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

Metagenomic insights into microbial community structure and metabolism in alpine permafrost on the Tibetan Plateau

Permafrost, characterized by its frozen soil, serves as a unique habitat for diverse microorganisms. Understanding these microbial communities is crucial for predicting the response of permafrost ecosystems to climate change. However, large-scale evidence regarding stratigraphic variations in microbial profiles remains limited. Here, we analyze microbial community structure and functional potential based on 16S rRNA gene amplicon sequencing and metagenomic data obtained from an ∼1000 km permafrost transect on the Tibetan Plateau. We find that microbial alpha diversity declines but beta diversity increases down the soil profile. Microbial assemblages are primarily governed by dispersal limitation and drift, with the importance of drift decreasing but that of dispersal limitation increasing with soil depth. Moreover, genes related to reduction reactions (e.g., ferric iron reduction, dissimilatory nitrate reduction, and denitrification) are enriched in the subsurface and permafrost layers. In addition, microbial groups involved in alternative electron accepting processes are more diverse and contribute highly to community-level metabolic profiles in the subsurface and permafrost layers, likely reflecting the lower redox potential and more complicated trophic strategies for microorganisms in deeper soils. Overall, these findings provide comprehensive insights into large-scale stratigraphic profiles of microbial community structure and functional potentials in permafrost regions.

Response of wheat (Triticum aestivum L. cv.) to the coexistence of micro-/nanoplastics and phthalate esters alter its growth environment

Micro- and nano-plastics (MPs/NPs) have emerged as a global pollutant, yet their impact on the root environment of plants remains scarcely explored. Given the widespread pollution of phthalate esters (PAEs) in the environment due to the application of plastic products, the co-occurrence of MPs/NPs and PAEs could potentially threaten the growth medium of plants. This study examined the combined effects of polystyrene (PS) MPs/NPs and PAEs, specifically dibutyl phthalate and di-(2-ethylhexyl) phthalate, on the chemical properties and microbial communities in a wheat growth medium. It was observed that the co-pollution with MPs/NPs and PAEs significantly increased the levels of oxalic acid, formic acid, and total organic carbon (TOC), enhanced microbial activity, and promoted the indigenous input and humification of dissolved organic matter, while slightly reducing the pH of the medium solution. Although changes in chemical indices were primarily attributed to the addition of PAEs, no interaction between PS MPs/NPs and PAEs was detected. High-throughput sequencing revealed no significant change in microbial diversity within the media containing both PS MPs/NPs and PAEs compared to the media with PS MPs/NPs alone. However, alterations in energy and carbohydrate metabolism were noted. Proteobacteria dominated the bacterial communities in the medium solution across all treatment groups, followed by Bacteroidetes and Verrucomicrobia. The composition and structure of these microbial communities varied with the particle size of the PS in both single and combined treatments. Moreover, variations in TOC, oxalic acid, and formic acid significantly influenced the bacterial community composition in the medium, suggesting they could modulate the abundance of dominant bacteria to counteract the stress from exogenous pollutants. This research provides new insights into the combined effects of different sizes of PS particles and another abiotic stressor in the wheat root environment, providing a critical foundation for understanding plant adaptation in complex environmental conditions.

Freeze-thaw aged polyethylene and polypropylene microplastics alter enzyme activity and microbial community composition in soil

In cold regions, microplastics (MPs) in the soil undergo freeze-thaw (FT) aging process. Little is known about how FT aged MPs influence soil physico-chemical properties and microbial communities. Here, two environmentally relevant concentrations (50 and 500 mg/kg) of 50 and 500 µm polyethylene (PE) and polypropylene (PP) MPs treated soils were subjected to 45-day FT cycles (FTCs). Results showed that MPs experienced surface morphology, hydrophobicity and crystallinity alterations after FTCs. After 45-day FTCs, the soil urease (SUE) activity in control (MPs-free group that underwent FTCs) was 33.49 U/g. SUE activity in 50 µm PE group was reduced by 19.66 %, while increased by 21.16 % and 37.73 % in 500 µm PE and PP groups compared to control. The highest Shannon index was found in 50 µm PP-MPs group at 50 mg/kg, 2.26 % higher than control (7.09). Compared to control (average weighted degree=8.024), all aged MPs increased the complexity of network (0.19-1.43 %). Bacterial biomarkers of aged PP-MPs were associated with pollutant degradation. Aged PP-MPs affected genetic information, cellular processes, and disrupted the biosynthesis of metabolites. This study provides new insights into the potential hazards of MPs after FTCs on soil ecosystem in cold regions.

