Shifts of functional gene representation in wheat rhizosphere microbial communities under elevated ozone

Cadaverine and putrescine exposure influence carbon and nitrogen cycling genes in water and sediment of the Yellow River

The response patterns of microbial functional genes involved in biogeochemical cycles to cadaver decay is a central topic of recent environmental sciences. However, the response mechanisms and pathways of the functional genes associated with the carbon (C) and nitrogen (N) cycling to cadaveric substances such as cadaverine and putrescine remain unclear. This study explored the variation of functional genes associated with C fixation, C degradation and N cycling and their influencing factors under cadaverine, putrescine and mixed treatments. Our results showed only putrescine significantly increased the alpha diversity of C fixation genes, while reducing the alpha diversity of N cycling genes in sediment. For the C cycling, the mixed treatment significantly decreased the total abundance of reductive acetyl-CoA pathway genes (i.e., acsB and acsE) and lig gene linked to lignin degradation in water, while only significantly increasing the hydroxypropionate-hydroxybutylate cycle (i.e., accA) gene abundance in sediment. For the N cycling, mixed treatment significantly decreased the abundance of the nitrification (i.e., amoB), denitrification (i.e., nirS3) genes in water and the assimilation pathway gene (i.e., gdhA) in sediment. Environmental factors (i.e., total carbon and total nitrogen) were all negatively associated with the genes of C and N cycling. Therefore, cadaverine and putrescine exposure may inhibit the pathway in C fixation and N cycling, while promoting C degradation. These findings can offer some new insight for the management of amine pollution caused by animal cadavers.

Effects of micro/nano-ozone bubble nutrient solutions on growth promotion and rhizosphere microbial community diversity in soilless cultivated lettuces

Due to its high efficacy as a wide-spectrum disinfectant and its potential for the degradation of pollutants and pesticides, ozone has broad application prospects in agricultural production. In this study, micro/nano bubble technology was applied to achieve a saturation state of bubble nutrient solution, including micro-nano oxygen (O2 group) and micro-nano ozone (O3 group) bubble nutrient solutions. The effects of these solutions on lettuce physiological indices as well as changes in the microbial community within the rhizosphere substrate were studied. The application of micro/nano (O2 and O3) bubble nutrient solutions to substrate-cultured lettuce plants increased the amount of dissolved oxygen in the nutrient solution, increased the lettuce yield, and elevated the net photosynthetic rate, conductance of H2O and intercellular carbon dioxide concentration of lettuce plants. Diversity analysis of the rhizosphere microbial community revealed that both the abundance and diversity of bacterial and fungal communities in the substrate increased after plant cultivation and decreased following treatment with micro/nanobubble nutrient solutions. RDA results showed that the microbial community in the S group was positively associated with EC, that in the CK and O2 groups exhibited a positive correlation with SC, and that in the O3 group displayed a positive correlation with CAT and POD. Overall, the implementation of micro/nanobubble generation technology in soilless substrates can effectively increase the lettuce growth and yield, and O3 had a more pronounced effect on lettuce yield and quality and the microbial community structure in the substrate than O2. Our study would provide a reference and theoretical basis for developing sustainable and green technology for promoting lettuce production and can be a promising alternative to conventional methods for improving crop yields.

Long-term tropospheric ozone pollution disrupts plant-microbe-soil interactions in the agroecosystem

Tropospheric ozone (O3 ) threatens agroecosystems, yet its long-term effects on intricate plant-microbe-soil interactions remain overlooked. This study employed two soybean genotypes of contrasting O3 -sensitivity grown in field plots exposed elevated O3 (eO3 ) and evaluated cause-effect relationships with their associated soil microbiomes and soil quality. Results revealed long-term eO3 effects on belowground soil microbiomes and soil health surpass damage visible on plants. Elevated O3 significantly disrupted belowground bacteria-fungi interactions, reduced fungal diversity, and altered fungal community assembly by impacting soybean physiological properties. Particularly, eO3 impacts on plant performance were significantly associated with arbuscular mycorrhizal fungi, undermining their contribution to plants, whereas eO3 increased fungal saprotroph proliferation, accelerating soil organic matter decomposition and soil carbon pool depletion. Free-living diazotrophs exhibited remarkable acclimation under eO3 , improving plant performance by enhancing nitrogen fixation. However, overarching detrimental consequences of eO3 negated this benefit. Overall, this study demonstrated long-term eO3 profoundly governed negative impacts on plant-soil-microbiota interactions, pointing to a potential crisis for agroecosystems. These findings highlight urgent needs to develop adaptive strategies to navigate future eO3 scenarios.

The choice of rice rotation system affects the composition of the soil fungal community and functional traits

Plant rotation is a common practice in upland rice production. However, the effects of plant rotation on the interactions between rice plants, soil and underground ecosystems need to be studied further. Here, quantitative PCR and high-throughput pyrosequencing of the ITS region was applied to investigate the fungal abundance, diversity, and composition of fungal functional guilds in rice field soils and after different rotation practices ((rice-fallow (RF), rice-Chinese milk vetch (RV) and rice-wheat (RW)) and their relationship with rice yields. The results showed that the six-year RV and RW rotations increased fungal abundance by 42.7 %-69.2 % relative to RF, but decreased the soil bacterial-to-fungi ratio and fungal diversity. For the functional guilds, RV rotation significantly increased the relative abundance of soil saprotrophs and pathotrophs by 73.30 % and 32.94 %, respectively, while that of symbiotrophs was decreased by 35.96 %, compared to RF. RW rotation was found to significantly decrease all three fungal functional guilds, but increased the symbiotroph-saprotroph ratio. A structure equal model analysis indicated that the diversity of saprotrophs was significantly and negatively correlated with rice yield. Altogether, this work provides a detailed description of how the soil fungal community, including saprotrophic, symbiotrophic and pathotrophic functional guilds, responded to different upland rice rotation practices after eight years of application.

