Drought-resistant trait of different crop genotypes determines assembly patterns of soil and phyllosphere microbial communities

Abstract

Crop microbiomes are widely recognized to play a role in crop stress resistance, but the ecological processes that shape crop microbiomes under water stress are unclear. Therefore, we investigated the bacterial communities of two oat ( Avena sativa ) and two wheat ( Triticum aestivum ) genotypes under different water stress conditions. Our results show that the microbial assemblage was determined by the crop compartment niche. Host selection pressure on the bacterial community increased progressively from soil to epiphyte to endophyte pathways, leading to a decrease in bacterial community diversity and network complexity. Source tracing shows that soil is the primary source of crop microbial communities and that bulk soil is the main potential source of crop microbiota. It filters gradually through the different compartment niches of the crop. We found that the phyla Actinobacteria, Proteobacteria, Gemmatimonadota, and Myxococcota were significantly enriched in bacterial communities associated with crop-resistance enzyme activity. Crop genotype influenced the composition of the rhizosphere soil microbial community, and the composition of the phylloplane microbial community was affected by water stress. IMPORTANCE In this paper, we investigated the assembly of the plant microbiome in response to water stress. We found that the determinant of microbiome assembly under water stress was the host type and that microbial communities were progressively filtered and enriched as they moved from soil to epiphyte to endophyte communities, with the main potential source being bulk soil. We also screened for bacterial communities that were significantly associated with crop enzyme activity. Our research provides insights into the manipulation of microbes in response to crop resistance to water stress.

Severe and mild drought cause distinct phylogenetically linked shifts in the blue grama (Bouteloua gracilis) rhizobiome

“…Likewise, the Firmicutes, Gemmatimonadota, and Bdellovibrionota were found to have negative response ratios only in the severe drought-ambient comparison. While the Gemmatimonadota have been associated with drought-resistance in some studies (Guo et al, 2023;Wang et al, 2022) there is evidence that members of this phylum are sensitive to dry-wet cycling (Qi et al, 2022) which the droughted samples experienced in this study. Although the Actinobacteriota did not have a significant phylum-wide response ratio in the severe drought-ambient comparison, we did detect positive response ratios in the Rubrobacteraceae, Gaiellaceae, and IMCC26256 (order Acidimicrobiia) families within the Actinobacteriota as in the mild drought-ambient comparison.…”

Unraveling the Spatio-Temporal Dynamics of Soil and Root-Associated Microbiome in Texas Olive Orchards: A Comprehensive Analysis

“…Synthesis of antimicrobial lipopeptide biosurfactants enabled this genus to be approved as a plant disease biocontrol agent [66][67][68]. The presence of other abundant phyla across both niches in all locations, such as Acidobacteriota, Bacterioidota, Myxococota, Gemmatimonadota, and Patescibacteria promote plant growth, protect against abiotic and biotic stresses, decompose soil organic matter, degrade plant-derived polymers, and involved in nutrient cycling [69][70][71][72][73][74]. No sequence reads from the kingdom Archaea were found in our investigation's root endosphere, as observed in the other studies [20].…”