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.

Vertical differentiation drives the changes in the main microflora and metabolites of carbon and nitrogen cycling in the early freeze-thaw period in the Qinghai Lake Basin

Global climate change has altered the frequency of soil freeze-thaw cycles, but the response of soil microorganisms to different elevation gradients during the early freeze-thaw period remains unclear. So far, the influence of the altitudinal gradient on the microbial community and metabolic characteristics in the early freeze-thaw period of the Qinghai Lake Basin remains unclear. To this end, we collected soil at different elevations in the early freeze-thaw period of the Qinghai Lake Basin and investigated the influence of the elevation gradient on soil microbial community characteristics and soil metabolic processes as well as the corresponding environmental driving mechanism by high-throughput sequencing and LC-MS (Liquid Chromatograph-Mass Spectrometer) nontargeted metabolite determination. The results showed that Proteobacteria were the dominant microflora in the Qinghai Lake Basin. The dominant phyla associated with carbon and nitrogen are Proteobacteria and Firmicutes, both of which are significantly affected by elevation. The soil physicochemical factors jointly affected the soil microbial communities and metabolism. Total phosphorus nitrate nitrogen and pH were the main driving factors of the microbial community, and metabolites were sensitive to changes in chemical factors. In short, the microbial community structure and function, soil physicochemical factors and soil metabolic processes were significantly affected by the altitudinal gradient in the early freeze-thaw period, while the microbial community diversity showed no significant response to the altitudinal gradient. Additionally, a high potassium content in the soil may promote the growth and reproduction of bacteria associated with carbon and nitrogen cycling, as well as the production of metabolites.

Corn straw biochar addition elevated phosphorus availability in a coastal salt-affected soil under the conditions of different halophyte litter input and moisture contents

Improving salt-affected soil health using different strategies is of great significance for Sustainable Development Goals. The effects of biochar as a sustainable carbon negative soil amendment on phosphorous (P) pools in the degraded salt-affected soils of the of coastal wetlands (as one of the primary blue carbon ecosystems) with halophyte litter input under different water conditions (the two intrinsic characteristics of coastal wetlands) are poorly understood. Thus, a corn straw derived biochar (CBC) was added into a coastal salt-affected soil collected from the Yellow River Delta to investigate its effect on P fractions and availability under the input of three different local halophyte litters (i.e., Suaeda salsa, Imperata cylindrica and Phragmites australis) and under the unflooded and flooded water conditions. The results showed that the individual input of Suaeda salsa increased soil P availability by 28.2-40.9 %, but Imperata cylindrica and Phragmites australis had little effect on P availability. CBC individual amendment more efficiently enhanced P availability in the unflooded soil than the flooded soil. However, the co-amendment of CBC with litters showed little synergistic effect on P availability. CBC sharply increased the proportion of Ca-bound labile P fraction, but moderately lifted the proportion of Al/Fe-bound mediumly labile P fraction. CBC-enhanced P availability and altered inorganic P fractions were mainly resulted from the provision of labile inherent P by biochar, improved soil properties (i.e., increased CEC), and altered bacterial community composition (i.e., elevated abundance of P-solubilizing and phosphate-accumulating bacteria). These findings give new insights into understanding P biogeochemical cycling in the coastal salt-affected soils amended with biochars, and will be helpful to develop biochar-based technologies for enhancing P pools and improving soil health of the blue carbon ecosystems.

Shifts of soil archaeal nitrification and methanogenesis with elevation in water level fluctuation zone of the three Gorges Reservoir, China

The water level fluctuation zone is a unique ecological zone exposed to long-term drying and flooding and plays a critical role in the transport and transformation of carbon and nitrogen materials in reservoir-river systems. Archaea are a vital component of soil ecosystems in the water level fluctuation zones, however, the distribution and function of archaeal communities in responde to long-term wet and dry alternations are still unclear. The community structure of archaea in the drawdown areas at various elevations of the Three Gorges Reservoir was investigated by selecting surface soils (0-5 cm) of different inundation durations at three sites from upstream to downstream according to the flooding pattern. The results revealed that prolonged flooding and drying increased the community diversity of soil archaea, with ammonia-oxidizing archaea being the dominant species in non-flooded regions, while methanogenic archaea were abundant in soils that had been flooded for an extended period of time. Long-term alternation of wetting and drying increases methanogenesis but decreases nitrification. It was determined that soil pH, NO3--N, TOC and TN are significant environmental factors affecting the composition of soil archaeal communities (P = 0.02). Long-term flooding and drying changed the community composition of soil archaea by altering environmental factors, which in turn influenced nitrification and methanogenesis in soils at different elevations. These findings contribute to our understanding of soil carbon and nitrogen transport transformation processes in the water level fluctuation zone as well as the effects of long-term wet and dry alternation on soil carbon and nitrogen cycles. The results of this study can provide a basis for ecological management, environmental management, and long-term operation of reservoirs in water level fluctuation zones.

