Soil Fungal Community Composition Research Articles

Coarse woody debris and litter layer exert differential roles in nursing soil fungal communities across a subalpine forest successional series

Coarse woody debris (CWD) and litter are important habitats and nutrient sources for soil fungi. However, the roles of CWD and litter in maintaining soil fungal community composition and function at different successional stages remain unknown. Therefore, we collected soils beneath the CWD and litter from a subalpine forest successional series: shrubs, deciduous broadleaf, broadleaf-conifer mixed, mid-succession coniferous, mature coniferous, and over-mature coniferous forests in the subalpine forest region. The diversity, composition, and functional guilds of the soil fungal communities beneath the CWD and litter layer were analyzed using ITS (Internal Transcribed Spacer) sequencing. The CWD significantly changed the composition and functional guilds of the soil fungal communities in the same successional series. However, there was no significant difference in the soil fungal alpha diversity between the two microhabitats at the same successional stage. Notably, the soil beneath the litter layer had more abundant plant pathogens and mycorrhizal fungi, whereas the soil beneath CWD was enriched mainly with saprotrophic and ectomycorrhizal fungi. The relative abundance of plant pathogens and mycorrhizal fungi was significantly related to the soil pH and the CWD stock. In addition, soil nitrogen, carbon, and the C: N ratio were key driving factors for the taxonomic composition and functional guilds of the soil fungal community. In conclusion, CWD exerts critical functions in nursing soil fungal diversity and maintaining the structure and function of soil fungal community mainly due to CWD decomposes slowly, increases soil heterogeneity, and provides with microhabitats and substrates for fungi in a longer term.

Summer Rice–Winter Potato Rotation Suppresses Various Soil-Borne Plant Fungal Pathogens

Growing potatoes (Solanum tuberosum) using the idle rice fields in Southern China and the Indo-Gangetic Plains of India in the winter season through the rice–potato rotation (RC) system could support future food security. However, the modulation capacity of the RC system on soilborne fungal pathogens is still unclear. In the current study, a pot experiment was designed and conducted to monitor the dynamics of soil fungal community composition between the potato monoculture (CC) system and the RC system, where the two systems were set with the same soil conditions: autoclaving with fertilization; autoclaving without fertilization; autoclave-free with fertilization; and autoclave-free without fertilization. Then, the uncultivated soil (CK) and root-zone soil samples of conditions under the two systems were collected, and then soil physiochemical properties and enzymatic activities were determined. Next, the high-variable region (V5–V7) of fungal 18S rRNA genes of the samples were amplified and sequenced through the PCR technique and the Illumina Miseq platform, respectively. Finally, the fungal species diversity and composition, as well as the relative abundance of fungal pathogens annotated against the Fungiuld database in soil samples, were also investigated. The results showed that the RC could significantly (p < 0.05) increase soil fungal species diversity and decrease the relative abundance of soil fungal pathogens, where the RC could suppress 23 soil fungal pathogens through cultivating the rice during the summer season and 93.75% of the remaining pathogens through winter-season cultivation. Seven-eighths of the conditions under RC have lower pathogenic MGIDI indices (6.38 to 7.82) than those of the CC (7.62 to 9.63). Notably, both rice cultivation and winter planting reduced the abundance of the pathogenic strain ASV24 under the Colletotrichum genus. The bipartite fungal network between the pathogens and the non-pathogens showed that the pathogenic members could be restricted through co-occurring with the non-pathogenic species and planting crops in the winter season. Finally, the redundancy analysis (RDA) indicated that soil pH, electronic conductivity, available phosphorus content, and various enzyme activities (cellulase, urease, sucrase, acid phosphatase, catalase, polyphenol oxidase) could be the indicators of soil fungal pathogens. This experiment demonstrated that the rice–potato rotation system outperformed the potato monoculture on suppressing soilborne fungal pathogenic community.

