Carbon availability triggers fungal nitrogen uptake and transport in arbuscular mycorrhizal symbiosis

Contribution of arbuscular mycorrhiza and exoenzymes to nitrogen acquisition of sorghum under drought

Introduction

For low-fertile and degraded soils of sub-Saharan Africa, nitrogen (N) is often the most growth-limiting factor restricting crop yields. The often-suggested exploitation of advantageous rhizosphere traits such as enzyme secretion and/or the symbiosis with arbuscular mycorrhizal fungi (AMF) remains to be validated as a potential strategy to overcome N limitation, especially when N deficiency co-occurs with further abiotic stresses such as water scarcity.

Methods

Three sorghum genotypes were cultivated in soil mesocosms with a root-exclusion compartment, where only AMF could scavenge for nutrients under drought and optimal conditions. Plant carbon (C) investment into the rhizosphere and N uptake were tracked by 15N application coupled with 13CO2 labeling.

Results

Under drought, uptake of mineral 15N by AMF from the root-exclusion compartment increased 4-12 times compared to well-watered conditions. In addition, water stress enhanced below-ground allocation of recently assimilated C into microbial biomass. Drought reduced the enzymatic potential (Vmax) of chitinase while increasing leucine aminopeptidase (LAP) activity. This suggests that N acquisition via protein mineralization in soil was relatively enhanced compared to that of chitin following moisture limitation. LAP substrate affinity (Km) was reduced by drought compared to that of chitinase with genotype-specific shifts in the rhizosphere enzyme systems observed.

Conclusion

Our findings suggest that below-ground C allocation activated AMF symbiosis and its associated microbiome. This not only led to a shift in enzyme-driven exploitation of distinct organic N sources but also induced a strong increase in AMF-based mineral N acquisition from the mycosphere. This trait plasticity in response to drought may be harnessed to stabilize food production from low-fertile soil under the increasingly negative impacts of droughts due to climate change.

Glutamine synthetase GhGLN1.5 regulates arbuscular mycorrhizal symbiosis and Verticillium wilt resistance in cotton by modulating inorganic nitrogen assimilation

Arbuscular mycorrhizal (AM) fungi play a crucial role in the nitrogen uptake and Verticillium wilt resistance of cotton. The absorbed inorganic nitrogen is converted into organic nitrogen through nitrogen assimilation mediated by glutamine synthetase (GS). However, the role of GS in AM symbiosis and Verticillium wilt resistance remains unclear. We identified an AM fungus-induced GS gene, GhGLN1.5, which participated in AM symbiosis. Both in vivo and in vitro analyses demonstrated that GhGLN1.5 exhibits catalytic activity of GS. The knockdown of GhGLN1.5 resulted in a reduction of AM colonization, nitrogen uptake capacity, and AM symbiosis-dependent resistance to Verticillium wilt. Heterologous expression of GhGLN1.5 enhanced AM symbiosis, increased GS activity, and promoted plant growth. The knockout of GhGLN1.5 in cotton inhibited AM symbiosis. Furthermore, we identified an AM fungus-induced ethylene response factor gene GhWRI3 through yeast one-hybrid library screening and found that GhWRI3 activates the expression of GhGLN1.5 via AW-box element. These findings provide valuable insights into the molecular mechanisms of GhGLN1.5 expression in AM symbiosis, nitrogen assimilation, and Verticillium wilt resistance in cotton, suggesting potential strategies for regulating AM symbiosis in cotton through the WRI3-GLN1.5 module.

NAA enhances armillaria gallica growth by modulating nitrogen metabolism through AgZFP48

Armillaria gallica (A. gallica) is a fungus with both medicinal and edible properties. Previous transcriptome analysis has identified the C2H2-type zinc finger transcription factor as a candidate gene involved in the NAA-induced growth promotion of A. gallica. However, the molecular mechanism underlying the enhancement of A. gallica growth by C2H2 transcription factor in response to NAA treatment remains unclear. In this study, we identified a C2H2-type zinc finger transcription factor gene in A. gallica and investigated its function, aiming to elucidate the mechanism by which C2H2-type zinc finger transcription factors regulate the growth of A. gallica. We identified and characterized a novel C2H2-type zinc finger transcription factor, AgZFP48, in A. gallica and found that AgZFP48 is located in the nucleus, where it acts as a transcription activator. AgZFP48 positively regulated the growth of A. gallica. The potential targets of AgZFP48 were identified by using DNA affinity purification sequencing (DAP-seq). In addition, four candidate genes were selected for Electrophoretic Mobility Shift Assays (EMSA) and luciferase reporter activity assessment. The results showed that AgZFP48 activated the expression of ammonium transporter (AgAMT), glutamine synthetase (AgGS), acetylornithine aminotransferase (AgAcOAT), and amino acid permease (AgAAP) by binding to their promoters or exons. In summary, our results suggest that AgZFP48 promotes nitrogen metabolism in A. gallica by activating the expression of nitrogen metabolism-related genes, thereby regulating the growth of the fungus.

Capacity to form common mycorrhizal networks reduces the positive impact of clonal integration between plants

Both clonal plant capabilities for physiological integration and common mycorrhizal networks (CMNs) formed by arbuscular mycorrhizal fungi (AMF) can influence the distribution of nutrients and growth among interconnected individuals. Using a microcosm model system, we aimed to disentangle how CMNs interact with clonal integration to influence plant growth and development. We grew Sphagneticola trilobata clones with isolated root systems in individual, adjacent containers while preventing, disrupting, or allowing clonal integration aboveground via spacers and belowground CMNs to form. We assessed multiple metrics of plant development (e.g., growth, specific leaf area, soluble sugar content), 15N transfer from donor (mother) to receiver (daughter) plants, and variation in AMF communities. We show that spacer formation between ramets and the capacity to form CMNs promoted and inhibited the growth of smaller daughter plants, respectively. In contrast to the independent effects of CMNs and spacers, CMNs, in combination with spacers, significantly weakened the promotion of daughter plants by clonal integration. AMF species richness was also negatively correlated with overall plant growth. Our results demonstrate that two common modes of plant interconnection interact in non-additive ways to affect clonal plant integration and growth. These findings, based on Sphagneticola trilobata, question the underlying assumptions of the positive effects of both AMF CMNs and species richness in comparison to direct plant interconnections.

Labile Carbon Input Mitigates the Negative Legacy Effects of Nitrogen Addition on Arbuscular Mycorrhizal Symbiosis in a Temperate Grassland

Nitrogen (N) deposition and carbon (C) addition significantly influence the dynamics of plant-microbe interactions, particularly altering the symbiotic relationship between plants and arbuscular mycorrhizal fungi (AMF). However, the effects and underlying mechanisms of labile C input on the relationship between AMF and various plant species in a nitrogen-enriched environment remain a knowledge gap. A seven-year field experiment was conducted to examine how six levels of N and three levels of labile C addition impact AMF colonization in four key plant species: Leymus chinensis (Trin. ex Bunge) Tzvelev, Stipa baicalensis Roshev., Thermopsis lanceolata R. Br. and Potentilla bifurca Linn. Our results showed that N and C additions exert significantly different effects on the relationship between AMF and various plant species. Labile C addition mitigated historical N negative effects, particularly for S. baicalensis, enhancing AMF infection and promoting nutrient exchange under high-N and low-C conditions. The relationship between AMF and both L. chinensis and T. lanceolata changed to weak mutualism under low-N and high-C conditions, with significant decreases in vesicular and arbuscular abundance. Plant root stoichiometry plays a critical role in modulating AMF symbiosis, particularly under high-N and -C conditions, as reflected in the increased AMF infection observed in T. lanceolata and P. bifurca. Our findings emphasize the species-specific and nutrient-dependent AMF symbiosis, revealing that targeted C input can mitigate the legacy effects of N enrichment. Effective nutrient management is of crucial importance for ecological restoration efforts in temperate grasslands affected by long-term N enrichment.

Nearly 30a shrub introduction in desert steppes has led to an increase in saprotrophic fungi, accelerating the degradation of carbon compounds and nitrate reduction

Clarifying how soil microbial communities respond to shrub introduction after overgrazing in desert steppe and their potential functions is crucial for understanding the biogeochemical processes involved in vegetation transformation and sustainability of desert grasslands. However, the dynamics of microbial communities remain poorly understood. We selected enclosed grasslands (20a), overgrazed grasslands, and shrublands (6a, 15a, and 25a) to explore how shrubs introduced influence soil microbial structure and functional groups over the long term after desert grassland degradation. The results showed that overgrazing and shrub introduction (Caragana korshinskii) had more significant impacts on microbial β diversity than on α diversity. Fungal communities were more sensitive to grassland degradation. In contrast, introducing shrubs affected both fungal and bacterial communities, and an increase in shrub age drove the synergistic effects of fungal species. Soil nitrate and microbial biomass nitrogen were the key factors affecting bacterial and fungal communities. Compared with enclosed grasslands, overgrazing and introducing shrubs significantly increased soil nitrate reduction, ectomycorrhizals, and endophytes. The introduction of shrubs after overgrazing in desert steppe further enhanced the decomposition of carbon compounds and reduced processes such as denitrification. During shrub introduction, total phosphorus, nitrate-nitrogen, and N-acetylglucosaminidase were key factors affecting carbon, nitrogen, and fungal functional groups. Variations in microbial diversity and functional groups, through their influence on extracellular enzymes activity and the availability of microbial biomass nutrients, ultimately explained 85%, 42%, and 34% the observed variations in soil carbon, nitrogen, and phosphorus content, respectively. This study aimed to investigate the long-term effects of anthropogenic shrub expansion on the structure and function of soil microbial communities in degraded desert steppes, provide a scientific basis for steppe restoration and management, and further understand their significance for ecosystem sustainability.