Mediative Mechanism of Freezing/Thawing on Greenhouse Gas Emissions in an Inland Saline-Alkaline Wetland: a Metagenomic Analysis

Inland saline-alkaline wetlands distributed in the mid-high latitude have repeatedly experienced freezing and thawing. However, the response of greenhouse gas (GHG) emission and microbially-mediated carbon and nitrogen cycle to freezing and thawing remains unclear. We monitored the GHG flux in an inland saline-alkaline wetland and found that, compared with the growth period, the average CO2 flux decreased from 171.99 to 76.61-80.71 mg/(m2‧h), the average CH4 flux decreased from 10.72 to 1.96-3.94 mg/(m2‧h), and the average N2O flux decreased from 56.17 to - 27.14 to - 20.70 μg/(m2‧h). Freezing and thawing significantly decreased the relative abundance of functional genes involved in carbon and nitrogen cycles. The aceticlastic methanogenic pathway was the main methanogenic pathway, whereas the Candidatus Methylomirabilis oxyfera was the most abundant methane oxidizer in the wetland. Ammonia-oxidizing archaea and denitrifier belonging to proteobacteria was the major microbial N2O source, while bacteria within clade II nosZ was the major microbial N2O sink. Freezing and thawing reduced the relative abundance of these genes, leading to a decrease in GHG flux.

Effects of freeze-thaw dynamics and microplastics on the distribution of antibiotic resistance genes in soil aggregates

This is the first study investigating the effects of freeze-thaw (FT) and microplastics (MPs) on the distribution of antibiotic resistance genes (ARGs) in soil aggregates (i.e., soil basic constituent and functional unit) via microcosm experiments. The results showed that FT significantly increased the total relative abundance of target ARGs in different aggregates due to the increase in intI1 and ARG host bacteria. However, polyethylene MPs (PE-MPs) hindered the increase in ARG abundance caused by FT. The host bacteria carrying ARGs and intI1 varied with aggregate size, and the highest number of hosts was observed in micro-aggregates (<0.25 mm). FT and MPs altered host bacteria abundance by affecting aggregate physicochemical properties and bacterial community and enhanced multiple antibiotic resistance via vertical gene transfer. Although the dominant factors affecting ARGs varied with aggregate size, intI1 was a co-dominant factor in various-sized aggregates. Furthermore, other than ARGs, FT, PE-MPs, and their integration promoted the proliferation of human pathogenic bacteria in aggregates. These findings suggested that FT and its integration with MPs significantly affected ARG distribution in soil aggregates. They amplified antibiotic resistance environmental risks, contributing to a profound understanding of soil antibiotic resistance in the boreal region.

N2O emission associated with shifts of bacterial communities in riparian wetland during the spring thawing periods

Soil freeze-thaw processes lead to high nitrous oxide (N₂O) emissions and exacerbate the greenhouse effect. The wetlands of the Inner Mongolia Plateau are in the pronounced seasonal freeze-thaw zone, but the effect of spring thaw on N₂O emissions and related microbial mechanisms is still unclear. We investigated the effects of different periods (freeze, freeze-thaw, and thaw) on soil bacterial community diversity and composition and greenhouse gas emissions during the spring freeze-thaw in the XiLin River riparian wetlands in China by amplicon sequencing and static dark box methods. The results showed that the freeze-thaw periods predominantly impact on the diversity and composition of the bacterial communities. The phyla composition of the soil bacteria communities of the three periods is similar in level, with Proteobacteria, Chloroflexi, Actinobacteria, and Acidobacteria dominating the microbial communities. The alpha-diversity of bacterial communities in different periods varies that the freezing period is higher than that of the freeze-thaw period (p < .05). Soil total carbon, soil water content, and microbial biomass carbon were the primary factors regulating the abundance and compositions of the bacterial communities during spring thawing periods. Based on functional predictions, the relative abundance of nitrification and denitrification genes was higher in the freezing period than in the thawing period, while the abundance was lowest in the freeze-thawing period. The correlation results found that N₂O emissions were significantly correlated with amoA and amoB in nitrification genes, indicating that nitrification may be the main process of N₂O production during spring thaw. This study reveals potential microbial mechanisms of N₂O emission during spring thaw and provides data support and theoretical basis for further insight into the mechanism of N₂O emission during spring thaw.

