Plant–microbiome interactions: from community assembly to plant health

Rhizosphere microbiome mediates systemic root metabolite exudation by root-to-root signaling

(2020) Elisa Korenblum et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Characterizing both bacteria and fungi improves understanding of the Arabidopsis root microbiome

(2019) Joy Bergelson et al.   Scientific Reports

Soil microbes alter plant fitness under competition and drought

(2019) Connor R. Fitzpatrick et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots

(2019) Samiran Banerjee et al.   ISME Journal

Ecology and Evolution of Plant Microbiomes

(2019) Viviane Cordovez et al.   Annual Review of Microbiology

NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice

(2019) Jingying Zhang et al.   NATURE BIOTECHNOLOGY

A specialized metabolic network selectively modulates Arabidopsis root microbiota

(2019) Ancheng C. Huang et al.   SCIENCE

Inheritance of seed and rhizosphere microbial communities through plant–soil feedback and soil memory

(2019) Hyun Gi Kong et al.   Environmental Microbiology Reports

Maize synthesized benzoxazinoids affect the host associated microbiome

(2019) Enoch Narh Kudjordjie et al.   Microbiome

Novel insights into plant-associated archaea and their functioning in arugula (Eruca sativa Mill.)

(2019) Julian Taffner et al.   Journal of Advanced Research

Plant-derived coumarins shape the composition of an Arabidopsis synthetic root microbiome

(2019) Mathias J. E. E. E. Voges et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Root-associated microorganisms reprogram plant life history along the growth–stress resistance tradeoff

(2019) Mohammadhossein Ravanbakhsh et al.   ISME Journal

Initial soil microbiome composition and functioning predetermine future plant health

(2019) Zhong Wei et al.   Science Advances

Synthetic microbiota reveal priority effects and keystone strains in the Arabidopsis phyllosphere

(2019) Charlotte I. Carlström et al.   Nature Ecology & Evolution

Global imprint of mycorrhizal fungi on whole-plant nutrient economics

(2019) Colin Averill et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pathogen-induced activation of disease-suppressive functions in the endophytic root microbiome

(2019) Víctor J. Carrión et al.   SCIENCE

Successive passaging of a plant-associated microbiome reveals robust habitat and host genotype-dependent selection

(2019) Norma M. Morella et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Modular Traits of the Rhizobiales Root Microbiota and Their Evolutionary Relationship with Symbiotic Rhizobia

(2018) Ruben Garrido-Oter et al.   Cell Host & Microbe

Chemical signaling involved in plant–microbe interactions

(2018) Fernanda Oliveira Chagas et al.   CHEMICAL SOCIETY REVIEWS

Field study reveals core plant microbiota and relative importance of their drivers

(2018) Kelly Hamonts et al.   ENVIRONMENTAL MICROBIOLOGY

Impact of spatial organization on a novel auxotrophic interaction among soil microbes

(2018) Xue Jiang et al.   ISME Journal

Disease-induced assemblage of a plant-beneficial bacterial consortium

(2018) Roeland L. Berendsen et al.   ISME Journal

Involvement of Burkholderiaceae and sulfurous volatiles in disease-suppressive soils

(2018) Víctor J. Carrión et al.   ISME Journal

Revitalization of plant growth promoting rhizobacteria for sustainable development in agriculture

(2018) Sushanto Gouda et al.   MICROBIOLOGICAL RESEARCH

The impact of bacteriophages on phyllosphere bacterial abundance and composition

(2018) Norma M. Morella et al.   MOLECULAR ECOLOGY

Native soils with their microbiotas elicit a state of alert in tomato plants

(2018) Matteo Chialva et al.   NEW PHYTOLOGIST

Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria

(2018) Ling Xu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assembly and ecological function of the root microbiome across angiosperm plant species

(2018) Connor R. Fitzpatrick et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MYB72-dependent coumarin exudation shapes root microbiome assembly to promote plant health

(2018) Ioannis A. Stringlis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Archaea Are Interactive Components of Complex Microbiomes

(2018) Christine Moissl-Eichinger et al.   TRENDS IN MICROBIOLOGY

The ‘Neglected’ Soil Virome – Potential Role and Impact

(2018) Akbar Adjie Pratama et al.   TRENDS IN MICROBIOLOGY

Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice

(2018) Joseph A. Edwards et al.   PLOS BIOLOGY

Crop rotational diversity increases disease suppressive capacity of soil microbiomes

(2018) Ariane L. Peralta et al.   Ecosphere

Drought Stress and Root-Associated Bacterial Communities

(2018) Dan Naylor et al.   Frontiers in Plant Science

Functional Microbial Features Driving Community Assembly During Seed Germination and Emergence

