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Microbial communities in desert riparian forest ecosystems have developed unique adaptive strategies to thrive in harsh habitats shaped by prolonged exposure to abiotic stressors. However, the influence of drought stress on the functional and metabolic characteristics of soil rhizosphere microorganisms remains unknown. Therefore, this study aimed to investigate the effects of drought stress on soil biogeochemistry and metabolism and analyze the relationship between the biogeochemical cycle processes and network of differentially-expressed metabolites. Using metagenomics and metabolomics, this study explored the microbial functional cycle and differential metabolic pathways within desert riparian forests. The predominant biogeochemical cycles in the study area were the Carbon and Nitrogen cycles, comprising 78.90 % of C, N, Phosphorus, Sulfur and Iron cycles. Drought led to increased soil C fixation, reduced C degradation and methane metabolism, weakened denitrification, and decreased N fixation. Furthermore, drought can disrupt iron homeostasis and reduce its absorption. The differential metabolic pathways of drought stress include flavonoid biosynthesis, arachidonic acid metabolism, steroid hormone biosynthesis, and starch and sucrose degradation. Network analysis of functional genes and metabolism revealed a pronounced competitive relationship between the C cycle and metabolic network, whereas the Fe cycle and metabolic network promoted each other, optimizing resource utilization. Partial least squares analysis revealed that drought hindered the expression and metabolic processes and functional genes, whereas the rhizosphere environment facilitated metabolic expression and the functional genes. The rhizosphere effect primarily promoted metabolic processes indirectly through soil enzyme activities. The integrated multi-omics analysis further revealed that the effects of drought and the rhizosphere play a predominant role in shaping soil functional potential and the accumulation of metabolites. These insights deepen our comprehension of desert riparian forest ecosystems and offer strong support for the functionality of nutrient cycling and metabolite dynamics.

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The decomposition of carcasses by scavengers and microbial decomposers is an important component of the biochemical cycle that can strongly alter the chemical composition of soils locally. Different scavenger guilds are assumed to have a different influence on the chemical elements that leak into the soil, although this assumption has not been empirically tested. Here, we experimentally determine how different guilds of vertebrate scavengers influence local nutrient dynamics. We performed a field experiment in which we systematically excluded different subsets of vertebrate scavengers from decomposing carcasses of fallow deer (Dama dama), and compared elemental concentrations in the soil beneath and in the vegetation next to the carcasses over time throughout the decomposition process. We used four exclusion treatments: excluding (1) no scavengers, thus allowing them all; (2) wild boar (Sus scrofa); (3) all mammals; and (4) all mammals and birds. We found that fluxes of several elements into the soil showed distinct peaks when all vertebrates were excluded. Especially, trace elements (Cu and Zn) seemed to be influenced by carcass decomposition. However, we found no differences in fluxes between partial exclusion treatments. Thus, vertebrate scavengers indeed reduce leakage of elements from carcasses into the soil, hence influencing local biochemical cycles, but did so independent of which vertebrate scavenger guild had access. Our results suggest that carcass-derived elements are dispersed over larger areas rather than locally leak into the soil when vertebrate scavengers dominate the decomposition process.

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The decomposition of macrophytes plays a crucial role in the nutrient cycles of macrophyte-dominated eutrophication lakes. While research on plant decomposition mechanisms and microbial influences has rapid developed, it is curious that plant decomposition models have remained stagnant at the single-stage model from 50 years ago, without endeavor to consider any important factors. Our research conducted in-situ experiments and identified the optimal metrics for decomposition-related microbes, thereby establishing models for microbial impacts on decomposition rates (k_RDR). Using backward elimination in stepwise regression, we found that the optimal subset of independent variables-specifically Gammaproteobacteria-Q-L, Actinobacteriota-Q-L, and Ascomycota-Q-L-increased the adjusted R-squared (Ra2) to 0.93, providing the best modeling for decomposition rate (p = 0.002). Additionally, k_RDR can be modeled by synergic parameters of ACHB-Q-L, LDB-Q-L, and AB-Q-L for bacteria, and SFQ for fungi, albeit with a slightly lower Ra2 of 0.7-0.9 (p < 0.01). The primary contribution of our research lies in two key aspects. Firstly, we introduced optimal metrics for modeling microbes, opting for debris surface microbes over sediment microbes, and prioritizing absolute abundance over relative abundance. Secondly, our model represents a noteworthy advancement in debris modeling. Alongside elucidating the focus and innovative aspects of our work, we also addressed existing limitations and proposed directions for future research. SYNOPSIS: This study explores optimum metrics for decomposition-related microbes, offering precise microbial models for enhanced lake nutrient cycle simulation.

