Fungal Functional Groups Research Articles

Exploring Relationships among Grapevine Chemical and Physiological Parameters and Leaf and Berry Mycobiome Composition.

Improving our knowledge on biotic and abiotic factors that influence the composition of the grapevine mycobiome is of great agricultural significance, due to potential effects on plant health, productivity, and wine characteristics. Here, we assessed the influence of scion cultivar on the diversity and composition of fungal communities in the berries and leaves of three different cultivars. We generated DNA metabarcoding data, and statistically compared the richness, relative abundance, and composition of several functional groups of fungi among cultivars, which are partly explained by measured differences in chemical composition of leaves and berries and physiological traits of leaves. Fungal communities in leaves and berries show contrasting patterns among cultivars. The richness and relative abundance of fungal functional groups statistically differ among berry and leaf samples, but less so among cultivars. Community composition of the dominant functional groups of fungi, i.e., plant pathogens in leaves and saprotrophs in berries, differs significantly among cultivars. We also detect cultivar-level differences in the macro- and microelement content of the leaves, and in acidity and sugar concentration of berries. Our findings suggest that there appears to be a relatively diverse set of fungi that make up the grapevine mycobiome at the sampled terroir that spans several cultivars, and that both berry and leaf mycobiomes are likely influenced by the chemical characteristics of berries and leaves, e.g., pH and the availability of nutrients and simple carbohydrates. Finally, the correlation between fungal community composition and physiological variables in leaves is noteworthy, and merits further research to explore causality. Our findings offer novel insights into the microbial dynamics of grapevine considering plant chemistry and physiology, with implications for viticulture.

Influence of different irrigation methods on the alfalfa rhizosphere soil fungal communities in an arid region.

Xinjiang is the largest arid and saline agricultural region in China. The common irrigation methods in this area are traditional flood irrigation and drip irrigation. In this study, we investigated the effects of these two irrigation methods on the fungal diversity, community structures, and functions in alfalfa rhizosphere soil as well as the associated environmental factors in northern Tianshan Mountain (Xinjiang, China). Soil enzyme activities (urease and neutral phosphatase) were significantly higher in the drip-irrigated alfalfa rhizosphere soil than in the flood-irrigated alfalfa rhizosphere soil, whereas the fungal alpha diversity in the drip-irrigated alfalfa rhizosphere soil was significantly lower than that in the flood-irrigated alfalfa rhizosphere soil. Six dominant fungal phyla were identified (>0.1%), with Ascomycota being the most abundant in all soils, followed by Basidiomycota (5.47%), Mortierellomycota (1.07%), Glomeromycota (0.55%), Rozellomycota (0.27%), and Chytridiomycota (0.14%). Ascomycota and Glomeromycota species were significantly less abundant in drip-irrigated alfalfa rhizosphere soil than in flood-irrigated alfalfa rhizosphere soil. A LEFSe analysis identified Cladosporiaceae (20.8%) species as the most abundant marker fungi in drip-irrigated alfalfa rhizosphere soil. Of the 13 fungal functional groups identified on the basis of the functional annotation using the FUNGuild database, Ectomycorrhizal (22.29%) was the primary functional group. Compared with flood irrigation, drip irrigation significantly decreased the relative abundance of Ectomycorrhizal and Arbuscular_Mycorrhizal, while increasing the relative abundance of Plant_Pathogen, although not significantly (P = 0.19). Available potassium was revealed to be the main environmental factor influencing soil enzyme activities, fungal alpha diversity, fungal community structures, and fungal functions in response to the different irrigation methods. In conclusion, drip irrigation may be more appropriate than flood irrigation in the Tianshan dryland agricultural area for enhancing soil enzyme activities, but it may also increase the abundance of plant pathogenic fungi in the soil.

Phylotype diversity within soil fungal functional groups drives ecosystem stability.