Soil properties and organochlorine compounds co-shape the microbial community structure: A case study of an obsolete site

Organochlorine compounds (OCs) such as chlorobenzenes (CB) are persistent organic pollutants that are ubiquitous in soils at organochlorine pesticides (OCP) production sites. Long-term contamination with OCs might alter the soil microbial structure and further affect soil functions. However, the effects of OCs regarding the shaping of microbial community structures in the soils of OCs-contaminated sites remain obscure, especially in the vertical soil profile where pollutants are highly concealed. Hence this paper explored the status and causes of OCs pollution (CB, hexachlorocyclohexane (HCH), and dichlorodiphenyltrichloroethane (DDT)) in an obsolete site, and its combined effects with soil properties (pH, available phosphorus (AP), dissolved organic carbon (DOC), etc) on microbial community structure. The mean total concentration of OCs in the subsoils was up to 996 times higher than that in the topsoils, with CB constituting over 90% of OCs in the subsoil. Historical causes, anthropogenic effects, soil texture, and the nature of OCs contributed to the differences in the spatial distribution of OCs. Redundancy analysis revealed that both the soil properties and OCs were important factors in shaping microbial composition and diversity. Variation partitioning analysis further indicated that soil properties had a greater impact on microbial community structure than OCs. Significant differences in microbial composition between topsoils and subsoils were observed through linear discriminant analysis effect size (LEfSe) analysis, primarily driven by different pollutant conditions. Additionally, co-occurrence network analysis indicated that heavily contaminated subsoils exhibited closer and more intricate bacterial community interactions compared to lightly contaminated topsoils. This work reveals the impact of environmental factors in co-shaping the structure of soil microbial communities. These findings advance our understanding of the intricate interplay among organochlorine pollutants, soil properties, and microbial communities, and provides valuable insights into devising effective management strategies in OCs-contaminated soils.

Fertilization altered co-occurrence patterns and microbial assembly process of ammonia-oxidizing microorganisms

Ammonia-oxidizing archaea and bacteria (AOA and AOB, respectively) are important intermediate links in the nitrogen cycle. Apart from the AOA and AOB communities in soil, we further investigated co-occurrence patterns and microbial assembly processes subjected to inorganic and organic fertilizer treatments for over 35 years. The amoA copy numbers and AOA and AOB communities were found to be similar for the CK and organic fertilizer treatments. Inorganic fertilizers decreased the AOA gene copy numbers by 0.75-0.93-fold and increased the AOB gene copy numbers by 1.89-3.32-fold compared to those of the CK treatment. The inorganic fertilizer increased Nitrososphaera and Nitrosospira. The predominant bacteria in organic fertilizer was Nitrosomonadales. Furthermore, the inorganic fertilizer increased the complexity of the co-occurrence pattern of AOA and decreased the complexity pattern of AOB comparing with organic fertilizer. Different fertilizer had an insignificant effect on the microbial assembly process of AOA. However, great difference exists in the AOB community assembly process: deterministic process dominated in organic fertilizer treatment and stochastic processes dominated in inorganic fertilizer treatment, respectively. Redundancy analysis indicated that the soil pH, NO₃^-N, and available phosphorus contents were the main factors affecting the changes in the AOA and AOB communities. Overall, this findings expanded our knowledge concerning AOA and AOB, and ammonia-oxidizing microorganisms were more disturbed by inorganic fertilizers than organic fertilizers.

Elevated ozone decreases the multifunctionality of belowground ecosystems

Elevated tropospheric ozone (O₃ ) affects the allocation of biomass aboveground and belowground and influences terrestrial ecosystem functions. However, how belowground functions respond to elevated O₃ concentrations ([O₃ ]) remains unclear at the global scale. Here, we conducted a detailed synthesis of belowground functioning responses to elevated [O₃ ] by performing a meta-analysis of 2395 paired observations from 222 publications. We found that elevated [O₃ ] significantly reduced the primary productivity of roots by 19.8%, 16.3%, and 26.9% for crops, trees and grasses, respectively. Elevated [O₃ ] strongly decreased the root/shoot ratio by 11.3% for crops and by 4.9% for trees, which indicated that roots were highly sensitive to O₃ . Elevated [O₃ ] impacted carbon and nitrogen cycling in croplands, as evidenced by decreased dissolved organic carbon, microbial biomass carbon, total soil nitrogen, ammonium nitrogen, microbial biomass nitrogen, and nitrification rates in association with increased nitrate nitrogen and denitrification rates. Elevated [O₃ ] significantly decreased fungal phospholipid fatty acids in croplands, which suggested that O₃ altered the microbial community and composition. The responses of belowground functions to elevated [O₃ ] were modified by experimental methods, root environments, and additional global change factors. Therefore, these factors should be considered to avoid the underestimation or overestimation of the impacts of elevated [O₃ ] on belowground functioning. The significant negative relationships between O₃ -treated intensity and the multifunctionality index for croplands, forests, and grasslands implied that elevated [O₃ ] decreases belowground ecosystem multifunctionality.

Changes in microbial community composition drive the response of ecosystem multifunctionality to elevated ozone

Increasing tropospheric ozone poses a potential threat to both above- and belowground components of the terrestrial biosphere. Microorganisms are the main drivers of soil ecological processes, however, the link between soil microbial communities and ecological functions under elevated ozone remains poorly understood. In this study, we assessed the responses of three crop seedlings (i.e., soybean, maize, and wheat) growth and soil microbial communities to elevated ozone (40 ppb O₃ above ambient air) in a pot experiment in the solardomes. Results showed that elevated ozone adversely affected ecosystem multifunctionality by reducing crop biomass, inhibiting soil extracellular enzyme activities, and altering nutrient availability. Elevated ozone increased bacterial and fungal co-occurrence network complexity, negatively correlated with ecosystem multifunctionality. Changes in the relative abundance of some specific bacteria and fungi were associated with multiple ecosystem functioning. In addition, elevated ozone significantly affected fungal community composition but not bacterial community composition and microbial alpha-diversity. Crop type played a key role in determining bacterial alpha-diversity and microbial community composition. In conclusion, our findings suggest that short-term elevated ozone could lead to a decrease in ecosystem multifunctionality associated with changes in the complexity of microbial networks in soils.

Effects of Bradyrhizobium Co-Inoculated with Bacillus and Paenibacillus on the Structure and Functional Genes of Soybean Rhizobacteria Community

Plant growth-promoting rhizobacteria (PGPR) are widely used to improve soil nutrients and promote plant growth and health. However, the growth-promoting effect of a single PGPR on plants is limited. Here, we evaluated the effect of applying rhizobium Bradyrhizobium japonicum 5038 (R5038) and two PGPR strains, Bacillus aryabhattai MB35-5 (BA) and Paenibacillus mucilaginosus 3016 (PM), alone or in different combinations on the soil properties and rhizosphere bacterial community composition of soybean (Glycine max). Additionally, metagenomic sequencing was performed to elucidate the profile of functional genes. Inoculation with compound microbial inoculant containing R5038 and BA (RB) significantly improved nodule nitrogenase activity and increased soil nitrogen content, and urease activity increased the abundance of the nitrogen cycle genes and Betaproteobacteria and Chitinophagia in the rhizosphere. In the treatment of inoculant-containing R5038 and PM (RP), significant changes were found for the abundance of Deltaproteobacteria and Gemmatimonadetes and the phosphorus cycle genes, and soil available phosphorus and phosphatase activity were increased. The RBP inoculants composed of three strains (R5038, BA and PM) significantly affected soybean biomass and the N and P contents of the rhizosphere. Compared with RB and RP, RBP consistently increased soybean nitrogen content, and dry weight. Overall, these results showed that several PGPR with different functions could be combined into composite bacterial inoculants, which coordinately modulate the rhizosphere microbial community structure and improve soybean growth.