Does the repeated freezing and thawing of the aerobic layer affect the anaerobic release of N2O from SWIS?

Subsurface wastewater infiltration systems (SWIS) is an efficient, economical, and less temperature affected sewage treatment technology. Pollutants are removed by physical, chemical, and biological reactions such as filtration, adsorption, oxidation, and degradation. Under the conditions of limited carbon source and inactivation of nitrous oxide reductase, N₂O, an important greenhouse gas, is released from the anaerobic layers of SWIS. However, is N₂O release affected by repeated freeze-thawing of the upper aerobic layer? How does microbial population structure and denitrogenate activity in different profiles respond to the freeze-thaw cycle (FTC)? These questions have not yet been revealed. In this study, a SWIS simulator with in-situ regulation of FTC was first constructed. The re-distribution of N₂O, microbial composition and denitrogenate activity were analyzed in response to FTC. Furthermore, potential bio-markers were screened and identified. The results revealed that the release of N₂O was correlated with FTC, with the anaerobic layer being the main contributor throughout, accounting for 73.32-75.8 % of the total release. The limiting factor for N₂O emissions was the NO₃^--N concentration in the anaerobic zone, and there were no simple linear communications between total nitrogen and N₂O generations. High throughput sequencing results showed the main markers of SWIS were Proteobacteria, Gemmatimonadetes, Firmicutes, Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi and Nitrospirae, accounting for 97.4 %-98.1 % of the total relative abundance. A significant positive correlation between Firmicutes and anaerobic release of N₂O was observed, where Firmicutes abundance increased from 5 % to 21 % during the experimental cycle, while N₂O concentration increased from 2.65 mg·L^-1 to 18.88 mg·L^-1. The results indicated that Firmicutes was an important biomarker of N₂O release under freeze-thaw conditions.

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.

Biochar addition regulates soil phosphorus fractions and improves release of available phosphorus under freezing-thawing cycles

Currently, the shortage of phosphorus resources is becoming more and more serious. In general, phosphorus fertilizer is poorly utilized in soil and tends to gradually accumulate. Freezing-thawing cycles (FT) are seasonal phenomenon occurring in high latitudes and altitudes regions, which have obvious influence on the form of phosphorus in soil. This study investigates the effect of biochar on soil physicochemical properties, phosphorus form and availability under FT and thermostatic incubation (TH) condition. Compared with treatment without biochar, 4 % biochar addition increased the soil pH value, electrical conductivity, organic matter and Olsen-P of soil by a maximum of 0.76, 285.55 μS/cm, 28.60 g/kg and 139.27 mg/kg, respectively. Moreover, according to Hedley-P classification results, under FT condition, the content of labile phosphorus pool is always higher than those under TH. FT may promote the conversion of phosphorus from other fractions to labile phosphorus pool. Redundancy analysis results show that biochar addition and FT can not only directly change the soil phosphorus pool, but also alter the soil physicochemical properties and microbial community, which further affect the adsorption and mineralization of phosphorus in soil. The results of this study will be devoted to understanding the changes in soil phosphorus fractions under the effects of biochar addition and FT, providing references for agricultural production in areas where FT occur.

Response of Carbon Emissions and the Bacterial Community to Freeze-Thaw Cycles in a Permafrost-Affected Forest-Wetland Ecotone in Northeast China

Climate warming can affect freeze–thaw cycle (FTCs) patterns in northern high-latitude regions and may affect permafrost carbon emissions. The response of carbon release and microbial communities to FTCs has not been well characterized. Here, we conducted laboratory incubation experiments to investigate the relationships among carbon emissions, bacterial community, and soil variables in a permafrost-affected forest–wetland ecotone in Northeast China. The emission rates of CO₂ and CH₄ increased during the FTCs. FTC amplitude, FTC frequency, and patch type had significant effects on carbon emissions. FTCs increased the contents of soil DOC, NH₄⁺-N, and NO₃⁻-N but reduced bacterial alpha diversity. CO₂ emissions were mainly affected by bacterial alpha diversity and composition, and the inorganic nitrogen content was the important factor affecting CH₄ emissions. Our findings indicated that FTCs could significantly regulate CO₂ and CH₄ emissions by reducing bacterial community diversity and increasing the concentration of available soil substrates. Our findings shed new light on the microorganism-substrate mechanisms regulating the response patterns of the soil carbon cycle to FTCs in permafrost regions.

