Mycorrhizal Research Articles

Ecology and diversity of arbuscular mycorrhizal fungi (AMF) in rice (Oryza sativa L.) in South India: an ecological analysis of factors influencing AMF in rice fields.

This study examined the diversity of arbuscular mycorrhizal fungi (AMF), mean spore density (MSD), and root colonization in relation to factors such as agroclimatic zones, rice varieties and soil types in paddy fields of South India. The aim was to understand how these factors influence AMF association in rice, facilitating their effective use as a biological tool in paddy cultivation. AMF were identified through light microscopy of spores, while MSD and percentage-root-length colonization (PRLC) were measured using standard methods. Correlation and principal component analyses were performed to explore the interrelationships between AMF characteristics and various environmental, soil, and plant variables. Sixteen AMF species were identified across 29 rice varieties from three agroclimatic zones, 6 soil orders, and 18 soil series over 2 seasons. Notably, 70% of chemicalized rice fields lacked AMF spores, and only 50% exhibited root colonization. This study offers new insights into the role of AMF in rice cultivation. The AMF diversity and root colonization in relation to environmental variables underscore their significant impact on AMF in particular crop fields.

Mycorrhizal fungi as critical biotic filters for tree seedling establishment during species range expansions

AbstractGlobal warming has been shifting climatic envelopes of many tree species to higher latitudes and elevations across the globe; however, unsuitable soil biota may inhibit tree migrations into these areas of suitable climate. Specifically, the role of mycorrhizal fungi in facilitating tree seedling establishment beyond natural species range limits has not been fully explored within forest ecosystems. We used three experiments to isolate and quantify the effects of mycorrhizal colonization and common mycorrhizal networks (CMN) on tree seedling survival and growth across (within and beyond) the elevational ranges of two dominant tree species in northeastern North America, which were associated with either arbuscular mycorrhiza (AMF, Acer saccharum) or ectomycorrhiza (EMF, Fagus grandifolia). In order to quantify the influence of mycorrhiza on seedling establishment independent of soil chemistry and climate, we grew seedlings in soils from within and beyond our study species ranges in a greenhouse experiment (GE) as well as in the field using a soil translocation experiment (STE) and another field experiment manipulating seedling connections to potential CMNs (CMNE). Root length colonized, seedling survival and growth, foliar nutrients, and the presence of potential root pathogens were examined as metrics influencing plant performance across species' ranges. Mycorrhizal inoculum from within species ranges, but not from outside, increased seedling survival and growth in a greenhouse setting; however, only seedling survival, and not growth, was significantly improved in field studies. Sustained potential connectivity to AMF networks increased seedling survival across the entire elevational range of A. saccharum. Although seedlings disconnected from a potential CMN did not suffer decreased foliar nutrient levels compared with connected seedlings, disconnected AM seedlings, but not EM seedlings, had significantly higher aluminum concentrations and more potential pathogens present. Our results indicate that mycorrhizal fungi may facilitate tree seedling establishment beyond species range boundaries in this forested ecosystem and that the magnitude of this effect is modulated by the dominant mycorrhizal type present (i.e., AM vs. EM). Thus, despite changing climate conditions beyond species ranges, a lack of suitable mutualists can still limit successful seedling establishment and stall adaptive climate‐induced shifts in tree species distributions.

A mycoheterotrophic orchid uses very limited soil inorganic nitrogen in its natural habitat

Mycoheterotrophic plants acquire nitrogen (N) directly from the soil and through their symbiotic fungi. The fungi-derived N has received considerable attention, but the contribution of soil-derived N has been largely overlooked. We investigated how the leafless, rootless, and almost mycoheterotrophic orchid Cymbidium macrorhizon obtains soil N by applying 15N-labeled ammonium nitrate in its natural habitat, and tracking metabolite accumulation and mycorrhizal fungal association after N application. The decline of N in the rhizome from flowering to fruiting indicated a transfer of N from the rhizome to fruits. At current dose of N application (0.6 g NH4NO3 each plant), only 1.5% of the plant's N was derived from fertilizer, resulting in a low nitrogen use efficiency of 0.27%. The majority of those newly absorbed N (88.89%) was found sank in the rhizome. Amino acids (or their derivatives) and alkaloids were predominant differentially accumulated nitrogenous metabolites after N application, with amino acids occurring in both fruits and the rhizome, and alkaloids primarily in the fruits. The addition of N did not alter the richness of mycorrhizal fungi, but did affect their relative abundance. Our findings suggest that Cymbidium macrorhizon uses very limited soil inorganic nitrogen in its natural habitat, and the root-like rhizome primarily stores N rather than absorbs its inorganic forms, offering new insights into how mycoheterotrophic plants utilize soil N, and the influence of nutrient availability on the orchid-fungi association.