Soil fungi are fundamental to plant productivity, yet their influence on the temporal stability of global terrestrial ecosystems, and their capacity to buffer plant productivity against extreme drought events, remain uncertain. Here we combined three independent global field surveys of soil fungi with a satellite-derived temporal assessment of plant productivity, and report that phylotype richness within particular fungal functional groups drives the stability of terrestrial ecosystems. The richness of fungal decomposers was consistently and positively associated with ecosystem stability worldwide, while the opposite pattern was found for the richness of fungal plant pathogens, particularly in grasslands. We further demonstrated that the richness of soil decomposers was consistently positively linked with higher resistance of plant productivity in response to extreme drought events, while that of fungal plant pathogens showed a general negative relationship with plant productivity resilience/resistance patterns. Together, our work provides evidence supporting the critical role of soil fungal diversity to secure stable plant production over time in global ecosystems, and to buffer against extreme climate events.

Relationships Between Soil Microbial Diversities Across an Aridity Gradient in Temperate Grasslands : Soil Microbial Diversity Relationships.

Soil microbes assemble in highly complex and diverse microbial communities, and microbial diversity patterns and their drivers have been studied extensively. However, diversity correlations and co-occurrence patternsbetween bacterial, fungal, and archaeal domains and between microbial functional groups in arid regions remain poorly understood. Here we assessed the relationships between the diversity and abundance of bacteria, fungi, and archaea and explored how environmental factors influence these relationships. We sampled soil along a 1500-km-long aridity gradient in temperate grasslands of Inner Mongolia (China) and sequenced the 16S rRNA gene of bacteria and archaea and the ITS2 gene of fungi. The diversity correlations and co-occurrence patterns between bacterial, fungal, and archaeal domains and between different microbial functional groups were evaluated using α-diversity and co-occurrence networks based on microbial abundance. Our results indicate insignificant correlations among the diversity patterns of bacterial, fungal, and archaeal domains using α-diversity but mostly positive correlations among diversity patterns of microbial functional groups based on α-diversity and co-occurrence networks along the aridity gradient. These results suggest that studying microbial diversity patterns from the perspective of functional groups and co-occurrence networks can provide additional insights on patterns that cannot be accessed using only overall microbial α-diversity. Increase in aridity weakens the diversity correlations between bacteria and fungi and between bacterial and archaeal functional groups, but strengthens the positive diversity correlations between bacterial functional groups and between fungal functional groups and the negative diversity correlations between bacterial and fungal functional groups. These variations of the diversity correlations are associated with the different responses of microbes to environmental factors, especially aridity. Our findings demonstrate the complex responses of microbial community structure to environmental conditions (especially aridity) and suggest that understanding diversity correlations and co-occurrence patternsbetween soil microbial groups is essential for predicting changes in microbial communities under future climate change in arid regions.

Grass species identity shapes communities of root and leaf fungi more than elevation

Fungal symbionts can buffer plants from environmental extremes and may affect host capacities to acclimate, adapt, or redistribute under environmental change; however, the distributions of fungal symbionts along abiotic gradients are poorly described. Fungal mutualists should be the most beneficial in abiotically stressful environments, and the structure of networks of plant-fungal interactions likely shift along gradients, even when fungal community composition does not track environmental stress. We sampled 634 unique combinations of fungal endophytes and mycorrhizal fungi, grass species identities, and sampling locations from 66 sites across six replicate altitudinal gradients in the western Colorado Rocky Mountains. The diversity and composition of leaf endophytic, root endophytic, and arbuscular mycorrhizal (AM) fungal guilds and the overall abundance of fungal functional groups (pathogens, saprotrophs, mutualists) tracked grass host identity more closely than elevation. Network structures of root endophytes become more nested and less specialized at higher elevations, but network structures of other fungal guilds did not vary with elevation. Overall, grass species identity had overriding influence on the diversity and composition of above- and belowground fungal endophytes and AM fungi, despite large environmental variation. Therefore, in our system climate change may rarely directly affect fungal symbionts. Instead, fungal symbiont distributions will most likely track the range dynamics of host grasses.

