Phosphorus rather than nitrogen regulates ecosystem carbon dynamics after permafrost thaw

Phosphorus pool distributions and adsorption-desorption characteristics of soil aggregates in cut slopes of a permafrost zone in the Qinghai-Tibetan Plateau

Soil phosphorus (P) has attracted considerable attention from researchers because of its role in the restoration and stabilization processes of cut slopes in permafrost regions. However, the soil P pool distributions and adsorption-desorption characteristics in alpine cut slopes remain unclear. In this context, we examined in this study the P pools in the aggregates of surface cut soil slopes (0-10 cm) in areas with three permafrost types, including perennially frozen soil (PF), seasonally frozen ground (SFG), and non-frozen soil (NFS) in the Qinghai-Tibet Plateau, China. In addition, we assessed the P adsorption-desorption characteristics and their correlations with the P pools. The results showed the significant effects of the permafrost types on the contents of total P (TP), available P (AP), labile P (LP), moderately labile P (MLP) and stable P (SP). The inorganic P (IP) contents were higher than those of organic P (OP) in the cut soil slopes of the three permafrost types. In addition, H2O-Pi and NaHCO3-Pi accounted for small proportions of IP, while NaHCO3-Po accounted for the smallest proportion of OP. On the other hand, the SP contents in the soil aggregates were generally higher than those of MLP and LP. In fact, the LP contents in the PF, SFG, and NFS were 72.55, 44.68, and 49.42 mg/kg, respectively. The AP contents in the cut soil slopes of the three permafrost types were significantly correlated with the MLP and LP contents. Moreover, the P adsorption-desorption characteristics of the SFG and NFS were closely related to AP and MLP. Compared with the PF and NFS, the SFG exhibited low and high P adsorption and desorption capacities, respectively. The findings of this study provided an important theoretical basis for the restoration of cut slopes in alpine permafrost regions.

Permafrost carbon cycle and its dynamics on the Tibetan Plateau

Our knowledge on permafrost carbon (C) cycle is crucial for understanding its feedback to climate warming and developing nature-based solutions for mitigating climate change. To understand the characteristics of permafrost C cycle on the Tibetan Plateau, the largest alpine permafrost region around the world, we summarized recent advances including the stocks and fluxes of permafrost C and their responses to thawing, and depicted permafrost C dynamics within this century. We find that this alpine permafrost region stores approximately 14.1 Pg (1 Pg=1015 g) of soil organic C (SOC) in the top 3 m. Both substantial gaseous emissions and lateral C transport occur across this permafrost region. Moreover, the mobilization of frozen C is expedited by permafrost thaw, especially by the formation of thermokarst landscapes, which could release significant amounts of C into the atmosphere and surrounding water bodies. This alpine permafrost region nevertheless remains an important C sink, and its capacity to sequester C will continue to increase by 2100. For future perspectives, we would suggest developing long-term in situ observation networks of C stocks and fluxes with improved temporal and spatial coverage, and exploring the mechanisms underlying the response of ecosystem C cycle to permafrost thaw. In addition, it is essential to improve the projection of permafrost C dynamics through in-depth model-data fusion on the Tibetan Plateau.