Interactions between arbuscular mycorrhizal fungi and phosphate-soluble bacteria affect ginsenoside compositions by modulating the C:N:P stoichiometry in Panax ginseng.

The biomass production as well as the accumulation of secondary metabolites of plant is highly determined by the absorption of nutritional elements, in particular nitrogen (N) and phosphorus (P). Arbuscular mycorrhizal fungi (AMF) can absorb soluble P and transport it to plants, while phosphate solubilizing bacteria (PSB) can increase the content of solubilizing P in soil. Previous studies have identified the effects of either AMF or PSB inoculation on altering plant C:N:P stoichiometry, whether AMF interact with PSB in promoting plant growth and changing elemental concentration and composition of secondary metabolites by altering plant C:N:P stoichiometry remains ambiguous. In this study, we investigated the effects of inoculation of AMF, PSB, and their co-inoculation AMP (AMF and PSB) on the biomass growth, the C:N:P stoichiometry, the core microorganisms of rhizosphere soil, and the ginsenoside compositions of ginseng (Panax ginseng). The results showed that compared to control or single inoculation of AMF or PSB, co-inoculation of AMF and PSB significantly increased the AMF colonization rate on ginseng roots, increased the biomass of both above and under-ground parts of ginseng. Similarly, co-inoculation of AMF and PSB substantially increased the concentrations of N and P, reduced the ratios of C:P and N:P in the above-ground part of ginseng. The co-inoculation of AMF and PSB also increased concentrations of total ginsenosides and altered the compositions of ginsenosides in both the above and under-ground parts of ginseng. Analysis the rhizosphere microorganism showed that the co-inoculation of AMF and PSB recruited distinct core microorganisms that differ from the control and treatments with single inoculation of AMF or PSB. Our results suggested that PSB inoculation enhanced the positive effect of AMF in improving the absorption of nutrimental elements, altered the C:N:P stoichiometry and, ginsenosides concentration and composition of ginseng, influenced the plant rhizosphere microbial community. These findings offer valuable insights into enhancing plant biomass production and promoting secondary metabolites by improving the plant-fungi-bacterial relationships.

Potential Regulatory Effects of Arbuscular Mycorrhizal Fungi on Lipid Metabolism of Maize in Response to Low-Temperature Stress.

The specific mechanisms underlying membrane lipid remodeling and changes in gene expression induced by arbuscular mycorrhizal fungi (AMF) in low-temperature-stressed plants are still unclear. In this study, physiological, transcriptomic, and lipidomic analyses were used to elucidate the physiological mechanisms by which AMF can enhance the adaptation of maize plants to low-temperature stress. The results showed that the relative electrical conductivity and malondialdehyde content of maize leaves were decreased after the inoculation with AMF, indicating that AMF reduced the peroxidation of membrane lipids and maintained the fluidity of the cell membrane. Transcriptomic analysis showed the presence of 702 differentially expressed genes induced by AMF in maize plants exposed to low-temperature stress. Furthermore, lipidomic analysis revealed changes in 10 lipid classes in AMF-inoculated maize plants compared with their noninoculated counterparts under low-temperature stress conditions. Lipid remodeling is an important strategy that arbuscular mycorrhizal plants adopt to cope with low-temperature stress.

Role played by arbuscular mycorrhizal fungi in amelioration of salinity stress: a review

Role played by arbuscular mycorrhizal fungi in amelioration of salinity stress: a review

The biology and chemistry of a mutualism between a soil bacterium and a mycorrhizal fungus.

Arbuscular mycorrhizal (AM) fungi (e.g., Rhizophagus species) recruit specific bacterial species in their hyphosphere. However, the chemical interplay and the mutual benefit of this intricate partnership have not been investigated yet, especially as it involves bacteria known as strong producers of antifungal compounds such as Bacillus velezensis. Here, we show that the soil-dwelling B.velezensis migrates along the hyphal network of the AM fungus R.irregularis, forming biofilms and inducing cytoplasmic flow in the AM fungus that contributes to host plant root colonization by the bacterium. During hyphosphere colonization, R.irregularis modulates the biosynthesis of specialized metabolites in B.velezensis to ensure stable coexistence and as a mechanism to ward off mycoparasitic fungi and bacteria. These mutual benefits are extended into a tripartite context via the provision of enhanced protection to the host plant through the induction of systemic resistance.