New insights into the role of phytopathogenic fungi vectored by pine bark beetles in pine decline

The study presented was carried out in response to the alarmingly increasing number of outbreaks of bark beetles and associated fungi in European forests including Ukraine. Our study was aimed to generate new knowledge on bark beetles and understand the possible role of vectored fungi. The obtained data can contribute to the increased knowledge and will allow adequately responsing to an expected intensification of bark beetle disturbances, as well as may allow better understanding tree diseases and how to cope with them. In total, eleven ophiostomatoid fungi (Graphium sp., Leptographium sosnaicola, Grosmannia olivacea, Grosmannia penicillata, Ophiostoma bicolor, O. ips, O. canum, O. piceae, O. minus, O. nigrocarpum Graphilbum rectangulosporium) were found here in association with five species of bark beetles (Hylurgus ligniperda, Hylastes ater, Hylastes angustatus, Ips acuminatus and Ips sexdentatus) on Scots pine trees infested by bark beetles. Scots pine seedlings were inoculated with ophiostomatoid fungi and sterile medium (control) to evaluate their pathogenicity. The inoculated seedlings were examined finally 6 months later after inoculation. Inoculation with Leptographium sosnaicola, Graphium sp and O. minus produced significantly large lesions and mortality of pine seedlings. In total, all the eight fungal-inoculated species caused resin exudation and staining on the bark around inoculations in Scots pine seedlings and different rate of the seedlings decline.
 It can be concluded that the studied bark beetles are vectors for different functional groups of fungi including aggressive pathogens, and that ophiostomatoid fungi are the most closely associated symbionts. Moreover, high virulence fungi can help bark beetles to overcome the tree resistance and may significantly contribute to tree mortality.

Elevated functional versatility of the soil microbial community associated with the invader Carpobrotus edulis across a broad geographical scale

Exotic invasive plants may shape their own rhizosphere microbial community during global invasions. Nevertheless, the impacts of such plant invasions on the functional capacities of soil microbial communities remain poorly explored. We used an approach at a broad geographical scale to estimate the composition and abundance of the fungal functional groups, as well as the bacterial metabolic functions, associated with the rhizospheres of Carpobrotus edulis (L.) L. Bolus and the predominant native plants in coastal ecosystems located in different geographical regions. We used the ASV method to infer the potential functions of the soil microbial community with the PICRUSt2 and FUNGuild tools. The predictive functional profiling of the bacterial communities differed between the rhizospheres of the invasive and native plants, regardless of the biogeographic location of the invaded soil. Some predicted pathways related to the biosynthesis of nucleotides such as ppGpp and pppGpp, lipids, carbohydrates and secondary metabolites and the degradation of organic matter were enriched in the C. edulis rhizosphere. Moreover, the invasive microbiota was characterised by a greater richness and diversity of catabolic enzymes involved in nutrients cycling and higher relative abundances of saprotrophs and pathotrophs. Invasion by C. edulis promoted a shift in the potential functional versatility of the soil microbial communities, which can cope with nutrient limitations and biotic stress, and can favour the establishment of the invasive plant, but also alter the functioning and stability of the invaded ecosystems.

Short-term cellulose addition decreases microbial diversity and network complexity in an Ultisol following 32-year fertilization

Cellulose is an essential component of plant cell walls, and one of the major constituents of soil organic matter. Decomposition of cellulose, mediated by microorganisms, is critical to the sustainable development of arable soils. However, how exogenous cellulose addition, as a surrogate for organic material amendment, influences the diversity and community compositions of soil microorganisms and their network complexity remains largely unknown. To bridge this knowledge gap, we conducted a microcosm experiment incubated with soils that had been subjected to long-term mineral or organic fertilization. Cellulose addition increased the cumulative CO2 emission in all treatments, with the highest value found in the pig manure amended soils. Cellulose addition significantly reduced the alpha diversity of bacteria and fungi across all fertilization treatments, with a more pronounced effect observed for fungi. Moreover, cellulose addition strongly altered bacterial community structure by increasing the relative abundance of copiotrophic bacteria such as Actinobacteria and Proteobacteria while reducing that of oligotrophic bacteria (e.g., Chloroflexi). Compared with no-fertilizer treatment, the influence of cellulose addition on bacterial and fungal community structure was stronger in long-term mineral or organic fertilized soils. Cellulose addition altered the relative abundance of bacterial and fungal functional groups by generally enriching microbes involved in chemoheterotrophy and suppressing those involved in methylotrophy, pathotroph, saprotroph-symbiotroph, and saprotroph-pathotroph. In addition, cellulose addition decreased soil microbial complexity and the number of potential keystone species, but did not change the key role of Chloroflexi in soil microbial network. Overall, our results demonstrated that cellulose addition decreased soil microbial diversity and network complexity, with possible short-term negative consequences for ecosystem functioning in Ultisols.

