Role of metabolism, resistance, and/or antagonism as drivers of endomicrobiomes assemblage in Origanum heracleoticum L.

The understanding of selective forces driving the compartmentalization of microbiota in plants remains limited. In this study, we performed a phenotypic characterization of bacterial endophytes isolated from the medicinal plant Origanum heracleoticum, together with the determination of the antibiotic resistance profiles and the antagonistic interactions of communities within and across different plant organs. Results revealed organ-related differences in the metabolic capabilities of bacteria, with those associated with stems displaying the highest metabolic activity for carbon sources. Contrarily, the patterns of antibiotic resistance appeared closely aligned with the taxonomical classification of the endophytes. The presence of antagonistic interactions, likely spurred by resource limitations, favor bacteria exhibiting greater metabolic plasticity. In conclusion, this research advances our comprehension of the intricate dynamics between plants and their associated microbiota, indicating that its composition is mainly influenced by forces contributing to the selection of distinct functions and phenotypic traits. The relationships existing within the plant holobiont in Origanum heracleoticum are mainly driven by forces contributing to the selection of distinct functions and phenotypic traits, among which antagonism, antibiotic resistance and metabolism.

• Publication year

  2025

• Venue

  Communications Biology

• Publication date

  2025-02-03

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1038/s42003-025-07527-9PMID 39900981PMCID 11790966
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Role of metabolism, resistance, and/or antagonism as drivers of endomicrobiomes assemblage in Origanum heracleoticum L.

  2025cited by this paper
• Regional variations and plant compartments shape the community structures of the endophytic microbiome and secondary metabolites of Astragalus mongholicus

  2023cited by this paper
• Plants as the Extended Phenotype of Endophytes—The Actual Source of Bioactive Compounds

  2023cited by this paper
• Genomic, Molecular, and Phenotypic Characterization of Arthrobacter sp. OVS8, an Endophytic Bacterium Isolated from and Contributing to the Bioactive Compound Content of the Essential Oil of the Medicinal Plant Origanum vulgare L.

  2023cited by this paper
• Exploring the nexus between the composition of essential oil and the bacterial phytobiome associated with different compartments of the medicinal plants Origanum vulgare ssp. vulgare, O. vulgare ssp. hirtum, and O. heracleoticum

  2023cited by this paper
• Seasonal activities of the phyllosphere microbiome of perennial crops

  2022cited by this paper
• Changes of Endophytic Bacterial Community in Mature Leaves of Prunus laurocerasus L. during the Seasonal Transition from Winter Dormancy to Vegetative Growth

  2022cited by this paper
• Plant probiotics - Endophytes pivotal to plant health.

  2022cited by this paper
• An Ecological Insight into the Multifaceted World of Plant-Endophyte Association

  2021influential reference
• Inoculation with Rhizobacteria Enhanced Tolerance of Tomato (Solanum lycopersicum L.) Plants in Response to Cadmium Stress

  2021cited by this paper
• Insights into the Endophytic Bacterial Microbiome of Crocus sativus: Functional Characterization Leads to Potential Agents that Enhance the Plant Growth, Productivity, and Key Metabolite Content

  2021cited by this paper
• Assessment of Biolog EcoplateTM method for functional metabolic diversity of aerotolerant pig fecal microbiota

  2021cited by this paper
• Compartment Niche Shapes the Assembly and Network of Cannabis sativa-Associated Microbiome

  2021cited by this paper
• Anatomical and biochemical studies of Spartium junceum infected by Xylella fastidiosa subsp. multiplex ST 87

  2021cited by this paper
• Plant–microbiome interactions: from community assembly to plant health

  2020cited by this paper
• Bacterial Endophytes: Diversity, Functional Importance, and Potential for Manipulation

  2020cited by this paper
• The Central Role of Interbacterial Antagonism in Bacterial Life.

  2020cited by this paper
• The variability of bacterial communities in both the endosphere and ectosphere of different niches in Chinese chives (Allium tuberosum)

  2020cited by this paper
• Compartmentalization drives the evolution of symbiotic cooperation

  2020cited by this paper
• Adaptive matching between phyllosphere bacteria and their tree hosts in a neotropical forest

  2020cited by this paper
• Plant microbiome–an account of the factors that shape community composition and diversity

  2020cited by this paper
• The plant endosphere world - bacterial life within plants.

  2020cited by this paper
• Assessment of Phenotype Microarray plates for rapid and high-throughput analysis of collateral sensitivity networks

  2019cited by this paper
• A Bacterial Endophyte from Apoplast Fluids Protects Canola Plants from Different Phytopathogens via Antibiosis and Induction of Host Resistance.

  2019cited by this paper
• Enterobacteriaceae dominate the core microbiome and contribute to the resistome of arugula (Eruca sativa Mill.)

  2019influential reference
• Fluctuation of Essential Oil Constituents in Origanum syriacum subsp. sinaicum in Response to Plant Growth Promoting Bacteria

  2019cited by this paper
• The influence of Echinacea purpurea leaf microbiota on chicoric acid level

  2019cited by this paper
• Phenolic compounds, antioxidant capacity and antimutagenic activity in different growth stages of in vitro raised plants of Origanum vulgare L.

  2019cited by this paper
• Microbial interactions within the plant holobiont

  2018cited by this paper
• The contribution of plant microbiota to economy growth

  2018cited by this paper
• Antagonism and antibiotic resistance drive a species-specific plant microbiota differentiation in Echinacea spp.

