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Summary Arbuscular mycorrhizal fungi (AMF) are critical to native plant community ecology and influence plant invasions. Research has focused on nutritional benefits of AMF, although evidence shows that they may also confer pathogen resistance. However, most such work has focused on agriculturally relevant plant species. Therefore, whether AMF confer pathogen resistance tonative(wild) plant species, and impact of novel plant–microbial relationships on this benefit, remains understudied.We conducted a series of experiments measuring mycorrhizal‐induced resistance (MIR) to pathogens in native prairie plant species. We tested for pathogenicity across 69 field‐isolated fungi and oomycetes across five plant species. We then conducted experiments assessing growth response to native and non‐native AMF and pathogens in three plant species from native populations and milkweed (Asclepias syriaca) from native and postagricultural populations.We found evidence of MIR in milkweed. Moreover, we identified differential effects of AMF depending on plant species, with milkweed from native populations showing benefits from AMF. Finally, growth response was mediated by local adaptation, with matching AMF–pathogen origin strengthening responses.This work illustrates the importance of locally sourced AMF and plants to native plant ecology and suggests that pathogen resistance may be an important dimension of AMF benefit. 

Abstract Restoration of soil microbial communities, and microbial mutualists in particular, is increasingly recognized as critical for the successful restoration of grassland plant communities. Although the positive effects of restoring arbuscular mycorrhizal fungi during the restoration of these systems have been well documented, less is known about the potential importance of nitrogen‐fixing rhizobium bacteria, which associate with legume plant species that comprise an essential part of grassland plant communities, to restoration outcomes. In a series of greenhouse and field experiments, we examined the effects of disturbance on rhizobium communities, how plant interactions with these mutualists changed with disturbance, and whether rhizobia can be used to enhance the establishment of desirable native legume species in degraded grasslands. We found that agricultural disturbance alters rhizobium communities in ways that affect the growth and survival of legume species. Native legume species derived more benefit from interacting with rhizobia than did non‐native species, regardless of rhizobia disturbance history. Additionally, slow‐growing, long‐lived legume species received more benefits from associating with rhizobia from undisturbed native grasslands than from associating with rhizobia from more disturbed sites. Together, this suggests that native rhizobia may be key to enhancing the restoration success of legumes in disturbed habitats. 

Abstract Recent work established a backbone reference tree and phylogenetic placement pipeline for identification of arbuscular mycorrhizal fungal (AMF) large subunit (LSU) rDNA environmental sequences. Our previously published pipeline allowed any environmental sequence to be identified as putative AMF or within one of the major families. Despite this contribution, difficulties in implementation of the pipeline remain. Here, we present an updated database and pipeline with (1) an expanded backbone tree to include four newly described genera and (2) several changes to improve ease and consistency of implementation. In particular, packages required for the pipeline are now installed as a single folder (conda environment) and the pipeline has been tested across three university computing clusters. This updated backbone tree and pipeline will enable broadened adoption by the community, advancing our understanding of these ubiquitous and ecologically important fungi. 

ABSTRACT Arbuscular mycorrhizal fungi (AMF, phylum Glomeromycota) are essential to plant community diversity and ecosystem functioning. However, increasing human land use represents a major threat to native AMF globally. Characterizing the loss of AMF diversity remains challenging because many taxa are undescribed, resulting in poor documentation of their biogeography and family‐level disturbance sensitivity. We survey sites representing native and human‐altered ecosystems across the American continents—in Alaska, Kansas, and Brazil—to shed light on these gaps. Using a recently developed pipeline for phylogenetic placement of eDNA, we find evidence for three putative novel clades within the Glomeromycota, sister toEntrophosporaceae,Glomeraceae, andArchaeosporaceae, with evidence for geographic structuring. We further find that taxa in theDiversisporaceae,Glomeraceae, andEntrophosporaceaerelatively high families are overrepresented and more diverse in temperate samples. By contrast, the diversity of taxa that cannot be placed into a family is higher in tropical samples, suggesting that tropical sites harbor relatively high undescribed AMF diversity. Moreover, we find evidence thatEntrophosporaceaeis more tolerant, whileGlomeraceaeis more sensitive to disturbance. These results underscore the vast undescribed diversity of AMF while highlighting a way forward to systematically improve our understanding of AMF biogeography and response to human disturbance. 