Genomic fingerprints of the world's soil ecosystems

Despite the explosion of soil metagenomic data, we lack a synthesized understanding of patterns in the distribution and functions of soil microorganisms. These patterns are critical to predictions of soil microbiome responses to climate change and resulting feedbacks that regulate greenhouse gas release from soils. To address this gap, we assay 1,512 manually curated soil metagenomes using complementary annotation databases, read-based taxonomy, and machine learning to extract multidimensional genomic fingerprints of global soil microbiomes. Our objective is to uncover novel biogeographical patterns of soil microbiomes across environmental factors and ecological biomes with high molecular resolution. We reveal shifts in the potential for (i) microbial nutrient acquisition across pH gradients; (ii) stress-, transport-, and redox-based processes across changes in soil bulk density; and (iii) greenhouse gas emissions across biomes. We also use an unsupervised approach to reveal a collection of soils with distinct genomic signatures, characterized by coordinated changes in soil organic carbon, nitrogen, and cation exchange capacity and in bulk density and clay content that may ultimately reflect soil environments with high microbial activity. Genomic fingerprints for these soils highlight the importance of resource scavenging, plant-microbe interactions, fungi, and heterotrophic metabolisms. Across all analyses, we observed phylogenetic coherence in soil microbiomes-more closely related microorganisms tended to move congruently in response to soil factors. Collectively, the genomic fingerprints uncovered here present a basis for global patterns in the microbial mechanisms underlying soil biogeochemistry and help beget tractable microbial reaction networks for incorporation into process-based models of soil carbon and nutrient cycling.IMPORTANCEWe address a critical gap in our understanding of soil microorganisms and their functions, which have a profound impact on our environment. We analyzed 1,512 global soils with advanced analytics to create detailed genetic profiles (fingerprints) of soil microbiomes. Our work reveals novel patterns in how microorganisms are distributed across different soil environments. For instance, we discovered shifts in microbial potential to acquire nutrients in relation to soil acidity, as well as changes in stress responses and potential greenhouse gas emissions linked to soil structure. We also identified soils with putative high activity that had unique genomic characteristics surrounding resource acquisition, plant-microbe interactions, and fungal activity. Finally, we observed that closely related microorganisms tend to respond in similar ways to changes in their surroundings. Our work is a significant step toward comprehending the intricate world of soil microorganisms and its role in the global climate.

Microbial nitrogen and phosphorus co-limitation across permafrost region

The status of plant and microbial nutrient limitation have profound impacts on ecosystem carbon cycle in permafrost areas, which store large amounts of carbon and experience pronounced climatic warming. Despite the long-term standing paradigm assumes that cold ecosystems primarily have nitrogen deficiency, large-scale empirical tests of microbial nutrient limitation are lacking. Here we assessed the potential microbial nutrient limitation across the Tibetan alpine permafrost region, using the combination of enzymatic and elemental stoichiometry, genes abundance and fertilization method. In contrast with the traditional view, the four independent approaches congruently detected widespread microbial nitrogen and phosphorus co-limitation in both the surface soil and deep permafrost deposits, with stronger limitation in the topsoil. Further analysis revealed that soil resources stoichiometry and microbial community composition were the two best predictors of the magnitude of microbial nutrient limitation. High ratio of available soil carbon to nutrient and low fungal/bacterial ratio corresponded to strong microbial nutrient limitation. These findings suggest that warming-induced enhancement in soil nutrient availability could stimulate microbial activity, and probably amplify soil carbon losses from permafrost areas.

Livestock grazing-exclusion under global warming scenario decreases phosphorus mineralization by changing soil food web structure in a Tibetan alpine meadow

The exclusion of grazing has been used extensively in alpine meadows on the Tibetan Plateau. Studies, however, have shown reported recent trends of decreasing concentrations of soil nutrients because of grazing exclusion and climate change. The effects of excluding grazing on the soil biogeochemical process of phosphorus cycling in alpine meadows are unclear, especially under climatic warming. We conducted a 5-year grazing-exclusion and warming-manipulation experiment to examine the effects of excluding grazing on fractions of soil phosphorus, microbial and nematode communities and enzymatic activities in treatments of low grazing intensity, grazing exclusion, and combined grazing exclusion and warming. Our results indicated that excluding grazing significantly decreased bacterivore and omnivore-predator densities, phoD gene abundance and alkaline phosphomonoesterase activity (in the 0-5 cm layer by -34, -41, -38 and -42 %) at altitudes of 3850 m, 4000 m, 4150 m and 4250 m, respectively. Structural equation modeling indicated that bacterivores positively affected phoD gene abundance, alkaline phosphomonoesterase activity and inorganic‑phosphorus fractions. Combined grazing exclusion and warming significantly decreased bacterivore and omnivore-predator densities but significantly increased fungivore density (in the 0-5 cm layer by 238, 172, 119 and 65 %) at altitudes of 3850, 4000, 4150 and 4250 m, respectively. Structural equation modeling also indicated that the combined grazing-exclusion and warming treatment increased the soil fungi and fungivores, but the higher abundances of fungi and fungivores did not significantly affect acid phosphomonoesterase activity or inorganic‑phosphorus fractions. Alternatively, the combined grazing-exclusion and warming treatment significantly increased the concentrations of amorphous and free aluminum, which were positively correlated with the maximum adsorption of phosphorus. The combined grazing-exclusion and warming treatment thus significantly decreased the availability of resin phosphorus (-63, -51, -81 and -67 %) in the 0-5 cm layer at altitudes of 3850, 4000, 4150 and 4250 m, respectively. Our results suggested that light grazing (0.5 yak ha^-1 year^-1) could increase phosphorus mineralization and the activity of soil enzymes in alpine meadows under global warming. An adequate load of livestock pressure at each altitude can be an effective management technique, mainly under warming, to maintain an adequate, sustainable and equilibrated phosphorus cycle in the plant-soil system.

