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Net nitrogen mineralization (Nmin) and nitrification regulate soil N availability and loss after severe wildfires in boreal forests experiencing slow vegetation recovery. Yet, how microorganisms respond to postfire phosphorus (P) enrichment to alter soil N transformations remains unclear in N-limited boreal forests. Here, we investigated postfire N-P interactions using an intensive regional-scale sampling of 17 boreal forests in the Greater Khingan Mountains (Inner Mongolia-China), a laboratory P-addition incubation, and a continental-scale meta-analysis. We found that postfire soils had an increased risk of N loss by accelerated Nmin and nitrification along with low plant N demand, especially during the early vegetation recovery period. The postfire N/P imbalance created by P enrichment acts as a "N retention" strategy by inhibiting Nmin but not nitrification in boreal forests. This strategy is attributed to enhanced microbial N-use efficiency and N immobilization. Importantly, our meta-analysis found that there was a greater risk of N loss in boreal forest soils after fires than in other climatic zones, which was consistent with our results from the 17 soils in the Greater Khingan Mountains. These findings demonstrate that postfire N-P interactions play an essential role in mitigating N limitation and maintaining nutrient balance in boreal forests.

The soil microbial food web plays a vital role in soil health, nutrient cycling and agricultural productivity. Notably, there is a distinct paucity of information regarding the effects of heavy metal contamination on trophic-level interactions within the microbial food web of agricultural soils, which experience appreciably metal contamination worldwide. Herein, we investigated trophic interactions among predators (protists), their preys (bacteria and fungi) and competitors (nematodes) under four metal contamination levels using high-throughput sequencing and a laboratory verification experiment. Metal contamination decreased growth of protist-preferential prey (e.g., small-sized and gram-negative bacteria), increased the growth of protist-nonpreferential prey (e.g., pathogenic fungi and Actinobacteria), and had a limited effect on the soil protist-competitor (i.e., nematodes). This resulted in a considerable decrease in the diversity and abundance of protistan consumers and a re-arrangement of their interactions with other organisms. From a systemic view, the direct link was weaker between heavy metal contamination and the protist community than the indirect linkage, i.e., metal-induced changes in the prey community. We further validated these results with laboratory incubation trials that documented growth inhibition of protist (Colpoda) and protist-preferential prey (Spingomonas) versus growth stimulation of protist-nonpreferential prey (Arthrobacter) under metal contamination. These findings indicate that metal contamination collapses trophic-level interactions within the soil microbial food web via bottom-up regulation, providing important implications for managing trophic interactions to maintain agricultural ecosystem services under the challenge of worldwide metal contamination.

The response of soil microbes to heavy metal pollution provides a metric to evaluate the soil health and ecological risks associated with heavy metal contamination. However, a multitrophic level perspective of how soil microbial communities and their functions respond to long-term exposure of multiple heavy metals remains unclear. Herein, we examined variations in soil microbial (including protists and bacteria) diversity, functional guilds and interactions along a pronounced metal pollution gradient in a field surrounding an abandoned electroplating factory. Given the stressful soil environment resulting from extremely high heavy metal concentrations and low nutrients, beta diversity of protist increased, but that of bacteria decreased, at high versus low pollution sites. Additionally, the bacteria community showed low functional diversity and redundancy at the highly polluted sites. We further identified indicative genus and "generalists" in response to heavy metal pollution. Predatory protists in Cercozoa were the most sensitive protist taxa with respect to heavy metal pollution, whereas photosynthetic protists showed a tolerance for metal pollution and nutrient deficiency. The complexity of ecological networks increased, but the communication among the modules disappeared with increasing metal pollution levels. Subnetworks of tolerant bacteria displaying functional versatility (Blastococcus, Agromyces and Opitutus) and photosynthetic protists (microalgae) became more complex with increasing metal pollution levels, indicating their potential for use in bioremediation and restoration of abandoned industrial sites contaminated by heavy metals.

Abstract: Background: The rRNA operon (rrn) copy number is associated with protein synthesis and reproduction, reflecting microbial r- and K-life strategies and influencing soil ecosystem function. Although the positive relationship between microbial community-level rrn copy numbers and nutrient availability has been reported, the association between rrn copy number and soil stoichiometry or environmental stress remains largely unknown, particularly in the context of long-term nutrient inputs.Results: Using long-term (> 30 years) field experiments across three agro-ecosystems, we consistently found that N fertilization increased the microbial community-level rrn copy number. This increase was equivalently explained by soil CN stoichiometry (22%) and soil acidification (21%). Balanced soil CN stoichiometry favored the growth of N-dependent copiotrophs such as Bacilliand Flavobacteriia containing high rrn copy numbers (an average of 2.5), and enhanced their nutrient competition ability. Moreover, N fertilization-induced soil acidification, as an environmental stressor, increased the abundance of pH-negative responders such as Clostridia and Ktedonobacteria which also contained high rrn copy numbers (2.8), and threatened rare taxa with low rrn copy numbers.Conclusions: Consequently, our finding challenges the concept of microbial life-strategy regulation solely by nutrient availability, highlighting the novelty of significant contributions of soil stoichiometric balance and environmental stress to microbial strategies in agro-ecosystems under long-term nutrient inputs.

