Spatial variability and environmental drivers of cassava—arbuscular mycorrhiza fungi (AMF) associations across Southern Nigeria

Cassava, forming starch-rich, tuberous roots, is an important staple crop in smallholder farming systems in sub-Saharan Africa. Its relatively good tolerance to drought and nutrient-poor soils may be partly attributed to the crop’s association with arbuscular mycorrhiza fungi (AMF). Yet insights into AMF-community composition and richness of cassava, and knowledge of its environmental drivers are still limited. Here, we sampled 60 cassava fields across three major cassava-growing agro-ecological zones in Nigeria and used a DNA meta-barcoding approach to quantify large-scale spatial variation and evaluate the effects of soil characteristics and common agricultural practices on AMF community composition, richness and Shannon diversity. We identified 515 AMF operational taxonomic units (OTUs), dominated by Glomus, with large variation across agro-ecological zones, and with soil pH explaining most of the variation in AMF community composition. High levels of soil available phosphorus reduced OTU richness without affecting Shannon diversity. Long fallow periods (> 5 years) reduced AMF richness compared with short fallows, whereas both zero tillage and tractor tillage reduced AMF diversity compared with hoe tillage. This study reveals that the symbiotic relationship between cassava and AMF is strongly influenced by soil characteristics and agricultural management and that it is possible to adjust cassava cultivation practices to modify AMF diversity and community structure. Graphical abstract

Maize/soybean intercropping improves stability of soil aggregates driven by arbuscular mycorrhizal fungi in a black soil of Northeast China

Background and Aims Studies verify that intercropping influence the soil aggregates and arbuscular mycorrhizal fungi (AMF), but the characteristics and relationships of AMF communities and soil aggregates at different soil depths have not been fully understood. Methods A long term positioning experiment starting in 2017, including two-factor experiment of N application level and cultivation. The N application level including N0 (0 kg·hm−2) and N2 (240 kg·hm−2 and 80 kg·hm−2 for maize and soybean, respectively). The cultivation, including monoculture maize, monoculture soybean, and maize/soybean intercropping (intercropping maize, intercropping soybean). Soil aggregates and AMF were collected and analyzed from the difference depths soil. Results Results showed that intercropping can improve the macro-aggregate (>5 mm) content of maize soil at 0-15 cm and 15-30 cm depth under N0 level. Also, the intercropping can only improve the macro-aggregate content of soybean soil at 0-15 cm depth. Likewise, the results also proved that increasing the N fertilizer application rate can significantly decrease the macro-aggregates in intercropping soil at 0-15 cm and 15-30 cm depths. Moreover, intercropping treatment can significantly improve the AMF diversity of maize and soybean soil at different depths, while the application of N fertilizer significantly reduced the AMF diversity of soil at different depths. Conclusion The Structural equation modeling indicated that the intercropping system could influence and participate in the formation of soil aggregates by changing the soil AMF community and relative abundance, thereby contributing the soil stability. These results reveal the mechanisms of improvement of soil quality through diversity planting patterns.

Responses of Arbuscular Mycorrhizal Fungi Diversity and Community to 41-Year Rotation Fertilization in Brown Soil Region of Northeast China

