| The plant microbiome confers host health advantages,including promoting plant growth,nutrient uptake,tolerance to stress,and resistance to pathogens.Plant genes can also influence plant health by interfering with microbial interaction.How to systematically and scientifically study the genetic mechanism of plant microbiome interaction is still difficult.In this study,the interaction behavior network model was used to quantitatively describe the mutualism,antagonism,aggression and altruism among plant microorganisms,and the corresponding co-occurrence networks were constructed to identify hub taxa in the plant microbial community.Network mapping was used to analyze the association between the six network properties of microbial co-occurrence networks and plant genotypes,and the SNP interaction network was constructed on the basis of significant SNPs by Bayesian network to identify hub genes affecting microbial interactions.The main contents and results are as follows:(1)In this study,we reanalyzed the fungal and bacterial OTU data from 179 Arabidopsis thaliana root and 198 A.thaliana leaf,microbial co-occurrence networks in OTU level were constructed to describe microbial interaction behaviors.(2)Microbial co-occurrence network analysis includes inter-kingdom interactions and hub taxa screening.We found some microbes that were regarded as “bridges” between bacterial and fungal communities.These microbes included fungal OTUs belonging to classes Leotiomycetes,Dothideomycetes and Sordariomycetes and bacterial OTUs Actinobacteria,Alphaproteobacteria and Betaproteobacteria.Then,59 and 160 hub taxa were identified respectively in root and leaf microbial cooccurrence networks,the results show that microbes belonging to bacterial Proteobacteria and fungal Ascomycota were dominant microbes.The hub taxa maybe play a crucial role in enhancing the bioavailability of nutrients and so on.(3)In association analysis between root/leaf microbial co-occurrence networks and A.thaliana genotypes,1142 and 2638 significant SNPs were identified,respectively.We identified 91 and 313 hub genes affecting microbial interaction by constructing SNP interaction networks in A.thaliana root and leaf,respectively.These hub genes involved in A.thaliana response to biotic and abiotic stress including PEPR2 and PXMT1,which are involved in resistance to pathogen invasion,Hrd1 A,which is involved in heat stress response,RPS4,which encoded disease resistance protein,Ph R1,which is involved in phosphate starvation response,PRK1 and CRK10,which are involved in plant immune response.In this study,network mapping was used to explore the genetic mechanism of A.thaliana microbiome interaction,and some hub genes affecting A.thaliana microbiome interaction were identified.This method provides scientific guidance for studying the plant-microbiome interactions. |