Cross-kingdom nutrient exchange in the plant-arbuscular mycorrhizal fungus-bacterium continuum

The association between plants and arbuscular mycorrhizal fungi (AMF) affects plant performance and ecosystem functioning. Recent studies have identified AMF-associated bacteria as cooperative partners that participate in AMF-plant symbiosis: specific endobacteria live inside AMF, and hyphospheric bacteria colonize the soil that surrounds the extraradical hyphae. In this Review, we describe the concept of a plant-AMF-bacterium continuum, summarize current advances and provide perspectives on soil microbiology. First, we review the top-down carbon flow and the bottom-up mineral flow (especially phosphorus and nitrogen) in this continuum, as well as how AMF-bacteria interactions influence the biogeochemical cycling of nutrients (for example, carbon, phosphorus and nitrogen). Second, we discuss how AMF interact with hyphospheric bacteria or endobacteria to regulate nutrient exchange between plants and AMF, and the possible molecular mechanisms that underpin this continuum. Finally, we explore future prospects for studies on the hyphosphere to facilitate the utilization of AMF and hyphospheric bacteria in sustainable agriculture.

Inoculation with arbuscular mycorrhizal fungi improves plant biomass and nitrogen and phosphorus nutrients: a meta-analysis

Arbuscular mycorrhizal fungi (AMF) have profound effects on plant growth and nitrogen (N) and phosphorus (P) nutrition. However, a comprehensive evaluation of how plant N and P respond to AMF inoculation is still unavailable. Here, we complied data from 187 original researches and carried out a meta-analysis to assess the effects of AMF inoculation on plant growth and N and P nutrition. We observe overall positive effects of AMF inoculation on plant performance. The mean increases of plant biomass, N concentration, P concentration, N and P uptake of whole plant are 47%, 16%, 27%, 67%, and 105%, respectively. AMF inoculation induces more increases in plant concentrations and storage of P than N. Plant responses to AMF inoculation are substantially higher with single AMF species than with mixed AMF species, in laboratory experiments than in field experiments, and in legumes than in non-legumes. The response ratios of plant N and P nutrition are positively correlated with AMF colonization rate, N addition, P addition, and water condition, while unvaried with experiment duration. The biggest and smallest effect sizes of AMF inoculation on plant performance are observed in the application of nitrate and ammonium, respectively. Accordingly, this meta-analysis study clearly suggests that AMF inoculation improves both plant N and P nutrients and systematically clarifies the variation patterns in AMF effects with various biotic and abiotic factors. These findings highlight the important role of AMF inoculation in enhancing plant N and P resource acquisitions and provide useful references for evaluating the AMF functions under the future global changes.

A novel luciferase-based reporter tool to monitor the dynamics of carbon catabolite repression in filamentous fungi

Filamentous fungi with their diverse inventory of carbohydrate-active enzymes promise a holistic usage of lignocellulosic residues. A major challenge for application is the inherent repression of enzyme production by carbon catabolite repression (CCR). In the presence of preferred carbon sources, the transcription factor CreA/CRE-1 binds to specific but conserved motifs in promoters of genes involved in sugar metabolism, but the status of CCR is notoriously difficult to quantify. To allow for a real-time evaluation of CreA/CRE-1-mediated CCR at the transcriptional level, we developed a luciferase-based construct, representing a dynamic, highly responsive reporter system that is inhibited by monosaccharides in a quantitative fashion. Using this tool, CreA/CRE-1-dependent CCR triggered by several monosaccharides could be measured in Neurospora crassa, Aspergillus niger and Aspergillus nidulans over the course of hours, demonstrating distinct and dynamic regulatory processes. Furthermore, we used the reporter to visualize the direct impacts of multiple CreA truncations on CCR induction. Our reporter thus offers a widely applicable quantitative approach to evaluate CreA/CRE-1-mediated CCR across diverse fungal species and will help to elucidate the multifaceted effects of CCR on fungal physiology for both basic research and industrial strain engineering endeavours.

Root symbiotic fungi improve nitrogen transfer and morpho-physiological performance in Chenopodium quinoa

Root-associated fungal endophytes may facilitate nitrogen (N) absorption in plants, leading to benefits in photosynthesis and growth. Here, we investigated whether endophytic insect pathogenic fungi (EIPF) are capable of transferring soil N to the crop species Chenopodium quinoa. We evaluated nutrient uptake, carbon allocation, and morpho-physiological performance in C. quinoa in symbiosis with two different EIPF (Beauveria and Metarhizium) under contrasting soil N supply. A controlled experiment was conducted using two plant groups: (1) plants subjected to low N level (5 mM urea) and (2) plants subjected to high N level (15 mM urea). Plants from each group were then inoculated with different EIPF strains, either Beauveria (EIPF1+), Metarhizium (EIPF2+) or without fungus (EIPF-). Differences in N and C content, amino acids, proteins, soluble sugars, starch, glutamine synthetase, glutamate dehydrogenase, and physiological (photosynthesis, stomatal conductance, transpiration), and morphological performance between plant groups under each treatment were examined. We found that both Beauveria and Metarhizium translocated N from the soil to the roots of C. quinoa, with positive effects on photosynthesis and plant growth. These effects, however, were differentially affected by fungal strain as well as by N level. Additionally, an improvement in root C and sugar content was observed in presence of EIPF, suggesting translocation of carbohydrates from leaves to roots. Whereas both strains were equally effective in N transfer to roots, Beauveria seemed to exert less demand in C. quinoa for photosynthesis-derived carbohydrates compared to Metarhizium. Our study revealed positive effects of EIPF on N transfer and morpho-physiological performance in crops, highlighting the potential of these fungi as an alternative to chemical fertilizers in agriculture systems.

Arbuscular mycorrhizal diversity increases across a plant productivity gradient driven by soil nitrogen availability

Arbuscular mycorrhizal fungi (AMF) are widespread obligate symbionts of plants. This dynamic symbiosis plays a large role in successful plant performance, given that AMF help to ameliorate plant responses to abiotic and biotic stressors. Although the importance of this symbiosis is clear, less is known about what may be driving this symbiosis, the plant's need for nutrients or the excess of plant photosynthate being transferred to the AMF, information critical to assess the functionality of this relationship. Characterizing the AMF community along a natural plant productivity gradient is a first step in understanding how this symbiosis may vary across the landscape. We surveyed the AMF community diversity at 12 sites along a plant productivity gradient driven by soil nitrogen availability. We found that AMF diversity in soil environmental DNA significantly increased along with the growth of the host plants Acer rubrum and A. saccharum., a widespread tree genus. These increases also coincided with a natural soil inorganic N availability gradient. We hypothesize photosynthate from the increased tree growth is being allocated to the belowground AMF community, leading to an increase in diversity. These findings contribute to understanding this complex symbiosis through the lens of AMF turnover and suggest that a more diverse AMF community is associated with increased host-plant performance.

Expanded trade: tripartite interactions in the mycorrhizosphere

Interactions between arbuscular mycorrhizal fungi (AMF), plants, and the soil microbial community have the potential to increase the availability and uptake of phosphorus (P) and nitrogen (N) in agricultural systems. Nutrient exchange between plant roots, AMF, and the adjacent soil microbes occurs at the interface between roots colonized by mycorrhizal fungi and soil, referred to as the mycorrhizosphere. Research on the P exchange focuses on plant-AMF or AMF-microbe interactions, lacking a holistic view of P exchange between the plants, AMF, and other microbes. Recently, N exchange at both interfaces revealed the synergistic role of AMF and bacterial community in N uptake by the host plant. Here, we highlight work carried out on each interface and build upon it by emphasizing research involving all members of the tripartite network. Both nutrient systems are challenging to study due to the complex chemical and biological nature of the mycorrhizosphere. We discuss some of the effective methods to identify important nutrient processes and the tripartite members involved in these processes. The extrapolation of in vitro studies into the field is often fraught with contradiction and noise. Therefore, we also suggest some approaches that can potentially bridge the gap between laboratory-generated data and their extrapolation to the field, improving the applicability and contextual relevance of data within the field of mycorrhizosphere interactions. Overall, we argue that the research community needs to adopt a holistic tripartite approach and that we have the means to increase the applicability and accuracy of in vitro data in the field.

What are the 100 most cited fungal genera?