Water pollution is a great risk to aquatic ecosystems and human health. Among water pollution remediation strategies, adsorption mechanisms provide strong efficacy for a wide variety of pollutants. Several recent efforts examined the development of low cost adsorbents utilizing commonly available agricultural wastes. However, raw (i.e., unaltered) agricultural wastes typically exhibit low sorption capacity for pollutants due to their non-reactive structural/composition properties. Hence, modifications of raw agricultural wastes to enhance their sorption capacities for various aquatic pollutants are necessary to optimize their performance for pollutant removal. Numerous modification techniques are effective in altering agricultural wastes for improved sorption performance. This paper reviews the development of modified agricultural waste materials for pollutant removal from water. We compiled an extensive inventory of modification techniques applied to agricultural wastes to enhance their adsorption capacities for removal of a wide range of pollutants. Modification strategies and their effects on sorption properties were rigorously examined to highlight key advancements in the preparation of adsorbents from agricultural wastes. Finally, the costs of these materials were examined, along with the benefits and drawbacks concerning their use. This review provides a thorough assessment for advancing the utilization of agricultural wastes for preparing adsorbents for water treatment. Graphical Abstract: [Figure not available: see fulltext.]

Organic carbon (C) is often applied to agricultural soils to increase soil organic matter, however, its mechanistic effects on soil P transformations and availability resulting from stimulation of microbial activities and changes in microbial communities remain uncertain. This study investigated the responses of soil P availability, P fractions and phoD harboring bacterial and fungal communities to two dose rates (5 and 10 mg C g−1 dry soil) of labile C (glucose) in bulk and rhizosphere soils planted with maize in a P-deficient soil (Oxisol). Both doses of glucose significantly increased available P concentrations (over a 47-day period) in soils without maize, and in the bulk and rhizosphere soils of maize, resulting in the promotion of maize growth. Glucose additions altered soil phoD harboring bacterial and fungal community composition and stimulated the growth of keystone P-solubilizing microorganisms, such as Bradyrhizobium and Eupenicillium, in soils with maize. Co-occurrence network analysis showed that glucose enhanced interactions between phoD harboring bacterial taxa relative to that of fungal taxa, whether in individual networks or in combined networks. Our results highlight the importance of labile C in facilitating changes in soil P-solubilizing bacterial and fungal communities of a P-deficient soil. These findings provide crucial information to guide P-cycling management strategies via microbial regulation in agro-ecosystems.

Wildfire plays an important role in restructuring bacterial and protist taxonomic and functional communities in forest ecosystems. Yet, the recovery of bacterial and protist communities following wildfire has not been rigorously investigated across long-term wildfire chronosequences. We compared changes in bacterial and protist alpha diversity, community composition, co-occurrence networks and determinant edaphic factors between burnt and unburnt (reference) soils at 11 different sites representing a 76-year wildfire chronosequence in Canadian boreal forests. The fire increased bacterial and protist alpha diversity and altered community composition (beta diversity) as compared to the site-specific controls during the early recovery stage (30 years) recovery stages. Bacterial and protist communities showed similar patterns of change across the wildfire chronosequence. The post-fire recovery of bacterial communities was associated with changes in soil chemical properties (e.g., nutrient status and pH) and vegetation succession. The protist community assembly was co-influenced by changes in bacterial communities and vegetation succession/soil properties. The concurrent recovery of bacterial and protist communities, and their influencing factors of vegetation and soil properties, imply the above- and belowground living communities are strongly linked in wildfire-perturbed forest ecosystems.

Carbon (C) additions to soil interact through chemical and microbiological processes to cause changes in soil phosphorus (P) availability. However, the response of soil P transformations and relevant microbial communities to C additions having different degrees of recalcitrance remains uncertain. We studied the effects of glucose, hemicellulose and lignin addition on soil P availability, P transformation processes and relevant microbial activity and communities in a P-deficient flooded soil. Lignin significantly increased soil available P concentrations, which was attributed to chemical release of inorganic P and increased alkaline phosphatase activity. Glucose and hemicellulose additions stimulated microbial metabolism of C thereby enhancing microbial demand for P, with increased soil P availability especially in the early incubation period. Glucose or hemicellulose addition changed soil microbial diversity and community composition, leading to enhanced growth and interactions of P solubilizing microorganisms such as Desulfitobacterium, Bacillus and Desulfosporosinus. Our results infer the importance of pH alteration and competitive sorption between PO4 and functional groups of recalcitrant C (e.g., lignin) with Fe/Al (hydr) oxides in regulating soil P availability. Further, the microbial response to labile C additions led to increased P availability in the P-deficient soil. This study provides important mechanistic information to guide microbially-regulated soil P management in agricultural ecosystems.