Effects of afforestation on soil fungi in rocky mountain areas of North China

AbstractAfforestation has a substantial influence on soil fungal communities by introducing ecological variations within forest ecosystems via the inclusion of distinct tree species (coniferous and broadleaf) and afforestation patterns (pure forests and mixed forests). However, the specific effects of these variations on soil fungal communities require further investigation. Soil samples from birch (B: Betula platyphylla Suk.), larch (L: Larix gmelinii (Rupr.) Kuzen.), and mixed birch and larch (B–L) forests were used in this study, and a shrub–grassland field (S–G) was used as a reference. The abundance, diversity, and community composition of fungi in the soil of the monoculture forest (B and L), mixed forest (B–L), and S–G were studied by high‐throughput sequencing. The results showed that Basidiomycota was the dominant fungus in B and B–L, and the dominant genera were Inocybe and Amanita, respectively. Ascomycota was the dominant fungus in L and S–G, and the dominant genus was Mortierella. Afforestation reduced the richness and diversity of soil fungi. Larch forests were richer in soil fungi than B and B–L forests. Soil organic carbon was the main soil factor affecting the soil fungal community structure. Soil fungal community network changed less after planting L than after planting B and B–L, and the soil fungal community structure was more complex and stable in L than in B and B–L. For soil fungal community composition and function, mixed forests did not show outstanding advantages. Planting monoculture forests may be a more effective afforestation strategy in the rocky mountain areas of North China.

Effects of Bacillus velezensis GUAL210 control on edible rose black spot disease and soil fungal community structure.

Rose black spot is an economically important disease that significantly decreases flower yield. Fungicide and biological control are effective approaches for controlling rose black spot. The objective of this study was to evaluate the effect of application of biological and chemical control agents, including Bacillus velezensis (GUAL210), Bacillus sp. (LKW) and fungicide (CP) on the black spot disease and rhizosphere fungal community structure of edible rose. In this study, the R. chinensis 'Crimson Glory' was taken as the research object, and the field experiment was designed by randomized block design. The experiment contained 3 treatments (CP, GUAL210, LKW) and 1 control. The control effect and growth promoting effect of fungicide and biological control on rose black spot were compared. The composition and diversity of rhizosphere soil fungal community of different treatments of rose were studied by high-throughput sequencing method. The fungal community composition, correlation of environmental factors and differences in metabolic pathways related to rose disease were analyzed, and the correlation between rhizosphere soil fungal community of rose and biological control of disease was explored. Both disease incidence and disease index differed significantly among groups (LKW < GUAL210 < CP < CK), and disease control effect exhibited no significant difference between GUAL210 and LKW (60.96% and 63.86%, respectively). Biological control was superior to chemical control in terms of disease prevention effects and duration, and it significantly increased the number of branches and flowers of rose plants. Ascomycota and Basidiomycota accounted for more than 74% of the total fungal abundance, and the abundance of Ascomycota was highest in CK, followed by GUAL210, CP and LKW, which was consistent with the disease occurrence in each group. The analysis of metabolic pathways showed that the HSERMETANA-PWY in each experimental group was significantly lower than that in control group. The Shannon index in each experimental group was significantly lower than that in control group. PCoA analysis showed that the rhizosphere fungal community structure in each experimental group was significantly different from that in control group. Trichoderma, Paraphaeosphaeria, Suillus, Umbelopsis in GUAL210, and Galerina in LKW replaced Mortierella, Pestalotiopsis, Ustilaginoidea, Paraconiothyrium, Fusarium, and Alternaria as dominant flora, and played a nonneglectable role in reducing disease occurrence. The difference in rhizosphere fungal community structure had an important impact on the incidence of rose black spot disease. Biological control is crucial for establishing environment-friendly ecological agriculture. GUAL210 has promising prospects for application and development, and may be a good substitute for chemical control agents.

Root exudates influence rhizosphere fungi and thereby synergistically regulate Panax ginseng yield and quality.