Variations in the structure and function of the soil fungal communities in the traditional cropping systems from Madeira Island.

Agricultural soils are responsible for ecological functions and services that include primary production of food, fiber and fuel, nutrient cycling, carbon cycling and storage, water infiltration and purification, among others. Fungi are important drivers of most of those ecosystem services. Given the importance of fungi in agricultural soils, in this study, we aimed to characterize and analyse the changes of the soil fungal communities of three cropping systems from Madeira Island, where family farming is predominant, and investigate the response of fungi and its functional groups to soil physicochemical properties. To achieve that, we sequenced amplicons targeting the internal transcribed spacer 1 (ITS1) of the rRNA region, to analyse soil samples from 18 agrosystems: 6 vineyards (V), 6 banana plantations (B) and 6 vegetable plantations (H). Our results showed that alpha diversity indices of fungal communities are similar in the three cropping systems, but fungal composition and functional aspects varied among them, with more pronounced differences in B. Ascomycota, Basidiomycota, and Mortierellomycota were the main phyla found in the three cropping systems. Agaricomycetes and Sordariomycetes are the predominant classes in B, representing 23.8 and 22.4%, respectively, while Sordariomycetes (27.9%) followed by Eurotiomycetes (12.3%) were the predominant classes in V and Sordariomycetes (39.2%) followed by Tremellomycetes (8.9%) in the H. Saprotrophs are the fungal group showing higher relative abundance in the three cropping systems, followed by plant pathogens. Regarding symbionts, endophytes were highly observed in B, while mycorrhizal fungi was predominant in V and H. The structure of fungal communities was mainly correlated with soil content of P, K, N, Fe, and Cu. In addition, we identified bioindicators for each cropping system, which means that cultivated crops are also drivers of functional groups and the composition of communities. Overall, the three cropping systems favored diversity and growth of taxa that play important roles in soil, which highlights the importance of conservative management practices to maintain a healthy and resilient agrosystem.

Simulated fire and plant-soil feedback effects on mycorrhizal fungi and invasive plants

Simulated fire and plant-soil feedback effects on mycorrhizal fungi and invasive plants

Tripartite interactions between grapevine, viruses, and arbuscular mycorrhizal fungi provide insights into modulation of oxidative stress responses

Arbuscular mycorrhizal fungi (AMF) can be beneficial for plants exposed to abiotic and biotic stressors. Although widely present in agroecosystems, AMF influence on crop responses to virus infection is underexplored, particularly in woody plant species such as grapevine. Here, a two-year greenhouse experiment was set up to test the hypothesis that AMF alleviate virus-induced oxidative stress in grapevine. The ‘Merlot’ cultivar was infected with three grapevine-associated viruses and subsequently colonized with two AMF inocula, containing one or three species, respectively. Five and fifteen months after AMF inoculation, lipid peroxidation - LPO as an indicator of oxidative stress and indicators of antioxidative response (proline, ascorbate - AsA, superoxide dismutase - SOD, ascorbate- APX and guaiacol peroxidases - GPOD, polyphenol oxidase - PPO, glutathione reductase - GR) were analysed. Expression of genes coding for a stilbene synthase (STS1), an enhanced disease susceptibility (EDS1) and a lipoxygenase (LOX) were determined in the second harvesting. AMF induced reduction of AsA and SOD over both years, which, combined with not AMF-triggered APX and GR, suggests decreased activation of the ascorbate-glutathione cycle. In the mature phase of the AM symbiosis establishment GPOD emerged as an important mechanism for scavenging H2O2 accumulation. These results, together with reduction in STS1 and increase in EDS1 gene expression, suggest more efficient reactive oxygen species scavenging in plants inoculated with AMF. Composition of AMF inocula was important for proline accumulation. Overall, our study improves the knowledge on ubiquitous grapevine-virus-AMF systems in the field, highlighting that established functional AM symbiosis could reduce virus-induced stress.