The global diversity of fungi has been estimated between 2 to 11 million species, of which only about 155 000 have been named. Most fungi are invisible to the unaided eye, but they represent a major component of biodiversity on our planet, and play essential ecological roles, supporting life as we know it. Although approximately 20 000 fungal genera are presently recognised, the ecology of most remains undetermined. Despite all this diversity, the mycological community actively researches some fungal genera more commonly than others. This poses an interesting question: why have some fungal genera impacted mycology and related fields more than others? To address this issue, we conducted a bibliometric analysis to identify the top 100 most cited fungal genera. A thorough database search of the Web of Science, Google Scholar, and PubMed was performed to establish which genera are most cited. The most cited 10 genera are Saccharomyces, Candida, Aspergillus, Fusarium, Penicillium, Trichoderma, Botrytis, Pichia, Cryptococcus and Alternaria. Case studies are presented for the 100 most cited genera with general background, notes on their ecology and economic significance and important research advances. This paper provides a historic overview of scientific research of these genera and the prospect for further research. Citation: Bhunjun CS, Chen YJ, Phukhamsakda C, Boekhout T, Groenewald JZ, McKenzie EHC, Francisco EC, Frisvad JC, Groenewald M, Hurdeal VG, Luangsa-ard J, Perrone G, Visagie CM, Bai FY, Błaszkowski J, Braun U, de Souza FA, de Queiroz MB, Dutta AK, Gonkhom D, Goto BT, Guarnaccia V, Hagen F, Houbraken J, Lachance MA, Li JJ, Luo KY, Magurno F, Mongkolsamrit S, Robert V, Roy N, Tibpromma S, Wanasinghe DN, Wang DQ, Wei DP, Zhao CL, Aiphuk W, Ajayi-Oyetunde O, Arantes TD, Araujo JC, Begerow D, Bakhshi M, Barbosa RN, Behrens FH, Bensch K, Bezerra JDP, Bilański P, Bradley CA, Bubner B, Burgess TI, Buyck B, Čadež N, Cai L, Calaça FJS, Campbell LJ, Chaverri P, Chen YY, Chethana KWT, Coetzee B, Costa MM, Chen Q, Custódio FA, Dai YC, Damm U, de Azevedo Santiago ALCM, De Miccolis Angelini RM, Dijksterhuis J, Dissanayake AJ, Doilom M, Dong W, Alvarez-Duarte E, Fischer M, Gajanayake AJ, Gené J, Gomdola D, Gomes AAM, Hausner G, He MQ, Hou L, Iturrieta-González I, Jami F, Jankowiak R, Jayawardena RS, Kandemir H, Kiss L, Kobmoo N, Kowalski T, Landi L, Lin CG, Liu JK, Liu XB, Loizides M, Luangharn T, Maharachchikumbura SSN, Makhathini Mkhwanazi GJ, Manawasinghe IS, Marin-Felix Y, McTaggart AR, Moreau PA, Morozova OV, Mostert L, Osiewacz HD, Pem D, Phookamsak R, Pollastro S, Pordel A, Poyntner C, Phillips AJL, Phonemany M, Promputtha I, Rathnayaka AR, Rodrigues AM, Romanazzi G, Rothmann L, Salgado-Salazar C, Sandoval-Denis M, Saupe SJ, Scholler M, Scott P, Shivas RG, Silar P, Souza-Motta CM, Silva-Filho AGS, Spies CFJ, Stchigel AM, Sterflinger K, Summerbell RC, Svetasheva TY, Takamatsu S, Theelen B, Theodoro RC, Thines M, Thongklang N, Torres R, Turchetti B, van den Brule T, Wang XW, Wartchow F, Welti S, Wijesinghe SN, Wu F, Xu R, Yang ZL, Yilmaz N, Yurkov A, Zhao L, Zhao RL, Zhou N, Hyde KD, Crous PW (2024). What are the 100 most cited fungal genera? Studies in Mycology 108: 1-411. doi: 10.3114/sim.2024.108.01.

Mycorrhizal associations relate to stable convergence in plant-microbial competition for nitrogen absorption under high nitrogen conditions

Nitrogen (N) immobilization (Nim, including microbial N assimilation) and plant N uptake (PNU) are the two most important pathways of N retention in soils. The ratio of Nim to PNU (hereafter Nim:PNU ratio) generally reflects the degree of N limitation for plant growth in terrestrial ecosystems. However, the key factors driving the pattern of Nim:PNU ratio across global ecosystems remain unclear. Here, using a global data set of 1018 observations from 184 studies, we examined the relative importance of mycorrhizal associations, climate, plant, and soil properties on the Nim:PNU ratio across terrestrial ecosystems. Our results show that mycorrhizal fungi type (arbuscular mycorrhizal (AM) or ectomycorrhizal (EM) fungi) in combination with soil inorganic N mainly explain the global variation in the Nim:PNU ratio in terrestrial ecosystems. In AM fungi-associated ecosystems, the relationship between Nim and PNU displays a weaker negative correlation (r = -.06, p < .001), whereas there is a stronger positive correlation (r = .25, p < .001) in EM fungi-associated ecosystems. Our meta-analysis thus suggests that the AM-associated plants display a weak interaction with soil microorganisms for N absorption, while EM-associated plants cooperate with soil microorganisms. Furthermore, we find that the Nim:PNU ratio for both AM- and EM-associated ecosystems gradually converge around a stable value (13.8 ± 0.5 for AM- and 12.1 ± 1.2 for EM-associated ecosystems) under high soil inorganic N conditions. Our findings highlight the dependence of plant-microbial interaction for N absorption on both plant mycorrhizal association and soil inorganic N, with the stable convergence of the Nim:PNU ratio under high soil N conditions.

Common mycorrhizal network: the predominant socialist and capitalist responses of possible plant-plant and plant-microbe interactions for sustainable agriculture

Plants engage in a variety of interactions, including sharing nutrients through common mycorrhizal networks (CMNs), which are facilitated by arbuscular mycorrhizal fungi (AMF). These networks can promote the establishment, growth, and distribution of limited nutrients that are important for plant growth, which in turn benefits the entire network of plants. Interactions between plants and microbes in the rhizosphere are complex and can either be socialist or capitalist in nature, and the knowledge of these interactions is equally important for the progress of sustainable agricultural practice. In the socialist network, resources are distributed more evenly, providing benefits for all connected plants, such as symbiosis. For example, direct or indirect transfer of nutrients to plants, direct stimulation of growth through phytohormones, antagonism toward pathogenic microorganisms, and mitigation of stresses. For the capitalist network, AMF would be privately controlled for the profit of certain groups of plants, hence increasing competition between connected plants. Such plant interactions invading by microbes act as saprophytic and cause necrotrophy in the colonizing plants. In the first case, an excess of the nutritional resources may be donated to the receiver plants by direct transfer. In the second case, an unequal distribution of resources occurs, which certainly favor individual groups and increases competition between interactions. This largely depends on which of these responses is predominant ("socialist" or "capitalist") at the moment plants are connected. Therefore, some plant species might benefit from CMNs more than others, depending on the fungal species and plant species involved in the association. Nevertheless, benefits and disadvantages from the interactions between the connected plants are hard to distinguish in nature once most of the plants are colonized simultaneously by multiple fungal species, each with its own cost-benefits. Classifying plant-microbe interactions based on their habitat specificity, such as their presence on leaf surfaces (phyllospheric), within plant tissues (endophytic), on root surfaces (rhizospheric), or as surface-dwelling organisms (epiphytic), helps to highlight the dense and intricate connections between plants and microbes that occur both above and below ground. In these complex relationships, microbes often engage in mutualistic interactions where both parties derive mutual benefits, exemplifying the socialistic or capitalistic nature of these interactions. This review discusses the ubiquity, functioning, and management interventions of different types of plant-plant and plant-microbe interactions in CMNs, and how they promote plant growth and address environmental challenges for sustainable agriculture.

Arbuscular mycorrhizal fungi inhibit necrotrophic, but not biotrophic, aboveground plant pathogens: a meta-analysis and experimental study

Microbial mutualists can profoundly modify host species ecology and evolution, by extension altering interactions with other microbial species, including pathogens. Arbuscular mycorrhizal fungi (AMF) may moderate infections by pathogens, but the direction and strength of these effects can be idiosyncratic. To assess how the introduction of AMF impacts the incidence and severity of aboveground plant diseases (i.e. 'disease impact'), we conducted a meta-analysis of 130 comparisons derived from 69 published studies. To elucidate the potential mechanisms underlying the influence of AMF on pathogens, we conducted three glasshouse experiments involving six non-woody plant species, yielded crucial data on leaf nutrient composition, plant defense compounds, and transcriptomes. Our meta-analysis revealed that the inoculation of AMF lead to a reduction in disease impact. More precisely, AMF inoculation was associated with a decrease in necrotrophic diseases, while no significant impact on biotrophic diseases. Chemical and transcriptome analyses suggested that these effects may be driven by AMF regulation of jasmonic acid and salicylic acid signaling pathways in glasshouse experiments. However, changes in plant nutritional status and secondary chemicals may also regulate disease impact. These results emphasize the importance of incorporating pathogen life history when predicting how microbial mutualisms affect disease impact.

Filtration effect of Cordyceps chanhua mycoderm on bacteria and its transport function on nitrogen

IMPORTANCE

During the natural growth of Cordyceps chanhua, it will form a mycoderm structure specialized from hyphae. We found that the bacterial membrane of C. chanhua not only filters environmental bacteria but also absorbs and transports nitrogen elements inside and outside the body of C. chanhua. These findings are of great significance for understanding the stable mechanism of the internal microbial community maintained by C. chanhua and how C. chanhua maintains its own nutritional balance. In addition, this study also enriched our understanding of the differences in bacterial community composition and related bacterial community functions of C. chanhua at different growth stages, which is of great value for understanding the environmental adaptation mechanism, the element distribution network, and the changing process of symbiotic microbial system after Cordyceps fungi infected the host. At the same time, it can also provide a theoretical basis for some important ecological imitation cultivation technology of Cordyceps fungi.