Root exudates contain a complex array of primary and specialized metabolites that play important roles in plant growth due to their stimulatory and inhibitory activities that can select for specific microbes. In this study, we investigated the effects of different root exudate concentrations on the growth of ginseng (Panax ginseng C. A. Mey), ginsenoside levels, and soil fungal community composition and diversity. The results showed that low root exudate concentrations in the soil promoted ginseng rhizome biomass and ginsenoside levels (Rg1, Re, Rf, Rg2, Rb1, Ro, Rc, Rb2, Rb3, and Rd) in rhizomes. However, the rhizome biomass and ginsenoside levels gradually decreased with further increases in the root exudate concentration. ITS sequencing showed that low root exudate concentrations in the soil hardly altered the rhizosphere fungal community structure. High root exudate concentrations altered the structure, involving microecological imbalance, with reduced abundances of potentially beneficial fungi (such as Mortierella) and increased abundances of potentially pathogenic fungi (such as Fusarium). Correlation analysis showed that rhizome biomass and ginsenoside levels were significantly positively correlated with the abundances of potentially beneficial fungi, while the opposite was true for potentially pathogenic fungi. Overall, low root exudate concentrations promote the growth and development of ginseng; high root exudate concentrations lead to an imbalance in the rhizosphere fungal community of ginseng and reduce the plant's adaptability. This may be an important factor in the reduced ginseng yield and quality and soil sickness when ginseng is grown continuously.

Differences in cover cropping management affect soil nitrogen, carbon characteristics, and fungal community composition in a vineyard in North China

Cover cropping is widely used for soil management in vineyards. But few studies have compared the effect of different cover cropping management methods on soil properties and fungal communities in vineyards. Therefore, we examined the effects of traditional management (shallow tillage to remove weeds), cover with single species (two treatments covered with different herbages), cover with mixed species (two combination treatments named M1 and M2 respectively), and cover with a crop on soil physicochemical properties and fungal community structure in a vineyard in northern China in 2020 and 2021. Soil total carbon and mineral nitrogen increased under Carex lanceolata Boott, Medicago sativa L., M1, and M2 covers but decreased under Glycine max (L.) Merr. Compare to traditional management. Soil organic carbon content increased under Carex lanceolata Boott, Medicago sativa L., M1, and M2, with increasing planting time. Cover cropping management had a minor effect on fungal diversity in the short term. Effects on beneficial and pathogenic fungi varied with cover type. With a cover of Glycine max (L.) Merr, the abundance of Fusarium brachygibbosum, a pathogen that affects grape production, increased, but that of Chaetomium, a genus that inhibits pathogens, also increased. With a cover of Carex lanceolata Boott, the abundance of Didymella glomerata, another pathogen that affects grape production, increased, but that of Metarhizium, an entomopathogenic fungus, also increased. Compared with Carex lanceolata Boott, covers with mixed species (M1 and M2) showed minor effects on soil pathogens, so covers with mixed species could benefit the vineyards more than other cover cropping management in North China.

Composition and Diversity of Soil Microbial Communities in Walnut Orchards at Different Altitudes in Southeastern Tibet

To understand the distribution of the soil microbial community in natural walnut orchards at different altitude gradients (3000–3500 m) and to reveal the mechanism of the soil microbial activity in natural walnut orchards adapting to high-altitude environments, soil samples from four groups of natural walnut orchards in Gyaca County, southeast Tibet, were studied. Illumina MiSeq sequencing technology was used to analyze the community composition and diversity of soil bacteria and fungi and their responses to the altitudes. The alpha diversity results showed that the vertical distribution pattern of the fungal community was more obvious than that of the bacterial community and the bacterial community diversity first increased (~3364 m) and then decreased with altitude. The number of amplicon sequence variants (ASVs) in the soil bacterial community was significantly higher than that in the fungal community, but soil bacterial and fungal communities in walnut orchards at different altitudes exhibited both inheritance and uniqueness. At the phylum level, the dominant bacterial phyla at different altitudes were Actinobacteria, Acidobacteria, Proteobacteria, and Chloroflexi (relative abundances &gt; 10.0% in each treatment). With the increase in altitude, the relative abundance of Actinobacteria increased gradually while that of Acidobacteria and Proteobacteria decreased gradually. The dominant fungal phyla were Ascomycota, Basidiomycota, and Mortierellomycota (relative abundances &gt;5.0% in each treatment). With the increase in altitude, the relative abundance of Ascomycota increased significantly. At the genus level, the number of dominant bacteria and fungi in the soil decreased gradually with increased altitude and showed anisotropic distribution characteristics. The relative abundances of Actinobacteria among the bacterial phyla—and Olpidiomycota and Zoopagomycota among the fungal phyla—were positively correlated with the altitude (p &lt; 0.05). Most dominant bacterial and fungal phyla were highly significantly (p &lt; 0.01) or significantly (p &lt; 0.05) negatively correlated with the altitude. Soil nitrogen and phosphorus availabilities are the main limiting factors of microbial community diversity. Therefore, altitude caused changes in soil physicochemical properties which directly or indirectly affected the composition and diversity of soil bacterial and fungal communities, and our study provides a theoretical basis for the altitudinal pattern and succession changes in soil microbial communities in the natural walnut orchards of southeast Tibet.