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A Closed Aquatic Ecosystem (CAES) housed an aquatic plant Ceratophyllum demersum, zebrafish (Danio rerio), and microbes that were simultaneously obtained with the zebrafish, and it was used to study the operation of the ecosystem. The results indicated that the CAES can operate steadily for about 4 weeks. The dissolved oxygen (DO), pH, and conductivity values of the ecosystem regularly oscillated, while the total nitrogen of the water decreased and the total phosphate slightly increased. Additionally, the chemical oxygen demand (COD, a measure of organic compounds) of the water after the experiment increased to 39 times more than that of the water before the experiment. The meta-genomic data showed that the number of genera decreased by 38 % and the top 10 most abundant genera were almost completely different before and after the experiment, which demonstrated a great shift in the microbes during the operation process. These results suggested that although the CAES operated steadily during the 28-day experiment, there were more organic materials and less nitrogen in the water by the end of the experiment, which may have influenced the structure and operation of the ecosystem. Thus, it is necessary to remove superfluous plant biomass from the CAES and supply nitrogen to keep the ecosystem stable.

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Deep lakes are critical for freshwater storage, yet they are struggling against major ecological issues from climate change and nutrient pollution. A comprehensive understanding of internal feedback mechanisms is crucial for regulating nutrients in these lakes. A five-year study was conducted on the diatom community and environment in Lake Fuxian, China's largest deep freshwater lake, which is becoming eutrophic. The results indicate a shift in the diatom community from a stable state dominated by a single species to a rapid seasonal fluctuation, and there is a significant increase in diatom biomass. Specifically, stable stratification and low nutrient concentrations are limiting the growth of diatom biomass and maintaining the dominance of Cyclotella. Nutrients in the hypolimnion were replenished in the epilimnion during the extreme cold of winter, triggering a shift in the diatom community. This shift may imply that future climate change will exacerbate the positive feedback of hypoxia-nutrient release of algal blooms, potentially triggering a regime shift in the ecosystem of the entire lake. This study underscores the fact that climate change alters the internal feedback mechanisms of deep lakes, reducing ecosystem stability, and provides a scientific basis for further clarification of protection measures for deep lakes.

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Warming and elevated CO2 (eCO2) are expected to facilitate vascular plant encroachment in peatlands. The rhizosphere, where microbial activity is fueled by root turnover and exudates, plays a crucial role in biogeochemical cycling, and will likely at least partially dictate the response of the belowground carbon cycle to climate changes. We leveraged the Spruce and Peatland Responses Under Changing Environments (SPRUCE) experiment, to explore the effects of a whole-ecosystem warming gradient (+0°C to 9°C) and eCO2 on vascular plant fine roots and their associated microbes. We combined trait-based approaches with the profiling of fungal and prokaryote communities in plant roots and rhizospheres, through amplicon sequencing. Warming promoted self-reliance for resource uptake in trees and shrubs, while saprophytic fungi and putative chemoorganoheterotrophic bacteria utilizing plant-derived carbon substrates were favored in the root zone. Conversely, eCO2 promoted associations between trees and ectomycorrhizal fungi. Trees mostly associated with short-distance exploration-type fungi that preferentially use labile soil N. Additionally, eCO2 decreased the relative abundance of saprotrophs in tree roots. Our results indicate that plant fine-root trait variation is a crucial mechanism through which vascular plants in peatlands respond to climate change via their influence on microbial communities that regulate biogeochemical cycles.

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On a global scale, the restoration of metal mine ecosystem functions is urgently required, and soil microorganisms play an important role in this process. Conventional studies frequently focused on the relationship between individual functions and their drivers; however, ecosystem functions are multidimensional, and considering any given function in isolation ignores the trade-offs and interconnectedness between functions, which complicates obtaining a comprehensive understanding of ecosystem functions. To elucidate the relationships between soil microorganisms and the ecosystem multifunctionality (EMF) of metal mines, this study investigated natural restoration of metal mines, evaluated the EMF, and used high-throughput sequencing to explore the bacterial and fungal communities as well as their influence on EMF. Bacterial community diversity and composition were more sensitive to mine restoration than fungal community. Bacterial diversity exhibited redundancy in improving N-P-K-S multifunctionality; however, rare bacterial taxa including Dependentiae, Spirochaetes, and WPS-2 were important for metal multifunctionality. Although no clear relationship between fungal diversity and EMF was observed, the abundance of Glomeromycota had a significant effect on the three EMF categories (N-P-K-S, carbon, and metal multifunctionality). Previous studies confirmed a pronounced positive association between microbial diversity and multifunctionality; however, the relationship between microbial diversity and multifunctionality differs among functions' categories. In contrast, the presence of critical microbial taxa exerted stronger effects on mine multifunctionality.