A functional metagenomics study of soil carbon and nitrogen degradation networks and limiting factors on the Tibetan plateau

Introduction

The Three-River Source Nature Reserve is located in the core area of the Qinghai-Tibetan Plateau, with the alpine swamp, meadow and steppe as the main ecosystem types. However, the microbial communities in these alpine ecosystems, and their carbon and nitrogen degrading metabolic networks and limiting factors remain unclear.

Methods

We sequenced the diversity of bacteria and fungi in alpine swamps, meadows, steppes, and their degraded and artificially restored ecosystems and analyzed soil environmental conditions.

Results

The results indicated that moisture content had a greater influence on soil microbial community structure compared to degradation and restoration. Proteobacteria dominated in high moisture alpine swamps and alpine meadows, while Actinobacteria dominated in low moisture alpine steppes and artificial grasslands. A metabolic network analysis of carbon and nitrogen degradation and transformation using metagenomic sequencing revealed that plateau microorganisms lacked comprehensive and efficient enzyme systems to degrade organic carbon, nitrogen, and other biological macromolecules, so that the short-term degradation of alpine vegetation had no effect on the basic composition of soil microbial community. Correlation analysis found that nitrogen fixation was strong in meadows with high moisture content, and their key nitrogen-fixing enzymes were significantly related to Sphingomonas. Denitrification metabolism was enhanced in water-deficient habitats, and the key enzyme, nitrous oxide reductase, was significantly related to Phycicoccus and accelerated the loss of nitrogen. Furthermore, Bacillus contained a large number of amylases (GH13 and GH15) and proteases (S8, S11, S26, and M24) which may promote the efficient degradation of organic carbon and nitrogen in artificially restored grasslands.

Discussion

This study illustrated the irrecoverability of meadow degradation and offered fundamental information for altering microbial communities to restore alpine ecosystems.

Does long-term soil warming affect microbial element limitation? A test by short-term assays of microbial growth responses to labile C, N and P additions

Increasing global temperatures have been reported to accelerate soil carbon (C) cycling, but also to promote nitrogen (N) and phosphorus (P) dynamics in terrestrial ecosystems. However, warming can differentially affect ecosystem C, N and P dynamics, potentially intensifying elemental imbalances between soil resources, plants and soil microorganisms. Here, we investigated the effect of long-term soil warming on microbial resource limitation, based on measurements of microbial growth (18 O incorporation into DNA) and respiration after C, N and P amendments. Soil samples were taken from two soil depths (0-10, 10-20 cm) in control and warmed (>14 years warming, +4°C) plots in the Achenkirch soil warming experiment. Soils were amended with combinations of glucose-C, inorganic/organic N and inorganic/organic P in a full factorial design, followed by incubation at their respective mean field temperatures for 24 h. Soil microbes were generally C-limited, exhibiting 1.8-fold to 8.8-fold increases in microbial growth upon C addition. Warming consistently caused soil microorganisms to shift from being predominately C limited to become C-P co-limited. This P limitation possibly was due to increased abiotic P immobilization in warmed soils. Microbes further showed stronger growth stimulation under combined glucose and inorganic nutrient amendments compared to organic nutrient additions. This may be related to a prolonged lag phase in organic N (glucosamine) mineralization and utilization compared to glucose. Soil respiration strongly positively responded to all kinds of glucose-C amendments, while responses of microbial growth were less pronounced in many of these treatments. This highlights that respiration-though easy and cheap to measure-is not a good substitute of growth when assessing microbial element limitation. Overall, we demonstrate a significant shift in microbial element limitation in warmed soils, from C to C-P co-limitation, with strong repercussions on the linkage between soil C, N and P cycles under long-term warming.