Enhancement of PFAS stress tolerance and wastewater treatment efficiency by arbuscular mycorrhizal fungi in constructed wetlands

This study aims to explore the effects of arbuscular mycorrhizal fungi (AMF) on the growth of Iris pseudacorus L. and treatment efficacy in constructed wetlands (CWs) subjected to stress from per-and poly-fluoroalkyl substances (PFASs). The findings reveal that PFASs exposure induces oxidative damage and inhibits the growth of I. pseudacorus. However, AMF symbiosis enhances plant tolerance to PFAS stress by modulating oxidative responses. AMF treatment not only promoted plant growth but also improved photosynthetic efficiency under PFAS exposure. Compared to non-AMF treatment, those with AMF treatment exhibited significantly increased levels of peroxidases and antioxidant enzymes, including peroxidase and superoxide dismutase, along with a notable reduction in lipid peroxidation. Additionally, AM symbiosis markedly enhanced the efficacy of CWs in the remediation of wastewater under PFASs-induced stress, with removal efficiencies for COD, TP, TN, and NH4+-N increasing by 19–34%, 67–180%, 106–137%, and 25–95%, respectively, compared to the AMF- treatments. In addition, the metabolic pathways of PFASs appeared to be influenced by their carbon chain length, with long-chain PFASs like perfluorooctanoic acid (PFOA) and perfluoro anionic acid (PFNA) exhibiting more complex pathways compared to short-chain PFASs such as perfluoro acetic acid (PFPeA), and perfluoro hexanoic acid (PFHpA). These results suggest that AMF-plant symbiosis can enhance plant resilience against PFAS-induced stress and improve the pollutant removal efficiency of CWs. This study highlights the significant potential of AMF in enhancing environmental remediation strategies, providing new insights for the more effective management of PFAS-contaminated ecosystems.

What determines transfer of carbon from plants to mycorrhizal fungi?

Biological Market Models are common evolutionary frameworks to understand the maintenance of mutualism in mycorrhizas. 'Surplus C' hypotheses provide an alternative framework where stoichiometry and source-sink dynamics govern mycorrhizal function. A critical difference between these frameworks is whether carbon transfer from plants is regulated by nutrient transfer from fungi or through source-sink dynamics. In this review, we: provide a historical perspective; summarize studies that asked whether plants transfer more carbon to fungi that transfer more nutrients; conduct a meta-analysis to assess whether mycorrhizal plant growth suppressions are related to carbon transfer; and review literature on cellular mechanisms for carbon transfer. In sum, current knowledge does not indicate that carbon transfer from plants is directly regulated by nutrient delivery from fungi. Further, mycorrhizal plant growth responses were linked to nutrient uptake rather than carbon transfer. These findings are more consistent with 'Surplus C' hypotheses than Biological Market Models. However, we also identify research gaps, and future research may uncover a mechanism directly linking carbon and nutrient transfer. Until then, we urge caution when applying economic terminology to describe mycorrhizas. We present a synthesis of ideas, consider knowledge gaps, and suggest experiments to advance the field.

Optimizing mycorrhizal fungi application for improved nutrient uptake, growth, and disease resistance in cardamom seedlings (Elettaria cardamomum (L.) Maton)

This study evaluated the impact of various doses (5, 10, 15 g) and application sequences (1, 2, or 3 times at monthly intervals) of arbuscular mycorrhizal (AM) fungal inoculum on cardamom seedlings over two years (2020–2021 and 2021–2022). The results indicated that the dosage of AM inoculum had a more substantial effect on the seedlings than the application sequence. A 10 g dose significantly increased shoot length and dry weight, while three applications of 5 g each improved the number of fibrous roots. Although potassium uptake was not affected, phosphorus and calcium uptake were highest with the 10 g dose. Arbuscular mycorrhizal inoculation also enhanced phosphatase activity in the rhizosphere, with 5 g improving acid phosphatase and 10 g improving alkaline phosphatase activity. Disease incidence, including seedling rot was lower with the 10 g dose, and additional sequential applications did not further reduce disease. Structural equation modeling (SEM) revealed that AM colonization positively influenced dry weight through the number of fibrous roots, showing a strong relationship between AM dose, colonization, spore count, and mycorrhizal dependency. This study indicates that applying a 10 g dose of AM fungal inoculum can be particularly beneficial in agroecosystems for improving cardamom seedling growth, nutrient uptake, and disease resistance.

