Marie Simonin
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View article: Genotype-Specific Root Morphology and Metabolic Traits Shape Bacterial Communities and Tolerance to Fusarium Root Rot in Wheat
Genotype-Specific Root Morphology and Metabolic Traits Shape Bacterial Communities and Tolerance to Fusarium Root Rot in Wheat Open
Plant genotype plays a critical role in shaping root-associated microbial communities and in modulating plant tolerance to soilborne diseases such as Fusarium root rot (FRR). In this study, we investigated how four wheat (Triticum aestivum…
View article: Evaluating the legacy of drought exposure on root and rhizosphere bacterial microbiomes over two plant generations
Evaluating the legacy of drought exposure on root and rhizosphere bacterial microbiomes over two plant generations Open
Drought is a critical risk in developing countries for staple crops like common bean ( Phaseolus vulgaris L.). We conducted an experiment to understand the legacy effects of repeated drought exposure across plant generations on the root an…
View article: Transient microbial architects: tracing the legacy effects of ephemeral taxa during plant microbiome assembly
Transient microbial architects: tracing the legacy effects of ephemeral taxa during plant microbiome assembly Open
Plant microbiota assembly is a dynamic process shaped by a succession of microbial dispersal events, interactions, and environmental fluctuations. While most research emphasizes the roles of resident and core taxa in driving microbiome str…
View article: Elucidating the interplay between metabolites and microorganisms in the spermosphere of common bean ( <i>Phaseolus vulgaris</i> L.) seeds
Elucidating the interplay between metabolites and microorganisms in the spermosphere of common bean ( <i>Phaseolus vulgaris</i> L.) seeds Open
The spermosphere, the dynamic interface surrounding germinating seeds, is shaped by the intricate interplay between seed-exuded natural compounds and seed-associated microbial communities. In this work, we provide the first comprehensive m…
View article: T6SS-mediated competition by <i>Stenotrophomonas rhizophila</i> shapes seed-borne bacterial communities and seed-to-seedling transmission dynamics
T6SS-mediated competition by <i>Stenotrophomonas rhizophila</i> shapes seed-borne bacterial communities and seed-to-seedling transmission dynamics Open
Seeds harbor diverse microbial communities important for plant growth and health. During germination, seed exudation triggers intense microbial competition, shaping the communities transmitted to seedlings. This study explores the role of …
View article: Synthetic Community Inoculation on Seeds Revealed its Transient Colonization Capacity but Legacy Effects on Plant Microbiota Assembly
Synthetic Community Inoculation on Seeds Revealed its Transient Colonization Capacity but Legacy Effects on Plant Microbiota Assembly Open
Seed microbiota have the potential to influence the overall plant microbiota assembly. However, to date, studies have mostly focused on early plant development stages. This study aimed to investigate the influence of seed microbiota on pla…
View article: Unexplored Yeast diversity in Seed Microbiota
Unexplored Yeast diversity in Seed Microbiota Open
Yeasts are known to be fantastic biotechnological resources for medical, food, and industrial applications, but their potential remains untapped in agriculture, especially for plant biostimulation and biocontrol. In particular, yeasts have…
View article: Stable, multigenerational transmission of the bean seed microbiome despite abiotic stress
Stable, multigenerational transmission of the bean seed microbiome despite abiotic stress Open
Microbiota that originate in the seed can have consequences for the education of the plant immune system, competitive exclusion of pathogens from the host tissue, and host access to critical nutrients. Our research objective was to investi…
View article: A cross-systems primer for synthetic microbial communities
A cross-systems primer for synthetic microbial communities Open
View article: T6SS-mediated competition by <i>Stenotrophomonas rhizophila</i> shapes seed-borne bacterial communities and seed-to-seedling transmission dynamics
T6SS-mediated competition by <i>Stenotrophomonas rhizophila</i> shapes seed-borne bacterial communities and seed-to-seedling transmission dynamics Open