Arbuscular mycorrhizal fungi (AMF) play vital roles in the growth and development of plants, ecosystem sustainability, and stability in agroecosystem, such as transporting nutrients to host plants, improving soil physical structure, and enhancing the stress resistance of host plants. However, the effects of fertilization on AMF diversity and community in brown soil areas are still unclear. The purpose of this study is to explore changes in AMF diversity and community structures and finding out the factors that influenced the changes after 41 years of fertilization in brown soil. Samples were collected from five treatments of the long-term fertilization experiment in June 2019, including CK (no fertilizer), N (mineral nitrogen fertilizer), NP (mineral nitrogen and phosphate fertilizer), M (pig manure), and MNP (pig manure, mineral nitrogen, and phosphate fertilizer). Illumina HiSeq sequencing was used to determine AMF diversity and community structure. The relationship between AMF communities in soil and roots and environmental factors was analyzed by redundancy analysis. The results showed that the soil nutrient content of manure treatments was generally higher than that of chemical fertilizer treatments and no fertilizer treatment. Long-term fertilization increased AMF spore density, which increased with the increase of soil fertility. The moderate content of soil available phosphorus was beneficial to the colonization of AMF. AMF diversity in soil decreased with soil fertility, but AMF diversity in roots was influenced only by soil nitrate–nitrogen and pH. Glomus was the dominant genus in both soil and root samples. AMF community structure in soil and roots had a different response to long-term fertilization. Application of manure had a greater impact on AMF community structure in soil, whereas application of exogenous phosphate fertilizer had a greater impact on that in roots. Soil ammonium nitrogen, nitrate–nitrogen, total nitrogen, organic carbon, total potassium, and available potassium were the most important factors that influenced taxa of AMF in soil, whereas soil ammonium nitrogen, nitrate–nitrogen, total nitrogen, organic carbon, total potassium, available potassium, available phosphorus, and plant phosphorus and potassium content were the most important factors influencing taxa of AMF in maize roots under long-term fertilization in brown soil.

Comparative Analysis of Arbuscular Mycorrhizal Fungal Communities between Farmland and Woodland in the Black Soil Region of Northeast China

The black soil region of northeast China is a critical production base for commercial grain in China. Arbuscular mycorrhizal fungi (AMF) are widely present in terrestrial ecosystems and play a vital role in ecosystem stability. Here, we investigated the diversity and composition of AMF communities in farmland and woodland from 20 sites in the black soil region of northeast China using Illumina MiSeq sequencing. The sequences were classified into 1 phylum, 1 class, 4 orders, 8 families, and 11 genera. Glomerales and Paraglomerales were observed as the most abundant order in farmland and woodland, respectively, and also belonged to abundant orders of the black soil region in northeast China, accounting for more than 90% of the total. Furthermore, Paraglomus, Claroideoglomus, and Glomus were the most abundant genera. Canonical correspondence analysis demonstrated the effect of soil pH, invertase, nitrogen, phosphorus, and soil organic carbon (SOC) contents on AMF community composition. Results from the correlation analysis revealed a reduction in AMF diversity with increases in SOC and phosphorus contents. These findings suggest AMF community composition varied with land use type (farmland and woodland), and provide a basis for protecting and utilizing AMF resources in the black soil region of northeast China.

Mycorrhizal Fungal Diversity and Its Relationship with Soil Properties in Camellia oleifera

Arbuscular mycorrhizal fungi (AMF) are well known for their important physiological implications on diversified host plants, while the information on AMF diversity and its relationship with soil properties of Camellia oleifera is yet not fully understood. In the proposed study, high-throughput sequencing of small subunit ribosomal RNA was performed to analyze the AMF diversity of the rhizosphere and endosphere of 20-year-old C. oleifera Xianglin in the field at Wuhan (China) and their relationship with soil physico-chemical properties. As high as 30.73–41.68% of the roots of C. oleifera were colonized by indigenous AMF with a spore density of 66–111 spores/10 g soil. The surface soil (0–20 cm) showed significantly higher root fungal colonization, spore density, soil hyphal length, and easily extractable glomalin-related soil protein content than the sub-surface soil (20–40 cm). Soil pH value, available K, and NO3−-N content affected the root and soil mycorrhizal development, whilst soil pH proved to be the most influential soil property governing their variability. A total of 467 OTUs associated with AMF were detected from the endosphere and rhizosphere, representing 10 genera and 138 species, of which 295 OTUs and 9 genera were jointly observed. The genus Glomus displayed maximum relative abundance (>86%) in both endosphere and rhizosphere. Scutellospora was detected in the endosphere, but absent in the rhizosphere. The endosphere recorded a relatively higher number of OTUs and alpha diversity indices (Shannon, Simpson, and PD index) of AMF than rhizosphere. Our study, hence, revealed that C. oleifera in fields was mainly colonized by Glomus, coupled with comparatively greater AMF diversity in the endosphere than in the rhizosphere, governed predominantly by soil pH, NO3−-N content, and available K content.