Assessing the potential role of arbuscular mycorrhizal fungi in improving the phytochemical content and antioxidant properties in Gomphrena globosa

Strategies to increase the secondary metabolite production, obtained from medicinal plants has been the topic of research in recent years. The symbiotic interaction between arbuscular mycorrhizal fungi and plants allows host-fungus pairings to enhance secondary metabolite synthesis. Therefore, the current study investigated the effect of inoculating two distinct AMF species discretely as well as in conjunction on the flower-derived secondary metabolites in Gomphrena globosa. The findings showed that the plants inoculated with combined treatment exhibited higher total phenolic (50.11 mg GAE/g DW), flavonoids (29.67 mg QE/g DW), saponins (122.55 mg DE/g DW), tannins (165.71 TAE/g DW) and terpenoid (8.24 mg LE/g DW) content in the methanolic extract. HPTLC examination showed the existence of kaempferol and benzoic acid with the highest amount (0.90% and 5.83% respectively) observed in the same treatment. FTIR analysis revealed functional group peaks with increased peak intensity in the combination treatment. Higher antioxidant activities such as DPPH (IC50: 401.39 µg/mL), ABTS (IC50: 71.18 µg/mL) and FRAP (8774.73 µM Fe (II) equivalent) were observed in the methanolic extract of combined treatment. To our knowledge, this is the first study on the impact of AMF inoculation on bioactive compounds and antioxidant activities in G. globosa flowers. Moreover, this study could lead to the development of novel pharmaceuticals and herbal remedies for various diseases.

Globally Distributed Arbuscular Mycorrhizal Fungi Associated With Invasive Cinchona pubescens on Santa Cruz Island, Galápagos.

The presence of arbuscular mycorrhizal fungi (AMF) is essential for the survival and establishment of most plant species in nature. The reproductive success of invasive plant species in a particular habitat could also depend on these AM fungi. Cinchona pubescens, commonly known as quinine, is highly invasive on Santa Cruz Island, Galápagos, but at the same time severely endangered in its native range on mainland Ecuador due to overexploitation in the past. In this study, we aim at determining the AMF communities associated with C. pubescens at both locations to investigate whether the successful invasion of C. pubescens on Santa Cruz is related to its association with a particular community of AMF. For this, roots of C. pubescens trees were sampled at three sites, one site on Santa Cruz and two sites in the province of Loja, on mainland Ecuador. Communities of AM fungi were determined through the molecular cloning and sequencing of the 18S nrDNA gene and through the delimitation of Operational Taxonomic Units (OTUs), associated with the plant roots. We found 36 AMF OTUs associated with C. pubescens, most of them belonging to the genus Glomus. The highest richness of AMF OTUs was detected in samples from sites located on mainland Ecuador. The AMF communities between Santa Cruz and mainland Ecuador were significantly different, and only five OTUs were shared between both locations. Two dominant OTUs in C. pubescens from Santa Cruz were detected but no dominant OTUs from mainland Ecuador. Almost two thirds of the OTUs associated with C. pubescens had a wide global distribution. Our results suggest that the successful invasion of C. pubescens on Santa Cruz could have been facilitated by local generalist AMF and not by particular AMF. The observed generalist AMF from both locations could be important for conservation plans of restoring the endangered C. pubescens in the native forests on mainland Ecuador.

Growth and physiology responses of Samanea saman inoculated with arbuscular mycorrhizal fungi in silica post-mining soil media using biodegradable pots

Arbuscular mycorrhizal fungi (AMF) and biodegradable pots are environmentally friendly and enhance plant growth in adverse soil conditions. These studies explored AMF interactions and biodegradable pots in physiology, growth, and the uptake of nutrients in Samanea saman seedlings. The present research interactive effects of biodegradable pots with different compositions and raw material sizes with and without AMF inoculation on S. saman grown in silica post-mining soil media. Results indicated AMF inoculations significantly improved leaf chlorophyll content, photosynthetic rate, heights, diameters, biomass, as well as nutrient absorption of S. saman as compared with non-inoculated plants in biodegradable pots. AMF and biodegradable pots composed of 15% used newspaper, 70% compost, 5% cocopeat, and 10% rock phosphate showed the best results and increased the leaf chlorophyll content, photosynthesis rate, height, diameter, and total biomass of the plants by 161.1%, 208.7%, 263.6%, 118.1%, and 269.9%, respectively, compared to biodegradable pots composed only of used newspaper. Additionally, uptake of the nutrients nitrogen, phosphate, potassium, and magnesium increased by 365%, 800%, 369%, and 250%, respectively. By the fourteenth week after transplanting, the C/N ratio of the organic pot decreased significantly. Thus, AMF and biodegradable pots containing compost and rock phosphate interact positively and enhance the growth of S. saman under adverse soil conditions. These findings suggest that biodegradable pots containing compost and rock phosphate show potential as more environmentally friendly replacements for plastic bags (polybags) as growth medium containers for seedling production.