Effects of warming and nitrogen addition on soil fungal and bacterial community structures in a temperate meadow.

Soil microbial communities have been influenced by global changes, which might negatively regulate aboveground communities and affect nutrient resource cycling. However, the influence of warming and nitrogen (N) addition and their combined effects on soil microbial community composition and structure are still not well understood. To explore the effect of warming and N addition on the composition and structure of soil microbial communities, a five-year field experiment was conducted in a temperate meadow. We examined the responses of soil fungal and bacterial community compositions and structures to warming and N addition using ITS gene and 16S rRNA gene MiSeq sequencing methods, respectively. Warming and N addition not only increased the diversity of soil fungal species but also affected the soil fungal community structure. Warming and N addition caused significant declines in soil bacterial richness but had few impacts on bacterial community structure. The changes in plant species richness affected the soil fungal community structure, while the changes in plant cover also affected the bacterial community structure. The response of the soil bacterial community structure to warming and N addition was lower than that of the fungal community structure. Our results highlight that the influence of global changes on soil fungal and bacterial community structures might be different, and which also might be determined, to some extent, by plant community, soil physicochemical properties, and climate characteristics at the regional scale.

Microbial community attributes supersede plant and soil parameters in predicting fungal necromass decomposition rates in a 12-tree species common garden experiment

Although dead fungal mycelium (necromass) represents a key component of biogeochemical cycling in all terrestrial ecosystems, how different ecological factors interact to control necromass decomposition rates remains poorly understood. This study assessed how edaphic parameters, plant traits, and soil microbial community structure predicted the mass loss rates of different fungal necromasses within experimental monocultures of 12 tree species in Minnesota, USA. Necromass decay rates were most strongly driven by initial chemical composition, being significantly slower for fungal necromass with higher initial melanin content. Of the extrinsic ecological factors measured, variation in the amount of mass remaining for both low and high melanin necromass types was significantly predicted by soil bacterial richness and fungal community composition, but not by any soil microclimatic parameters or plant traits. Further, the microbial communities governing decay rates varied depending on the initial necromass chemical composition, suggesting that extrinsic and intrinsic factors interacted to propel decomposition. Finally, we also found significant positive relationships between the amount of remaining fungal necromass and soil carbon and nitrogen concentrations. Collectively, these results suggest that, after the initial chemical composition of dead fungal residues, soil microbial communities represent the main drivers of soil necromass degradation, with potentially large consequences for soil carbon sequestration and nutrient availability.

Soil fungal communities contribute to the positive diversity–productivity relationship of tree communities under contrasting water availability

Abstract Plant diversity has often been linked to increased productivity; however, this apparent diversity–productivity relationship may rely on intertrophic interactions such as those between plants and soil microbes. Soil fungi can create complementarity between plant species via altered plant resource partitioning, facilitation via fungal networks or biotic feedbacks, thereby promoting plant diversity–productivity relationships. Furthermore, these relationships are likely to be context dependent in response to resource availability. We used a biodiversity–ecosystem function experiment with trees exposed to high and low water availability treatments to determine the contribution of soil fungal communities to the diversity–productivity relationship in tree communities. We used amplicon sequencing of soil fungi to assess fungal richness, community composition and richness of functional guilds. We then applied structural equation modelling to determine relationships between tree diversity, fungal communities and tree productivity and the role of water availability in these relationships. Tree species richness and functional diversity both increased above‐ground tree productivity and influenced soil fungal community composition. Fungal community composition had a direct impact on tree productivity and enhanced net diversity effects on productivity. Therefore, fungal communities mediated a positive, indirect effect of tree richness on productivity. While total fungal richness was not associated with tree diversity, pathogen richness decreased and mycorrhizal richness increased with tree richness. Pathogen and mycorrhizal richness had either no impact or a weak negative effect on productivity. Tree species traits strongly affected fungal communities and these changes promoted productivity. Finally, water availability greatly influenced fungal communities but did not interact with tree diversity to affect productivity; indicating possible resilience of tree communities to altered precipitation regimes and associated changes in fungal communities. Synthesis: Our study highlights the crucial role that fungal communities play in shaping the relationship between tree diversity, traits and productivity, and resilience to altered water availability.