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The current study generated co-pyrolysis biochar by pyrolyzing rice straw and pig manure at 300 °C and subsequently applying it in a field. Co-pyrolysis biochar demonstrated superior efficiency in mitigating agricultural non-point source pollution compared to biochar derived from individual sources. Furthermore, it displayed notable capabilities in retaining and releasing nutrients, resulting in increased soil levels of total nitrogen, total phosphorus, and organic matter during the maturation stage of rice. Moreover, co-pyrolysis biochar influences soil microbial communities, potentially impacting nutrient cycling. During the rice maturation stage, the soil treated with co-pyrolysis biochar exhibited significant increases in available nutrients and rice yield compared to the control (p < 0.05). These findings emphasize the potential of co-pyrolysis biochar for in-situ nutrient retention and enhanced soil nutrient utilization. To summarize, the co-pyrolysis of agricultural waste materials presents a promising approach to waste management, contributing to controlling non-point source pollution, improving soil fertility, and promoting crop production.

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Plants, soils and microorganisms play important roles in maintaining stable terrestrial stoichiometry. Studying how nutrient balances of these biotic and abiotic players vary across temperature gradients is important when predicting ecosystem changes on a warming planet. The respective responses of plant, soil and microbial stoichiometric ratios to warming have been observed, however, whether and how the stoichiometric correlations among the three components shift under warming has not been clearly understood and identified. In the present study, we have performed a meta-analysis based on 600 case studies from 74 sites or locations to clarify whether and how warming affects plant, soil and microbial stoichiometry, respectively, and their correlations. Our results indicated that: (1) globally, plants had higher C:N and C:P values compared to soil and microbial pools, but their N:P distributions were similar; (2) warming did not significantly alter plant, soil and microbial C:N and C:P values, but had a noticeable effect on plant N:P ratios. When ecosystem types, duration and magnitude of warming were taken into account, there was an inconsistent and even inverse warming response in terms of the direction and magnitude of changes in the C:N:P ratios occurring among plants, soils and microorganisms; (3) despite various warming responses of the stoichiometric ratios detected separately for plants, soils and microorganisms, the stoichiometric correlations among all three parts remained constant even under different warming scenarios. Our study highlighted the complexity of the effect of warming on the C:N:P stoichiometry, as well as the absence and importance of simultaneous measurements of stoichiometric ratios across different components of terrestrial ecosystems, which should be urgently strengthened in future studies.

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Ecological stoichiometry is an effective method to study the stoichiometric relations and laws of elements in biogeochemical cycle, widely used in studies on nutrient cycles, limiting elements and nutrient utilization efficiency in ecosystems. To explore C, N, P, and Si stoichiometric characteristics and reveal these nutrient cycle processes and mechanisms in the karst Masson pine forests, the typical Masson pine forests of the three different stand ages in southern China were selected as the research objects and the C, N, P, and Si stoichiometric characteristics of soil-plant-litter continuum were studied. The followed results and conclusions were obtained: 1) Content range of TOC (total organic carbon), TN (total N), TP (Total P) and TSi (total Si) of the Masson pine forests was 288.31-334.61, 0.34-6.66, 0.11-1.05, and 0.76-11.4 g·kg-1, respectively. And the ratio range of C:N, C:P, C:Si, N:P, N:Si, and P:Si was 49.95-913.57, 99.98-2872.18, 22.48-429.31, 1.85-6.33, 0.17-6.01, and 0.04-0.91, respectively. 2) The significant differences in C, N, P, and Si stoichiometric characteristics were present between different organs or different forest ages. Leaves had the highest N and P content, while roots were the best enriched organ of Si element. Si content and C:Si were obviously correlated with forest age. 3) Significant N limitation was present in the Masson pine forests. And in the young and middle-aged forests, N limitation was more obvious. 4) The litter nutrients mainly came from branches. And the litter decomposed fast, which played an important role in the nutrient return of barren karst soil. The present results not only revealed the stoichiometric characteristics and cycling processes of C, N, P, and Si elements in the Masson pine forests, but also provided important scientific bases for the artificial management of Masson pine plantations in southern China.

