Linkage between tree species richness and soil microbial diversity improves phosphorus bioavailability

Xiang, Wenhua; Xiang, Wenhua; Ouyang, Shuai; Forrester, David I.; Zhou, Bo; Chen, Lingxiu; Ge, Tida; Lei, Pifeng; Chen, Liang; Zeng, Yelin; Song, Xinzhang; Peñuelas, Josep; Peng, Changhui

doi:10.1111/1365-2435.13355

Cited by 77 publications

(42 citation statements)

References 52 publications

(97 reference statements)

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“…Different plant species or genotypes, as well as plant age, have been reported to attract specific bacterial communities ( Baudoin et al, 2002 ; Marschner et al, 2004 ; Micallef et al, 2009 ). Additionally, plant communities and their richness and diversity growing in the soil affects belowground microbial community diversity, biomass, and respiration rates, thereby impacting plant diversity ( Wu et al, 2019 ). Current agricultural management includes practices such as fertilizer-driven production, which decreases the importance of plant-microbe interactions when scavenging for nutrients ( van der Heijden et al, 2008 ).…”

Section: Resultsmentioning

confidence: 99%

Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources

et al. 2020

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The two-step model for plant root microbiomes considers soil as the primary microbial source. Active selection of the plant’s bacterial inhabitants results in a biodiversity decrease toward roots. We collected sixteen samples of in situ ruderal plant roots and their soils and used these soils as the main microbial input for single genotype tomatoes grown in a greenhouse. Our main goal was to test the soil influence in the structuring of rhizosphere microbiomes, minimizing environmental variability, while testing multiple plant species. We massively sequenced the 16S rRNA and shotgun metagenomes of the soils, in situ plants, and tomato roots. We identified a total of 271,940 bacterial operational taxonomic units (OTUs) within the soils, rhizosphere and endospheric microbiomes. We annotated by homology a total of 411,432 (13.07%) of the metagenome predicted proteins. Tomato roots did follow the two-step model with lower α-diversity than soil, while ruderal plants did not. Surprisingly, ruderal plants are probably working as a microenvironmental oasis providing moisture and plant-derived nutrients, supporting larger α-diversity. Ruderal plants and their soils are closer according to their microbiome community composition than tomato and its soil, based on OTUs and protein comparisons. We expected that tomato β-diversity clustered together with their soil, if it is the main rhizosphere microbiome structuring factor. However, tomato microbiome β-diversity was associated with plant genotype in most samples (81.2%), also supported by a larger set of enriched proteins in tomato rhizosphere than soil or ruderals. The most abundant bacteria found in soils was the Actinobacteria Solirubrobacter soli , ruderals were dominated by the Proteobacteria Sphingomonas sp. URGHD0057, and tomato mainly by the Bacteroidetes Ohtaekwangia koreensis , Flavobacterium terrae, Niastella vici , and Chryseolinea serpens. We calculated a metagenomic tomato root core of 51 bacterial genera and 2,762 proteins, which could be the basis for microbiome-oriented plant breeding programs. We attributed a larger diversity in ruderal plants roots exudates as an effect of the moisture and nutrient acting as a microbial harbor. The tomato and ruderal metagenomic differences are probably due to plant domestication trade-offs, impacting plant-bacteria interactions.

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Section: Resultsmentioning

confidence: 99%

Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources

et al. 2020

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“…Additionally, the number of plant species growing in the soil affects belowground microbial community diversity, biomass, and respiration rates, thereby impacting plant diversity (Wu et al, 2019). The large abundance of Actinobacteria has practical explanations in plant interactions; they have been used as biocontrol agents isolated from soil and rhizospheres, and they are secondary metabolite producers such as antibiotics or plant growth-promoting molecules such as indole acetic acid (El-Tarabily et al, 2010;Brader et al, 2014, Sreevidya et al, 2016.…”

Section: Discussionmentioning

confidence: 99%

Testing the two-step model of plant root microbiome acquisition under multiple plant species and soil sources

Barajas

Martínez-Sánchez

Romero

et al. 2020

Preprint

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The two-step model for plant root microbiomes considers soil as the primary microbial source. Active selection of the plant's bacterial inhabitants results in a biodiversity decrease towards roots. We collected in situ ruderal plant roots and their soils and used these soils as the main microbial input for single genotype tomatoes grown in a greenhouse. We massively sequenced the 16S rRNA and shotgun metagenomes of the soils, in situ plants, and tomato roots. Tomato roots did follow the two-step model, while ruderal plants did not. Ruderal plants and their soils are closer than tomato and its soil, based on protein comparisons. We calculated a metagenomic tomato root core of 51 bacterial genera and 2,762 proteins, which could be the basis for microbiome-oriented plant breeding programs. The tomato and ruderal metagenomic differences are probably due to plant domestication trade-offs, impacting plantmicrobe interactions.

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“…This region has a humid mid‐subtropical monsoonal climate with annual mean temperatures of 17.3°C and mean monthly temperatures of −10.3°C in the coolest month (January) and 39.8°C in the warmest month (July). Mean annual precipitation is 1416 mm, and the minimum and maximum annual precipitation is 936 mm and 1954 mm (year period during 1954–2010) (Ouyang et al 2016, Wu et al 2019). The soil is a shallow (30 cm deep), well‐drained clay loam overlying slate and shale parent rock, classified as Ferralsols (WRB 2006).…”

Section: Methodsmentioning

confidence: 99%

Positive tree diversity effect on fine root biomass: via density dependence rather than spatial root partitioning

Zeng

Xiang

Zhou

et al. 2020

Oikos

Self Cite

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The importance of species richness to ecosystem functioning and services is a central tenet of biological conservation. However, most of our theory and mechanistic understanding is based on diversity found aboveground. Our study sought to better understand the relationship between diversity and belowground function by studying root biomass across a plant diversity gradient. We collected soil cores from 91 plots with between 1 and 12 aboveground tree species in three natural secondary forests to measure fine root (≤ 2 mm in diameter) biomass. Molecular methods were used to identify the tree species of fine roots and to estimate fine root biomass for each species. This study tested whether the spatial root partitioning (species differ by belowground territory) and symmetric growth (the capacity to colonize nutrient-rich hotspots) underpin the relationship between aboveground species richness and fine root biomass. All species preferred to grow in nutrient-rich areas and symmetric growth could explain the positive relationship between aboveground species richness and fine root biomass. However, symmetric growth only appeared in the nutrient-rich upper soil layer (0-10 cm). Structural equation modelling indicated that aboveground species richness and stand density significantly affected fine root biomass. Specifically, fine root biomass depended on the interaction between aboveground species richness and stand density, with fine root biomass increasing with species richness at lower stand density, but not at higher stand density. Overall, evidence for spatial (i.e. vertical) root partitioning was inconsistent; assumingly any roots growing into deeper unexplored soil layers were not sufficient contributors to the positive diversity-function relationship. Alternatively, density-dependent biotic interactions affecting tree recruitment are an important driver affecting productivity in diverse subtropical forests but the usual root distribution patterns in line with the spatial root partitioning hypothesis are unrealistic in contexts where soil nutrients are heterogeneously distributed.

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Linkage between tree species richness and soil microbial diversity improves phosphorus bioavailability

Cited by 77 publications

References 52 publications

Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources

Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources

Testing the two-step model of plant root microbiome acquisition under multiple plant species and soil sources

Positive tree diversity effect on fine root biomass: via density dependence rather than spatial root partitioning

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