Rhizophagus intraradices mediated mitigation of arsenic toxicity in wheat involves differential distribution of arsenic in subcellular fractions and modulated expression of Phts and ABCCs

Biomagnification of arsenic in food chain through wheat consumption poses a serious threat to human health. Therefore, it is necessary to elucidate mechanism of arsenic tolerance and detoxification in wheat. The study aimed to unravel the strategies adopted by arbuscular mycorrhizal fungi to alleviate arsenic toxicity in wheat. To accomplish this, independent and interactive effects of arsenic and Rhizophagus intraradices were assessed. Colonization by R. intraradices resulted in lower expression of high-affinity phosphate transporters (Phts) in comparison with non-mycorrhizal (NM) plants, thereby lowering arsenic concentrations in mycorrhizal (M) plants. Additionally, the subcellular fractionation analysis indicated differential distribution of arsenic. In NM plants, arsenic accumulated primarily in cell wall and organelle fractions. Conversely, in M plants arsenic was more concentrated in the cell wall and vacuolar fractions. This was related to higher levels of hydroxyl and aldehyde groups in cell wall fraction of root along with increased expression of C-type ATP-binding cassette transporters in root and leaves. These factors enabled effective sequestration of arsenic in the cell wall and vacuoles of M plants, thereby reducing its toxicity. Furthermore, the proportion of inorganic arsenic was lower in M plant, as it transformed it into less toxic organic forms.

Synergism or Antagonism: Do Arbuscular Mycorrhizal Fungi and Plant Growth-Promoting Rhizobacteria Work Together to Benefit Plants?

In agriculture, abiotic and biotic stress reduce yield by 51–82% and 10–16%, respectively. Applications of biological agents such as plant growth-promoting rhizobacteria (PGPR) and arbuscular mycorrhizal fungi (AMF) can improve plant growth. Applications of lone PGPR and AMF also help plants resist abiotic and biotic stressors. The reports for dual inoculation of AMF and PGPR to benefit plants and tackle stressors are largely unknown. It is speculated that PGPR colonization in plants enhances AMF infection during dual AMF and PGPR application, although increased AMF colonization does not always correlate with the increased benefits for the plant hosts. Further research is needed regarding molecular mechanisms of communication during dual inoculations, and dual-inoculation enhancement of induced systemic resistance under pathogen stress, to understand how dual inoculations can result in enhanced plant benefits. The influence of application timing of AMF and PGPR dual inoculations on mitigating abiotic and biotic stress is also not well understood. This review documents the factors that govern and modulate the dual application of AMF and PGPR for plant benefits against stress responses, specifically abiotic (drought) stress and stress from pathogen infection.

Interactive effects of arbuscular mycorrhizal fungi (AMF) and plant growth promoting bacteria (PGPB) on the alleviation of salt stress in wheat

Interactive effects of arbuscular mycorrhizal fungi (AMF) and plant growth promoting bacteria (PGPB) on the alleviation of salt stress in wheat

Straw management and fertilization improve soil aggregate stability by inducing biological binding agents and specific keystone genera

Improving soil aggregate stability through proper fertilization management is essential for crop growth. However, how different fertilization regimes affect soil aggregate stability driven by microorganisms and biological binding agents remains largely unexplored. For this purpose, we conducted a 9-year field experiment involving two soil textures (i.e., loam and clay soils) and five fertilization regimes (i.e., no fertilizer or crop straw return (CK), crop straw return (S), chemical fertilization (N), crop straw return with chemical fertilizer (SN), and crop straw return with chemical fertilizer and 20% nitrogen substituted with chicken manure (SNM)). Mean weight diameter (MWD) of soil aggregates, glomalin-related soil protein (GRSP) content, and microbial community composition were investigated. The SN and SNM treatments had similar MWD, which was 70.08–76.45% higher than the CK, and the S and N treatments had similar MWD, which was 20.35–34.76% higher than the CK, indicating better effects of SN and SNM on the improvement of the soil aggregate stability than the S or N treatment. High easily extractable GRSP and total GRSP contents contributed to the improved MWD. Meanwhile, some specific keystone genera identified from the keystone modules (co-occurring groups of soil biota including arbuscular mycorrhizal fungi, bacteria, and nonmycorrhizal fungi) were recognized as the important factors regulating the MWD, though the selected specific genera in the loam soil differed from the clay soil. Altogether, our results highlighted the fundamental role of the GRSP and selected specific keystone microbial taxa in improving the soil aggregate stability and provided a list of microbial taxa linking to MWD in different soils, which could be specifically targeted in specific soil.