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Biochar is usually considered as an organic improver which can improve soil and increase crop yields. However, the unrestricted application of biochar to normal-fertility farmland will cause chemical stress on crops and affect agricultural production. At present, the effects and mechanisms of high-dose applications of biochar on rice (Oryza sativa L.) production and soil biological characteristics have not been fully studied. In this greenhouse pot experiment, combined with soil microbial metagenomics, three treatments in triplicates were conducted to explore the responses of rice production, soil chemical properties, and soil biological properties to high-dose applications of biochar (5%, w/w) prepared using peanut waste (peanut hulls and straw). The results show that peanut hulls, with a loose texture and pore structure, are a raw material with stronger effects for preparing biochar than peanut straw in terms of its physical structure. In a rice monoculture system, high-dose applications of biochar (5%, w/w) can slightly increase the grains per spike, while significantly inhibiting the spike number per pot and the percentage of setting. High-dose applications of biochar also have significant negative effects on the diversity and stability of soil bacterial and archaeal communities. Moreover, the microbial metabolism and nutrient cycling processes are also significantly affected by changing the soil carbon/nitrogen ratio. This study discusses the response mechanisms of rice production and soil biology to high-dose biochar applications, and complements the understanding of irrational biochar application on agricultural production and land sustainability.

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Phosphorous (P) resources are finite. Sewage sludge recyclates (SSR) are not only of interest as plant fertilizer but also as potential source of minerals in animal nutrition. However, besides P and calcium (Ca), SSR contain heavy metals. Under EU legislation, the use of SSR derivatives in animal feed is not permitted, but given the need to improve nutrient recycling, it could be an environmentally sound future mineral source. Black soldier fly larvae (BSFL) convert low-grade biomass into valuable proteins and lipids, and accumulate minerals in their body. It was hypothesized that BSFL modify and increase their mineral content in response to feeding on SSR containing substrates. The objective was to evaluate the upcycling of minerals from SSR into agri-food nutrient cycles through BSFL. Growth, nutrient and mineral composition were compared in BSFL reared either on a modified Gainesville fly diet (FD) or on FD supplemented with either 4% of biochar (FD + BCH) or 3.6% of single-superphosphate (FD + SSP) recyclate (n = 6 BSFL rearing units/group). Larval mass, mineral and nutrient concentrations and yields were determined, and the bioaccumulation factor (BAF) was calculated. The FD + SSP substrate decreased specific growth rate and crude fat of BSFL (P < 0.05) compared to FD. The FD + SSP larvae had higher Ca and P contents and yields but the BAF for Ca was lowest. The FD + BCH larvae increased Ca, iron, cadmium and lead contents compared to FD. Larvae produced on FD + SSP showed lower lead and higher arsenic concentration than on FD + BCH. Frass of FD + BCH had higher heavy metal concentration than FD + SSP and FD (P < 0.05). Except for cadmium and manganese, the larval heavy metal concentration was below the legally permitted upper concentrations for feed. In conclusion, the SSR used could enrich BSFL with Ca and P but at the expense of growth. Due to the accumulation of Cd and Mn, BSFL or products thereof can only be a component of farmed animal feed whereas in BSFL frass heavy metal concentrations remained below the upper limit authorized by EU.

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Bees provide important ecological services, and many species are threatened globally, yet our knowledge of wild bee ecology and evolution is limited. While evolving from carnivorous ancestors, bees had to develop strategies for coping with limitations imposed on them by a plant-based diet, with nectar providing energy and essential amino acids and pollen as an extraordinary, protein- and lipid-rich food nutritionally similar to animal tissues. Both nectar and pollen display one characteristic common to plants, a high ratio of potassium to sodium (K:Na), potentially leading to bee underdevelopment, health problems, and death. We discuss why and how the ratio of K:Na contributes to bee ecology and evolution and how considering this factor in future studies will provide new knowledge, more accurately depicting the relationship of bees with their environments. Such knowledge is essential for understanding how plants and bees function and interact and is needed to effectively protect wild bees.