The role of climate, vegetation, and soil factors on carbon fluxes in Chinese drylands

Drylands dominate the trend and variability of the land carbon (C) sink. A better understanding of the implications of climate-induced changes in the drylands for C sink-source dynamics is urgently needed. The effect of climate on ecosystem C fluxes (gross primary productivity (GPP), ecosystem respiration (ER), and net ecosystem productivity (NEP)) in drylands has been extensively explored, but the roles of other concurrently changing factors, such as vegetation conditions and nutrient availability, remain unclear. We used eddy-covariance C-flux measurements from 45 ecosystems with concurrent information on climate (mean annual temperature (MAT) and mean annual precipitation (MAP)), soil (soil moisture (SM) and soil total nitrogen content (soil N)), and vegetation (leaf area index (LAI) and leaf nitrogen content (LNC)) factors to assess their roles in C fluxes. The results showed that the drylands in China were weak C sinks. GPP and ER were positively correlated with MAP, while they were negatively correlated with MAT. NEP first decreased and then increased with increasing MAT and MAP, and 6.6 °C and 207 mm were the boundaries for the NEP response to MAT and MAP, respectively. SM, soil N, LAI, and MAP were the main factors affecting GPP and ER. However, SM and LNC had the most important influence on NEP. Compared with climate and vegetation factors, soil factors (SM and soil N) had a greater impact on C fluxes in the drylands. Climate factors mainly affected C fluxes by regulating vegetation and soil factors. To accurately estimate the global C balance and predict the response of ecosystems to environmental change, it is necessary to fully consider the discrepant effects of climate, vegetation, and soil factors on C fluxes, as well as the cascade relationships between different factors.

N and P constrain C in ecosystems under climate change: Role of nutrient redistribution, accumulation, and stoichiometry

We use the Multiple Element Limitation (MEL) model to examine responses of 12 ecosystems to elevated carbon dioxide (CO₂ ), warming, and 20% decreases or increases in precipitation. Ecosystems respond synergistically to elevated CO₂ , warming, and decreased precipitation combined because higher water-use efficiency with elevated CO₂ and higher fertility with warming compensate for responses to drought. Response to elevated CO₂ , warming, and increased precipitation combined is additive. We analyze changes in ecosystem carbon (C) based on four nitrogen (N) and four phosphorus (P) attribution factors: (1) changes in total ecosystem N and P, (2) changes in N and P distribution between vegetation and soil, (3) changes in vegetation C:N and C:P ratios, and (4) changes in soil C:N and C:P ratios. In the combined CO₂ and climate change simulations, all ecosystems gain C. The contributions of these four attribution factors to changes in ecosystem C storage varies among ecosystems because of differences in the initial distributions of N and P between vegetation and soil and the openness of the ecosystem N and P cycles. The net transfer of N and P from soil to vegetation dominates the C response of forests. For tundra and grasslands, the C gain is also associated with increased soil C:N and C:P. In ecosystems with symbiotic N fixation, C gains resulted from N accumulation. Because of differences in N versus P cycle openness and the distribution of organic matter between vegetation and soil, changes in the N and P attribution factors do not always parallel one another. Differences among ecosystems in C-nutrient interactions and the amount of woody biomass interact to shape ecosystem C sequestration under simulated global change. We suggest that future studies quantify the openness of the N and P cycles and changes in the distribution of C, N, and P among ecosystem components, which currently limit understanding of nutrient effects on C sequestration and responses to elevated CO₂ and climate change.