  2018cited by this paper
• Core Microbiome of Medicinal Plant Salvia miltiorrhiza Seed: A Rich Reservoir of Beneficial Microbes for Secondary Metabolism?

  2018cited by this paper
• The Populus holobiont: dissecting the effects of plant niches and genotype on the microbiome

  2018cited by this paper
• Poplar phyllosphere harbors disparate isoprene-degrading bacteria

  2018cited by this paper
• Plant Microbiome: Composition and Functions in Plant Compartments

  2017cited by this paper
• Ecology of cold environments: new insights of bacterial metabolic adaptation through an integrated genomic-phenomic approach

  2017cited by this paper
• Is the plant-associated microbiota of Thymus spp. adapted to plant essential oil?

  2017cited by this paper
• Bacterial Endophyte Colonization and Distribution within Plants

  2017cited by this paper
• Using phenotype microarrays in the assessment of the antibiotic susceptibility profile of bacteria isolated from wastewater in on-site treatment facilities

  2017cited by this paper
• Plant-endophytes interaction influences the secondary metabolism in Echinacea purpurea (L.) Moench: an in vitro model

  2017cited by this paper
• Communication in the Phytobiome.

  2017cited by this paper
• Culturable endophytic bacteria from the salt marsh plant Halimione portulacoides: phylogenetic diversity, functional characterization, and influence of metal(loid) contamination

  2016cited by this paper
• Antagonistic interactions between endophytic cultivable bacterial communities isolated from the medicinal plant Echinacea purpurea.

  2016cited by this paper
• Dynamics of non-structural carbohydrates in terrestrial plants: a global synthesis

  2016cited by this paper
• Stem and leaf anatomy of three taxa in Lamiaceae

  2015cited by this paper
• Microbial interference ameliorates essential oil yield and diminishes root-knot infestation in sweet basil under field conditions

  2015cited by this paper
• Endophytic and rhizospheric bacterial communities isolated from the medicinal plants Echinacea purpurea and Echinacea angustifolia

  2015cited by this paper
• The Soil Microbiome Influences Grapevine-Associated Microbiota

  2015cited by this paper
• Metabolic footprint of epiphytic bacteria on Arabidopsis thaliana leaves

  2015cited by this paper
• Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species

  2015cited by this paper
• Effects of growth stage and fulvic acid on the diversity and dynamics of endophytic bacterial community in Stevia rebaudiana Bertoni leaves

  2015cited by this paper
• Spatial structuring of bacterial communities within individual Ginkgo biloba trees.

  2015cited by this paper
• Phenotype MicroArrays as a complementary tool to next generation sequencing for characterization of tree endophytes

  2015cited by this paper
• Antibiotic resistance differentiates Echinacea purpurea endophytic bacterial communities with respect to plant organs.

  2014cited by this paper
• Linking Bacterial Endophytic Communities to Essential Oils: Clues from Lavandula angustifolia Mill

  2014cited by this paper
• Taxonomical and functional microbial community selection in soybean rhizosphere

  2014influential reference
• Structure and functions of the bacterial microbiota of plants.

  2013cited by this paper
• Volatile Organic Compound Mediated Interactions at the Plant-Microbe Interface

  2013cited by this paper
• Phloem transport: a review of mechanisms and controls.

  2013cited by this paper
• DuctApe: a suite for the analysis and correlation of genomic and OmniLog™ Phenotype Microarray data.

  2013cited by this paper
• UV irradiation of natural organic matter (NOM): impact on organic carbon and bacteria

  2012influential reference
• FactoMineR: An R Package for Multivariate Analysis

  2008cited by this paper
• Role of microorganisms in the evolution of animals and plants: the hologenome theory of evolution.

  2008cited by this paper
• Endophytic Colonization of Vitis vinifera L. by Plant Growth-Promoting Bacterium Burkholderia sp. Strain PsJN

  2005cited by this paper
• Fluctuation of endophytic bacteria and phytoplasmosis in elm trees.

  2003cited by this paper
• Fluctuation of bacteria isolated from elm tissues during different seasons and from different plant organs.

  2003cited by this paper
• Antimicrobial properties of phenolic compounds from berries

  2001cited by this paper
• Inaugural Article: Appetite of an epiphyte: Quantitative monitoring of bacterial sugar consumption in the phyllosphere

  2001cited by this paper
• Ultraviolet Radiation (UVR) Sensitivity Analysis and UVR Survival Strategies of a Bacterial Community from the Phyllosphere of Field-Grown Peanut (Arachis hypogeae L.)

  1999cited by this paper
• Infection and Colonization of Sugar Cane and Other Graminaceous Plants by Endophytic Diazotrophs

  1998cited by this paper
• Fastidious xylem-limited bacterial plant pathogens.

  1996cited by this paper
• THE TRANSPORT AND FUNCTION OF SILICON IN PLANTS

  1983cited by this paper
• A taxonomic revision of the Genus Origanum (Labiatae)

  1980cited by this paper

• Role of metabolism, resistance, and/or antagonism as drivers of endomicrobiomes assemblage in Origanum heracleoticum L.

  2025cites this paper
• Integrated microbiome and metabolome approaches reveal the regulatory mechanism of pumpkin pollination.

  2025cites this paper
• Comparative analysis of the microbiota of Vaccinium myrtillus and Vaccinium uliginosum in the Central Italian Apennines

  2025cites this paper
• A review of the mechanism, diagnosis, and treatment of Naegleria fowleri infection

  2025cites this paper
• Feasibility of NMR-based metabolomics for characterizing non-volatile chemical diversity in lavender

  2025cites this paper