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The increasing demand for food has increased dependence on chemical fertilizers that promote rapid growth and yield as well as produce toxicity and negatively affect nutritional value. Therefore, researchers are focusing on alternatives that are safe for consumption, non-toxic, cost-effective production process, and high yielding, and that require readily available substrates for mass production. The potential industrial applications of microbial enzymes have grown significantly and are still rising in the 21st century to fulfill the needs of a population that is expanding quickly and to deal with the depletion of natural resources. Due to the high demand for such enzymes, phytases have undergone extensive research to lower the amount of phytate in human food and animal feed. They constitute efficient enzymatic groups that can solubilize phytate and thus provide plants with an enriched environment. Phytases can be extracted from a variety of sources such as plants, animals, and microorganisms. Compared to plant and animal-based phytases, microbial phytases have been identified as competent, stable, and promising bioinoculants. Many reports suggest that microbial phytase can undergo mass production procedures with the use of readily available substrates. Phytases neither involve the use of any toxic chemicals during the extraction nor release any such chemicals; thus, they qualify as bioinoculants and support soil sustainability. In addition, phytase genes are now inserted into new plants/crops to enhance transgenic plants reducing the need for supplemental inorganic phosphates and phosphate accumulation in the environment. The current review covers the significance of phytase in the agriculture system, emphasizing its source, action mechanism, and vast applications.

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The study of litter can provide an important reference for understanding patterns of forest nutrient cycling and sustainable management. Here, we measured litterfall (leaves, branches, etc.) from a wet, evergreen, broad-leaved forest in Ailao Mountains of southwestern China on a monthly basis for 11 years (2005-2015). We measured the total biomass of litter fall as well as its components, and estimated the amount of C, N, P, K, S, Ca, and Mg in the amount of litterfall. We found that: The total litter of evergreen, broadleaved forest in Ailao Mountains from 2005 to 2015 was 7.70-9.46 t/ha, and the output of litterfall differed between years. This provides a safeguard for the soil fertility and biodiversity of the area. The total amount of litterfall and its components showed obvious seasonal variation, with most showing a bimodal pattern (peak from March to May and October to November). The majority of litterfall came from leaves, and the total amount as well as its components were correlated with meteorological factors (wind speed, temperate and precipitation) as well as extreme weather events. We found that among years, the nutrient concentration was sorted as C > Ca > N > K > Mg > S > P. The nutrient concentration in the fallen litter and the amount of nutrients returned showed a decreasing trend, but the decreasing rate was slowed through time. Nutrient cycling was influenced by meteorological factors, such as temperature, precipitation, and wind speed, but the nutrient utilization efficiency is high, the circulation capacity is strong, and the turnover time is short. Our results showed that although there was nutrient loss in this evergreen, broad-leaved forest, the presence of forest litterfall can effectively curb potential ecological problems in the area.

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Metals pollution of lead in agricultural soils is a serious problem for food safety. Therefore, we investigated the toxic effects of carbonate-bound fraction Pb on agricultural soil from various aspects. The results revealed that a higher carbonate-bound fraction of Pb had more toxic effects on wheat growth, as evidenced by higher malondialdehyde (3.17 µmol g-1 FW) and lower catalase levels (9.77 µg-1 FW min-1). In terms of nutrient cycling, soil nutrients including carbon, nitrogen, and phosphorus would slow down transformation rates in high concentrations. Compared to carbon, nitrogen and phosphorus were more likely to be affected by the initial carbonate-bound fraction at the earlier stage. Increased Pb dosage may reduce the soil enzymes activity such as urease (119-50 U g-1) and phosphatase (3191-967 U g-1), as well as the functional genes of nitrogen degradation related nirK, nisS, and carbon related pmoA. Correlation analysis and structural equation modeling indicated that carbonate bound Pb could regulate nutrients cycle via functional genes inhibition, soil enzyme activity reduction and wheat growth suppression in agricultural soil. Our findings will help with polluted agricultural soil monitoring and regulation through microbial activity to ensure food safety.

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In recent decades, microplastics (MPs < 5 mm) are ubiquitous and considered a serious emerging environmental problem. However, due to the limited recovery and long-lasting durability MPs, debris is frequently accumulating in riverine ecosystems, thereby impacting microbial activity and its communities. The presence of MPs may alter the microbial richness, variety, and population, thereby impacting the transformation of biogeochemical cycles. The occurrence, fate, and transport of MPs in marine and terrestrial ecosystems and their impact on biogeochemical or nutrient cycling are reported in the scientific fraternity. Yet, the global scientific community is conspicuously devoid of research on impact of MPs on riverine greenhouse gas (GHG) emissions. The presented view point provides a novel idea about the fate of MPs in the riverine system and its impact on GHG emissions potential. Literature reveals that DO and nutrients (organic carbon, NH4+, NO3-) concentrations play an important role in potential of GHG emission in riverine ecosystems. The proposed mechanism and research gaps provided will be highly helpful to the hydrologist, environmentalist, biotechnologist, and policymakers to think about the strategic mitigation measure to resolve the future climatic risk.