Warming effects on the flux of CH4 from peatland mesocosms are regulated by plant species composition: Richness and functional types

Peatlands in northeast China are experiencing severe climate warming. Most studies on peatlands focus on the responses of CH₄ dynamics to temperature. However, they rarely consider the synchronous changes in the composition of plant communities caused by the expansion of vascular plants. In this study, an experiment combined warming with the manipulation of plants to examine the concentrations of CH₄ porewater and its fluxes in the mesocosm. We found that warming increased the concentration of CH₄ and its fluxes relative to the control treatments, and it was strongly modulated by plant richness and functional types. The average CH₄ fluxes in the warming and non-warming mesocosms varied from 72.10 to 119.44 and 97.95 to 194.43 mg m^-2 h^-1, respectively. Plant species richness significantly increased CH₄ flux at the warming level of 3.2 °C (P < 0.01). The presence of vascular plants, such as Carex globularis and Vaccinium uliginosum, significantly increased the CH₄ fluxes after warming had occurred. Our results suggest that the distinct response of CH₄ to richness and species primarily stemmed from the direct or indirect effects of plant biomass and functional characteristics. Therefore, more consideration should be given to the diversity changes caused by vascular plant expansion when estimating CH₄ flux in boreal peatland, especially in the context of future climate warming.

Response process and adaptation mechanism of estuarine benthic microbiota to polyvinyl chloride microplastics with and without phthalates

This study aimed to explore the response mechanisms of the microbiota in estuarine sediments amended with polyvinyl chloride (PVC) microplastics (MPs) with and without phthalates (PAEs) through a 60-day microcosm experiment. The results indicated that addition of MPs increased the porosity of the sediment. However, the sediment porosity decreased with the length of the amendment period. Following amendment with MPs containing PAEs, the sediment PAE content increased over time. The addition of MPs without PAEs increased the relative abundance of the dominant phyla of bacteria (Actinobacteria, Bacteroidetes, Chloroflexi, Firmicutes, Gemmatimonadetes, and Planctomycetes) and eukaryotes (Ascomycota, Bacillariophyta, Chordata, and Streptophyta), whereas the relative abundance decreased over time following the addition of MPs containing PAEs. The PAEs released from MPs had greater effects on these phyla than the MPs themselves. The dominant bacteria were more sensitive to MPs than the dominant eukaryotes. After a 60-day amendment with MPs containing PAEs, the bacterial and eukaryotic species numbers were lower by 5.4% and 3.4%, respectively, the relative abundance of certain genes involved in metabolism was lower, and the relative abundance of stress-related genes was higher. These findings provide insight into the microbial response and adaptation mechanisms in estuarine environments polluted with MPs.

Characteristics and metabolic patterns of soil methanogenic archaea communities in the high-latitude natural forested wetlands of China

Soil methanogenic microorganisms are one of the primary methane-producing microbes in wetlands. However, we still poorly understand the community characteristic and metabolic patterns of these microorganisms according to vegetation type and seasonal changes. Therefore, to better elucidate the effects of the vegetation type and seasonal factors on the methanogenic community structure and metabolic patterns, we detected the characteristics of the soil methanogenic mcrA gene from three types of natural wetlands in different seasons in the Xiaoxing'an Mountain region, China. The results indicated that the distribution of Methanobacteriaceae (hydrogenotrophic methanogens) was higher in winter, while Methanosarcinaceae and Methanosaetaceae accounted for a higher proportion in summer. Hydrogenotrophic methanogenesis was the dominant trophic pattern in each wetland. The results of principal coordinate analysis and cluster analysis showed that the vegetation type considerably influenced the methanogenic community composition. The methanogenic community structure in the Betula platyphylla-Larix gmelinii wetland was relatively different from the structure of the other two wetland types. Indicator species analysis further demonstrated that the corresponding species of indicator operational taxonomic units from the Alnus sibirica wetland and the Betula ovalifolia wetland were similar. Network analysis showed that cooperative and competitive relationships exist both within and between the same or different trophic methanogens. The core methanogens with higher abundance in each wetland were conducive to the adaptation to environmental disturbances. This information is crucial for the assessment of metabolic patterns of soil methanogenic archaea and future fluxes in the wetlands of the Xiaoxing'an Mountain region given their vulnerability.