Seeds harbor diverse microbial communities important for plant growth and health. During germination, seed exudation triggers intense microbial competition, shaping the communities transmitted to seedlings. This study explores the role of …
View article: Stable, multigenerational transmission of the bean seed microbiome despite abiotic stress
Stable, multigenerational transmission of the bean seed microbiome despite abiotic stress Open
Seed microbiomes initiate plant microbiome assembly, but the consequences of environmental conditions of the parent plant for seed microbiome assembly and transmission are unknown. We tracked endophytic seed bacterial communities of common…
View article: Interactions shape aquatic microbiome responses to Cu and Au nanoparticle treatments in wetland manipulation experiments
Interactions shape aquatic microbiome responses to Cu and Au nanoparticle treatments in wetland manipulation experiments Open
View article: Seedling microbiota engineering using bacterial synthetic community inoculation on seeds
Seedling microbiota engineering using bacterial synthetic community inoculation on seeds Open
Synthetic Communities (SynComs) are being developed and tested to manipulate plant microbiota and improve plant health. To date, only few studies proposed the use of SynCom on seed despite its potential for plant microbiota engineering. We…
View article: The type <scp>VI</scp> secretion system of <i>Stenotrophomonas rhizophila</i> <scp>CFBP13503</scp> limits the transmission of <i>Xanthomonas campestris</i> pv. <i>campestris</i> 8004 from radish seeds to seedlings
The type <span>VI</span> secretion system of <i>Stenotrophomonas rhizophila</i> <span>CFBP13503</span> limits the transmission of <i>Xanthomonas campestris</i> pv. <i>campestris</i> 8004 from radish seeds to seedlings Open
Stenotrophomonas rhizophila CFBP13503 is a seedborne commensal bacterial strain, which is efficiently transmitted to seedlings and can outcompete the phytopathogenic bacterium Xanthomonas campestris pv. campestris (Xcc8004). The type VI se…
View article: Seedling microbiota engineering using bacterial synthetic community inoculation on seeds
Seedling microbiota engineering using bacterial synthetic community inoculation on seeds Open
Synthetic Communities (SynComs) are being developed and tested to manipulate plant microbiota and improve plant health. To date, only few studies proposed the use of SynCom on seed despite its potential for plant microbiota engineering. We…
View article: Transmission of synthetic seed bacterial communities to radish seedlings: impact on microbiota assembly and plant phenotype
Transmission of synthetic seed bacterial communities to radish seedlings: impact on microbiota assembly and plant phenotype Open
Seed-borne microorganisms can be pioneer taxa during germination and seedling emergence. Still, the identity and phenotypic effects of these taxa that constitute a primary inoculum of plant microbiota is mostly unknown. Here, we studied th…
View article: Seasonal Differences and Grazing Pressure Alter the Fate of Gold Nanoparticles in a Microcosm Experiment
Seasonal Differences and Grazing Pressure Alter the Fate of Gold Nanoparticles in a Microcosm Experiment Open
Gold nanoparticles (AuNPs) are used as models to track and predict NP fates and effects in ecosystems. Previous work found that aquatic macrophytes and their associated biofilm primarily drove the fate of AuNPs within aquatic ecosystems an…
View article: The Type VI secretion system<i>of Stenotrophomonas rhizophila</i>CFBP13503 limits the transmission of<i>Xanthomonas campestris</i>pv<i>. campestris</i>8004 from radish seeds to seedlings
The Type VI secretion system<i>of Stenotrophomonas rhizophila</i>CFBP13503 limits the transmission of<i>Xanthomonas campestris</i>pv<i>. campestris</i>8004 from radish seeds to seedlings Open
Stenotrophomonas rhizophila CFBP13503 is a seed-borne commensal bacterial strain, which is efficiently transmitted to seedlings and can outcompete the phytopathogenic bacteria Xanthomonas campestris pv. campestris (Xcc8004). The type VI Se…
View article: Mean species responses predict effects of environmental change on coexistence
Mean species responses predict effects of environmental change on coexistence Open
Environmental change research is plagued by the curse of dimensionality: the number of communities at risk and the number of environmental drivers are both large. This raises the pressing question if a general understanding of ecological e…
