Soil Texture, Sampling Depth and Root Hairs Shape the Structure of ACC Deaminase Bacterial Community Composition in Maize Rhizosphere.

Lucie Gebauer,Minh Ganther,Mika T Tarkka,Bunlong Yim,Anna Heintz-Buschart,Kornelia Smalla,Doris Vetterlein,Marie-Lara Bouffaud,François Buscot

doi:10.3389/fmicb.2021.616828

Abstract

Preservation of the phytostimulatory functions of plant growth-promoting bacteria relies on the adaptation of their community to the rhizosphere environment. Here, an amplicon sequencing approach was implemented to specifically target microorganisms with 1-aminocyclopropane-1-carboxylate deaminase activity, carrying the acdS gene. We stated the hypothesis that the relative phylogenetic distribution of acdS carrying microorganisms is affected by the presence or absence of root hairs, soil type, and depth. To this end, a standardized soil column experiment was conducted with maize wild type and root hair defective rth3 mutant in the substrates loam and sand, and harvest was implemented from three depths. Most acdS sequences (99%) were affiliated to Actinobacteria and Proteobacteria, and the strongest influence on the relative abundances of sequences were exerted by the substrate. Variovorax, Acidovorax, and Ralstonia sequences dominated in loam, whereas Streptomyces and Agromyces were more abundant in sand. Soil depth caused strong variations in acdS sequence distribution, with differential levels in the relative abundances of acdS sequences affiliated to Tetrasphaera, Amycolatopsis, and Streptomyces in loam, but Burkholderia, Paraburkholderia, and Variovorax in sand. Maize genotype influenced the distribution of acdS sequences mainly in loam and only in the uppermost depth. Variovorax acdS sequences were more abundant in WT, but Streptomyces, Microbacterium, and Modestobacter in rth3 rhizosphere. Substrate and soil depth were strong and plant genotype a further significant single and interacting drivers of acdS carrying microbial community composition in the rhizosphere of maize. This suggests that maize rhizosphere acdS carrying bacterial community establishes according to the environmental constraints, and that root hairs possess a minor but significant impact on acdS carrying bacterial populations.

Highlights

Maize (Zea mays L.) is one of the most important staple crops worldwide in terms of agronomy and global economic impact (Food and Agriculture Organization of the United Nations, 2019)
Glick (2014) argued that the more precisely the drivers of Plant growth promoting rhizobacteria (PGPR) distribution and activity are researched, the more likely it is that novel means can be developed to support plant growth in the changing environment
Contributing to this aim we investigated acdS carrying microbial community composition in maize rhizosphere in a multifactorial design

Summary

Introduction

Maize (Zea mays L.) is one of the most important staple crops worldwide in terms of agronomy and global economic impact (Food and Agriculture Organization of the United Nations, 2019). In order to support phytostimulatory plant-microbe interactions for sustainable maize production, the first step is to characterize maize rhizosphere communities. Investigations on the bacterial 16S rRNA microbiome indicate that like in other plants, maize rhizosphere bacterial community composition differs from that in bulk soil (Bouffaud et al, 2014). They indicate that field conditions and crop rotation (Benitez et al, 2017), pathogens (Saravanakumar et al, 2017), soil properties and plant age (Bouffaud et al, 2012; Peiffer et al, 2013) interact to drive the maize rhizosphere microbiome composition. Further modifications are caused by maize genotypes (Bouffaud et al, 2014; Walters et al, 2018) and rhizodeposition (Cotton et al, 2019)

Methods

Results

Conclusion