We assessed the response of soil microbial nitrogen (N) cycling and associated functional genes to elevated temperature at the global scale. A meta-analysis of 1,270 observations from 134 publications indicated that elevated temperature decreased soil microbial biomass N and increased N mineralization rates, both in the presence and absence of plants. These findings infer that elevated temperature drives microbially mediated N cycling processes from dominance by anabolic to catabolic reaction processes. Elevated temperature increased soil nitrification and denitrification rates, leading to an increase in N2 O emissions of up to 227%, whether plants were present or not. Rates of N mineralization, denitrification and N2 O emission demonstrated significant positive relationships with rates of CO2 emissions under elevated temperatures, suggesting that microbial N cycling processes were associated with enhanced microbial carbon (C) metabolism due to soil warming. The response in the abundance of relevant genes to elevated temperature was not always consistent with changes in N cycling processes. While elevated temperature increased the abundances of the nirS gene with plants and nosZ genes without plants, there was no effect on the abundances of the ammonia-oxidizing archaea amoA gene, ammonia-oxidizing bacteria amoA and nirK genes. This study provides the first global-scale assessment demonstrating that elevated temperature shifts N cycling from microbial immobilization to enhanced mineralization, nitrification and denitrification in terrestrial ecosystems. These findings infer that elevated temperatures have a profound impact on global N cycling processes with implications of a positive feedback to global climate and emphasize the close linkage between soil microbial C and N cycling.

Microbes are the drivers of soil phosphorus (P) cycling in terrestrial ecosystems; however, the role of soil microbes in mediating P cycling in P‐rich soils during primary succession remains uncertain. This study examined the impacts of bacterial community structure (diversity and composition) and its functional potential (absolute abundances of P‐cycling functional genes) on soil P cycling along a 130‐year glacial chronosequence on the eastern Tibetan Plateau. Bacterial community structure was a better predictor of soil P fractions than P‐cycling genes along the chronosequence. After glacier retreat, the solubilization of inorganic P and the mineralization of organic P were significantly enhanced by increased bacterial diversity, changed interspecific interactions, and abundant species involved in soil P mineralization, thereby increasing P availability. Although 84% of P‐cycling genes were associated with organic P mineralization, these genes were more closely associated with soil organic carbon than with organic P. Bacterial carbon demand probably determined soil P turnover, indicating the dominant role of organic matter decomposition processes in P‐rich alpine soils. Moreover, the significant decrease in the complexity of the bacterial co‐occurrence network and the taxa‐gene‐P network at the later stage indicates a declining dominance of the bacterial community in driving soil P cycling with succession. Our results reveal that bacteria with a complex community structure have a prominent potential for biogeochemical P cycling in P‐rich soils during the early stages of primary succession. Plain Language Summary: Microbial P turnover regulates soil P biogeochemical cycling during primary succession. Here, we revealed that the changes in bacterial community diversity, taxa abundance, and interspecific interaction were better predictors of soil P fraction variation than P‐cycling gene abundances along a 130‐year glacial chronosequence. The close link of organic P mineralization genes to SOC shows that bacterial carbon demand actuated soil P turnover through organic matter mineralization. Furthermore, we found that bacterial functioning on soil P cycling predominated during early succession stages, which attenuated with the dominance of higher plants and plant‐fungal symbionts. Key Points: Changes in bacterial community diversity, taxa abundance and interspecific interaction contributed the most to soil P fraction variationBacterial C demand facilitated soil P turnover by mediating their organic P mineralization potentialBacterial functioning on P cycling predominated during early succession stages but attenuated when higher plant‐fungal symbionts emerged [ABSTRACT FROM AUTHOR]

Biochar greatly influences the soil bacterial community and nutrient transformations, while our knowledge of the responses of fungal lifestyles to biochar is still in its infancy. Here, we used experimental pre-treatments (acetone extraction) of nutrient-rich biochars to identify which major biochar properties influence fungi the most: the easily mineralizable C, fused aromatic backbone, or the inorganic nutrients of biochars. Our objective was to investigate how different biochar fractions (easily mineralizable C, fused aromatic C, nutrients) structure the fungal taxonomic and functional communities. The easily mineralizable C of biochars induced greater short-term changes in fungal community composition compared to the fused aromatic C. The easily mineralizable C significantly decreased the relative abundance of Basidiomycota by avg. 10.6%, while it had no effects on Ascomycota and Zygomycota. Co-occurrence network indicated that saprophytic fungi were self-assembled in the easily mineralizable C-sufficient environment, whereas they were the connectors to interact with other groups when lower amounts of energy in form of mineralizable C were present. Thus, the easily mineralizable C in biochar as a microbial C source probably promoted saprotroph growth, caused them to self-assemble and to enhance their competitive capacity, leading to overall diversity decrease and relative decline of fungal pathogens. The inorganic nutrients had no effects on fungal diversity and saprotroph abundance, while they decreased the relative abundance of Zygomycota. Our study highlighted the important roles of both mineralizable C and inorganic nutrients in modification of the fungal community, and demonstrated that biochar probably favors the growth of saprotrophs over soil-borne fungal pathogens.