Urban remnant size alters fungal functional groups dispersed by a digging mammal

Urban remnant size alters fungal functional groups dispersed by a digging mammal

Response of Soil Microbial Community to Vegetation Reconstruction Modes in Mining Areas of the Loess Plateau, China.

Vegetation reconstruction and restoration is vital to the health of the mine land ecosystem. Different vegetations might change microbial community structure and function of soil, mediating the biogeochemical cycle and nutrition supply to the soil. To clarify the response of soil microbes to different vegetation reconstruction modes in the mining areas of the Loess Plateau, China, soil microbial community structures and functions were determined by the MiSeq high-throughput sequencing along with PICRUSt2 and FUNGuild tools. The fungal community richness was observed to be the highest in grassland soil and positively correlated with soil organic matter, total nitrogen, and nitrate-nitrogen. The bacterial and fungal community structures were similar in grassland and brushland areas, but were significantly differentiated in the coniferous and broadleaf forest, and the leading factors were soil pH and nitrate-nitrogen. Actinobacteriota, Proteobacteria, and Acidobacteriota were the dominant bacterial phyla under different vegetation reconstruction modes. The dominant phyla of fungi were Ascomycota, Basidiomycota, and Mortierellomycota. Different vegetation reconstruction modes did not affect the bacterial functional communities but shaped different functional groups of fungi. The grassland soil was dominated by saprotrophic fungi, while symbiotrophic fungi dominated the coniferous and broadleaf forests. The results suggested that shifts in vegetation reconstruction modes may alter the mining soil bacterial and fungal community structures and function. These findings improve the understanding of microbial ecology in the reclaimed mine soil and provide a reference for the ecological restoration of fragile mining ecosystems.

Changes in soil bacterial and fungal community composition and functional groups during the succession of boreal forests

Clarifying the response of soil microbial communities and their potential functions during succession is of great significance for understanding the biogeochemical processes and the sustainability of forest development. However, the study of microbial community dynamics during the process of succession remains poorly understood in boreal forest ecosystems. Thus, in order to study the dynamics of microbial diversity caused by succession, we adopted the "space instead of time" method and selected four habitats in a national natural reserve (including grassland, birch forest, mixed forest and larch forest) to represent the primary successional sequence of the boreal forest. We used 16S and ITS rRNA gene sequencing to detect bacterial and fungal communities and used FAPROTAX and FUNGuild database to predict bacterial and fungal functional groups. The results showed that forest succession significantly changed the community composition of bacteria and fungi, among which the fungal community was more sensitive to the changes with successional stage. The relative abundance of ectomycorrhizal fungi significantly increased with succession, while the relative abundance of bacterial functional groups involved in the nitrogen cycle did not change significantly, indicating that fungi might play a major regulatory role in the nutrient cycling process during the successional process. In this study, the soil total carbon and total nitrogen were the dominating factors affecting the soil microbial community and the structure of fungal functional groups. Our results suggest that the shifts in fungal community structure and functional groups may play a key role in soil nutrient cycling during boreal ecosystems succession.

Cropping systems with higher organic carbon promote soil microbial diversity

Food systems need to become more sustainable. There is a need to investigate the agricultural management components that address the sustainability better. Long crop rotations are suggested to be environmentally friendly, yet, little is known how soil microbial communities may be affected by long-term rotation under organic cropping with cover crops and manure and conventional cropping with different nitrogen rates. We examined the composition and diversity of soil bacterial and fungal communities in a five-field crop rotation at the beginning and end, respectively in 2013 and 2018. Our analysis revealed that bacterial and to a lesser extent fungal diversity increased by the end of the rotation in all organic treatments and in conventional treatments with low to medium nitrogen rate (20‐100 kg of nitrogen per hectare). Conventional treatment with no added nitrogen decreased bacterial and fungal diversity. Nitrogen rate of 150 kg/ha decreased only bacterial diversity, while the impact on fungal diversity was neutral. Crop rotation significantly increased the relative abundance of bacterial taxa involved in nitrification and denitrification. Of fungal functional groups, the relative abundance of pathogenic functional groups decreased and mycorrhizal groups increased during crop rotation and especially with added cover crops. Our results suggest that crop rotation may outperform cropping systems in structuring soil microbial communities.