Succession of endophytic fungi and arbuscular mycorrhizal fungi associated with the growth of plant and their correlation with secondary metabolites in the roots of plants

Background To decipher the root and microbial interaction, secondary metabolite accumulation in roots and the microbial community’s succession model during the plant’s growth period demands an in-depth investigation. However, till now, no comprehensive study is available on the succession of endophytic fungi and arbuscular mycorrhizal fungi (AMF) with roots of medicinal licorice plants and the effects of endophytic fungi and AMF on the secondary metabolite accumulation in licorice plant’s root. Results In the current study, interaction between root and microbes in 1–3 years old medicinal licorice plant’s root and rhizospheric soil was investigated. Secondary metabolites content in licorice root was determined using high-performance liquid chromatography (HPLC). The composition and diversity of endophytic and AMF in the root and soil were deciphered using high-throughput sequencing technology. During the plant’s growth period, as compared to AMF, time and species significantly affected the diversity and richness of endophytic fungi, such as Ascomycota, Basidiomycota, Fusarium, Cladosporium, Sarocladium. The growth period also influenced the AMF diversity, evident by the significant increase in the relative abundance of Glomus and the significant decrease in the relative abundance of Diversispora. It indicated a different succession pattern between the endophytic fungal and AMF communities. Meanwhile, distance-based redundancy analysis and Mantel tests revealed root’s water content and secondary metabolites (glycyrrhizic acid, liquiritin, and total flavonoids), which conferred endophytic fungi and AMF diversity. Additionally, plant growth significantly altered soil’s physicochemical properties, which influenced the distribution of endophytic fungal and AMF communities. Conclusions This study indicated a different succession pattern between the endophytic fungal and AMF communities. During the plant’s growth period, the contents of three secondary metabolites in roots increased per year, which contributed to the overall differences in composition and distribution of endophytic fungal and AMF communities. The endophytic fungal communities were more sensitive to secondary metabolites than AMF communities. The current study provides novel insights into the interaction between rhizospheric microbes and root exudates.

Diverse and abundant arbuscular mycorrhizal fungi in ecological floating beds used to treat eutrophic water

An increasing number of investigations have demonstrated the universal existence of arbuscular mycorrhizal fungi (AMF) in aquatic ecosystems. However, little is known about the accurate distribution and functions of AMF inhabiting aquatic ecosystems, especially ecological floating bed (EFB) which was constructed for the remediation of polluted waterbodies.In this study, we collected root samples of Canna generalis, Cyperus alternifolius and Eichhornia crassipes from three EFBs floating on two eutrophic lakes in Wuhan, China, to investigate the resources and distribution of AMF in EFBs using Illumina Mi-seq technology. A total of 229 operational taxonomic units (OTUs) and 21 taxon from 348,799 Glomeromycota sequences were detected. Glomus was the most dominant AMF in the three EFBs while the second dominant AMF was related to Acaulospora. Different aquatic plant species exhibited varying degrees of AMF colonization (3.83%~71%), diversity (6~103 OTUs, 3~15 virtual taxa) and abundance (14~57551 sequences). Low AMF abundance but relatively high AMF diversity were found in C. alternifolius which is usually considered as non-mycorrhizal, demonstrating the high accuracy of Illumina sequencing. In addition, results from this study suggested a lognormal species abundance distribution was observed across AMF taxa in the three plant species, and the AMF community composition was closely related to pH, nitrogen and phosphorus.Overall, our data demonstrated that diverse and abundant AMF communities were living in EFBs, and the AMF community composition was closely related to the water quality of eutrophic lakes treated by EFBs, providing potential possibility for the applications of AMF in plant-based bioremediation of wastewater.