Dryness weakens the positive effects of plant and fungal β diversities on above- and belowground biomass

Plant and microbial diversity are key to determine ecosystem functioning. Despite the well-known role of local-scale α diversity in affecting vegetation biomass, the effects of community heterogeneity (β diversity) of plants and soil microbes on above- and belowground biomass (AGB and BGB) across contrasting environments still remain unclear. Here, we conducted a dryness-gradient transect survey over 3000 km across grasslands on the Tibetan Plateau. We found that plant β diversity was more dominant than α diversity in maintaining higher levels of AGB, while soil fungal β diversity was the key driver in enhancing BGB. However, these positive effects of plant and microbial β diversity on AGB and BGB were strongly weakened by increasing climatic dryness, mainly because higher soil available phosphorus caused by increasing dryness reduced both plant and soil fungal β diversities. Overall, these new findings highlight the critical role of above- and belowground β diversity in sustaining grassland biomass, raising our awareness to the ecological risks of large-scale biotic homogenization under future climate change.

Leaf nitrogen from the perspective of optimal plant function

Leaf dry mass per unit area (LMA), carboxylation capacity (V cmax) and leaf nitrogen per unit area (Narea) and mass (Nmass) are key traits for plant functional ecology and ecosystem modelling. There is however no consensus about how these traits are regulated, or how they should be modelled. Here we confirm that observed leaf nitrogen across species and sites can be estimated well from observed LMA and V cmax at 25°C (V cmax25). We then test the hypothesis that global variations of both quantities depend on climate variables in specific ways that are predicted by leaf-level optimality theory, thus allowing both Narea to be predicted as functions of the growth environment.A new global compilation of field measurements was used to quantify the empirical relationships of leaf N to V cmax25 and LMA. Relationships of observed V cmax25 and LMA to climate variables were estimated, and compared to independent theoretical predictions of these relationships. Soil effects were assessed by analysing biases in the theoretical predictions.LMA was the most important predictor of Narea (increasing) and Nmass (decreasing). About 60% of global variation across species and sites in observed Narea, and 31% in Nmass, could be explained by observed LMA and V cmax25. These traits, in turn, were quantitatively related to climate variables, with significant partial relationships similar or indistinguishable from those predicted by optimality theory. Predicted trait values explained 21% of global variation in observed site-mean V cmax25, 43% in LMA and 31% in Narea. Predicted V cmax25 was biased low on clay-rich soils but predicted LMA was biased high, with compensating effects on Narea. Narea was overpredicted on organic soils. Synthesis. Global patterns of variation in observed site-mean Narea can be explained by climate-induced variations in optimal V cmax25 and LMA. Leaf nitrogen should accordingly be modelled as a consequence (not a cause) of V cmax25 and LMA, both being optimized to the environment. Nitrogen limitation of plant growth would then be modelled principally via whole-plant carbon allocation, rather than via leaf-level traits. Further research is required to better understand and model the terrestrial nitrogen and carbon cycles and their coupling.

Mismatch of N release from the permafrost and vegetative uptake opens pathways of increasing nitrous oxide emissions in the high Arctic

Biogeochemical cycling in permafrost-affected ecosystems remains associated with large uncertainties, which could impact the Earth's greenhouse gas budget and future climate policies. In particular, increased nutrient availability following permafrost thaw could perturb the greenhouse gas exchange in these systems, an effect largely unexplored until now. Here, we enhance the terrestrial ecosystem model QUINCY (QUantifying Interactions between terrestrial Nutrient CYcles and the climate system), which simulates fully coupled carbon (C), nitrogen (N) and phosphorus (P) cycles in vegetation and soil, with processes relevant in high latitudes (e.g., soil freezing and snow dynamics). In combination with site-level and satellite-based observations, we use the model to investigate impacts of increased nutrient availability from permafrost thawing in comparison to other climate-induced effects and CO₂ fertilization over 1960 to 2018 across the high Arctic. Our simulations show that enhanced availability of nutrients following permafrost thaw account for less than 15% of the total Gross primary productivity increase over the time period, despite simulated N limitation over the high Arctic scale. As an explanation for this weak fertilization effect, observational and model data indicate a mismatch between the timing of peak vegetative growth (week 26-27 of the year, corresponding to the beginning of July) and peak thaw depth (week 32-35, mid-to-late August), resulting in incomplete plant use of nutrients near the permafrost table. The resulting increasing N availability approaching the permafrost table enhances N loss pathways, which leads to rising nitrous oxide (N₂ O) emissions in our model. Site-level emission trends of 2 mg N m^-2  year^-1 on average over the historical time period could therefore predict an emerging increasing source of N₂ O emissions following future permafrost thaw in the high Arctic.