Effects of shining pondweed (Potamogeton lucens) on bacterial communities in water and rhizosphere sediments in Nansi Lake, China

Submerged macrophytes and microbial communities are important parts of lake ecosystems. In this study, the bacterial community composition in rhizosphere sediments and water from areas cultivated with (PL) and without (CK) shining pondweed (Potamogeton lucens Linn.) was investigated to determine the effects of P. lucens Linn. on the structure of the bacterial communities in Nansi Lake, China. Molecular techniques, including Illumina MiSeq and qPCR targeting of the 16S rRNA gene, were used to analyze the composition and abundance of the bacterial community. We found that bacterial alpha diversity was higher in PL water than in CK water, and the opposite trend was observed in sediment. In addition, 16S rRNA gene copy number in sediment was lower in PL than in CK. We found 30 (e.g., Desulfatiglans) and 29 (e.g., Limnohabitans) significantly different genera in sediment and water, respectively. P. lucens Linn. can change chemical properties in sediment and water and thereby affect the bacterial community. At the genus level, members of bacterial community clustered according to source (water/sediment) and area (PL/CK). Our study demonstrated that submerged macrophytes can affect the bacterial community composition in both sediment and water, suggesting that submerged macrophytes affect the transportation and cycling of nutrients in lake ecosystems.

Profound Change in Soil Microbial Assembly Process and Co-occurrence Pattern in Co-inoculation of Bradyrhizobium japonicum 5038 and Bacillus aryabhattai MB35-5 on Soybean

Rhizosphere microbial communities are vital for plant growth and soil sustainability; however, the composition of rhizobacterial communities, especially the assembly process and co-occurrence pattern among microbiota after the inoculation of some beneficial bacteria, remains considerably unclear. In this study, we investigated the structure of rhizomicrobial communities, their assembly process, and interactions contrasting when Bradyrhizobium japonicum 5038 and Bacillus aryabhattai MB35-5 are co-inoculated or Bradyrhizobium japonicum 5038 mono-inoculated in black and cinnamon soils of soybean fields. The obtained results indicated that the Chao and Shannon indices were all higher in cinnamon soil than that in black soil. In black soil, the co-inoculation increased the Shannon indices of bacteria comparing with that of the mono-inoculation. In cinnamon soil, the co-inoculation decreased the Chao indices of fungi comparing with that of mono-inoculation. Compared with the mono-inoculation, the interactions of microorganisms of co-inoculation in the co-occurrence pattern increased in complexity, and the nodes and edges of co-inoculation increased by 10.94, 40.18 and 4.82, 16.91% for bacteria and fungi, respectively. The co-inoculation of Bradyrhizobium japonicum 5038 and Bacillus aryabhattai MB35-5 increased the contribution of stochastic processes comparing with Bradyrhizobium japonicum 5038 inoculation in the assembly process of soil microorganisms, and owing to the limitation of species diffusion might restrict the direction of pathogenic microorganism movement. These findings support the feasibility of rebuilding the rhizosphere microbial system via specific microbial strain inoculation and provide evidence that the co-inoculation of Bradyrhizobium japonicum 5038 and Bacillus aryabhattai MB35-5 can be adopted as an excellent compound rhizobia agent resource for the sustainable development of agriculture.

Changes in Ammonia-Oxidizing Archaea and Bacterial Communities and Soil Nitrogen Dynamics in Response to Long-Term Nitrogen Fertilization

Ammonia oxidizing archaea (AOA) and bacteria (AOB) mediate a crucial step in nitrogen (N) metabolism. The effect of N fertilizer rates on AOA and AOB communities is less studied in the wheat-fallow system from semi-arid areas. Based on a 17-year wheat field experiment, we explored the effect of five N fertilizer rates (0, 52.5, 105, 157.5, and 210 kg ha^-1 yr^-1) on the AOA and AOB community composition. This study showed that the grain yield of wheat reached the maximum at 105 kg N ha^-1 (49% higher than control), and no further significant increase was observed at higher N rates. With the increase of N, AOA abundance decreased in a regular trend from 4.88 × 10⁷ to 1.05 × 10⁷ copies g^-1 dry soil, while AOB abundance increased from 3.63 × 10⁷ up to a maximum of 8.24 × 10⁷ copies g^-1 dry soil with the N105 treatment (105 kg N ha^-1 yr^-1). Application rates of N fertilizer had a more significant impact on the AOB diversity than on AOA diversity, and the highest AOB diversity was found under the N105 treatment in this weak alkaline soil. The predominant phyla of AOA and AOB were Thaumarchaeota and Proteobacteria, respectively, and higher N treatment (N210) resulted in a significant decrease in the relative abundance of genus Nitrosospira. In addition, AOA and AOB communities were significantly associated with grain yield of wheat, soil potential nitrification activity (PNA), and some soil physicochemical parameters such as pH, NH₄-N, and NO₃-N. Among them, soil moisture was the most influential edaphic factor for structuring the AOA community and NH₄-N for the AOB community. Overall, 105 kg N ha^-1 yr^-1 was optimum for the AOB community and wheat yield in the semi-arid area.