Soil ecological functions are largely determined by the activities of soil microorganisms, which, in turn, are regulated by relevant interactions between genes and their corresponding pathways. Therefore, the genetic network can theoretically elucidate the functional organization that supports complex microbial community functions, although this has not been previously attempted. We generated a genetic correlation network based on 5421 genes derived from metagenomes of forest soils, identifying 7191 positive and 123 negative correlation relationships. This network consisted of 27 clusters enriched with sets of genes within specific functions, represented with corresponding cluster hubs. The clusters revealed a hierarchical architecture, reflecting the functional organization in the soil metagenomes. Positive correlations mapped functional associations, whereas negative correlations often mapped regulatory processes. The potential functions of uncharacterized genes were predicted based on the functions of located clusters. The global genetic correlation network highlights the functional organization in soil metagenomes and provides a resource for predicting gene functions. We anticipate that the genetic correlation network may be exploited to comprehensively decipher soil microbial community functions.

The natural forest ecosystem in Eastern China, from tropical forest to boreal forest, has declined due to cropland development during the last 300 years, yet little is known about the historical biogeographic patterns and driving processes for the major domains of microorganisms along this continental-scale natural vegetation gradient. We predicted the biogeographic patterns of soil archaeal, bacterial, and fungal communities across 110 natural forest sites along a transect across four vegetation zones in Eastern China. The distance decay relationships demonstrated the distinct biogeographic patterns of archaeal, bacterial, and fungal communities. While historical processes mainly influenced bacterial community variations, spatially autocorrelated environmental variables mainly influenced the fungal community. Archaea did not display a distance decay pattern along the vegetation gradient. Bacterial community diversity and structure were correlated with the ratio of acid oxalate-soluble Fe to free Fe oxides (Feo/Fed ratio). Fungal community diversity and structure were influenced by dissolved organic carbon (DOC) and free aluminum (Ald), respectively. The role of these environmental variables was confirmed by the correlations between dominant operational taxonomic units (OTUs) and edaphic variables. However, most of the dominant OTUs were not correlated with the major driving variables for the entire communities. These results demonstrate that soil archaea, bacteria, and fungi have different biogeographic patterns and driving processes along this continental-scale natural vegetation gradient, implying different community assembly mechanisms and ecological functions for archaea, bacteria, and fungi in soil ecosystems. IMPORTANCE Understanding biogeographic patterns is a precursor to improving our knowledge of the function of microbiomes and to predicting ecosystem responses to environmental change. Using natural forest soil samples from 110 locations, this study is one of the largest attempts to comprehensively understand the different patterns of soil archaeal, bacterial, and fungal biogeography at the continental scale in eastern China. These patterns in natural forest sites could ascertain reliable soil microbial biogeographic patterns by eliminating anthropogenic influences. This information provides guidelines for monitoring the belowground ecosystem's decline and restoration. Meanwhile, the deviations in the soil microbial communities from corresponding natural forest states indicate the extent of degradation of the soil ecosystem. Moreover, given the association between vegetation type and the microbial community, this information could be used to predict the long-term response of the underground ecosystem to the vegetation distribution caused by global climate change.

Soil microbiota play a critical role in soil biogeochemical processes and have a profound effect on soil functions. Recent studies have revealed microbial co-occurrence patterns in soil microbial communities, yet the geographic pattern of topological features in soil microbial co-occurrence networks at the continental scale are largely unknown. Here, we investigated the shifts of topological features in co-occurrence networks inferred from soil microbiota along a continental scale in eastern China. Integrating archaeal, bacterial and fungal community datasets, we inferred a meta-community co-occurrence network and analyzed node-level and network-level topological shifts associated with five climatic regions. Both node-level and network-level topological features revealed geographic patterns wherein microorganisms in the northern regions had closer relationships but had a lower interaction influence than those in the southern regions. We further identified topological differences associated with taxonomic groups and demonstrated that co-occurrence patterns were random for archaea and non-random for bacteria and fungi. Given that microbial interactions may contribute to soil functions more than species diversity, this geographic shift of topological features provides new insight into studying microbial biogeographic patterns, their organization and impacts on soil-associated function.