Rapid shift of soil fungal community compositions after clear-cutting in hemiboreal coniferous forests

Clear-cutting is the main forest management method in boreal and hemiboreal forests, but recently its implementation has raised concerns due to its effects on biodiversity, including the soil fungal biota. Forest soil fungi have an important role as mycorrhizal symbionts, decomposers of organic material and root pathogens. There is conflicting information about the effect of clear-cutting and related management practices on fungal assemblages. We aimed to assess the factors that affect the assemblages of major fungal functional guilds (ectomycorrhizal, saprotrophic, pathogenic and yeast fungi) and the changes in soil fungal diversity and community composition after clear-cutting in Norway spruce and Scots pine (retention trees > 5 m3 per ha) stands, and compared the outcomes with alongside control sites (uncut stands). In addition, we tested the effect of the size of the clear-cut area, soil scarification and the forest regeneration method (planting and sowing) on soil fungi. The samples were collected from 50 different clear-cut sites and 50 control sites on two repeated sampling occasions: recently (0–6 months) cut and one year after clear-cutting. Based on high-throughput Illumina sequencing soil fungal communities were affected immediately after clear-cutting, resulting in significantly different fungal structure composition. Soil fungal diversity in both spruce and pine stands increased after one year post-cut compared to control sites, except the richness of ectomycorrhizal fungi in spruce sites. However, the fungal communities showed the highest similarity between control and one year post-cut sites based on principal coordinates (PCO) and Permanova analyses. Nonetheless, relative abundance of ectomycorrhizal (EcM) fungi declined, whereas that of saprotrophs and pathogens increased. In spruce sites, saprotrophic fungi were negatively affected by soil scarification, but this was not evident in pine sites. Forest regeneration by planting after clear-cutting in pine sites resulted in higher ectomycorrhizal fungal richness compared to sowing. Size of the clear-cut area (ranging from 0.4 to 3.1 (5.0) ha) did not affect soil fungal diversity in spruce- and pine-dominated sites. We demonstrated that fungal community composition may recover within one year after clear-cutting in pine- and spruce-dominated hemiboreal forest stands. However, understanding the long-term effects of management on patterns and shifts in fungal biota needs a long-term study.

Does helimulching after severe wildfire affect soil fungal diversity and community composition in a Mediterranean ecosystem?

Straw helimulching was applied to an area with a high soil erosion risk one month after the Navalacruz megafire (Iberian Central System, Ávila, Spain) to mitigate soil erosion and to maintain soil quality. To determine whether the soil fungal community, which is key to soil and vegetation recovery after fire, is altered by straw mulching, we examined the effect of helimulching one year after its application. Three hillside zones were chosen with two treatments in each zone (mulched and non-mulched plots), with three replicates of each treatment. Chemical and genomic DNA analyses of soil samples from mulched and non-mulched plots were performed to assess the soil characteristics and the soil fungal community composition and abundance. The total fungal operational taxonomic unit richness and abundance did not differ between treatments. However, there was an increase in the richness of litter saprotrophs, plant pathogens and wood saprotrophs associated with the application of straw mulch. The total fungal composition of mulched and non-mulched plots differed significantly. Fungal composition at the phylum level correlated with the soil potassium content and marginally with the pH and phosphorus content. The application of mulch promoted the dominance of saprotrophic functional groups. Fungal composition according to guilds was also significantly different between treatments. As conclusion, the application of mulch could mean a faster recovery of saprotrophic functional groups that will be responsible for decomposing the available dead fine fuel.

