wetlands but that this effect can depend on the history of pesticide applications.

Gap locations influence the release of carbon, nitrogen and phosphorus in two shrub foliar litter in an alpine fir forest

Gap formation favors the growth of understory plants and affects the decomposition process of plant debris inside and outside of gaps. Little information is available regarding how bioelement release from shrub litter is affected by gap formation during critical periods. The release of carbon (C), nitrogen (N), and phosphorus (P) in the foliar litter of Fargesia nitida and Salix paraplesia in response to gap locations was determined in an alpine forest of the eastern Qinghai-Tibet Plateau via a 2-year litter decomposition experiment. The daily release rates of C, N, and P increased from the closed canopy to the gap centers during the two winters, the two later growing seasons and the entire 2 years, whereas this trend was reversed during the two early growing seasons. The pairwise ratios among C, N, and P converged as the litter decomposition proceeded. Compared with the closed canopy, the gap centers displayed higher C:P and N:P ratio but a lower C:N ratio as the decomposition proceeded. Alpine forest gaps accelerate the release of C, N, and P in decomposing shrub litter, implying that reduced snow cover resulting from vanishing gaps may inhibit the release of these elements in alpine forests.