Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence

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 earl...
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Autor*in:	Gloria Torres-Cortés [verfasserIn] Sophie Bonneau [verfasserIn] Olivier Bouchez [verfasserIn] Clémence Genthon [verfasserIn] Martial Briand [verfasserIn] Marie-Agnès Jacques [verfasserIn] Matthieu Barret [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2018

Schlagwörter:	seed microbiome copiotrophy seed germination metagenomics plant microbial communities

Übergeordnetes Werk:	In: Frontiers in Plant Science - Frontiers Media S.A., 2011, 9(2018)
Übergeordnetes Werk:	volume:9 ; year:2018

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.3389/fpls.2018.00902

Katalog-ID:	DOAJ073128740

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520			\|a 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 changes of the composition of microbial communities by potentially selecting microbial groups with functional traits linked to copiotrophy. The data presented here represents the first attempts to empirically assess changes in the microbial community during plant emergence and moves us toward a more holistic understanding of the plant microbiome.
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language	English
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topic_facet	seed microbiome copiotrophy seed germination metagenomics plant microbial communities Plant culture
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container_title	Frontiers in Plant Science
authorswithroles_txt_mv	Gloria Torres-Cortés @@aut@@ Sophie Bonneau @@aut@@ Olivier Bouchez @@aut@@ Clémence Genthon @@aut@@ Martial Briand @@aut@@ Marie-Agnès Jacques @@aut@@ Matthieu Barret @@aut@@
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callnumber-first	S - Agriculture
author	Gloria Torres-Cortés
spellingShingle	Gloria Torres-Cortés misc SB1-1110 misc seed microbiome misc copiotrophy misc seed germination misc metagenomics misc plant microbial communities misc Plant culture Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence
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topic_title	SB1-1110 Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence seed microbiome copiotrophy seed germination metagenomics plant microbial communities
topic	misc SB1-1110 misc seed microbiome misc copiotrophy misc seed germination misc metagenomics misc plant microbial communities misc Plant culture
topic_unstemmed	misc SB1-1110 misc seed microbiome misc copiotrophy misc seed germination misc metagenomics misc plant microbial communities misc Plant culture
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title	Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence
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title_full	Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence
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title_sort	functional microbial features driving community assembly during seed germination and emergence
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title_auth	Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence
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 changes of the composition of microbial communities by potentially selecting microbial groups with functional traits linked to copiotrophy. The data presented here represents the first attempts to empirically assess changes in the microbial community during plant emergence and moves us toward a more holistic understanding of the plant microbiome.
abstractGer	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 changes of the composition of microbial communities by potentially selecting microbial groups with functional traits linked to copiotrophy. The data presented here represents the first attempts to empirically assess changes in the microbial community during plant emergence and moves us toward a more holistic understanding of the plant microbiome.
abstract_unstemmed	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 changes of the composition of microbial communities by potentially selecting microbial groups with functional traits linked to copiotrophy. The data presented here represents the first attempts to empirically assess changes in the microbial community during plant emergence and moves us toward a more holistic understanding of the plant microbiome.
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title_short	Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence
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