Predicting soil fungal communities from chemical and physical properties

AbstractIntroductionBiogeography describes spatial patterns of diversity and explains why organisms occur in given conditions. While it is well established that the diversity of soil microbes is largely controlled by edaphic environmental variables, microbiome community prediction from soil properties has received less attention. In this study, we specifically investigated whether it is possible to predict the composition of soil fungal communities based on physicochemical soil data using multivariate ordination.Materials and MethodsWe sampled soil from 59 arable fields in Switzerland and assembled paired data of physicochemical soil properties as well as profiles of soil fungal communities. Fungal communities were characterized using long‐read sequencing of the entire ribosomal internal transcribed spacer. We used redundancy analysis to combine the physical and chemical soil measurements with the fungal community data.ResultsWe identified a reduced set of 10 soil properties that explained fungal community composition. Soil properties with the strongest impact on the fungal community included pH, potassium and sand content. Finally, we evaluated the model for its suitability for prediction using leave‐one‐out validation. The prediction of community composition was successful for most soils, and only 3/59 soils could not be well predicted (Pearson correlation coefficients between observed and predicted communities of &lt;0.5). Further, we successfully validated our prediction approach with a publicly available data set. With both data sets, prediction was less successful for soils characterized by very unique properties or diverging fungal communities, while it was successful for soils with similar characteristics and microbiome.ConclusionsReliable prediction of microbial communities from chemical soil properties could bypass the complex and laborious sequencing‐based generation of microbiota data, thereby making soil microbiome information available for agricultural purposes such as pathogen monitoring, field inoculation or yield projections.

Regional biogeography versus intra-annual dynamics of the root and soil microbiome

BackgroundRoot and soil microbial communities constitute the below-ground plant microbiome, are drivers of nutrient cycling, and affect plant productivity. However, our understanding of their spatiotemporal patterns is confounded by exogenous factors that covary spatially, such as changes in host plant species, climate, and edaphic factors. These spatiotemporal patterns likely differ across microbiome domains (bacteria and fungi) and niches (root vs. soil).ResultsTo capture spatial patterns at a regional scale, we sampled the below-ground microbiome of switchgrass monocultures of five sites spanning > 3 degrees of latitude within the Great Lakes region. To capture temporal patterns, we sampled the below-ground microbiome across the growing season within a single site. We compared the strength of spatiotemporal factors to nitrogen addition determining the major drivers in our perennial cropping system. All microbial communities were most strongly structured by sampling site, though collection date also had strong effects; in contrast, nitrogen addition had little to no effect on communities. Though all microbial communities were found to have significant spatiotemporal patterns, sampling site and collection date better explained bacterial than fungal community structure, which appeared more defined by stochastic processes. Root communities, especially bacterial, were more temporally structured than soil communities which were more spatially structured, both across and within sampling sites. Finally, we characterized a core set of taxa in the switchgrass microbiome that persists across space and time. These core taxa represented < 6% of total species richness but > 27% of relative abundance, with potential nitrogen fixing bacteria and fungal mutualists dominating the root community and saprotrophs dominating the soil community.ConclusionsOur results highlight the dynamic variability of plant microbiome composition and assembly across space and time, even within a single variety of a plant species. Root and soil fungal community compositions appeared spatiotemporally paired, while root and soil bacterial communities showed a temporal lag in compositional similarity suggesting active recruitment of soil bacteria into the root niche throughout the growing season. A better understanding of the drivers of these differential responses to space and time may improve our ability to predict microbial community structure and function under novel conditions.

Responses of soil bacterial and fungal communities to altered precipitation in a desert steppe.

To investigate the response mechanisms of soil bacterial and fungal communities to the changes of preci-pitation in a desert steppe of Ningxia, we conducted a three-year precipitation control experiment following completely randomized design. There were five treatments, natural precipitation (T0), 50% less in precipitation (T1), 25% less in precipitation (T2), 25% more in precipitation (T3) and 50% more in precipitation (T4). By using Illumina high-throughput sequencing and bioinformatics analysis, we investigated the effects of increased and decreased precipitation on soil bacterial and fungal communities, and examined the correlations between soil physicochemical properties, plant communities and soil bacterial and fungal communities. The result showed that the richness of soil bacteria and fungi was highest in the T4 treatment. In addition, the relative abundance of Chloroflexi, the predominant phyla of soil bacteria was more sensitive to precipitation change. However, the relative abundance of only Ascomycota, a rare fungal taxon, responded to precipitation changes. Results of redundancy analysis showed that the first two axes accounted for 92.8% and 87.4% of the total variance for soil bacterial and fungal community composition, respectively. Precipitation and soil pH were the most important environmental factors driving changes in soil bacterial diversity and community composition. On the one hand, precipitation had a direct positive effect on bacterial diversity and community composition. On the other hand, precipitation changed pH by affecting soil moisture, which in turn had a significant indirect effect on bacterial diversity and community composition. Plant community biomass, plant species richness, and soil pH were the most influential environmental factors affecting fungal diversity and community composition. Precipitation had no direct effect on soil fungal community, but had a significant indirect effect by changing plant community richness and soil pH. The response mechanisms of bacterial and fungal communities in soil differed significantly under different precipitation regimes in the desert grasslands of Ningxia.