Mycorrhizal C/N ratio determines plant-derived carbon and nitrogen allocation to symbiosis

Carbon allocation of trees to ectomycorrhizas is thought to shape forest nutrient cycling, but the sink activities of different fungal taxa for host resources are unknown. Here, we investigate fungal taxon-specific differences in naturally composed ectomycorrhizal (EM) communities for plant-derived carbon and nitrogen. After aboveground dual labeling of young beech with 15N and 13C, ectomycorrhizas formed with different fungal taxa exhibit strong differences in label enrichment. Secondary Ion Mass Spectrometry (SIMS) imaging of nitrogen in cross sections of ectomycorrhizas demonstrates plant-derived 15N in both root and fungal structures. Isotope enrichment in ectomycorrhizas correlates with that in the corresponding ectomycorrhiza-attached lateral root, supporting fungal taxon-specific N and C fluxes in ectomycorrhizas. The enrichments with 13C and 15N in the symbiosis decrease with increasing C/N ratio of ectomycorrhizas, converging to zero at high C/N. The relative abundances of EM fungal species on roots are positively correlated with 13C enrichment, demonstrating higher fitness of stronger than of less C-demanding symbioses. Overall, our results support that differences among the C/N ratios in ectomycorrhizas formed with different fungal species regulate the supply of the symbioses with host-derived carbon and provide insights on functional traits of ectomycorrhizas, which are important for major ecosystem processes.

Plant Variety, Mycorrhization, and Herbivory Influence Induced Volatile Emissions and Plant Growth Characteristics in Tomato

Plants produce a range of volatile organic compounds (VOCs) that mediate vital ecological interactions between herbivorous insects, their natural enemies, plants, and soil dwelling organisms including arbuscular mycorrhizal fungi (AMF). The composition, quantity, and quality of the emitted VOCs can vary and is influenced by numerous factors such as plant species, variety (cultivar), plant developmental stage, root colonization by soil microbes, as well as the insect developmental stage, and level of specialization of the attacking herbivore. Understanding factors shaping VOC emissions is important and can be leveraged to enhance plant health and pest resistance. In this greenhouse study, we evaluated the influence of plant variety, mycorrhizal colonization, herbivory, and their interactions on the composition of emitted volatiles in tomato plants (Solanum lycopersicum L.). Four tomato varieties from two breeding histories (two heirlooms and two hybrids), were used. Tomato plants were inoculated with a commercial inoculum blend consisting of four species of AMF. Plants were also subjected to herbivory by Manduca sexta (Lepidoptera: Sphingidae L.) five weeks after transplanting. Headspace volatiles were collected from inoculated and non-inoculated plants with and without herbivores using solid phase-microextraction. Volatile profiles consisted of 21 different volatiles in detectable quantities. These included monoterpenes, sesquiterpenes, and alkane hydrocarbons. We documented a strong plant variety effect on VOC emissions. AMF colonization and herbivory suppressed VOC emissions. Plant biomass was improved by colonization of AMF. Our results show that mycorrhization, herbivory and plant variety can alter tomato plant VOC emissions and further shape volatile-mediated insect and plant interactions.

Rhizoglomus variabile and Nanoglomus plukenetiae, Native to Peru, Promote Coffee Growth in Western Amazonia

Coffee (Coffea arabica) is among the world's most economically important crops. Coffee was shown to be highly dependent on arbuscular mycorrhizal fungi (AMF) in traditionally managed coffee plantations in the tropics. The objective of this study was to assess AMF species richness in coffee plantations of four provinces in Perú, to isolate AMF isolates native to these provinces, and to test the effects of selected indigenous AMF strains on coffee growth. AMF species were identified by morphological tools on the genus level, and if possible further to the species level. Two native species, Rhizoglomus variabile and Nanoglomus plukenetiae, recently described from the Peruvian mountain ranges, were successfully cultured in the greenhouse on host plants. In two independent experiments, both species were assessed for their ability to colonize coffee seedlings and improve coffee growth over 135 days. A total of 35 AMF morphospecies were identified from 12 plantations. The two inoculated species effectively colonized coffee roots, which resulted in 3.0-8.6 times higher shoot, root and total biomass, when compared to the non-mycorrhizal controls. R. variabile was superior to N. plukenetiae in all measured parameters, increasing shoot, root, and total biomass dry weight by 4.7, 8.6 and 5.5 times, respectively. The dual inoculation of both species, however, did not further improve plant growth, when compared to single-species inoculations. The colonization of coffee by either R. variabile or N. plukenetiae strongly enhances coffee plant growth. R. variabile, in particular, offers enormous potential for improving coffee establishment and productivity. Assessment of further AMF species, including species from other AMF families should be considered for optimization of coffee growth promotion, both alone and in combination with R. variabile.

Influence of arbuscular mycorrhizal fungi density on growth and metabolism of Handroanthus serratifolius (Vahl) S.O. Grose seedlings

Studies on the relationship between Handroanthus serratifolius and arbuscular mycorrhizal fungi (AMF) are limited in the literature. The influence of AMF spore density on plant development is fundamental information to determining the degree of benefits in this relationship. Therefore, the objective of this study was to investigate the effects of different AMF spore densities on thirty-day-old H. serratifolius seedlings, focusing on growth and biochemical parameters using a completely randomized experimental design with three different spore densities and control. The spore densities were classified as low, medium, and high, with 1.54, 3.08, and 12.35 spores g-1 , respectively. Plant growth analysis, mycorrhizal colonization, nitrogen compound concentration, and carbohydrate analysis were performed. The medium spore density treatment showed the greatest increases in biomass, height, leaf area, and root volume. Furthermore, greater absorption of phosphorus and better dynamics in nitrogen metabolism were observed in mycorrhizal plants compared to the control since the ammonium and nitrate compounds were rapidly incorporated into protein and chlorophyll compounds. The carbohydrate analysis revealed the influence of source-sink dynamics on sugar concentration in different plant parts. These findings support the importance of determining the appropriate spore density for assessing the symbiotic relationship between forest species and AMF.

Funneliformis mosseae influences leaf decomposition by altering microbial communities under saline-alkali conditions

Recent studies have indicated that arbuscular mycorrhizal fungi (AMF) can influence decomposition of organic materials. However, the underlying mechanisms remain unclear. Here we investigated whether AMF influence the decomposition of leaf litters and change the associated litter bacterial and fungal communities and whether this effect is altered by the level of soil saline-alkali. A pot experiment was conducted using Trifolium repens as host plant without or with AMF (Funneliformis mosseae) and with two levels of soil saline-alkali (0 and 200 mmol/L). Litterbags with different mesh size were used to measure the effect of AMF on decomposition. Our study found that AMF significantly accelerated leaf litter decomposition under both non-saline-alkali and saline-alkali conditions. The composition of bacterial and fungal communities was also altered by AMF independent of soil saline-alkali conditions. For bacterial community, AMF increased the richness but not the diversity and increased the relative abundance of Firmicutes and Nitrospirota. For fungal community, the richness and diversity were higher in AMF than in non-AMF treatment. AMF significantly resulted in a decrease of the relative abundance of Ascomycota but an increase of the relative abundance of Basidiomycota, Chytridiomycota, Mortierellomycota and Rozellomycota. Structural equation modeling (SEM) showed that AMF increased leaf litter decomposition under saline-alkali conditions primarily by affecting bacterial community composition. Together, we show that AMF increase decomposition and alter the bacterial and fungal communities, and that these effects are not modulated by the level of soil saline-alkali.

Arbuscular-Mycorrhizal Symbiosis in Medicago Regulated by the Transcription Factor MtbHLHm1;1 and the Ammonium Facilitator Protein MtAMF1;3

Root systems of most land plants are colonised by arbuscular mycorrhiza fungi. The symbiosis supports nutrient acquisition strategies predominantly associated with plant access to inorganic phosphate. The nutrient acquisition is enhanced through an extensive network of external fungal hyphae that extends out into the soil, together with the development of fungal structures forming specialised interfaces with root cortical cells. Orthologs of the bHLHm1;1 transcription factor, previously described in soybean nodules (GmbHLHm1) and linked to the ammonium facilitator protein GmAMF1;3, have been identified in Medicago (Medicago truncatula) roots colonised by AM fungi. Expression studies indicate that transcripts of both genes are also present in arbuscular containing root cortical cells and that the MtbHLHm1;1 shows affinity to the promoter of MtAMF1;3. Both genes are induced by AM colonisation. Loss of Mtbhlhm1;1 expression disrupts AM arbuscule abundance and the expression of the ammonium transporter MtAMF1;3. Disruption of Mtamf1;3 expression reduces both AM colonisation and arbuscule development. The respective activities of MtbHLHm1;1 and MtAMF1;3 highlight the conservation of putative ammonium regulators supporting both the rhizobial and AM fungal symbiosis in legumes.

The role of arbuscular mycorrhizal symbiosis in improving plant water status under drought

Arbuscular mycorrhizal fungi (AMF) have been presumed to ameliorate crop tolerance to drought. Here, we review the role of AMF in maintaining water supply to plants from drying soils and the underlying biophysical mechanisms. We used a soil-plant hydraulic model to illustrate the impact of several AMF mechanisms on plant responses to edaphic drought. The AMF enhance the soil's capability to transport water and extend the effective root length, thereby attenuating the drop in matric potential at the root surface during soil drying. The synthesized evidence and the corresponding simulations demonstrate that symbiosis with AMF postpones the stress onset limit, which is defined as the disproportionality between transpiration rates and leaf water potentials, during soil drying. The symbiosis can thus help crops survive extended intervals of limited water availability. We also provide our perspective on future research needs and call for reconciling the dynamic changes in soil and root hydraulics in order to better understand the role of AMF in plant water relations in the face of climate changes.