Fungal community response to long‐term soil warming with potential implications for soil carbon dynamics

AbstractThe direction and magnitude of climate warming effects on ecosystem processes such as carbon cycling remain uncertain. Soil fungi are central to these processes due to their roles as decomposers of soil organic matter, as mycorrhizal symbionts, and as determinants of plant diversity. Yet despite their importance to ecosystem functioning, we lack a clear understanding of the long‐term response of soil fungal communities to warming. Toward this goal, we characterized soil fungal communities in two replicated soil warming experiments at the Harvard Forest (Petersham, Massachusetts, USA) which had experienced 5°C above ambient soil temperatures for 5 and 20 yr at the time of sampling. We assessed fungal diversity and community composition by sequencing the ITS2 region of rDNA using Illumina technology, along with soil C concentrations and chemistry. Three main findings emerged: (1) long‐, but not short‐term warming resulted in compositional shifts in the soil fungal community, particularly in the saprotrophic and unknown components of the community; (2) soil C concentrations and the total C stored in the organic horizon declined in response to both short‐ (5 yr) and long‐term (20 yr) warming; and (3) following long‐term warming, shifts in fungal guild relative abundances were associated with substantial changes in soil organic matter chemistry, particularly the relative abundance of lignin. Taken together, our results suggest that shifts with warming in the relative abundance of fungal functional groups and dominant fungal taxa are related to observed losses in total soil C.

Short-Term Thinning Influences the Rhizosphere Fungal Community Assembly of Pinus massoniana by Altering the Understory Vegetation Diversity.

Thinning can significantly promote forest productivity and ecological function. Rhizosphere fungi play an indispensable role in regulating nutrient cycling between plants and the environment, and their community composition can positively respond to anthropogenic disturbance. However, the initial effects of thinning on rhizosphere fungal community assembly have seldom been reported. In this research, we studied the alterations in the rhizosphere fungal communities of 29-year-old Pinus massoniana in East Sichuan 2 years after three different thinning intensity treatments. In addition, the responses of fungal community and functional group composition to alterations in understory vegetation and soil physiochemical properties were analyzed. Three thinning intensities were set, which were 0 (CK), 25% (LIT), and 50% (HIT), respectively. The results suggested that the richness index and Shannon index of understory vegetation increased significantly with increasing thinning intensity. The alpha diversity indices of rhizosphere fungal community and soil physiochemical properties did not show significant differences among the three treatments. The relative abundances of 17 fungal indicator species varied regularly with increasing thinning intensity, and most of them belong to Hypocreales and Eurotiales, indicating that these two orders were potential indicators for different thinning treatments. Rhizosphere fungal community assembly was determined by deterministic process, and it was driven by the diversity of understory vegetation in the initial stage of thinning. The Simpson index and Pielou index of herbs were useful measures of the main environmental factors driving the differentiation of fungal functional group composition. Based on network analysis, thinning resulted in distinct co-occurrence patterns of rhizosphere fungal functional groups. This research elucidates the initial role of thinning in rhizosphere fungal community assembly of P. massoniana and has practical significance for the functional restoration and protection of local forest ecosystem.