Desertification induced changes in soil bacterial and fungal diversity and community structure in a dry-hot valley forest

Increase in aridity is a global phenomenon due to climate change. Understanding soil microbial communities' response to aridity induced desertification is essential to predict the regulation of microbial processes under climate change and to develop feasible restoration plans. Therefore, to elucidate desertification effects, we investigated the changes in soil properties and, shifts and drivers of soil microbial diversity and community composition of a dry-hot valley-based Pinus densata forest located in south-east Tibetan Plateau of China. Amplicon sequencing of bacterial and fungal communities were used to determine soil bacterial and fungal community composition and diversity patterns. The results revealed that soil bacterial and fungal alpha-diversities were lower in desertified P. densata forest soils. Soil total carbon content (TC) was the major predictor of bacterial Pielou index. Whereas fungal Chao 1 and Simpson diversity indices were mainly influenced by total nitrogen contents (TN) of the soil. Differential response between soil bacterial and fungal communities' structures were observed between the desertified and non-desertified soils. Soil pH mainly regulated the overall microbial community structures in addition to TC determining bacterial and TN determining fungal community structures, respectively. Changes in the relative abundance of bacterial phylum Chloroflexi and Actinobacteria, and the ratio of fungal phylum Ascomycota/Basidiomycota were the indicators of intensity of soil desertification in the studied forests. The relative abundance of pathogenic microbial communities in soils was more in desertified soils in comparison to the non-desertified soils of P. densata forests, such as the bacterial genus Conexibacter and fungal genera Penicillium and Ilyonectria. This study evidences the differential response of soil bacterial and fungal communities to changes in soil biotic and abiotic properties indicating differential adaptive mechanism in a forest ecosystem currently experiencing adverse effects of rapid desertification.

Contrasting sensitivity of soil bacterial and fungal community composition to one year of water limitation in Scots pine mesocosms.

The soil microbiome is crucial for regulating biogeochemical processes and can thus strongly influence tree health, especially under stress conditions. However, little is known about the effect of prolonged water deficit on soil microbial communities during the development of saplings. We assessed the response of prokaryotic and fungal communities to different levels of experimental water limitation in mesocosms with Scots pine saplings. We combined analyses of physicochemical soil properties and tree growth with DNA metabarcoding of soil microbial communities throughout four seasons. Seasonal changes in soil temperature and soil water content and a decreasing soil pH strongly influenced the composition of microbial communities but not their total abundance. Contrasting levels of soil water contents gradually altered the soil microbial community structure over the four seasons. Results indicated that prokaryotic communities were less resistant to water limitation than fungal communities. Water limitation promoted the proliferation of desiccation-tolerant, oligotrophic taxa. Moreover, water limitation and an associated increase in soil C/N ratio induced a shift in the potential lifestyle of taxa from symbiotic to saprotrophic. Overall, water limitation appeared to alter soil microbial communities involved in nutrient cycling, pointing to potential consequences for forest health affected by prolonged episodes of drought.