Individual and interactive effects of warming and nitrogen supply on CO2 fluxes and carbon allocation in subarctic grassland

Climate warming has been suggested to impact high latitude grasslands severely, potentially causing considerable carbon (C) losses from soil. Warming can also stimulate nitrogen (N) turnover, but it is largely unclear whether and how altered N availability impacts belowground C dynamics. Even less is known about the individual and interactive effects of warming and N availability on the fate of recently photosynthesized C in soil. On a 10-year geothermal warming gradient in Iceland, we studied the effects of soil warming and N addition on CO2 fluxes and the fate of recently photosynthesized C through CO2 flux measurements and a 13 CO2 pulse-labeling experiment. Under warming, ecosystem respiration exceeded maximum gross primary productivity, causing increased net CO2 emissions. N addition treatments revealed that, surprisingly, the plants in the warmed soil were N limited, which constrained primary productivity and decreased recently assimilated C in shoots and roots. In soil, microbes were increasingly C limited under warming and increased microbial uptake of recent C. Soil respiration was increased by warming and was fueled by increased belowground inputs and turnover of recently photosynthesized C. Our findings suggest that a decade of warming seemed to have induced a N limitation in plants and a C limitation by soil microbes. This caused a decrease in net ecosystem CO2 uptake and accelerated the respiratory release of photosynthesized C, which decreased the C sequestration potential of the grassland. Our study highlights the importance of belowground C allocation and C-N interactions in the C dynamics of subarctic ecosystems in a warmer world.

AM fungal-bacterial relationships: what can they tell us about ecosystem sustainability and soil functioning?

Considering our growing population and our continuous degradation of soil environments, understanding the fundamental ecology of soil biota and plant microbiomes will be imperative to sustaining soil systems. Arbuscular mycorrhizal (AM) fungi extend their hyphae beyond plant root zones, creating microhabitats with bacterial symbionts for nutrient acquisition through a tripartite symbiotic relationship along with plants. Nonetheless, it is unclear what drives these AM fungal-bacterial relationships and how AM fungal functional traits contribute to these relationships. By delving into the literature, we look at the drivers and complexity behind AM fungal-bacterial relationships, describe the shift needed in AM fungal research towards the inclusion of interdisciplinary tools, and discuss the utilization of bacterial datasets to provide contextual evidence behind these complex relationships, bringing insights and new hypotheses to AM fungal functional traits. From this synthesis, we gather that interdependent microbial relationships are at the foundation of understanding microbiome functionality and deciphering microbial functional traits. We suggest using pattern-based inference tools along with machine learning to elucidate AM fungal-bacterial relationship trends, along with the utilization of synthetic communities, functional gene analyses, and metabolomics to understand how AM fungal and bacterial communities facilitate communication for the survival of host plant communities. These suggestions could result in improving microbial inocula and products, as well as a better understanding of complex relationships in terrestrial ecosystems that contribute to plant-soil feedbacks.

Interplant carbon and nitrogen transfers mediated by common arbuscular mycorrhizal networks: beneficial pathways for system functionality

Arbuscular mycorrhizal fungi (AMF) are ubiquitous in soil and form nutritional symbioses with ~80% of vascular plant species, which significantly impact global carbon (C) and nitrogen (N) biogeochemical cycles. Roots of plant individuals are interconnected by AMF hyphae to form common AM networks (CAMNs), which provide pathways for the transfer of C and N from one plant to another, promoting plant coexistence and biodiversity. Despite that stable isotope methodologies (¹³C, ¹⁴C and ¹⁵N tracer techniques) have demonstrated CAMNs are an important pathway for the translocation of both C and N, the functioning of CAMNs in ecosystem C and N dynamics remains equivocal. This review systematically synthesizes both laboratory and field evidence in interplant C and N transfer through CAMNs generated through stable isotope methodologies and highlights perspectives on the system functionality of CAMNs with implications for plant coexistence, species diversity and community stability. One-way transfers from donor to recipient plants of 0.02-41% C and 0.04-80% N of recipient C and N have been observed, with the reverse fluxes generally less than 15% of donor C and N. Interplant C and N transfers have practical implications for plant performance, coexistence and biodiversity in both resource-limited and resource-unlimited habitats. Resource competition among coexisting individuals of the same or different species is undoubtedly modified by such C and N transfers. Studying interplant variability in these transfers with ¹³C and ¹⁵N tracer application and natural abundance measurements could address the eco physiological significance of such CAMNs in sustainable agricultural and natural ecosystems.

Herbivore-driven disruption of arbuscular mycorrhizal carbon-for-nutrient exchange is ameliorated by neighboring plants

Arbuscular mycorrhizal fungi colonize the roots of most plants, forming a near-ubiquitous symbiosis¹ that is typically characterized by the bi-directional exchange of fungal-acquired nutrients for plant-fixed carbon.² Mycorrhizal fungi can form below-ground networks^3,4,5,6 with potential to facilitate the movement of carbon, nutrients, and defense signals across plant communities.^7,8,9 The importance of neighbors in mediating carbon-for-nutrient exchange between mycorrhizal fungi and their plant hosts remains equivocal, particularly when other competing pressures for plant resources are present. We manipulated carbon source and sink strengths of neighboring pairs of host plants through exposure to aphids and tracked the movement of carbon and nutrients through mycorrhizal fungal networks with isotope tracers. When carbon sink strengths of both neighboring plants were increased by aphid herbivory, plant carbon supply to extraradical mycorrhizal fungal hyphae was reduced, but mycorrhizal phosphorus supply to both plants was maintained, albeit variably, across treatments. However, when the sink strength of only one plant in a pair was increased, carbon supply to mycorrhizal fungi was restored. Our results show that loss of carbon inputs into mycorrhizal fungal hyphae from one plant may be ameliorated through inputs of a neighbor, demonstrating the responsiveness and resilience of mycorrhizal plant communities to biological stressors. Furthermore, our results indicate that mycorrhizal nutrient exchange dynamics are better understood as community-wide interactions between multiple players rather than as strict exchanges between individual plants and their symbionts, suggesting that mycorrhizal C-for-nutrient exchange is likely based more on unequal terms of trade than the "fair trade" model for symbiosis.

Ecological stoichiometry and fungal community turnover reveal variation among mycorrhizal partners in their responses to warming and drought

Symbiotic fungi mediate important energy and nutrient transfers in terrestrial ecosystems. Environmental change can lead to shifts in communities of symbiotic fungi, but the consequences of these shifts for nutrient dynamics among symbiotic partners are poorly understood. Here, we assessed variation in carbon (C), nitrogen (N) and phosphorus (P) in tissues of arbuscular mycorrhizal (AM) fungi and a host plant (Medicago sativa) in response to experimental warming and drought. We linked compositional shifts in AM fungal communities in roots and soil to variation in hyphal chemistry by using high-throughput DNA sequencing and joint species distribution modelling. Compared to plants, AM hyphae was 43% lower in (C) and 24% lower in (N) but more than nine times higher in (P), with significantly lower C:N, C:P and N:P ratios. Warming and drought resulted in increases in (P) and reduced C:P and N:P ratios in all tissues, indicating fungal P accumulation was exacerbated by climate-associated stress. Warming and drought modified the composition of AM fungal communities, and many of the AM fungal genera that were linked to shifts in mycelial chemistry were also negatively impacted by climate variation. Our study offers a unified framework to link climate change, fungal community composition, and community-level functional traits. Thus, our study provides insight into how environmental change can alter ecosystem functions via the promotion or reduction of fungal taxa with different stoichiometric characteristics and responses.

Propionibacterium freudenreichii-Assisted Approach Reduces N2O Emission and Improves Denitrification via Promoting Substrate Uptake and Metabolism

N₂O emission is often encountered during biodenitrification. In this paper, a new approach of using microorganisms to promote substrate uptake and metabolism to reduce denitrification intermediate accumulation was reported. With the introduction of Propionibacterium freudenreichii to a biodenitrification system, N₂O and nitrite accumulation was, respectively, decreased by 74 and 60% and the denitrification efficiency was increased by 150% at the time of 24 h with P. freudenreichii/groundwater denitrifier of 1/5 (OD₆₀₀). Propionate, produced by P. freudenreichii, only accelerated nitrate removal and was not the main reason for the decreased intermediate accumulation. The proteomic and enzyme analyses revealed that P. freudenreichii stimulated biofilm formation by upregulating proteins involved in porin forming, putrescine biosynthesis, spermidine/putrescine transport, and quorum sensing and upregulated transport proteins, which facilitated the uptake of the carbon source, nitrate, and Fe and Mo (the required catalytic sites of denitrification enzymes). Further investigation revealed that P. freudenreichii activated the methylmalonyl-CoA pathway in the denitrifier and promoted it to synthesize heme/heme d1, the groups of denitrification enzymes and electron transfer proteins, which upregulated the expression of denitrifying enzyme proteins and enhanced the ratio of NosZ to NorB, resulting in the increase of generation, transfer, and consumption of electrons in biodenitrification. Therefore, a significant reduction in the denitrification intermediate accumulation and an improvement in the denitrification efficiency were observed.

