Both abundant and rare fungi colonizing Fagus sylvatica ectomycorrhizal root-tips shape associated bacterial communities

Dietrich, Marlies; Montesinos‐Navarro, Alicia; Gabriel, Raphael; Strasser, Florian; Meier, Dimitri V.; Mayerhofer, Werner; Gorka, Stefan; Wiesenbauer, Julia; Martin, Victoria; Weidinger, Marieluise; Richter, Andreas; Kaiser, Christina; Woebken, Dagmar

doi:10.1038/s42003-022-04178-y

Cited by 6 publications

(3 citation statements)

References 82 publications

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“…It is also likely that fungal and bacterial communities influence each other during the lifetime of individual aggregates. Fungal communities have been shown to shape associated bacterial/archaeal communities in other soil microhabitats, such as mycorrhizal root tips [64]. Consequently, we propose that a similar interdependence between fungal and bacterial communities may also exist within soil aggregates.…”

Section: Discussionmentioning

confidence: 79%

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Distinct microbial communities are linked to organic matter properties in millimetre-sized soil aggregates

Simon,

Guseva,

Darcy

et al. 2024

Preprint

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Soils provide essential ecosystem services and represent the most diverse habitat on Earth. It has been suggested that the presence of various physico-chemically heterogenous microhabitats supports the enormous diversity of microbial communities in soil. However, little is known about the relationship between microbial communities and their immediate environment at the micro- to millimetre-scale. In this study, we examined whether bacteria, archaea, and fungi organise into distinct communities in individual 2-millimetre-sized soil aggregates and compared them to communities of homogenized bulk soil samples. Furthermore, we investigated their relationship to their local environment by concomitantly determining microbial community structure and physico-chemical properties from the same individual aggregates. Aggregate-communities displayed exceptionally high beta-diversity, with 3-4 aggregates collectively capturing more diversity than their homogenized parent soil core. Up to 20-30% of ASVs (particularly rare ones) were unique to individual aggregates selected within a few centimetres. Aggregates and bulk soil samples showed partly different dominant phyla, indicating that taxa that are potentially driving biogeochemical processes at the small scale may not be recognized when analysing larger soil volumes. Microbial community composition and richness of individual aggregates were closely related to aggregate-specific carbon and nitrogen content, carbon stable-isotope composition, and soil moisture, indicating that aggregates provide a stable environment for sufficient time to allow co-development of communities and their environment. We conclude that the soil microbiome is a metacommunity of variable subcommunities. Our study highlights the necessity to study small, spatially coherent soil samples to better understand controls of community structure and community-mediated processes in soils.

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Section: Discussionmentioning

confidence: 79%

“…Fungal richness might even have underlain the positive relationships of bacterial and archaeal richness and OM content. The region around hyphae has been denoted to create unique niches for bacteria, offering easily available carbon at the hyphal interface [81] and selecting for certain bacterial taxa [64].…”

Section: Discussionmentioning

confidence: 99%

Distinct microbial communities are linked to organic matter properties in millimetre-sized soil aggregates

Simon,

Guseva,

Darcy

et al. 2024

Preprint

View full text Add to dashboard Cite

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“…These microorganisms tend to serve the needs of both the host plant and the mycorrhizal fungi. However, they are far from being well understood, and their roles in the plant-mycorrhizal and fungus-bacteria interaction network, as well as their mechanisms of action, remain to be elucidated [49]. The RDA1 and RDA2 axes explained a total of 83.42% of the variation in the composition of the flora in the redundancy analysis of the association between the composition of the fungal community and environmental factors, with AP (p = 0.011), PH (p = 0.022), and NO 3 − -N (p = 0.024) being the most significant drivers of variation in the fungal flora (Figure 7, left).…”

Section: Discussionmentioning

confidence: 99%

Effects of Truffle Inoculation on Root Physiology and Mycorrhizosphere Microbial Communities of Carya illinoinensis Seedlings