Soil Microbial Community Composition and Diversity Analysis under Different Land Use Patterns in Taojia River Basin

Soil microorganisms are greatly affected by their microenvironment. To reveal the influence of different land use patterns on the composition and diversity of soil bacterial and fungal communities, this study analyzed microbial (bacteria and fungi) community composition and diversity under different land use patterns (vegetable land, wasteland, woodland, cultivated land) based on 16S rRNA, 18S rRNA, and high-throughput sequencing method in the Taojia River Basin. Spearman analysis and redundancy analysis (RDA) were used to explore the correlation between soil physicochemical properties and soil fungal and bacterial community composition, and a partial least squares path model (PLS-PM) was constructed to express the causal relationship between soil physicochemical properties and soil bacterial and fungal community diversity. The results showed that the soil bacterial species richness was highest in vegetable land and the lowest in the wasteland. Proteobacteria is the dominant phylum (20.69%–32.70%), and Actinobacteria is the dominant class (7.99%–16.95%). The species richness of fungi in woodland was the highest, while was the lowest in cultivated land. The dominant phylum of fungi in vegetable land, woodland, and cultivated land is Mucoromycota, 29.39%, 41.36%, and 22.67%, respectively. Ascomycota (42.16%) is the dominant phylum in wasteland. Sordariomyetes of Ascomycota is the dominant class in wasteland and cultivated land. Mortierellomycetes and Glomeromycetes of Mucoromycota are the dominant class in vegetable land and woodland. The results of the Spearman analysis revealed that the dominant groups in the bacterial and fungal communities had significant correlations with soil pH, clay, and sand (p &lt; 0.01). The RDA results showed that soil clay, pH, and moisture were the key environmental factors affecting the diversity of soil microbial communities. Fungal diversity is more affected by different land use patterns than bacteria. These results provided a theoretical basis for the changes in soil microbial community composition and diversity in river basins.

A Natural Moisture Gradient Affects Soil Fungal Communities on the South Shore of Hulun Lake, Inner Mongolia, China.

Soil moisture content (SWC) can change the diversity and composition of soil fungal communities by affecting soil texture and soil nutrients. To explore the response of soil fungal communities to moisture in the grassland ecosystem on the south shore of Hulun Lake, we set up a natural moisture gradient that was subdivided into high (HW), medium (MW), and low (LW) water contents. Vegetation was investigated by quadrat method, and aboveground biomass was collected by the mowing method. Soil physicochemical properties were obtained by internal experiments. The composition of the soil fungal community was determined using high-throughput sequencing technology. The results showed significant differences in soil texture, nutrients, and fungal species diversity under the moisture gradients. Although there was significant clustering of fungal communities in different treatments, the fungal community composition was not significantly different. According to the phylogenetic tree, the Ascomycota and Basidiomycota were the most important branches. The fungal species diversity was smaller when SWC was higher, and in this environment (HW), the fungal-dominant species were significantly related to SWC and soil nutrients. At this time, soil clay formed a protective barrier for the survival of the dominant classes Sordariomycetes and Dothideomycetes and increased their relative abundance. In summary, the fungal community responded significantly to SWC on the southern shore of the Hulun Lake ecosystem in Inner Mongolia, China, and the fungal community composition of the HW group was stable and easier to survive.

Explore the soil factors driving soil microbial community and structure in Songnen alkaline salt degraded grassland.

Saline-alkali degradation in grassland significantly affects plant community composition and soil physical and chemical properties. However, it remains unclear whether different degradation gradients affect soil microbial community and the main soil driving factors. Therefore, it is important to elucidate the effects of saline-alkali degradation on soil microbial community and the soil factors affecting soil microbial community in order to develop effective solutions to restore the degraded grassland ecosystem. In this study, Illumina high-throughput sequencing technology was used to study the effects of different saline-alkali degradation gradients on soil microbial diversity and composition. Three different gradients were qualitatively selected, which were the light degradation gradient (LD), the moderate degradation gradient (MD) and the severe degradation gradient (SD). The results showed that salt and alkali degradation decreased the diversity of soil bacterial and fungal communities, and changed the composition of bacterial and fungal communities. Different degradation gradients had different adaptability and tolerance species. With the deterioration of salinity in grassland, the relative abundance of Actinobacteriota and Chytridiomycota showed a decreasing trend. EC, pH and AP were the main drivers of soil bacterial community composition, while EC, pH and SOC were the main drivers of soil fungal community composition. Different microorganisms are affected by different soil properties. The changes of plant community and soil environment are the main factors limiting the diversity and composition of soil microbial community. The results show that saline-alkali degradation of grassland has a negative effect on microbial biodiversity, so it is important to develop effective solutions to restore degraded grassland to maintain biodiversity and ecosystem function.