Long-term nitrogen addition and reduced precipitation restructure soil fungal community in a temperate forest

ABSTRACT Fungi play an important role in mediating soil functioning and plant nutrients absorption. Although nitrogen (N) addition and reduced precipitation can affect fungal community composition, the response of fungal taxonomic and functional groups to changes in soil N and water availability is still unclear. Here, we established a long-term field manipulations experiment of N addition and throughfall exclusion to investigate fungal communities’ response to N addition and reduced precipitation. Illumina Sequencing of ITS amplicons was used to examine soil fungal communities in winter and summer. Results showed that N addition, reduced precipitation and their combined effect significantly altered the soil fungal community composition. Basidiomycetes associated with humus decomposition dominated in ambient soil and Ascomycetes abundance dramatically increased and dominated in N addition in both winter and summer. Reduced precipitation and the combined effect significantly increased fungal richness and diversity. Moreover, the relative abundance of mycorrhizal and saprotroph fungal communities responded positively to reduced precipitation. Our results indicate reduced precipitation alleviated the competition between fungi, while N addition could reduce the rate decomposition of humus.

Divergent above- and below-ground responses of fungal functional groups to forest thinning

Forest disturbances have a strong effect on soil fungal communities and associated ecosystem processes. However, little is known about the response of mycelial biomass to disturbances, and how fungi reallocate carbon into different fungal structures under environmental stressors. We investigated above- and below-ground fungal biomass shifts in response to different intensities of forest management in Mediterranean Pinus pinaster forests. Soil fungal biomass was estimated by ergosterol quantification and production of sporocarps was estimated from repeated field samplings during 5 years in 26 experimental plots. Abundance of mycorrhizal and saprotrophic fungi belowground was determined using Pacific Biosciences sequencing of fungal ITS2 amplicons. Thinning had a prolonged negative effect belowground, inter- and intra-annually, on total fungal biomass and on the biomass of ectomycorrhizal fungi, but not on saprotrophic fungi. Total and ectomycorrhizal mushroom yields were negatively correlated with the total and the ectomycorrhizal mycelial biomass, respectively. Thinning also correlated positively with the aboveground/belowground ratio of both total and ectomycorrhizal fungal biomass. We show potential short-term shifts in resource allocation of fungi from below-to above-ground structures under disturbances such as forest thinning. Ectomycorrhizal fungi may respond to disturbances by increasing reproduction rather than colonizing the surrounding soil.

Seasonal Variation in the Rhizosphere and Non-Rhizosphere Microbial Community Structures and Functions of Camellia yuhsienensis Hu.

Camellia yuhsienensis Hu, endemic to China, is a predominant oilseed crop, due to its high yield and pathogen resistance. Past studies have focused on the aboveground parts of C. yuhsienensis, whereas the microbial community of the rhizosphere has not been reported yet. This study is the first time to explore the influence of seasonal variation on the microbial community in the rhizosphere of C. yuhsienensis using high-throughput sequencing. The results showed that the dominant bacteria in the rhizosphere of C. yuhsienensis were Chloroflexi, Proteobacteria, Acidobacteria, Actinobacteria, and Planctomycetes, and the dominant fungi were Ascomycota, Basidiomycota, and Mucoromycota. Seasonal variation has significant effects on the abundance of the bacterial and fungal groups in the rhizosphere. A significant increase in bacterial abundance and diversity in the rhizosphere reflected the root activity of C. yuhsienensis in winter. Over the entire year, there were weak correlations between microorganisms and soil physiochemical properties in the rhizosphere. In this study, we found that the bacterial biomarkers in the rhizosphere were chemoorganotrophic Gram-negative bacteria that grow under aerobic conditions, and fungal biomarkers, such as Trichoderma, Mortierella, and Lecanicillium, exhibited protection against pathogens in the rhizosphere. In the rhizosphere of C. yuhsienensis, the dominant functions of the bacteria included nitrogen metabolism, oxidative phosphorylation, glycine, serine and threonine metabolism, glutathione metabolism, and sulfur metabolism. The dominant fungal functional groups were endophytes and ectomycorrhizal fungi of a symbiotroph trophic type. In conclusion, seasonal variation had a remarkable influence on the microbial communities and functions, which were also significantly different in the rhizosphere and non-rhizosphere of C. yuhsienensis. The rhizosphere of C. yuhsienensis provides suitable conditions with good air permeability that allows beneficial bacteria and fungi to dominate the soil microbial community, which can improve the growth and pathogen resistance of C. yuhsienensis.