Molecular Diversity and Distribution of Arbuscular Mycorrhizal Fungi at Different Elevations in Mt. Taibai of Qinling Mountain

Arbuscular mycorrhizal fungi (AMFs) play a vital role in ecosystems, especially in ecosystem variability, diversity, and function. Understanding the AMF diversity, distribution, and their driver at different altitudinal gradients is a benefit for understanding the ecological function of AMF in mountain ecosystems. In this study, we explored the AMF molecular diversity and their distribution from 660 to 3,500 m a.s.l. in Mount Taibai of Qinling Mountains based on high-throughput sequencing technology. A total of 702 operational taxonomic units (OTUs) in 103 species of AMF are isolated from soil samples, which belong to 18 identified and 1 unidentified genus in 10 families. The fungi in the genus of Glomus is the most dominant, with the occurrence frequency of 100% and the relative abundance of 42.268% and 33.048% on the species and OTU level, respectively. The AMF colonization in root could be simulated by a cubic function with the change of altitudes with the peak and trough at a.s.l. 1,170 and 2,850 m, respectively. Further, AMF diversity indices including Sob, Shannon diversity, and Pielou evenness also showed the same cubic function change trends with increasing altitude at OTU and species levels. However, the average values of diversity indices at OTU level are always higher than these at the species level. Based on the OTU level, the highest and lowest values of Shannon and Pielou indices are observed at the altitudes of 1,400 and 2,800 m, respectively. The pattern of AMF community distribution in Mt. Taibai is driven by altitude with the characteristics of more abundance in the medium- to low-altitude than high-altitude areas. In general, abundant AMF molecular diversity and species exit in different elevations of Mt. Taibai, which indicate gradient changes with elevations.

Inoculation with highly-related mycorrhizal fungal siblings, and their interaction with plant genoptypes, strongly shapes tropical mycorrhizal fungal community structure

Arbuscular mycorrhizal fungi (AMF) have the potential to increase crop yields and all globally important crops form the mycorrhizal symbiosis. Only a few studies have investigated the impact of introduced AMF on local AMF communities and most studies have only investigated effects of one isolate. We studied the impact on AMF community structure of inoculating roots of the globally important crop cassava with highly genetically-related clonal siblings of two genetically different Rhizophagus irregularis isolates. We hypothesized that inoculation with R. irregularis siblings differentially influences the structure and the diversity of the pre-existing AMF community colonizing cassava. Alpha and beta taxonomic and phylogenetic AMF diversity were strongly and significantly altered differentially following inoculation with sibling AMF progeny. In most cases, the effects were also cassava-genotype specific. Although biomass production and AMF colonization were also both differentially affected by inoculation with sibling R. irregularis progeny these variables were not correlated with changes in the AMF community structure. The results highlight that investigations on the impact of an introduced AMF species, that use only one isolate, are unlikely to be representative of the overall effects of that AMF species and that the genetic identity of the host must be considered. The amount of inoculum added was very small and effects were observed 12 months following inoculation. That such a small amount of almost genetically identical fungal inoculum can strongly differentially influence AMF community structure 12 months following inoculation, indicates that AMF communities in tropical soils are not very resistant to perturbation.

Influence of Citrus Scion/Rootstock Genotypes on Arbuscular Mycorrhizal Community Composition under Controlled Environment Condition

Citrus is vegetatively propagated by grafting for commercial production, and most rootstock cultivars of citrus have scarce root hairs, thus heavily relying on mutualistic symbiosis with arbuscular mycorrhizal fungi (AMF) for mineral nutrient uptake. However, the AMF community composition, and its differences under different citrus scion/rootstock genotypes, were largely unknown. In this study, we investigated the citrus root-associated AMF diversity and richness, and assessed the influence of citrus scion/rootstock genotypes on the AMF community composition in a controlled condition, in order to exclude interferences from environmental factors and agricultural practices. As a result, a total of 613,408 Glomeromycota tags were detected in the citrus roots, and 46 AMF species were annotated against the MAARJAM database. Of these, 39 species belonged to Glomus, indicating a dominant role of the Glomus AMF in the symbiosis with citrus. PCoA analysis indicated that the AMF community’s composition was significantly impacted by both citrus scion and rootstock genotypes, but total samples were clustered according to rootstock genotype rather than scion genotype. In addition, AMF α diversity was significantly affected merely by rootstock genotype. Thus, rootstock genotype might exert a greater impact on the AMF community than scion genotype. Taken together, this study provides a comprehensive insight into the AMF community in juvenile citrus plants, and reveals the important effects of citrus genotype on AMF community composition.