Effects of Seven-Year Fertilization Reclamation on Bacterial Community in a Coal Mining Subsidence Area in Shanxi, China

The restoration of soil fertility and microbial communities is the key to the soil reclamation and ecological reconstruction in coal mine subsidence areas. However, the response of soil bacterial communities to reclamation is still not well understood. Here, we studied the bacterial communities in fertilizer-reclaimed soil (CK, without fertilizer; CF, chemical fertilizer; M, manure) in the Lu’an reclamation mining region and compared them with those in adjacent subsidence soil (SU) and farmland soil (FA). We found that the compositions of dominant phyla in the reclaimed soil differed greatly from those in the subsidence soil and farmland soil (p < 0.05). The related sequences of Acidobacteria, Chloroflexi, and Nitrospirae were mainly from the subsided soil, whereas those of Alphaproteobacteria, Planctomycetes, and Deltaproteobacteria were mainly derived from the farmland soil. Fertilization affected the bacterial community composition in the reclaimed soil, and bacteria richness and diversity increased significantly with the accumulation of soil nutrients after 7 years of reclamation (p < 0.05). Moreover, soil properties, especially SOM and pH, were found to play a key role in the restoration of the bacterial community in the reclaimed soil. The results are helpful to the study of soil fertility improvement and ecological restoration in mining areas.

The Long-Term Effects of Using Phosphate-Solubilizing Bacteria and Photosynthetic Bacteria as Biofertilizers on Peanut Yield and Soil Bacteria Community

Microbial inoculation is a promising strategy to improve crop yields and reduce the use of chemical fertilizers, thereby creating environment-friendly agriculture. In this study, the long-term (5 years) effects of a phosphate-solubilizing bacterium Burkholderia cepacia ISOP5, a purple non-sulfur bacterium Rhodopseudomonas palustris ISP-1, and a mixed inoculation of these two bacteria (MB) on peanut yield, soil microbial community structure, and microbial metabolic functions were evaluated in a field experiment. After 5 years of inoculation, total peanut yield with B. cepacia ISOP5, R. palustris ISP-1, and MB treatments increased by 8.1%, 12.5%, and 19.5%, respectively. The treatments also significantly promoted the absorption of N and increased the protein content in peanut seeds. Nutrient content also increased to some extent in the bacteria-inoculum-treated soil. However, bacterial community diversity and richness were not significantly affected by bacterial inoculums, and only minor changes occurred in the bacterial community composition. Functional prediction revealed that bacterial inoculums reduced the relative abundance of those genes associated with P uptake and transport as well as increased the abundance of genes associated with inorganic P solubilization and organic P mineralization. Bacterial inoculums also increased the total relative abundance of genes associated with N metabolism. In addition to developing sustainable and eco-friendly agricultural practice, crop inoculation with B. cepacia ISOP5 and R. palustris ISP-1 would improve soil fertility, enhance microbial metabolic activity, and increase crop yield.

Saline-alkaline stress in growing maize seedlings is alleviated by Trichoderma asperellum through regulation of the soil environment

A significant proportion of the land area of Heilongjiang Province, China, is composed of saline-alkaline soil, which severely inhibits maize growth. Although Trichoderma treatment is widely regarded as a promising strategy for improving the soil environment and promoting plant growth, the mechanism through which Trichoderma asperellum enhances maize resistance to saline-alkaline stress is not clear. In this study, we explored the effect of T. asperellum application at different concentrations to soil saline-alkaline environment on the seedlings of two maize cultivars, assessing the biochemical parameters related to oxidation resistance. Increasing spore densities of T. asperellum suspension effectively regulated the soil ion balance in the rhizosphere of maize seedlings, reduced the soil pH by 2.15-5.76% and sodium adsorption ratios by 22.70-54.13%, increased soil nutrient content and enzyme activity, and improved the soil environment for seedling growth. Additionally, T. asperellum treatment increased the maize seedling content of osmo-regulating substances and rate of glutathione:oxidised glutathione (43.86-88.25%) and ascorbate:oxidised ascorbate (25.26-222.32%) by affecting the antioxidant enzyme activity in the roots, increasing reactive oxygen species scavenging, and maintaining the osmotic balance and metabolic homeostasis under saline-alkaline stress. T. asperellum also improved the saline-alkaline tolerance of maize seedlings by improving the root growth characteristics. Moreover, results showed that Trichoderma applied at high concentration had the greatest effect. In conclusion, improvement in the saline-alkaline tolerance of maize seedlings by T. asperellum under saline-alkaline soil conditions may be achieved through diverse effects that vary among maize cultivars.

Diazotroph Paenibacillus triticisoli BJ-18 Drives the Variation in Bacterial, Diazotrophic and Fungal Communities in the Rhizosphere and Root/Shoot Endosphere of Maize

Application of diazotrophs (N2-fixing microorganisms) can decrease the overuse of nitrogen (N) fertilizer. Until now, there are few studies on the effects of diazotroph application on microbial communities of major crops. In this study, the diazotrophic and endospore-forming Paenibacillus triticisoli BJ-18 was inoculated into maize soils containing different N levels. The effects of inoculation on the composition and abundance of the bacterial, diazotrophic and fungal communities in the rhizosphere and root/shoot endosphere of maize were evaluated by sequencing the 16S rRNA, nifH gene and ITS (Inter Transcribed Spacer) region. P. triticisoli BJ-18 survived and propagated in all the compartments of the maize rhizosphere, root and shoot. The abundances and diversities of the bacterial and diazotrophic communities in the rhizosphere were significantly higher than in both root and shoot endospheres. Each compartment of the rhizosphere, root and shoot had its specific bacterial and diazotrophic communities. Our results showed that inoculation reshaped the structures of the bacterial, diazotrophic and fungal communities in the maize rhizosphere and endosphere. Inoculation reduced the interactions of the bacteria and diazotrophs in the rhizosphere and endosphere, while it increased the fungal interactions. After inoculation, the abundances of Pseudomonas, Bacillus and Paenibacillus in all three compartments, Klebsiella in the rhizosphere and Paenibacillus in the root and shoot were significantly increased, while the abundances of Fusarium and Giberella were greatly reduced. Paenibacillus was significantly correlated with plant dry weight, nitrogenase, N2-fixing rate, P solubilization and other properties of the soil and plant.