View article: Pilotage du microbiote des graines pour améliorer la santé des plantes
Pilotage du microbiote des graines pour améliorer la santé des plantes Open
Après une thèse au laboratoire d’Écologie Microbienne de Lyon (Université Claude Bernard Lyon 1), puis un post-doctorat de 3 ans à Duke University (NC, USA), suivi d’un post-doctorat de 9 mois à IPME (IRD, Montpellier), j’ai intégré en oct…
View article: Density declines, richness increases, and composition shifts in stream macroinvertebrates
Density declines, richness increases, and composition shifts in stream macroinvertebrates Open
Documenting trends of stream macroinvertebrate biodiversity is challenging because biomonitoring often has limited spatial, temporal, and taxonomic scopes. We analyzed biodiversity and composition of assemblages of >500 genera, spanning 27…
View article: Transmission of synthetic seed bacterial communities to radish seedlings: impact on microbiota assembly and plant phenotype
Transmission of synthetic seed bacterial communities to radish seedlings: impact on microbiota assembly and plant phenotype Open
Seed-borne microorganisms can be pioneer taxa during germination and seedling emergence. Still, the identity and phenotypic effects of these taxa that constitute a primary inoculum of plant microbiota is mostly unknown. Here, we studied th…
View article: At the interfaces of the hydrologic sciences: Connecting water, elements, ecosystems, and people through the major contributions of Dr. Emily Bernhardt
At the interfaces of the hydrologic sciences: Connecting water, elements, ecosystems, and people through the major contributions of Dr. Emily Bernhardt Open
View article: Single Seed Microbiota: Assembly and Transmission from Parent Plant to Seedling
Single Seed Microbiota: Assembly and Transmission from Parent Plant to Seedling Open
Seeds are key components of plant fitness and are central to the sustainability of the agri-food system. Both the seed quality for food consumption and the seed vigor in agricultural settings can be influenced by the seed microbiota.
View article: The impact of the rice production system (irrigated <i>vs</i> lowland) on root-associated microbiome from farmer's fields in western Burkina Faso
The impact of the rice production system (irrigated <i>vs</i> lowland) on root-associated microbiome from farmer's fields in western Burkina Faso Open
Due to their potential applications for food safety, there is a growing interest in rice root-associated microbial communities, but some systems remain understudied. Here, we compare the assemblage of root-associated microbiota in rice sam…
View article: Protist Predation Influences the Temperature Response of Bacterial Communities
Protist Predation Influences the Temperature Response of Bacterial Communities Open
Temperature strongly influences microbial community structure and function, in turn contributing to global carbon cycling that can fuel further warming. Recent studies suggest that biotic interactions among microbes may play an important r…
View article: The impact of the rice production system (irrigated vs lowland) on root-associated microbiome from farmer’s fields in western Burkina Faso
The impact of the rice production system (irrigated vs lowland) on root-associated microbiome from farmer’s fields in western Burkina Faso Open
As a consequence of its potential applications for food safety, there is a growing interest in rice root-associated microbial communities, but some systems remain understudied. Here, we compare the assemblage of root-associated microbiota …
View article: Enrichment in biodiversity and maturation of the soil food web under conservation agriculture is associated with suppression of rice-parasitic nematodes
Enrichment in biodiversity and maturation of the soil food web under conservation agriculture is associated with suppression of rice-parasitic nematodes Open
View article: Author Correction: Cultivated and wild pearl millet display contrasting patterns of abundance and co-occurrence in their root mycobiome
Author Correction: Cultivated and wild pearl millet display contrasting patterns of abundance and co-occurrence in their root mycobiome Open
International audience
View article: Scientists at work: We use environmental DNA to monitor how human activities affect life in rivers and streams
Scientists at work: We use environmental DNA to monitor how human activities affect life in rivers and streams Open