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In recent decades, there has been growing concern regarding the effects of human activities on the coastal nutrient cycle. However, interannual variations in the coastal nutrient cycle in response to anthropogenic nutrient input have rarely been quantified. In this study, a hydrodynamic-ecological model capable of describing the nitrogen and phosphorus cycles was used to analyze interannual variations in the nutrient cycle in the central Bohai Sea, a typical semi-enclosed sea in the Northwest Pacific. The results showed an increasing trend of dissolved inorganic nitrogen and particulate nitrogen from 1998 to 2017, whereas different forms of phosphorus showed no obvious interannual variations. The annual nutrient budgets were also quantitatively estimated from 1998 to 2017. This indicates that atmospheric nitrogen deposition plays an important role in interannual variations in the nitrogen cycle. A large amount of nitrogen from anthropogenic inputs was mainly removed by sedimentation processes instead of increasing the standing stock of nitrogen in the sea. With the reduction of anthropogenic inputs, the model showed that a variety of forms of nitrogen concentration decreased linearly, whereas phosphorus concentration increased slightly. Therefore, although environmental governance can effectively alleviate water eutrophication, it is necessary to avoid the situation where the dissolved inorganic nitrogen concentration in the sea becomes too low for phytoplankton to grow, which may determine the primary productivity and eventually affect fishery resources.

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The enhanced mutualism hypothesis postulates that invasive plants promote self-growth by enriching beneficial microbes to establish a positive soil feedback. However, the roles of soil microorganisms may vary with increasing time for plant growth. Research on changes in soil microbial communities over time has important implications for understanding the mechanisms underlying plant invasion. Due to the difficulty in evaluating the duration of plant growth, few studies have quantified the changes in soil microorganisms with increasing plant age. This study focuses on the invasive weed Phytolacca americana L., which has growth rings in the main root. We conducted a two-stage experiment in the field and greenhouse to explore the soil feedback changes with duration of plant growth. We determined the effects of P. americana at different ages on the soil microbial community and soil properties and performed a soil inoculation experiment to quantify the influence of soil microbes on seed germination and seedling performance. We found that the content of some soil nutrients, namely total nitrogen, total phosphorus, nitrate-N, and available phosphorus, significantly decreased with increasing growth age of P. americana, whereas the available potassium showed an opposite increasing trend. The P. americana growth age also significantly influenced the soil bacterial community structure. However, this phenomenon did not occur in the fungal community. In the bacterial community, the relative abundance of plant growth-promoting bacteria showed an increasing trend. The soil inoculation experiment had high seed germination rates and biomass accumulation when the plants were grown in conditioned soil from P. americana growth within 5 years, suggesting a positive plant-soil feedback. However, the promoting effect disappeared in conditioned soil from 10 years of age. Our findings demonstrate that plant growth-promoting bacteria significantly accumulated in the soil during the early stages of P. americana invasion, and that the strength of enhanced positive feedback may play a crucial role in facilitating P. americana invasion. This study highlights the changing nature of plant-microbe interactions during biological invasion and illustrates how bacteria could contribute to the initial success of P. americana, providing new insights into the underlying mechanisms of plant invasion.

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In the biological nitrogen cycle, nitrite oxidation is performed by nitrite oxidation bacteria, of which Nitrospira is widespread and diverse. Communities of Nitrospira were collected at 25-1500 m depths in the South China Sea. Phylogenetic diversity, community composition, and environmental factors were investigated using high-throughput sequencing targeting the nxrB gene and statistical analyses. The community composition of Nitrospira varied spatially and by depth. Among the 24 OTUs with relatively high abundance, 70% were unclassified and not affiliated with the known Nitrospira genus, suggesting a previously unrecognized high diversity of marine Nitrospira. Five known Nitrospira genera were detected, of which the common marine Nitrospira marina was not the dominant species, whereas Candidatus Nitrospira lenta and Candidatus Nitrospira defluvii dominated in shallow habitats. Comammox Candidatus Nitrospira nitrosa was discovered in the marine ecosystem. The niche differentiation of versatile Nitrospira species was mainly shaped by nitrate, temperature, and DO.