Interactive effects of ozone exposure and nitrogen addition on the rhizosphere bacterial community of poplar saplings

It is widely documented that elevated ground-level ozone (O₃) has negative effects on tree physiological characteristics, and in return, affects forest ecosystem function. However, the effect may be modified by soil nitrogen (N) availability. Numerous studies have focused on the aboveground part of trees under elevated O₃ alone or in combination with soil N; however, little is known about the response of soil bacterial communities. Here, we investigated the effects of O₃ (charcoal-filtered air, CF, versus ambient air +40 ppb of O₃, E-O₃), N addition (0 kg ha^-1 yr^-1, N0, versus 200 kg ha^-1 yr^-1, N200), and their combination on rhizosphere soil bacterial communities of hybrid poplar, using an MiSeq targeted amplicon sequencing of the bacterial 16S rRNA gene. E-O₃ significantly decreased bacterial abundance, and N200 significantly decreased the α-diversity. The negative impacts of N200 on α-diversity were alleviated by E-O₃. Nitrogen and E-O₃-N200 combination altered bacterial community composition, with a significant increase in the relative abundance of Proteobacteria and Bacteroidetes and a decrease in the abundance of Firmicutes. From an ecological network analysis, E-O₃, alone and in combination with N200, complicated the co-occurrence network of bacterial communities by inducing a microbial survival strategy, shifting the hub species from RB41 to Bacillus and Blastococcus. Conversely, N200 led to simplification and decentralization of the co-occurrence network. These findings demonstrate that the rhizosphere bacterial communities exhibit divergent responses to E-O₃ and N200, suggesting the need to consider the stability of the belowground ecosystem to optimize plantation management in response to environmental changes.

Long-Term Nitrogen Fertilization Impacts on Soil Bacteria, Grain Yield and Nitrogen Use Efficiency of Wheat in Semiarid Loess Plateau, China

Soil bacteria are key components of the soil microbial community contributing to soil health. Nitrogen (N) fertilization is an important factor that affects soil microbial community and cereal production. This study aims to explore the impact of long-term N fertilization on soil bacterial diversity, nitrogen use efficiency (NUE), and the grain yield of wheat in the semiarid region of Loess Plateau, China. The field experiment was conducted from 2003 to 2018 including five N treatments: 0 (N0), 52.5 (N52.5), 105 (N105), 157.5 (N157.5), and 210 (N210) kg N ha−1 yr−1. The soil pH was decreased by the N fertilization, while the soil ammonium, nitrate, and available phosphorus were increased. The N uptake and grain yield of wheat were significantly increased with N and the highest NUE (28%) and grain yield (44% higher than control) were observed at 105 kg N ha−1, but no significant increase in yield was observed by further increasing N rate. The bacterial diversity was significantly increased at N105. Soil bacteria community was strongly related to soil chemical properties and ammonium content was the most important contributor. The dominant soil bacterial phyla were Proteobacteria, Actinobacteria, Acidobacteria, Chloroflexi, Gemmatimonadetes, Bacteroidetes, Nitrospirae, Verrucomicrobia, and Planctomycetes. The higher grain yield of wheat was related to the higher class Gammaproteobacteria and Sphingobacteriia abundance, and lower class Acidobacteria and Chloroflexia abundance. In summary, 105 kg ha−1 yr−1 was the optimum rate of N for diversified soil bacterial community and wheat yield for sustainable wheat production in semiarid Loess Plateau of China, whose higher N use efficiency was attributed to the higher phyla Verrucomicrobia and Planctomycetes, and lower Proteobacteria abundance.

Ozone affects plant, insect, and soil microbial communities: A threat to terrestrial ecosystems and biodiversity

Elevated tropospheric ozone concentrations induce adverse effects in plants. We reviewed how ozone affects (i) the composition and diversity of plant communities by affecting key physiological traits; (ii) foliar chemistry and the emission of volatiles, thereby affecting plant-plant competition, plant-insect interactions, and the composition of insect communities; and (iii) plant-soil-microbe interactions and the composition of soil communities by disrupting plant litterfall and altering root exudation, soil enzymatic activities, decomposition, and nutrient cycling. The community composition of soil microbes is consequently changed, and alpha diversity is often reduced. The effects depend on the environment and vary across space and time. We suggest that Atlantic islands in the Northern Hemisphere, the Mediterranean Basin, equatorial Africa, Ethiopia, the Indian coastline, the Himalayan region, southern Asia, and Japan have high endemic richness at high ozone risk by 2100.

Effect of Long-Term Nitrogen Addition on Wheat Yield, Nitrogen Use Efficiency, and Residual Soil Nitrate in a Semiarid Area of the Loess Plateau of China

Nitrogen (N) fertilizer plays an important role in wheat yield, but N application rates vary greatly, and there is a lack of data to quantify the residual effects of N fertilization on soil N availability. A 17-yr experiment was conducted in a semiarid area of the Loess Plateau of China to assess the effects of N fertilization on spring wheat (Triticum aestivum L.) grain yield, N uptake, N utilization efficiency, and residual soil nitrate. Treatments included a non-N-fertilized control and annual application of 52.5, 105.0, 157.5, and 210.0 kg N ha−1 in the first two years (2003 and 2004). In the third year (2005), the four main plots with N fertilizer application were split. In one subplot, N fertilization was continued as mentioned previously, while in the other subplot, N fertilization was stopped. The concentration of NO3-N in the 0–110 cm depth soil layers was significantly affected by N application, with higher N rates associated with greater soil NO3-N concentration. With the annual application of N over 17 years, residual soil NO3-N concentration in the 100–200 cm soil layer in the last study year was significantly greater than that in the non-N-fertilized control and was increased with rate of N application. There was a significant positive relationship of soil NO3-N in the 0–50 cm and 50–110 cm soil layers at wheat sowing with wheat grain N content and yield. Wheat grain yield in the third year (2005) was significantly, i.e., 22.57–59.53%, greater than the unfertilized treatment after the N application was stopped. Nitrogen use efficiency decreased in response to each increment of added N fertilizer, and was directly related to N harvest index and grain yield. Therefore, greater utilization of residual soil N through appropriate N fertilizer rates could enhance nitrogen use efficiency while reducing the cost of crop production and risk of N losses to the environment. For these concerns, optimum N fertilizer application rate for spring wheat in semiarid Loess Plateau is about 105 kg N ha−1, which is below the threshold value of 170 kg N ha−1 per year as defined by most EU countries.