Abstract The latitudinal diversity gradient (LDG) dominates global patterns of diversity^1,2, but the factors that underlie the LDG remain elusive. Here we use a unique global dataset³to show that vascular plants on oceanic islands exhibit a weakened LDG and explore potential mechanisms for this effect. Our results show that traditional physical drivers of island biogeography⁴—namely area and isolation—contribute to the difference between island and mainland diversity at a given latitude (that is, the island species deficit), as smaller and more distant islands experience reduced colonization. However, plant species with mutualists are underrepresented on islands, and we find that this plant mutualism filter explains more variation in the island species deficit than abiotic factors. In particular, plant species that require animal pollinators or microbial mutualists such as arbuscular mycorrhizal fungi contribute disproportionately to the island species deficit near the Equator, with contributions decreasing with distance from the Equator. Plant mutualist filters on species richness are particularly strong at low absolute latitudes where mainland richness is highest, weakening the LDG of oceanic islands. These results provide empirical evidence that mutualisms, habitat heterogeneity and dispersal are key to the maintenance of high tropical plant diversity and mediate the biogeographic patterns of plant diversity on Earth. 

Abstract Symbiont diversity can have large effects on plant growth but the mechanisms generating this relationship remain opaque. We identify three potential mechanisms underlying symbiont diversity–plant productivity relationships: provisioning with complementary resources, differential impact of symbionts of varying quality and interference between symbionts. We connect these mechanisms to descriptive representations of plant responses to symbiont diversity, develop analytical tests differentiating these patterns and test them using meta‐analysis. We find generally positive symbiont diversity–plant productivity relationships, with relationship strength varying with symbiont type. Inoculation with symbionts from different guilds (e.g. mycorrhizal fungi and rhizobia) yields strongly positive relationships, consistent with complementary benefits from functionally distinct symbionts. In contrast, inoculation with symbionts from the same guild yields weak relationships, with co‐inoculation not consistently generating greater growth than the best individual symbiont, consistent with sampling effects. The statistical approaches we outline, along with our conceptual framework, can be used to further explore plant productivity and community responses to symbiont diversity, and we identify critical needs for additional research to explore context dependency in these relationships. 

Abstract Arbuscular mycorrhizal fungi (AMF; Glomeromycota) are difficult to culture; therefore, establishing a robust amplicon-based approach to taxa identification is imperative to describe AMF diversity. Further, due to low and biased sampling of AMF taxa, molecular databases do not represent the breadth of AMF diversity, making database matching approaches suboptimal. Therefore, a full description of AMF diversity requires a tool to determine sequence-based placement in the Glomeromycota clade. Nonetheless, commonly used gene regions, including the SSU and ITS, do not enable reliable phylogenetic placement. Here, we present an improved database and pipeline for the phylogenetic determination of AMF using amplicons from the large subunit (LSU) rRNA gene. We improve our database and backbone tree by including additional outgroup sequences. We also improve an existing bioinformatics pipeline by aligning forward and reverse reads separately, using a universal alignment for all tree building, and implementing a BLAST screening prior to tree building to remove non-homologous sequences. Finally, we present a script to extract AMF belonging to 11 major families as well as an amplicon sequencing variant (ASV) version of our pipeline. We test the utility of the pipeline by testing the placement of known AMF, known non-AMF, andAcaulosporasp. spore sequences. This work represents the most comprehensive database and pipeline for phylogenetic placement of AMF LSU amplicon sequences within the Glomeromycota clade. 

Abstract Plant–microbe interactions play an important role in structuring plant communities. Arbuscular mycorrhizal fungi (AMF) are particularly important. Nonetheless, increasing anthropogenic disturbance will lead to novel plant–AMF interactions, altering longstanding co‐evolutionary trajectories between plants and their associated AMF. Although emerging work shows that plant–AMF response can evolve over relatively short time scales due to anthropogenic change, little work has evaluated how plant AMF responsespecificitymay evolve due to novel plant–mycorrhizal interactions. Here, we examine changes in plant–AMF interactions in novel grassland systems by comparing the mycorrhizal response of plant populations from unplowed native prairies with populations from post‐agricultural grasslands to inoculation with both native prairie AMF and non‐native novel AMF. Across four plant species, we find support for evolution of differential responses to mycorrhizal inocula types, that is, mycorrhizal response specificity, consistent with expectations of local adaptation, with plants from native populations responding most to native AMF and plants from post‐agricultural populations responding most to non‐native AMF. We also find evidence of evolution of mycorrhizal response in two of the four plant species, as overall responsiveness to AMF changed from native to post‐agricultural populations. Finally, across all four plant species, roots from native prairie populations had lower levels of mycorrhizal colonization than those of post‐agricultural populations. Our results report on one of the first multispecies assessment of local adaptation to AMF. The consistency of the responses in our experiment among four species provides evidence that anthropogenic disturbance may have unintended impacts on native plant species' association with AMF, causing evolutionary change in the benefit native plant species gain from native symbioses.