Isotope analyses of amino acids in fungi and fungal feeding Diptera larvae allow differentiating ectomycorrhizal and saprotrophic fungi‐based food chains

Abstract Both ectomycorrhizal (ECM) and saprotrophic fungi are fundamental to carbon and nutrient dynamics in forest ecosystems; however, the relative importance of these different fungal functional groups for higher trophic levels of the soil food web is virtually unknown. To explore differences between fungal functional groups and their importance for higher trophic levels, we analysed isotopic composition of nitrogen and carbon in amino acids (AAs) and bulk tissue of leaf litter, fungi and fungal‐feeding Diptera larvae. By accounting for isotopic variability of utilized substrates, compound‐specific isotope analyses of nitrogen in AAs yielded more realistic results for the trophic position of fungi than bulk isotope analyses, with converging trophic positions of saprotrophic and ECM fungi. Saprotrophic and ECM fungi possessed different AA δ13C signatures separating fungal functional groups and their consumers in fingerprinting approaches, thereby allowing to trace energy fluxes from these basal resources to higher trophic levels. A pronounced isotopic fractionation even in essential/source AAs of fungal‐feeding Diptera larvae necessitates further studies on tissue‐/compound‐specific isotopic differences in fungi and on potential supplementation by gut micro‐organisms. The results highlight the potential of compound‐specific isotope analysis of amino acids to identify and integrate contributions of different fungal functional groups to higher trophic levels in soil food webs. A free Plain Language Summary can be found within the Supporting Information of this article.

Inconsistent diversity patterns of soil fungi and woody plants among habitat types in a karst broadleaf forest

The diversity patterns of macroorganisms (i.e., plants) among different habitats have been well documented, however, those of microorganisms (i.e., fungi) as well as the relationships between them are still unclear. Here, we tested whether and to what degree fungal diversity was related to habitat types and compared diversity patterns of woody plants and soil fungi. We carried out field investigations on soil fungi in different habitat types (i.e., valleys, foothills, hillsides, and hilltops) in a 25-ha karst broadleaf forest in Southwest China. The tree richness, Shannon index, and Simpson index significantly increased from valleys to hilltops. While the soil fungal N1 diversity (the exponential Shannon index) marginally increased toward valleys, fungal N0 (richness) and N2 (the inverse Simpson index) diversity exhibited significantly reduced and increased patterns, respectively, from valleys to hilltops. The major fungal functional groups (i.e., EcM, AM, saprotrophic, and pathogenic fungi) showed similar increasing richness patterns in valleys. Moreover, woody plant alpha diversity was an important indicator of fungal functional groups except for EcM and AM fungi. In addition, woody plants increased in species turnover rate (βSIM) from valleys to hilltops, while fungal species had a concave distribution. The patterns of nestedness (βSNE) for tree species decreased from valleys to hilltops, while the opposite was true for soil fungal species. Our findings indicated that the diversity patterns of woody plants and fungi were inconsistent among habitat types, and the relationships between fungal and woody plant communities depended on habitat types in the karst forest.

Patterns of fungal community succession triggered by C/N ratios during composting

Accumulating evidence indicates that the functional rather than taxonomic composition of microbial communities is closely correlated to local environmental factors. While composting is a widely accepted practice, specific knowledge of how fungal functional groups interact during the composting process remains limited. To address this, the impact of the initial C/N ratio of composting material on fungal community was analyzed in order to reveal the succession of functional diversity. Compared with the raw materials, the final composting product significantly reduced the relative abundances of plant and animal pathogens. Abundances of plant and animal pathogens, as well as dung saprotrophs, were negatively correlated with compost maturity, while abundances of wood saprotrophs exhibited positive correlations. Specific OTUs that showing highly abundant in each treatment were expected to compete for environmental preferences (niches) and/or interact with each other in positive (facilitative) ways. OTU2 (wood saprotroph) exhibiting the highest occurrence was negatively related to OTU7 (animal pathogen) and OTU4 (plant pathogen) during the mesophilic phase. Taken together, high-efficiency composting is represented as pattern variations of fungal community with a process of gradual decline of plant and animal pathogens as well as dung saprotrophs.