Chen,

Wu,

Liu

et al. 2023

Forests

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Although they are a valuable edible ectomycorrhizal fungus, truffles (Tuber spp.) nevertheless face significant difficulties in the development of their scale. As a type of high economic value nut-like economic forest tree, the pecan (Carya illinoinensis) serves as a natural host for truffles. However, the technology for mycorrhizal synthesis in pecan has not yet been developed, and it is still unclear how certain microbes affect this process. In this study, we inoculated the pecan root system with a suspension of truffle spores and investigated the growth physiology of pecan seedlings with various infestation levels, as well as changes in the soil’s physicochemical properties and the makeup of the microbial community at the root level. The findings showed that tuber inoculation significantly increased the peroxidase activity of the pecan root system, significantly decreased the pH, and effective phosphorus content of mycorrhizosphere soil, while increasing the nitrate nitrogen content, and significantly increased the abundance and diversity of the mycorrhizosphere soil fungal community. Different groups of fungal and bacterial markers were formed in the mycorrhizosphere of pecan seedlings at different levels of infestation. In the highly infested group, Rozellomycota and lasiosphaeriaceae were the difference marker fungi, and Xanthobacteraceae, Rhizobiaceae as well as Streptococcaceae were the difference marker bacteria. In the low-infestation group, sphaerosporella was differential marker fungi, and Bacillus and Tumebacillus were differential marker bacteria. The fungal marker flora of the control group consisted of Chaetomium and Gilmaniella. Pseudomonas was the marker bacterial community. Additionally, these fungi included Collarina and Rozellomycota, and several bacteria from the genera Pseudomonas, Gemmatimonas, and others showed highly significant relationships with changes in soil pH, effective phosphorus, and nitrate nitrogen. In conclusion, pecan–truffle mycorrhizal seedlings have the potential to create the ideal microbial community structure needed for mycorrhizal growth, and these microorganisms have the potential to significantly alter the pH, effective phosphorus content, and nitrate nitrogen concentration of the mycorrhizosphere soil. Our results contribute to the understanding of how the mycorrhizosphere microbial community evolves when exogenous mycorrhizal fungi infest host plants and can offer some theoretical guidelines for growing pecan–truffle mycorrhizal seedlings.

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Fine-tuning root exudation sampling procedures– evaluating the effect of sampling solution volume and the suitability of Micropur as microbial activity inhibitor

Otxandorena-Ieregi,

Santangeli,

Aleksza

et al. 2024

Plant Soil

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Background and aim Root exudates are the main drivers of plant-microbes-soil interactions. There are several approaches to collect root exudates, but critical methodological evaluation remains limited. The goal of this study was to assess the effect of the applied sampling solution volume and to test the suitability of Micropur as microbial activity inhibitor during the exudate sampling process. Methods Using Zea mays L. as model plant and the soil-hydroponic hybrid exudate sampling approach, we tested the effect of different sampling solution volumes and different Micropur concentrations on maize root exudation. Additionally, a sterile hydroponic-only experiment was conducted to monitor potential effects of Micropur on maize physiology. Photometric and LC-TOF-MS analyses were used to reveal the effect of different conditions on root exudation and plant stress response. Results Our results demonstrated that both, the sampling volume as well as the presence or absence of microbial activity inhibitor can significantly affect obtained exudation results. Carbon exudation rates were underestimated when using a small sampling volume relative to the root biomass. Even though the overall C exudation was minimally affected by microbial degradation, the addition of Micropur (≥ 5 mg L−1) significantly reduced the decomposition of 14C citric acid. Maize plants did not show any stress symptoms upon exposure to different concentrations of MP but root membrane permeability and exudation were negatively affected when using MP concentrations >5 mg L−1. Conclusion Our findings highlight the importance of thoroughly evaluating experimental procedures and delivers relevant insights supporting future experimental designs targeting root exudates.

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Both abundant and rare fungi colonizing Fagus sylvatica ectomycorrhizal root-tips shape associated bacterial communities

Cited by 6 publications

References 82 publications

Distinct microbial communities are linked to organic matter properties in millimetre-sized soil aggregates

Distinct microbial communities are linked to organic matter properties in millimetre-sized soil aggregates

Effects of Truffle Inoculation on Root Physiology and Mycorrhizosphere Microbial Communities of Carya illinoinensis Seedlings

Fine-tuning root exudation sampling procedures– evaluating the effect of sampling solution volume and the suitability of Micropur as microbial activity inhibitor

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