The Influence of Land Use Intensity on the Plant-Associated Microbiome of Dactylis glomerata L.

Jennifer Estendorfer,Matthias C. Rillig,Gisle Vestergaard,Barbara Stempfhuber,Jasmin Joshi,Michael Schloter,Paula Haury,Peter Schröder

doi:10.3389/fpls.2017.00930

Abstract

In this study, we investigated the impact of different land use intensities (LUI) on the root-associated microbiome of Dactylis glomerata (orchardgrass). For this purpose, eight sampling sites with different land use intensity levels but comparable soil properties were selected in the southwest of Germany. Experimental plots covered land use levels from natural grassland up to intensively managed meadows. We used 16S rRNA gene based barcoding to assess the plant-associated community structure in the endosphere, rhizosphere and bulk soil of D. glomerata. Samples were taken at the reproductive stage of the plant in early summer. Our data indicated that roots harbor a distinct bacterial community, which clearly differed from the microbiome of the rhizosphere and bulk soil. Our results revealed Pseudomonadaceae, Enterobacteriaceae and Comamonadaceae as the most abundant endophytes independently of land use intensity. Rhizosphere and bulk soil were dominated also by Proteobacteria, but the most abundant families differed from those obtained from root samples. In the soil, the effect of land use intensity was more pronounced compared to root endophytes leading to a clearly distinct pattern of bacterial communities under different LUI from rhizosphere and bulk soil vs. endophytes. Overall, a change of community structure on the plant–soil interface was observed, as the number of shared OTUs between all three compartments investigated increased with decreasing land use intensity. Thus, our findings suggest a stronger interaction of the plant with its surrounding soil under low land use intensity. Furthermore, the amount and quality of available nitrogen was identified as a major driver for shifts in the microbiome structure in all compartments.

Highlights

Numerous studies have shown that healthy plants can host up to a few thousand different microbial species in their different organs, including roots, stems and leaves (Berendsen et al, 2012; Bulgarelli et al, 2012; Hacquard et al, 2015)
In this study we investigated the impact of different levels of land use intensity in grassland ecosystems on the root-associated microbiome of orchardgrass (Dactylis glomerata L.), a perennial forage grass which occurs under a wide range of land use intensity levels at grassland sides of Central Europe
Water extractable organic carbon values were evenly distributed among different land use intensities (LUI) levels

Summary

Introduction

Numerous studies have shown that healthy plants can host up to a few thousand different microbial species in their different organs, including roots, stems and leaves (Berendsen et al, 2012; Bulgarelli et al, 2012; Hacquard et al, 2015). The importance of environmental factors as drivers for the plant phenotype has been confirmed in many studies, where the same plant genotype developed different phenotypes in response to differing environmental conditions (e.g., Schlichting, 1986; Sultan, 2000; Valladares et al, 2007), which in turn favored the development of distinct microbial communities colonizing plant compartments (Compant et al, 2005; Gnanamanickam, 2006; Ernebjerg and Kishony, 2012; Gaiero et al, 2013; Tardieu, 2013; He et al, 2014). Studies under natural conditions are needed as a step to evaluate the importance of various multifactorial scenarios for the plant phenotype and plant-associated microbiomes

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Conclusion