The function of the plant cell wall in plant-microbe interactions

The plant cell wall is an interface of plant-microbe interactions. The ability of microbes to decompose cell wall polysaccharides contributes to microbial pathogenicity. Plants have evolved mechanisms to prevent cell wall degradation. However, the role of the cell wall in plant-microbe interactions is not well understood. Here, we discuss four functions of the plant cell wall-physical defence, storage of antimicrobial compounds, production of cell wall-derived elicitors, and provision of carbon sources-in the context of plant-microbe interactions. In addition, we discuss the four families of cell surface receptors associated with plant cell walls (malectin-like receptor kinase family, wall-associated kinase family, leucine-rich repeat receptor-like kinase family, and lysin motif receptor-like kinase family) that have been the subject of several important studies in recent years. This review summarises the findings on both plant cell wall and plant immunity, improving our understanding and may provide impetus to various researchers.

Transcriptome analysis reveals the regulatory mode by which NAA promotes the growth of Armillaria gallica

A symbiotic relationship is observed between Armillaria and the Chinese herbal medicine Gastrodia elata (G. elata). Armillaria is a nutrient source for the growth of G. elata, and its nutrient metabolism efficiency affects the growth and development of G. elata. Auxin has been reported to stimulate Armillaria species, but the molecular mechanism remains unknown. We found that naphthalene acetic acid (NAA) can also promote the growth of A. gallica. Moreover, we identified a total of 2071 differentially expressed genes (DEGs) by analyzing the transcriptome sequencing data of A. gallica at 5 and 10 hour of NAA treatment. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses showed that these unigenes were significantly enriched in the metabolism pathways of arginine, proline, propanoate, phenylalanine and tryptophan. The expression levels of the general amino acid permease (Gap), ammonium transporter (AMT), glutamate dehydrogenase (GDH), glutamine synthetase (GS), Zn(II) 2Cys6 and C2H2 transcription factor genes were upregulated. Our transcriptome analysis showed that the amino acid and nitrogen metabolism pathways in Armillaria were rapidly induced within hours after NAA treatment. These results provide valuable insights into the molecular mechanisms by which NAA promotes the growth of Armillaria species.

Years of sand fixation with Caragana korshinskii drive the enrichment of its rhizosphere functional microbes by accumulating soil N

C. korshinskii is one of the most widely-planted sand-fixing legumes in northwest China and exploring its rhizosphere microbiome is of great ecological importance. However, the effect of long-term sand fixation on the composition, diversity, and underlying functions of microbes in the C. korshinskii rhizosphere in dryland ecosystems remain unclear. Here, we performed high-throughput sequencing using a 16S rRNA (absolute quantification) and bacterial functional annotation of prokaryotic taxa (FAPROTAX) analysis and an ITS (relative quantification) and fungal functional guild (FUNGuild) analysis to investigate the C. korshinskii rhizosphere microbiome and metabolic functional groups at different sand-fixing ages (six years, CK6; twelve years, CK12; and eighteen years, CK18) and determined the physicochemical properties of the rhizosphere soil. Results showed that the key bacterial taxa of the rhizosphere were significantly more abundant in CK18 than in CK12 and CK6 at the phylum-class-genus level, and that fungal Glomeromycota was also significantly more abundant in the CK18 rhizosphere compared to CK12 and CK6. Among these bacterial taxa, the enrichment effect of key, functional, genus-level species of bacteria was the most obvious, including Rhizobium, Ensifer, Neorhizobium, Mesorhizobium, Streptomyces, Sphingomonas, and Flavobacterium, which are N-fixing and/or phosphate-solubilizing groups. The significant improvement seen in the physicochemical properties of the CK18 rhizosphere soil, including the higher total nitrogen (TN), available nitrogen (AN), pH, electrical conductivity (EC), higher N:P ratio, and lower C:N ratio, all demonstrated the relationship between the rhizosphere microbes and soil carbon (C) and nitrogen (N) cycling. A redundancy analysis (RDA) of different taxonomic levels indicated a close positive relationship between rhizosphere microbes and AN. In addition, the functional groups of the C. korshinskii rhizosphere bacteria were closely related to soil AN and were mainly composed of chemoheterotrophy and aerobic chemoheterotrophy. A Spearman correlation analysis revealed that these functional groups were mainly identified from bacterial Actinobacteria, Proteobacteria, Verrucomicrobia, Bacteroidetes, and fungal Glomeromycota. Our study provides evidence that the rhizosphere microbes of C. korshinskii are closely related to the accumulation of N in the restoration of desert ecosystems, and that the ecological functional processes they are involved in mainly involve C and N cycles, which play an important role in desertification reversal.

The fine-tuning of mycorrhizal pathway in sorghum depends on both nitrogen-phosphorus availability and the identity of the fungal partner

Sorghum is an important worldwide source of food, feed and fibres. Like most plants, it forms mutualistic symbioses with arbuscular mycorrhizal fungi (AMF), but the nutritional basis of mycorrhiza-responsiveness is largely unknown. Here, we investigated the transcriptional and physiological responses of sorghum to two different AMF species, Rhizophagus irregularis and Funneliformis mosseae, under 16 different conditions of nitrogen (N) and phosphorus (P) supply. Our experiment reveals fine-scale differences between two AMF species in the nutritional interactions with sorghum plants. Physiological and gene expression patterns (ammonium transporters: AMT; phosphate transporters: PHT) indicate the existence of generalist or specialist mycorrhizal pathway. While R. irregularis switched on the mycorrhizal pathway independently of the plant nutritional status, F. mosseae influenced the mycorrhizal pathway depending on the N-to-P plant ratio and soil supply. The differences between both AMF species suggest some AMT and PHT as ideal candidates to develop markers for improving efficiency of nutrient acquisition in sorghum under P and N limitation, and for the selection of plant genotypes.

Temporal complementarity between roots and mycorrhizal fungi drives wheat nitrogen use efficiency

Improving nitrogen (N) use efficiency (NUE) to reduce the application of N fertilisers in a way that benefits the environment and reduces farmers' costs is an ongoing objective for sustainable wheat production. However, whether and how arbuscular mycorrhizal fungi (AMF) affect NUE in wheat is still not well explored. Three independent but complementary experiments were conducted to decipher the contribution of roots and AMF to the N uptake and utilisation efficiency in wheat. We show a temporal complementarity pattern between roots and AMF in shaping NUE of wheat. Pre-anthesis N uptake efficiency mainly depends on root functional traits, but the efficiency to utilise the N taken up during pre-anthesis for producing grains (E_N,g ) is strongly affected by AMF, which might increase the uptake of phosphorus and thereby improve photosynthetic carbon assimilation. Root association with AMF reduced the N remobilisation efficiency in varieties with high E_N,g ; whilst the overall grain N concentration increased, due to a large improvement in post-anthesis N uptake supported by AMF and/or other microbes. The findings provide evidence for the importance of managing AMF in agroecosystems, and an opportunity to tackle the contradiction between maximising grain yield and protein concentration in wheat breeding.

The Perspective of Arbuscular Mycorrhizal Symbiosis in Rice Domestication and Breeding

In nature, symbiosis with arbuscular mycorrhizal (AM) fungi contributes to sustainable acquisition of phosphorus and other elements in over 80% of plant species; improving interactions with AM symbionts may mitigate some of the environmental problems associated with fertilizer application in grain crops such as rice. Recent developments of high-throughput genome sequencing projects of thousands of rice cultivars and the discovery of the molecular mechanisms underlying AM symbiosis suggest that interactions with AM fungi might have been an overlooked critical trait in rice domestication and breeding. In this review, we discuss genetic variation in the ability of rice to form AM symbioses and how this might have affected rice domestication. Finally, we discuss potential applications of AM symbiosis in rice breeding for more sustainable agriculture.

The mycorrhiza-specific ammonium transporter ZmAMT3;1 mediates mycorrhiza-dependent nitrogen uptake in maize roots

Most plant species can form symbioses with arbuscular mycorrhizal fungi (AMFs), which may enhance the host plant's acquisition of soil nutrients. In contrast to phosphorus nutrition, the molecular mechanism of mycorrhizal nitrogen (N) uptake remains largely unknown, and its physiological relevance is unclear. Here, we identified a gene encoding an AMF-inducible ammonium transporter, ZmAMT3;1, in maize (Zea mays) roots. ZmAMT3;1 was specifically expressed in arbuscule-containing cortical cells and the encoded protein was localized at the peri-arbuscular membrane. Functional analysis in yeast and Xenopus oocytes indicated that ZmAMT3;1 mediated high-affinity ammonium transport, with the substrate NH4+ being accessed, but likely translocating uncharged NH3. Phosphorylation of ZmAMT3;1 at the C-terminus suppressed transport activity. Using ZmAMT3;1-RNAi transgenic maize lines grown in compartmented pot experiments, we demonstrated that substantial quantities of N were transferred from AMF to plants, and 68%-74% of this capacity was conferred by ZmAMT3;1. Under field conditions, the ZmAMT3;1-dependent mycorrhizal N pathway contributed >30% of postsilking N uptake. Furthermore, AMFs downregulated ZmAMT1;1a and ZmAMT1;3 protein abundance and transport activities expressed in the root epidermis, suggesting a trade-off between mycorrhizal and direct root N-uptake pathways. Taken together, our results provide a comprehensive understanding of mycorrhiza-dependent N uptake in maize and present a promising approach to improve N-acquisition efficiency via plant-microbe interactions.