Vertical and seasonal changes in soil carbon pools to vegetation degradation in a wet meadow on the Qinghai-Tibet Plateau

Wet meadows provide opportunities to decrease carbon dioxide (CO₂) and methane (CH₄) released into the atmosphere by increasing the soil organic carbon (SOC) stored in wetland systems. Although wet meadows serve as the most important and stable C sinks, there has been very few investigations on the seasonal distributions of SOC fractions in high-altitude wet meadows. Here, we studied the effects of four vegetation degradation levels, non-degraded (ND), lightly degraded (LD), moderately degraded (MD), and heavily degraded (HD), on the measured vertical and seasonal changes of SOC and its different fractions. Among these vegetation degradation levels, 0-10 and 10-20 cm soil depths in ND plots had significantly higher SOC contents than the other degradation levels had throughout the year. This is attributed to the relatively greater inputs of aboveground plant litter and richer fine-root biomass in ND plots. Particulate organic carbon (POC) and light fraction organic carbon (LFOC) showed similar vertical and seasonal variations in autumn, reaching a minimum. Moreover, microbial biomass (MBC) and easily oxidizable organic carbon (EOC) contents were highest in summer and the smallest in winter, while dissolved organic carbon (DOC) content was highest in spring and lowest in summer, and were mainly concentrated in the 0-20 cm layer. Pearson correlation analysis indicated that soil properties and aboveground biomass were significantly related to different SOC fractions. The results indicate that vegetation degradation reduces the accumulation of total SOC and its different fractions, which may reduce carbon sink capacity and soil quality of alpine wet meadows, and increase atmospheric environmental pressure. In addition, vegetation biomass and soil characteristics play a key role in the formation and transformation of soil carbon. These results strengthen our understanding of soil C dynamics, specifically related to the different C fractions as affected by vegetation degradation levels and soil depth, in wet meadow systems.

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.

Vegetation degradation impacts soil nutrients and enzyme activities in wet meadow on the Qinghai-Tibet Plateau

Vegetation degradation, due to climate change and human activities, changes the biomass, vegetation species composition, and soil nutrient input sources and thus affects soil nutrient cycling and enzyme activities. However, few studies have focused on the responses of soil nutrients and enzymes to vegetation degradation in high-altitude wet meadows. In this study, we examined the effects of vegetation degradation on soil nutrients (soil organic carbon, SOC; total nitrogen, TN; total phosphorus, TP) and enzyme activities (i.e., urease, catalase, amylase) in an alpine meadow in the eastern margin of the Qinghai-Tibet Plateau. Four different levels of degradation were defined in terms of vegetation density and composition: primary wet meadow (CK), lightly degraded (LD), moderately degraded (MD), and heavily degraded (HD). Soil samples were collected at depth intervals of 0–10, 10–20, 20–40, 40–60, 60–80, and 80–100 cm to determine soil nutrient levels and enzyme activities. The results showed that SOC, TN, catalase and amylase significantly decreased with degradation level, while TP and urease increased with degradation level (P < 0.05). Soil nutrient and enzyme activity significantly decreased with soil depth (P < 0.05), and the soil nutrient and enzyme activity exhibited obvious "surface aggregation". The activities of soil urease and catalase were strongest in spring and weakest in winter. The content of TN in spring, summer, and autumn was significantly higher than observed in winter (P < 0.05). The soil TP content increased in winter. Soil amylase activity was significantly higher in summerm than in spring, autumn, and winter (P < 0.05). TP was the main limiting factor for plant growth in the Gahai wet meadow. Values of SOC and TN were positively and significantly correlated with amylase and catalase (P < 0.05), but negatively correlated with urease (P < 0.05). These results suggest the significant role that vegetation degradation and seasonal freeze–thaw cycle play in regulating enzyme activities and nutrient availability in wet meadow soil.