Elevated O3 alters soil bacterial and fungal communities and the dynamics of carbon and nitrogen

Although many studies have reported the negative effects of elevated O₃ on plant physiological characteristics, the influence of elevated O₃ on below-ground processes and soil microbial functioning is less studied. In this study, we examined the effects of elevated O₃ on soil properties, soil microbial biomass, as well as microbial community composition using high-throughput sequencing. Throughout one growing season, one-year old seedlings of two important endemic trees in subtropical China: Taxus chinensis (Pilger) Rehd. var. chinensis, and Machilus ichangensis Rehd. Et Wils, were exposed to charcoal-filtered air (CF as control), 100 nl l^-1 (E100) or 150 nl l^-1 (E150) O₃-enriched air, in open top chambers (OTCs). We found that only higher O₃ exposure (E150) significantly decreased soil microbial biomass carbon and nitrogen in M. ichangensis, and the contents of organic matter were significantly decreased by E150 in both tree species. Although both levels of O₃ exposure decreased NO₃-N in T. chinensis, only E150 increased NO₃-N in M. ichangensis, and there were no effects of O₃ on NH₄-N. Moreover, elevated O₃ elicited changes in soil microbial community structure and decreased fungal diversity in both M. ichangensis and T. chinensis. However, even though O₃ exposure reduced bacterial diversity in M. ichangensis, no effect of O₃ exposure on bacterial diversity was detected in soil grown with T. chinensis. Our results showed that elevated O₃ altered the abundance of bacteria and fungi in general, and in particular reduced nitrifiers and increased the relative abundance of some fungal taxa capable of denitrification, which may stimulate N₂O emissions. Overall, our findings indicate that elevated O₃ not only impacts the soil microbial community structure, but may also exert an influence on the functioning of microbial communities.

Effects of four years of elevated ozone on microbial biomass and extracellular enzyme activities in a semi-natural grassland

Reduced belowground carbon (C) allocation by plants exposed to ozone may change properties and activities of the microbial community in soils. To investigate how soil microbial biomass and extracellular enzyme activities respond to elevated ozone, we collected soils from a temperate grassland after four years of ozone exposure under fully open-air field conditions. We measured soil microbial biomass, the metabolism of low molecular weight C substrates and hydrolytic extracellular enzyme activities in both bulk soil and isolated aggregates to assess changes in microbial activity and community function. After four years of elevated ozone treatment, soil total organic C was reduced by an average of 20% compared with ambient condition. Elevated ozone resulted in a small but insignificant reduction (4-10%) in microbial biomass in both bulk soil and isolated aggregates. Activities of extracellular enzymes were generally not affected by elevated ozone, except β-glucosidase, whose activity in bulk soil was significantly lower under elevated ozone than ambient condition. Activities of β-glucosidase, leucine aminopeptidase and acid phosphatase were higher in microaggregates (<0.25 mm) as compared to macroaggregates (>0.25 mm). Elevated ozone had no effects on mineralization rates of low molecular weight C substrates in both bulk soil and isolated aggregates. We therefore conclude that the size and activity rather than function of the soil microbial community in this semi-natural grassland are altered by elevated ozone.

Effects of elevated ground-level ozone on paddy soil bacterial community and assembly mechanisms across four years

It is well known that elevated ground-level ozone (eO₃) poses a threat to the ecosystem. Little knowledge about the underground variables, especially on soil microorganisms, however, has been revealed. Such knowledge will tremendously help to advance our understanding of the correlation between ecosystems and climate change, as well as our ability to predict future trajectory. For this purpose, we have collected soil DNA samples (eO₃ vs. Ambient, each having 36 samples) over four years. Our results have verified the temporal responses and the underlying assembly mechanisms of the paddy bacterial community to eO₃. Contrary to the widespread consensus, it was found that eO₃ stimulated bacterial alpha diversities. The higher complexity and the centralization of the co-occurrence network of the bacterial community suggested that this stimulation was due to a microbial survival strategy in response to the limited resources, which led to the instability of the community. Furthermore, the observed slower temporal turnover of the bacterial community composition in response to eO₃ was due to the decreased deterministic processes derived from plants, which implied that eO₃ disrupted the coordination between soil microorganisms and rice crop. All above phenomena provided novel insights into the adverse influences of eO₃ on the soil microbial community. If O₃ concentration increases continuously, the adverse effects will be aggravated and harm the related ecological functions.

Cascading effects of elevated ozone on wheat rhizosphere microbial communities depend on temperature and cultivar sensitivity

Tropospheric ozone (O₃) concentrations have now reached levels that can potentially affect crop production in several regions of the world. The interacting effects of the elevated O₃ and temperature on plants are still unclear and their consequences on the rhizosphere microbial communities never studied yet. Here, we conducted a 3-week fumigation experiment on two cultivars of wheat with different tolerance to O₃ (Premio and Soissons) at two temperatures (20 °C and 30 °C). The impacts of O₃ were measured on plants physiology, rhizosphere chemical environment and microbial communities. Globally, most of the results showed that elevated O₃ effects were more pronounced at 20 °C than 30 °C, especially on the most O_3-sensitive cultivar (Soissons). Elevated O₃ reduced significantly plant root biomass (up to -37% for Soissons) compared to non-fumigated plants. A decrease in the dissolved organic matter with a relative increase of aromatic compounds concentration was also observed under elevated O₃, suggesting quantitative and qualitative impacts on roots exudation. While bacterial abundance was negatively affected by O₃ plant stress, fungal abundance was found to be stimulated (up to 12 fold compared to non-fumigated plants for Soissons at 20 °C). These changes were accompanied by modifications of the genetic structures and metabolic profiles, with a relative increase of amino acids catabolism. This fully controlled laboratory experiment showed that the effects of elevated O₃ on soil microbial communities i) are plant-mediated and depend on the cultivar sensitivity, ii) decrease in warming condition, iii) increase the fungi to bacteria ratio and iv) alter both the genetic structure and the metabolic activities. This study highlights the importance of considering interactive effects between pollutants and climate changes on plant-microbe relationship to better inform models and improve predictions of future states of agroecosystems.

Consistent effects of nitrogen fertilization on soil bacterial communities in black soils for two crop seasons in China

Long-term use of inorganic nitrogen (N) fertilization has greatly influenced the bacterial community in black soil of northeast China. It is unclear how N affects the bacterial community in two successive crop seasons in the same field for this soil type. We sampled soils from a long-term fertilizer experimental field in Harbin city with three N gradients. We applied sequencing and quantitative PCR targeting at the 16S rRNA gene to examine shifts in bacterial communities and test consistent shifts and driving-factors bacterial responses to elevated N additions. N addition decreased soil pH and bacterial 16S rDNA copy numbers, and increased soil N and crop yield. N addition consistently decreased bacterial diversity and altered bacterial community composition, by increasing the relative abundance of Proteobacteria, and decreasing that of Acidobacteria and Nitrospirae in both seasons. Consistent changes in the abundant classes and genera, and the structure of the bacterial communities across both seasons were observed. Our results suggest that increases in N inputs had consistent effects on the richness, diversity and composition of soil bacterial communities across the crop seasons in two continuous years, and the N addition and the subsequent edaphic changes were important factors in shaping bacterial community structures.

