Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence

Frontiers in Plant Science
Gloria Torres-CortésMatthieu Barret

Abstract

Microbial interactions occurring on and around seeds are especially important for plant fitness since seed-borne microorganisms are the initial source of inoculum for the plant microbiota. In this study, we analyze structural and functional changes occurring within the plant microbiota at these early stages of the plant cycle, namely germination and emergence. To this purpose, we performed shotgun DNA sequencing of microbial assemblages associated to seeds, germinating seeds and seedlings of two plant species: bean and radish. We observed an enrichment of Enterobacteriales and Pseudomonadales during emergence and a set of functional traits linked to copiotrophy that could be responsible for this selection as a result of an increase of nutrient availability after germination. Representative bacterial isolates of taxa that are selected in seedlings showed indeed faster bacterial growth rate in comparison to seed-associated bacteria isolates. Finally, binning of metagenomics contigs results in the reconstruction of population genomes of the major bacterial taxa associated to the samples. Together, our results demonstrate that, although seed microbiota varied across plant species, nutrient availability during germination elicits ch...Continue Reading

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Citations

Oct 22, 2019·Molecular Plant-microbe Interactions : MPMI·Davide GernaIlse Kranner
Mar 25, 2020·Microbial Biotechnology·Youming ShenHaifei Li
Aug 25, 2020·FEMS Microbiology Ecology·Pierre HohmannAngela Sessitsch
Feb 29, 2020·Scientific Reports·Alberto PradoGloria Torres-Cortes
Aug 14, 2020·Nature Reviews. Microbiology·Pankaj TrivediBrajesh K Singh
Oct 6, 2020·Frontiers in Microbiology·Mengying WangRalph A Dean
Sep 24, 2020·FEMS Microbiology Ecology·Guillaume ChesneauMatthieu Barret
Feb 20, 2020·Computational and Structural Biotechnology Journal·Xiaoyulong ChenTomislav Cernava
Dec 21, 2020·The New Phytologist·Tania FortCorinne Vacher
Jun 9, 2021·MSystems·Aude RochefortAlain Sarniguet
Dec 21, 2021·Frontiers in Microbiology·Ankush ChandelTimothy Sawbridge

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Methods Mentioned

BETA
phylogenetic profile
PCR

Software Mentioned

GitHub
BLAST
R package DESeq
UD
FragGeneScan
Metabat
BowTie2
R package mmgenome
CLARK
DeSeq2

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