The thermal response of soil microbial methanogenesis decreases in magnitude with changing temperature

Microbial methanogenesis in anaerobic soils contributes greatly to global methane (CH₄) release, and understanding its response to temperature is fundamental to predicting the feedback between this potent greenhouse gas and climate change. A compensatory thermal response in microbial activity over time can reduce the response of respiratory carbon (C) release to temperature change, as shown for carbon dioxide (CO₂) in aerobic soils. However, whether microbial methanogenesis also shows a compensatory response to temperature change remains unknown. Here, we used anaerobic wetland soils from the Greater Khingan Range and the Tibetan Plateau to investigate how 160 days of experimental warming (+4°C) and cooling (−4°C) affect the thermal response of microbial CH₄ respiration and whether these responses correspond to changes in microbial community dynamics. The mass-specific CH₄ respiration rates of methanogens decreased with warming and increased with cooling, suggesting that microbial methanogenesis exhibited compensatory responses to temperature changes. Furthermore, changes in the species composition of methanogenic community under warming and cooling largely explained the compensatory response in the soils. The stimulatory effect of climate warming on soil microbe-driven CH₄ emissions may thus be smaller than that currently predicted, with important consequences for atmospheric CH₄ concentrations.

Soil microbes produce more methane as temperatures warm, but it is unclear if they acclimate to heat, or keep producing more of the greenhouse gas. Here the authors use artificial wetland warming experiments to show that after initial spikes in methane emissions after warming, emissions level out over time.

Soil Microbial Community Response Differently to the Frequency and Strength of Freeze-Thaw Events in a Larix gmelinii Forest in the Daxing'an Mountains, China

Sustained climate warming increases the frequency and strength of soil freeze-thaw (FT) events, which strongly affect the properties of soil microbial communities. To explore the responses and mechanisms of the frequency and strength of freeze-thaw events on soil microbial communities, a lab-scale FT test was conducted on forest soil in permafrost region from the Daxing'an Mountains, China. The number of FT cycles (FTN) had a greater effect on microbial communities than FT temperature fluctuation (FTF). The FTN and FTF explained 20.9 and 10.8% of the variation in microbial community structure, respectively, and 22.9 and 11.6% of the variation in enzyme activities, respectively. The total and subgroup microbial biomass, the ratio of fungi to bacteria (F/B), and C- and N-hydrolyzing enzyme activities all decreased with an increase in FTN. Among microbial groups, arbuscular mycorrhizal fungi (AMF) were the most sensitive to FT events. Based on the changes of F/B and AMF, the reduction in soil carbon sequestration caused by frequent FT events can be explained from a perspective of microorganisms. Based on redundancy analysis and Mental Test, soil moisture, total organic carbon, and total nitrogen were the major factors affecting microorganisms in FT events. In the forest ecosystem, soil water and fertilizer were important factors to resist the damage of FT to microorganism, and sufficient water and fertilizer can lighten the damage of FT events to microorganisms. As a result of this study, the understanding of the responses of soil microorganisms to the variation in FT patterns caused by climate changes has increased, which will lead to better predictions of the effects of likely climate change on soil microorganisms.

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.

Wetland plant litter decomposition occurring during the freeze season under disparate flooded conditions

To investigate the heterogeneity of plant litter decomposition in the freeze and freeze-free seasons and the responses to disparate flooded conditions in seasonally frozen wetlands, in situ simulation experiments of litter decomposition were performed in the Sanjiang Plain, Northeast China. The experiments were conducted using the litter bag method for representative plants, Carex lasiocarpa and Calamagrostis angustifolia, in both non-flooded and flooded areas between November 2011 and November 2013. Heterogeneous effects of the freeze season and its interaction with hydrological regimes on the decomposition of the litter of various species and organs were observed. The litter decomposition occurred during the freeze season and made a significant contribution to the loss throughout the year. The two-year mass-loss of C. lasiocarpa and C. angustifolia and their organs were ordered differently between the freeze season and the freeze-free season. The proportion of litter mass-loss during the freeze season accounting for the whole year in the flooded area were greater than that in the non-flooded area, except for the C. angustifolia root litter. The litter mass-losses of entire C. lasiocarpa and C. angustifolia during the freeze season were greater than those during the freeze-free season in the flooded area, while the pattern was opposite in the non-flooded area. The effect of environmental factors on litter decomposition might override the effects of litter substrate quality. The total N and P of the litter of the entire C. lasiocarpa and entire C. angustifolia increased significantly relative to the initial values after two years and tended to enrich more in the litter under flooded conditions than under non-flooded conditions. The results highlighted the heterogeneous effects of the freeze season and its interaction with hydrological regimes on various species and organs, which would provide management and restoration options for degraded wetlands caused by climate change.