In-Forest Planting of High-Value Herb Sarcandra glabra Enhances Soil Carbon Storage without Affecting the Diversity of the Arbuscular Mycorrhiza Fungal Community and Composition of Cunninghamia lanceolata

Sarcandra glabra in-forest planting, an anthropogenic activity that may introduce a variety of disturbances into the forest, is being popularly promoted in southern China, while its consequential influences on soil nutrients, as well as the arbuscular mycorrhiza fungal (AMF) community of key forest keystone plants, are still unelucidated, which hampers the assessment of ecological safety and the improvement of agronomic measurements. In this research, topsoil from a 3-year-old Sarcandra glabra planted forest and a nearby control forest were sampled, and the annual variation in the soil nutrients and AMF community of the keystone tree Cunninghamia lanceolata were investigated. Our result showed that the total amount of soil organic carbon of the Sarcandra glabra cultivation group was significantly higher than that of the control group (p < 0.05), which indicated that Sarcandra glabra cultivation significantly enhanced the topsoil carbon storage. Yet, there were only insignificant differences in the Shannon index and Chao index of the AMF community between the two groups (p > 0.05). PCoA analysis found that the compositional differences between two groups were also insignificant. This indicated that Sarcandra glabra cultivation had no significant influence on the diversity and composition of the Cunninghamia lanceolata AMF community. However, we found that the differences in the total amounts of nitrogen and total phosphorus between the two groups were relatively lower in April and September, which indicated the higher nutrient demands and consumption of Sarcandra glabra in these two periods and suggested that a sufficient fertilizer application in these two stages would reduce the potential competition for nutrients between Sarcandra glabra and Cunninghamia lanceolata in order to ensure Sarcandra glabra production and forest health. Lastly, our results reported a total extra income ranging from of CNY 127,700 hm−2 (7 years of cultivation) to CNY 215,300 hm−2 (10 years cultivation) provided by Sarcandra glabra in-forest planting, which indicated its powerful potential for mitigating poverty. Our research systematically investigated the annual variation in the soil nutrient content and keystone tree AMF community caused by Sarcandra glabra cultivation and offers constructive guidance for Sarcandra glabra cultivation and fertilization management and ecological safety assessment.

Divergent Trajectory of Soil Autotrophic and Heterotrophic Respiration upon Permafrost Thaw

Warming-induced permafrost thaw may stimulate soil respiration (Rs) and thus cause a positive feedback to climate warming. However, due to the limited in situ observations, it remains unclear about how Rs and its autotrophic (Ra) and heterotrophic (Rh) components change upon permafrost thaw. Here we monitored variations in Rs and its components along a permafrost thaw sequence on the Tibetan Plateau, and explored the potential linkage of Rs components (i.e., Ra and Rh) with biotic (e.g., plant functional traits and soil microbial diversity) and abiotic factors (e.g., substrate quality). We found that Ra and Rh exhibited divergent responses to permafrost collapse: Ra increased with the time of thawing, while Rh exhibited a hump-shaped pattern along the thaw sequence. We also observed different drivers of thaw-induced changes in the ratios of Ra:Rs and Rh:Rs. Except for soil water status, plant community structure, diversity, and root properties explained the variation in Ra:Rs ratio, soil substrate quality and microbial diversity were key factors associated with the dynamics of Rh:Rs ratio. Overall, these findings demonstrate divergent patterns and drivers of Rs components as permafrost thaw prolongs, which call for considerations in Earth system models for better forecasting permafrost carbon-climate feedback.