How does elevated ozone reduce methane emissions from peatlands?

The effects of increased tropospheric ozone (O₃) pollution levels on methane (CH₄) emissions from peatlands, and their underlying mechanisms, remain unclear. In this study, we exposed peatland mesocosms from a temperate wet heath dominated by the sedge Schoenus nigricans and Sphagnum papillosum to four O₃ treatments in open-top chambers for 2.5years, to investigate the O₃ impacts on CH₄ emissions and the processes that underpin these responses. Summer CH₄ emissions, were significantly reduced, by 27% over the experiment, due to summer daytime (8hday^-1) O₃ exposure to non-filtered air (NFA) plus 35ppb O₃, but were not significantly affected by year-round, 24hday^-1, exposure to NFA plus 10ppb or NFA plus 25ppb O₃. There was no evidence that the reduced CH₄ emissions in response to elevated summer O₃ exposure were caused by reduced plant-derived carbon availability below-ground, because we found no significant effect of high summer O₃ exposure on root biomass, pore water dissolved organic carbon concentrations or the contribution of recent photosynthate to CH₄ emissions. Our CH₄ production potential and CH₄ oxidation potential measurements in the different O₃ treatments could also not explain the observed CH₄ emission responses to O₃. However, pore water ammonium concentrations at 20cm depth were consistently reduced during the experiment by elevated summer O₃ exposure, and strong positive correlations were observed between CH₄ emission and pore water ammonium concentration at three peat depths over the 2.5-year study. Our results therefore imply that elevated regional O₃ exposures in summer, but not the small increases in northern hemisphere annual mean background O₃ concentrations predicted over this century, may lead to reduced CH₄ emissions from temperate peatlands as a consequence of reductions in soil inorganic nitrogen affecting methanogenic and/or methanotrophic activity.

High Ozone (O3) Affects the Fitness Associated with the Microbial Composition and Abundance of Q Biotype Bemisia tabaci

Ozone (O₃) affects the fitness of an insect, such as its development, reproduction and protection against fungal pathogens, but the mechanism by which it does so remains unclear. Here, we compared the fitness (i.e., the growth and development time, reproduction and protection against Beauveria bassiana (B. bassiana) of Q biotype whiteflies fumigated under hO₃ (280 ± 20 ppb) and control O₃ (50 ± 10 ppb) concentrations. Moreover, we determined that gene expression was related to development, reproduction and immunity to B. bassiana and examined the abundance and composition of bacteria and fungi inside of the body and on the surface of the Q biotype whitefly. We observed a significantly enhanced number of eggs that were laid by a female, shortened developmental time, prolonged adult lifespan, decreased weight of one eclosion, and reduced immunity to B. bassiana in whiteflies under hO₃, but hO₃ did not significantly affect the expression of genes related to development, reproduction and immunity. However, hO₃ obviously changed the composition of the bacterial communities inside of the body and on the surface of the whiteflies, significantly reducing Rickettsia and enhancing Candidatus_Cardinium. Similarly, hO₃ significantly enhanced Thysanophora penicillioides from the Trichocomaceae family and reduced Dothideomycetes (at the class level) inside of the body. Furthermore, positive correlations were found between the abundance of Candidatus_Cardinium and the female whitefly ratio and the fecundity of a single female, and positive correlations were found between the abundance of Rickettsia and the weight of adult whiteflies just after eclosion and immunity to B. bassiana. We conclude that hO₃ enhances whitefly development and reproduction but impairs immunity to B. bassiana, and our results also suggest that the changes to the microbial environments inside of the body and on the surface could be crucial factors that alter whitefly fitness under hO₃.

Integrated analysis of root microbiomes of soybean and wheat from agricultural fields

Root associated bacteria are critical for plant growth and health. Understanding the composition and role of root microbiota is crucial toward agricultural practices that are less dependent on chemical fertilization, which has known negative effects on the environment and human health. Here we analyzed the root-associated microbiomes of soybean and wheat under agricultural field conditions. We took samples from 11 different production fields across a large geographic area. We used 16S rRNA pyrosequencing to explore root microbial communities and also obtained 2,007 bacterial isolates from rhizospheres, which were tested for the presence of plant growth promoting (PGP) traits in-vitro. We observed that pH and nitrate content correlated with beta diversity variability of rhizospheric bacterial communities despite the variable field conditions. We described the dominant bacterial groups associated to roots from both crops at a large geographic scale and we found that a high proportion of them (60-70%) showed more than 97% similarity to bacteria from the isolated collection. Moreover, we observed that 55% of the screened isolates presented PGP activities in vitro. These results are a significant step forward in understanding crop-associated microbiomes and suggest that new directions can be taken to promote crop growth and health by modulating root microbiomes.

Divergent responses of methanogenic archaeal communities in two rice cultivars to elevated ground-level O3

Inhibitive effect of elevated ground-level ozone (O3) on paddy methane (CH4) emission varies with rice cultivars. However, little information is available on its microbial mechanism. For this purpose, the responses of methane-metabolizing microorganisms, methanogenic archaea and methanotrophic bacteria to O3 pollution were investigated in the O3-tolerant (YD6) and the O3-sensitive (IIY084) cultivars at two rice growth stages in Free Air Concentration Elevation of O3 (O3-FACE) system of China. It was found that O3 pollution didn't change the abundances of Type I and Type II methanotrophic bacteria at two rice stages. For methanogenic archaea, their abundances in both cultivars were decreased by O3 pollution at the tillering stage. Furthermore, a greater negative influence on methanogenic archaeal community was observed on IIY084 than on YD6: at tillering stage, the alpha diversity indices of methanogenic archaeal community in IIY084 was decreased to a greater extent than in YD6; IIY084 shifted methanogenic archaeal community composition and decreased the abundances and the diversities of Methanosarcinaceae and Methanosaetaceae as well as the abundance of Methanomicrobiales, while the diversity of Methanocellaceae were increased in YD6. These findings indicate that the variations in the responses of paddy CH4 emission to O3 pollution between cultivars could result from the divergent responses of their methanogenic archaea.