Harnessing microbial multitrophic interactions for rhizosphere microbiome engineering

The rhizosphere is a narrow and dynamic region of plant root-soil interfaces, and it's considered one of the most intricate and functionally active ecosystems on the Earth, which boosts plant health and alleviates the impact of biotic and abiotic stresses. Improving the key functions of the microbiome via engineering the rhizosphere microbiome is an emerging tool for improving plant growth, resilience, and soil-borne diseases. Recently, the advent of omics tools, gene-editing techniques, and sequencing technology has allowed us to unravel the entangled webs of plant-microbes interactions, enhancing plant fitness and tolerance to biotic and abiotic challenges. Plants secrete signaling compounds with low molecular weight into the rhizosphere, that engage various species to generate a massive deep complex array. The underlying principle governing the multitrophic interactions of the rhizosphere microbiome is yet unknown, however, some efforts have been made for disease management and agricultural sustainability. This review discussed the intra- and inter- microbe-microbe and microbe-animal interactions and their multifunctional roles in rhizosphere microbiome engineering for plant health and soil-borne disease management. Simultaneously, it investigates the significant impact of immunity utilizing PGPR and cover crop strategy in increasing rhizosphere microbiome functions for plant development and protection using omics techniques. The ecological engineering of rhizosphere plant interactions could be used as a potential alternative technology for plant growth improvement, sustainable disease control management, and increased production of economically significant crops.

Mechanisms of stress tolerance and their effects on the ecology and evolution of mycorrhizal fungi

Stress is ubiquitous and disrupts homeostasis, leading to damage, decreased fitness, and even death. Like other organisms, mycorrhizal fungi evolved mechanisms for stress tolerance that allow them to persist or even thrive under environmental stress. Such mechanisms can also protect their obligate plant partners, contributing to their health and survival under hostile conditions. Here we review the effects of stress and mechanisms of stress response in mycorrhizal fungi. We cover molecular and cellular aspects of stress and how stress impacts individual fitness, physiology, growth, reproduction, and interactions with plant partners, along with how some fungi evolved to tolerate hostile environmental conditions. We also address how stress and stress tolerance can lead to adaptation and have cascading effects on population- and community-level diversity. We argue that mycorrhizal fungal stress tolerance can strongly shape not only fungal and plant physiology, but also their ecology and evolution. We conclude by pointing out knowledge gaps and important future research directions required for both fully understanding stress tolerance in the mycorrhizal context and addressing ongoing environmental change.

The Critical Role of Arbuscular Mycorrhizal Fungi to Improve Drought Tolerance and Nitrogen Use Efficiency in Crops

Drought stress (DS) is a serious abiotic stress and a major concern across the globe as its intensity is continuously climbing. Therefore, it is direly needed to develop new management strategies to mitigate the adverse effects of DS to ensure better crop productivity and food security. The use of arbuscular mycorrhizal fungi (AMF) has emerged as an important approach in recent years to improve crop productivity under DS conditions. AMF establishes a relationship with 80% of land plants and it induces pronounced impacts on plant growth and provides protection to plants from abiotic stress. Drought stress significantly reduces plant growth and development by inducing oxidative stress, disturbing membrane integrity, plant water relations, nutrient uptake, photosynthetic activity, photosynthetic apparatus, and anti-oxidant activities. However, AMF can significantly improve the plant tolerance against DS. AMF maintains membrane integrity, improves plant water contents, nutrient and water uptake, and water use efficiency (WUE) therefore, improve the plant growth under DS. Moreover, AMF also protects the photosynthetic apparatus from drought-induced oxidative stress and improves photosynthetic efficiency, osmolytes, phenols and hormone accumulation, and reduces the accumulation of reactive oxygen species (ROS) by increasing anti-oxidant activities and gene expression which provide the tolerance to plants against DS. Therefore, it is imperative to understand the role of AMF in plants grown under DS. This review presented the different functions of AMF in different responses of plants under DS. We have provided a detailed picture of the different mechanisms mediated by AMF to induce drought tolerance in plants. Moreover, we also identified the potential research gaps that must be fulfilled for a promising future for AMF. Lastly, nitrogen (N) is an important nutrient needed for plant growth and development, however, the efficiency of applied N fertilizers is quite low. Therefore, we also present the information on how AMF improves N uptake and nitrogen use efficiency (NUE) in plants.

Physiological and transcriptomic response of Medicago truncatula to colonization by high- or low-benefit arbuscular mycorrhizal fungi

Arbuscular mycorrhizal (AM) fungi form a root endosymbiosis with many agronomically important crop species. They enhance the ability of their host to obtain nutrients from the soil and increase the tolerance to biotic and abiotic stressors. However, AM fungal species can differ in the benefits they provide to their host plants. Here, we examined the putative molecular mechanisms involved in the regulation of the physiological response of Medicago truncatula to colonization by Rhizophagus irregularis or Glomus aggregatum, which have previously been characterized as high- and low-benefit AM fungal species, respectively. Colonization with R. irregularis led to greater growth and nutrient uptake than colonization with G. aggregatum. These benefits were linked to an elevated expression in the roots of strigolactone biosynthesis genes (NSP1, NSP2, CCD7, and MAX1a), mycorrhiza-induced phosphate (PT8), ammonium (AMT2;3), and nitrate (NPF4.12) transporters and the putative ammonium transporter NIP1;5. R. irregularis also stimulated the expression of photosynthesis-related genes in the shoot and the upregulation of the sugar transporters SWEET1.2, SWEET3.3, and SWEET 12 and the lipid biosynthesis gene RAM2 in the roots. In contrast, G. aggregatum induced the expression of biotic stress defense response genes in the shoots, and several genes associated with abiotic stress in the roots. This suggests that either the host perceives colonization by G. aggregatum as pathogen attack or that G. aggregatum can prime host defense responses. Our findings highlight molecular mechanisms that host plants may use to regulate their association with high- and low-benefit arbuscular mycorrhizal symbionts.

Track and trace: how soil labelling techniques have revealed the secrets of resource transport in the arbuscular mycorrhizal symbiosis

Arbuscular mycorrhizal (AM) fungi colonise plant roots, and by doing so forge the 'mycorrhizal uptake pathway(s)' (MUP) that provide passageways for the trade of resources across a specialised membrane at the plant-fungus interface. The transport of nutrients such as phosphorus (P), nitrogen and zinc from the fungus, and carbon from the plant, via the MUP have mostly been quantified using stable or radioactive isotope labelling of soil in a specialised hyphae-only compartment. Recent advances in the study of AM fungi have used tracing studies to better understand how the AM association will function in a changing climate, the extent to which the MUP can contribute to P uptake by important crops, and how AM fungi trade resources in interaction with plants, other AM fungi, and friend and foe in the soil microbiome. The existing work together with well-designed future experiments will provide a valuable assessment of the potential for AM fungi to play a role in the sustainability of managed and natural systems in a changing climate.

Soil dissolved organic matters mediate bacterial taxa to enhance nitrification rates under wheat cultivation

Studies have shown that dissolved organic matters (DOMs) may affect soil nutrient availability to plants due to their effect on microbial communities; however, the relationships of soil DOM-bacterial community-N function in response to root exudates remains poorly understand. Here, we evaluated the DOM composition, bacterial taxonomic variation and nitrogen transformation rates in both acidic and alkaline soils, with or without the typical nitrate preference plant (wheat, Triticum aestivum L.). After 30 days' cultivation, DOM compositions such as sugars, amines, amino acids, organic acid, and ketone were significantly increased in soil with wheat vs. bare soil, and these compounds were mainly involved in nitrogen metabolism pathways. Soil core bacterial abundance was changed while bacterial community diversity decreased in response to wheat planting. Function prediction analysis based on FAPROTAX software showed that the bacterial community were significantly (p < 0.05) affiliated with nitrification and organic compound degradation. Additionally, db-RDA and VPA analysis suggested that the contribution of soil DOM to the variance of bacterial community was stronger than that of soil available nutrients. Furthermore, the N-transformation related bacteria like Burkholderiales and ammonia-oxidizing bacteria (AOB) were positively correlated with soil gross nitrification rate, confirming that the soil N transformation was enhanced in both acidic and alkaline soils. Our results provide insight into how soil DOM affects the community structure and function of bacteria to regulate the process of nitrogen transformation in plant-soil system.

The potential role of Mucoromycotina 'fine root endophytes' in plant nitrogen nutrition

Mycorrhizal associations between fungi and plant roots have globally significant impacts on nutrient cycling. Mucoromycotina 'fine root endophytes' (MFRE) are a distinct and recently characterised group of mycorrhiza-forming fungi that associate with the roots of a range of host plant species. Given their previous misidentification and assignment as arbuscular mycorrhizal fungi (AMF) of the Glomeromycotina, it is now important to untangle the specific form and function of MFRE symbioses. In particular, relatively little is known about the nature of MFRE colonisation and its role in N uptake and transfer to host plants. Even less is known about the mechanisms by which MFRE access and assimilate N, and how this N is processed and subsequently exchanged with host plants for photosynthates. Here, we summarise and contrast the structures formed by MFRE and arbuscular mycorrhizal fungi in host plants as well as compare the N source preference of each mycorrhizal fungal group with what is currently known for MFRE N uptake. We compare the mechanisms of N assimilation and transfer to host plants utilised by the main groups of mycorrhizal fungi and hypothesise potential mechanisms for MFRE N assimilation and transfer, outlining directions for future research.

