Genome-resolved metatranscriptomics reveals conserved root colonization determinants in a synthetic microbiota.

ABSTRACT: The identification of processes activated by specific microbes during microbiota colonization of plant roots has been hampered by technical constraints in metatranscriptomics. These include lack of reference genomes, high representation of host or microbial rRNA sequences in datasets, or difficulty to experimentally validate gene functions. Here, we recolonized germ-free Arabidopsis thaliana with a synthetic, yet representative root microbiota comprising 106 genome-sequenced bacterial and fungal isolates. We used multi-kingdom rRNA depletion, deep RNA-sequencing and read mapping against reference microbial genomes to analyse the in planta metatranscriptome of abundant colonizers. We identified over 3,000 microbial genes that were differentially regulated at the soil-root interface. Transla

SUBMITTER: Vannier N 

PROVIDER: S-EPMC10719396 | biostudies-literature | 2023 Dec

REPOSITORIES: biostudies-literature