Structure and function of rhizosphere and non-rhizosphere soil microbial community respond differently to elevated ozone in field-planted wheat

To assess the responses of the soil microbial community to chronic ozone (O3), wheat seedlings (Triticum aestivum Linn.) were planted in the field and exposed to elevated O3 (eO3) concentration. Three treatments were employed: (1) Control treatment (CK), AOT40=0; (2) O3-1, AOT40=1.59 ppm•h; (3) O3-2, AOT40=9.17 ppm•h. Soil samples were collected for the assessment of microbial biomass C, community-level physiological profiles (CLPPs), and phospholipid fatty acids (PLFAs). EO3 concentration significantly reduced soil microbial carbon and changed microbial CLPPs in rhizosphere soil, but not in non-rhizosphere soil. The results of the PLFAs showed that eO3 concentrations had significant effects on soil community structure in both rhizosphere and non-rhizosphere soils. The relative abundances of fungal and actinomycetous indicator PLFAs decreased in both rhizosphere and non-rhizosphere soils, while those of bacterial PLFAs increased. Thus the results proved that eO3 concentration significantly changed the soil microbial community function and composition, which would influence the soil nutrient supply and carbon dynamics under O3 exposure.

The contrasting responses of soil microorganisms in two rice cultivars to elevated ground-level ozone

Although elevated ground-level O₃ has a species-specific impact on plant growth, the differences in soil biota responses to O₃ pollution among rice cultivars are rarely reported. Using O₃ Free-Air Concentration Enrichment, the responses of the rhizospheric bacterial communities in the O₃-tolerant (YD6) and the O₃-sensitive (IIY084) rice cultivars to O₃ pollution and their differences were assessed by pyrosequencing at rice tillering and anthesis stages. Elevated ground-level O₃ negatively influenced the bacterial community in cultivar YD6 at both rice growth stages by decreasing the bacterial phylogenetic diversities and response ratios. In contrast, in cultivar IIY084, the bacterial community responded positively at the rice tillering stage under O₃ pollution. However, several keystone bacterial guilds were consistently negatively affected by O₃ pollution in two rice cultivars. These findings indicate that continuously O₃ pollution would negatively influence rice agroecosystem and the crop cultivar is important in determining the soil biota responses to elevated O₃.

Elevated nitrate enriches microbial functional genes for potential bioremediation of complexly contaminated sediments

Nitrate is an important nutrient and electron acceptor for microorganisms, having a key role in nitrogen (N) cycling and electron transfer in anoxic sediments. High-nitrate inputs into sediments could have a significant effect on N cycling and its associated microbial processes. However, few studies have been focused on the effect of nitrate addition on the functional diversity, composition, structure and dynamics of sediment microbial communities in contaminated aquatic ecosystems with persistent organic pollutants (POPs). Here we analyzed sediment microbial communities from a field-scale in situ bioremediation site, a creek in Pearl River Delta containing a variety of contaminants including polybrominated diphenyl ethers (PBDEs) and polycyclic aromatic hydrocarbons (PAHs), before and after nitrate injection using a comprehensive functional gene array (GeoChip 4.0). Our results showed that the sediment microbial community functional composition and structure were markedly altered, and that functional genes involved in N-, carbon (C)-, sulfur (S)-and phosphorus (P)- cycling processes were highly enriched after nitrate injection, especially those microorganisms with diverse metabolic capabilities, leading to potential in situ bioremediation of the contaminated sediment, such as PBDE and PAH reduction/degradation. This study provides new insights into our understanding of sediment microbial community responses to nitrate addition, suggesting that indigenous microorganisms could be successfully stimulated for in situ bioremediation of POPs in contaminated sediments with nitrate addition.

Distinct responses of soil microbial communities to elevated CO2 and O3 in a soybean agro-ecosystem

The concentrations of atmospheric carbon dioxide (CO2) and tropospheric ozone (O3) have been rising due to human activities. However, little is known about how such increases influence soil microbial communities. We hypothesized that elevated CO2 (eCO2) and elevated O3 (eO3) would significantly affect the functional composition, structure and metabolic potential of soil microbial communities, and that various functional groups would respond to such atmospheric changes differentially. To test these hypotheses, we analyzed 96 soil samples from a soybean free-air CO2 enrichment (SoyFACE) experimental site using a comprehensive functional gene microarray (GeoChip 3.0). The results showed the overall functional composition and structure of soil microbial communities shifted under eCO2, eO3 or eCO2+eO3. Key functional genes involved in carbon fixation and degradation, nitrogen fixation, denitrification and methane metabolism were stimulated under eCO2, whereas those involved in N fixation, denitrification and N mineralization were suppressed under eO3, resulting in the fact that the abundance of some eO3-supressed genes was promoted to ambient, or eCO2-induced levels by the interaction of eCO2+eO3. Such effects appeared distinct for each treatment and significantly correlated with soil properties and soybean yield. Overall, our analysis suggests possible mechanisms of microbial responses to global atmospheric change factors through the stimulation of C and N cycling by eCO2, the inhibition of N functional processes by eO3 and the interaction by eCO2 and eO3. This study provides new insights into our understanding of microbial functional processes in response to global atmospheric change in soybean agro-ecosystems.

Effects of elevated O3 on microbes in the rhizosphere of mycorrhizal snap bean with different O3 sensitivity

Elevated ozone (O3) generally affects microbial biomass and community structure in rhizosphere, but these effects are unclear in mycorrhizal plants because arbuscular mycorrhizal (AM) fungi often benefit microbial growth in the rhizosphere. Here, we investigate the effects of elevated O3 on microbial biomass and community structure in the rhizosphere of mycorrhizal snap bean (Phaseolus vulgaris L.) with different O3 sensitivity (R123: O3-tolerant plant; S156: O3-sensitive plant) based on the phospholipid fatty acids (PLFAs) method. Compared with ambient O3, elevated O3 significantly decreased mycorrhizal colonization rates in the 2 genotypes, especially in S156 plants. The wet masses of shoot and root were decreased by elevated O3 in the 2 genotypes independent of AM inoculation, but they were higher in the mycorrhizal plant than in the nonmycorrhizal plant independent of O3 concentration. Elevated O3 significantly decreased the relative proportion of specific fungal PLFAs in the nonmycorrhizal plant, but this effect disappeared in the mycorrhizal plant. The relative proportions of specific PLFAs of other microbial groups (Gram-positive, Gram-negative, and actinomycete) in the rhizosphere and all specific PLFAs in the hyphosphere were not affected by elevated O3 independent of AM inoculation. In the rhizosphere of the 2 genotypes, microbial community structure was changed by AM inoculation and elevated O3 as well as by their interaction; in the hyphosphere, however, microbial community structure was changed by elevated O3 only in R123 plants. It is concluded that AM inoculation can offset negative effect of elevated O3 on fungal biomass but seems to enhance shift of microbial community structure in rhizosphere under elevated O3.