Piriformospora indica and Azotobacter chroococcum Consortium Facilitates Higher Acquisition of N, P with Improved Carbon Allocation and Enhanced Plant Growth in Oryza sativa

The soil microbiome contributes to nutrient acquisition and plant adaptation to numerous biotic and abiotic stresses. Numerous studies have been conducted over the past decade showing that plants take up nutrients better when associated with fungi and additional beneficial bacteria that promote plant growth, but the mechanisms by which the plant host benefits from this tripartite association are not yet fully understood. In this article, we report on a synergistic interaction between rice (Oryza sativa), Piriformospora indica (an endophytic fungus colonizing the rice roots), and Azotobacter chroococcum strain W5, a free-living nitrogen-fixing bacterium. On the basis of mRNA expression analysis and enzymatic activity, we found that co-inoculation of plant roots with the fungus and the rhizobacterium leads to enhanced plant growth and improved nutrient uptake compared to inoculation with either of the two microbes individually. Proteome analysis of O. sativa further revealed that proteins involved in nitrogen and phosphorus metabolism are upregulated and improve nitrogen and phosphate uptake. Our results also show that A. chroococcum supports colonization of rice roots by P. indica, and consequentially, the plants are more resistant to biotic stress upon co-colonization. Our research provides detailed insights into the mechanisms by which microbial partners synergistically promote each other in the interaction while being associated with the host plant.

Effect of contrasting phosphorus levels on nitrous oxide and carbon dioxide emissions from temperate grassland soils

Agricultural practices such as repeated fertilization impact carbon (C), nitrogen (N) and phosphorus (P) cycling and their relationships in the plant–soil continuum, which could have important implications for the magnitude of greenhouse gas emissions. However, little is known about the effect of C and N additions under contrasting soil P availability status on nitrous oxide (N₂O) and carbon dioxide (CO₂) emissions. In this study, we conducted a field-based experiment that investigated the impact of long-term (23 years) P management (no (P0, 0 kg P ha⁻¹), low (P15, 15 kg P ha⁻¹) and high (P45, 45 kg P ha⁻¹) P inputs) on N₂O and CO₂ emissions following two C + N application events in two managed grassland ecosystems with loam and sandy loam soils. The magnitude of fluxes varied between the soil P availability levels. Cumulative N₂O emission was significantly higher in P0 soils (1.08 ± 0.09 g N₂O-N m⁻²) than P45 soils (0.63 ± 0.03 g N₂O-N m⁻²), with the loam soil (1.04 ± 0.04 g N₂O-N m⁻²) producing significantly higher emissions than the sandy loam soil (0.88 ± 0.05 g N₂O-N m⁻²). We conclude that P-limitation stimulates N₂O emissions, whereas P-enrichment promotes soil respiration in these temperate grassland sites. Our findings inform effective nutrient management strategies underpinning optimized use of N and P inputs to agricultural soils as mitigation measures for both food security and reducing greenhouse gas emissions.

Disturbance to biocrusts decreased cyanobacteria, N-fixer abundance, and grass leaf N but increased fungal abundance

Interactions between plants and soil microbes influence plant nutrient transformations, including nitrogen (N) fixation, nutrient mineralization, and resource exchanges through fungal networks. Physical disturbances to soils can disrupt soil microbes and associated processes that support plant and microbial productivity. In low resource drylands, biological soil crusts ("biocrusts") occupy surface soils and house key autotrophic and diazotrophic bacteria, non-vascular plants, or lichens. Interactions among biocrusts, plants, and fungal networks between them are hypothesized to drive carbon and nutrient dynamics; however, comparisons across ecosystems are needed to generalize how soil disturbances alter microbial communities and their contributions to N pools and transformations. To evaluate linkages among plants, fungi, and biocrusts, we disturbed all unvegetated surfaces with human foot trampling twice yearly in dry conditions from 2013-2019 in cyanobacteria-dominated biocrusts in Chihuahuan Desert grassland and shrubland ecosystems. After five years, disturbance decreased the abundances of cyanobacteria (especially Microcoleus steenstrupii clade) and N-fixers (Scytonema sp., and Schizothrix sp.) by >77% and chlorophyll a by up to 55%, but conversely, increased soil fungal abundance by 50% compared to controls. Responses of root-associated fungi differed between the two dominant plant species and ecosystem types, with a maximum of 80% more aseptate hyphae in disturbed than control plots. Although disturbance did not affect ¹⁵ N tracer transfer from biocrusts to the dominant grass, Bouteloua eriopoda, disturbance increased available soil N by 65% in the shrubland, and decreased leaf N of B. eriopoda up to 16%, suggesting that although rapid N transfer during peak production was not affected by disturbance, over the long term, plant nutrient content was disrupted. Altogether, the shrubland may be more resilient to detrimental changes due to disturbance than grassland, and these results demonstrate that disturbances to soil microbial communities have potential to cause substantial changes in N pools by reducing and reordering biocrust taxa.

Matching of Nitrogen Enhancement and Photosynthetic Efficiency by Arbuscular Mycorrhiza in Maize (Zea mays L.) in Relation to Organic Fertilizer Type

In the present study, Funneliformis mosseae (FM), Claroideoglomus etunicatum (CE), and Acaulospora foveata (AF) were inoculated to hybrid maize (Zea mays L. cv. CP888®). Upregulation of nitrogen levels were dependent on the type of mycorrhiza (AMF). Photosynthetic efficiency (Fv/Fm) and water content in FM- and AF-inoculated plants were elevated, resulting in promotion of leaf area and shoot biomass. N content in the shoot and root tissues of the FM-inoculated plants increased by 21% and 30% over the control. A positive correlation between biochemical, physiological, and morphological parameters using Pearson’s coefficient was demonstrated. A decline in lipid peroxidation was noticed in the FM-inoculated plants. In addition, we investigated the potential of N fertilizer application in combination with FM inoculation in maize plants. The FM-inoculated plants with organic O_LT, a chicken manure fertilizer, increased N content in the host shoots by 73% over the control, leading to improved Fv/Fm as a physiological adaptation strategy. The FM and the O_LT on the regulation of the N enhancement and photosynthetic efficiency of the hybrid maize should further be validated in field trials in different environments for sustainability.

A meta-analysis of the effects of climate change on the mutualism between plants and arbuscular mycorrhizal fungi

Climate change and other anthropogenic activities have the potential to alter the dynamics of resource exchange in the mutualistic symbiosis between plants and mycorrhizal fungi, potentially altering its stability. Arbuscular mycorrhizal (AM) fungi, which interact with most plant species, are less cold-tolerant than other groups of fungi; warming might therefore lead to increased fungal-mediated nutrient transfers to plants, which could strengthen the mutualism. By stimulating photosynthesis, rising CO2 could reduce the carbon cost of supporting AM fungi, which may also strengthen the mutualism. Furthermore, rising temperature and CO2 could have stronger effects on the mutualism in wild plants than in domesticated plants because the process of domestication can reduce the dependence of plants on mycorrhizal fungi. We conducted a multi-level random effects meta-analysis of experiments that quantified the strength of the mutualism as plant growth response to AM fungal inoculation (i.e., mycorrhizal growth response) under contrasting temperature and CO2 treatments that spanned the Last Glacial Maximum (LGM) to those expected with future climate change. We tested predictions using a three-level mixed effects meta-regression model with temperature or CO2, domestication status and their interaction as moderators. Increases from subambient to ambient temperature stimulated mycorrhizal growth response only for wild, but not for domesticated plant species. An increase from ambient to superambient temperature stimulated mycorrhizal growth response in both wild and domesticated plants, but the overall temperature effect was not statistically significant. By contrast, increased CO2 concentration, either from subambient to ambient or ambient to super ambient levels, did not affect mycorrhizal growth response in wild or domesticated plants. These results suggest the mutualism between wild plants and AM fungi was likely strengthened as temperature rose from the past to the present and that forecasted warming due to climate change may have modest positive effects on the mutualistic responses of plants to AM fungi. Mutualistic benefits obtained by plants from AM fungi may not have been altered by atmospheric CO2 increases from the past to the present, nor are they likely to be affected by a forecasted CO2 increase. This meta-analysis also identified gaps in the literature. In particular, (i) a large majority of studies that examined temperature effects on the mutualism focus on domesticated species (>80% of all trials) and (ii) very few studies examine how rising temperature and CO2, or other anthropogenic effects, interact to influence the mutualism. Therefore, to predict the stability of the mycorrhizal mutualism in the Anthropocene, future work should prioritize wild plant species as study subjects and focus on identifying how climate change factors and other human activities interact to affect plant responses to AM fungi.

Arbuscular Mycorrhizal Fungi and Nutrition Determine the Outcome of Competition Between Lolium multiflorum and Trifolium subterraneum

Arbuscular mycorrhizal fungi (AMF) may affect competitive plant interactions, which are considered a prevalent force in shaping plant communities. Aiming at understanding the role of AMF in the competition between two pasture species and its dependence on soil nutritional status, a pot experiment with mycorrhizal and non-mycorrhizal Lolium multiflorum and Trifolium subterraneum was conducted, with manipulation of species composition (five levels), and nitrogen (N)- and phosphorus (P)- fertilization (three levels). In the non-mycorrhizal state, interspecific competition did not play a major role. However, in the presence of AMF, Lolium was the strongest competitor, with this species being facilitated by Trifolium. While N-fertilization did not change the competitive balance, P-fertilization gave Lolium, a competitive advantage over Trifolium. The effect of AMF on the competitive outcome may be driven by differential C-P trade benefits, with Lolium modulating carbon investment in the mycorrhizal network and the arbuscule/vesicle ratio at the cost of Trifolium.