Anti-seasonal submergence dominates the structure and composition of prokaryotic communities in the riparian zone of the Three Gorges Reservoir, China

Since the completion of Three Gorges Dam in 2008, a large water-level fluctuation zone with anti-seasonal submergence has formed between the elevations of 145 m and 175 m in the Three Gorges Reservoir in China. In addition to hydrological regime, revegetation has also occurred in this water-level fluctuation zone. However, how the hydrological regime and revegetation regulate soil prokaryotic community remains unclear. Here, we investigated soil prokaryotic community structure, diversity and environmental parameters in different flooding zones from two soil layers (0-10 cm and 10-30 cm) at 6 locations along the water-level fluctuation zone from upstream to downstream. The soil prokaryotic diversity tended to decrease from upstream to downstream, and the alpha diversity was higher in the topsoil than in the deep soil at all sites. Flooding significantly enhanced the prokaryotic diversity compared to the control (i.e., permanent dry zone). The soil prokaryotic composition underwent deterministic processes in the upstream sites and stochastic processes in the downstream sites, with stronger stochastic processes in the topsoil than in the deep soil across all sites and elevations. As expected, the soil pH, moisture, NH₄⁺-N, organic carbon and nitrogen were proven to be determinants of the prokaryotic community composition. Changes in plant traits (plant biomass, richness, and carbon content) after revegetation induced by submergence also played an important role in structuring the prokaryotic community. The prokaryotic community exhibited a shorter average path distance (GD) in the flooding zones compared to the control, with the shortest average degree (avgK) and the lowest levels of stability in the longer periodic inundation zones. Overall, our results suggest that soil properties and plant functional traits are critical controls of the prokaryotic community's ability to develop at regional scales and water submergence can likewise be an important factor for variations in the prokaryotic community composition in riparian zones.

Prokaryotic community shifts during soil formation on sands in the tundra zone

A chronosequence approach, i.e., a comparison of spatially distinct plots with different stages of succession, is commonly used for studying microbial community dynamics during paedogenesis. The successional traits of prokaryotic communities following sand fixation processes have previously been characterized for arid and semi-arid regions, but they have not been considered for the tundra zone, where the environmental conditions are unfavourable for the establishment of complicated biocoenoses. In this research, we characterized the prokaryotic diversity and abundance of microbial genes found in a typical tundra and wooded tundra along a gradient of increasing vegetation—unfixed aeolian sand, semi-fixed surfaces with mosses and lichens, and mature soil under fully developed plant cover. Microbial communities from typical tundra and wooded tundra plots at three stages of sand fixation were compared using quantitative polymerase chain reaction (qPCR) and high-throughput sequencing of 16S rRNA gene libraries. The abundances of ribosomal genes increased gradually in both chronosequences, and a similar trend was observed for the functional genes related to the nitrogen cycle (nifH, bacterial amoA, nirK and nirS). The relative abundance of Planctomycetes increased, while those of Thaumarchaeota, Cyanobacteria and Chloroflexi decreased from unfixed sands to mature soils. According to β-diversity analysis, prokaryotic communities of unfixed sands were more heterogeneous compared to those of mature soils. Despite the differences in the plant cover of the two mature soils, the structural compositions of the prokaryotic communities were shaped in the same way. Thus, sand fixation in the tundra zone increases archaeal, bacterial and fungal abundances, shifts and unifies prokaryotic communities structure.

Non-Psychrophilic Methanogens Capable of Growth Following Long-Term Extreme Temperature Changes, with Application to Mars

Although the martian environment is currently cold and dry, geomorphological features on the surface of the planet indicate relatively recent (<4 My) freeze/thaw episodes. Additionally, the recent detections of near-subsurface ice as well as hydrated salts within recurring slope lineae suggest potentially habitable micro-environments within the martian subsurface. On Earth, microbial communities are often active at sub-freezing temperatures within permafrost, especially within the active layer, which experiences large ranges in temperature. With warming global temperatures, the effect of thawing permafrost communities on the release of greenhouse gases such as carbon dioxide and methane becomes increasingly important. Studies examining the community structure and activity of microbial permafrost communities on Earth can also be related to martian permafrost environments, should life have developed on the planet. Here, two non-psychrophilic methanogens, Methanobacterium formicicum and Methanothermobacter wolfeii, were tested for their ability to survive long-term (~4 year) exposure to freeze/thaw cycles varying in both temperature and duration, with implications both for climate change on Earth and possible life on Mars.