(2018) Gloria Torres-Cortés et al.   Frontiers in Plant Science

Microbial modulation of plant ethylene signaling: ecological and evolutionary consequences

(2018) Mohammadhossein Ravanbakhsh et al.   Microbiome

The Populus holobiont: dissecting the effects of plant niches and genotype on the microbiome

(2018) M. A. Cregger et al.   Microbiome

Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly

(2018) Kateryna Zhalnina et al.   Nature Microbiology

Bipartite interactions, antibiotic production and biosynthetic potential of the Arabidopsis leaf microbiome

(2018) Eric J. N. Helfrich et al.   Nature Microbiology

What Is the Role of Archaea in Plants? New Insights from the Vegetation of Alpine Bogs

(2018) Julian Taffner et al.   mSphere

Bacterial symbionts use a type VI secretion system to eliminate competitors in their natural host

(2018) Lauren Speare et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Characterization of soil nematode communities in three cropping systems through morphological and DNA metabarcoding approaches

(2018) Amy M. Treonis et al.   Scientific Reports

Root exudates drive the soil-borne legacy of aboveground pathogen infection

(2018) Jun Yuan et al.   Microbiome

Microbial Interkingdom Interactions in Roots Promote Arabidopsis Survival

(2018) Paloma Durán et al.   CELL

Rhizosphere microbiome structure alters to enable wilt resistance in tomato

(2018) Min-Jung Kwak et al.   NATURE BIOTECHNOLOGY

Endophyte traits relevant to stress tolerance, resource use and habitat of origin predict effects on host plants

(2018) Hannah Giauque et al.   NEW PHYTOLOGIST

Origin and evolution of the plant immune system

(2018) Guan-Zhu Han   NEW PHYTOLOGIST

Protists: Puppet Masters of the Rhizosphere Microbiome

(2018) Zhilei Gao et al.   TRENDS IN PLANT SCIENCE

Plant Growth-Promoting Rhizobacteria: Context, Mechanisms of Action, and Roadmap to Commercialization of Biostimulants for Sustainable Agriculture

(2018) Rachel Backer et al.   Frontiers in Plant Science

Soil Viruses Are Underexplored Players in Ecosystem Carbon Processing

(2018) Gareth Trubl et al.   mSystems

Exploration of the Biosynthetic Potential of the Populus Microbiome

(2018) Patricia M. Blair et al.   mSystems

Evaluating the core microbiota in complex communities: A systematic investigation

(2017) Carmen Astudillo-García et al.   ENVIRONMENTAL MICROBIOLOGY

Protists are an integral part of the Arabidopsis thaliana microbiome

(2017) Melanie Sapp et al.   ENVIRONMENTAL MICROBIOLOGY

Soil aggregation and associated microbial communities modify the impact of agricultural management on carbon content

(2017) Pankaj Trivedi et al.   ENVIRONMENTAL MICROBIOLOGY

Origin and Evolution of the Kiwifruit Canker Pandemic

(2017) Honour C. McCann et al.   Genome Biology and Evolution

Influence of resistance breeding in common bean on rhizosphere microbiome composition and function

(2017) Lucas William Mendes et al.   ISME Journal

Bacterial Microbiome and Nematode Occurrence in Different Potato Agricultural Soils

(2017) Juan D. Castillo et al.   MICROBIAL ECOLOGY

Root microbiota drive direct integration of phosphate stress and immunity

(2017) Gabriel Castrillo et al.   NATURE

Genomic features of bacterial adaptation to plants

(2017) Asaf Levy et al.   NATURE GENETICS

Airborne signals from Trichoderma fungi stimulate iron uptake responses in roots resulting in priming of jasmonic acid-dependent defences in shoots of Arabidopsis thaliana and Solanum lycopersicum

(2017) Ainhoa Martínez-Medina et al.   PLANT CELL AND ENVIRONMENT

Root-associated fungal microbiota of nonmycorrhizalArabis alpinaand its contribution to plant phosphorus nutrition

(2017) Juliana Almario et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tree genetics defines fungal partner communities that may confer drought tolerance

(2017) Catherine A. Gehring et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Simplified and representative bacterial community of maize roots

(2017) Ben Niu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Keystone microbial taxa regulate the invasion of a fungal pathogen in agro-ecosystems

(2017) P. Trivedi et al.   SOIL BIOLOGY & BIOCHEMISTRY

Let the Core Microbiota Be Functional

(2017) Philippe Lemanceau et al.   TRENDS IN PLANT SCIENCE

Microbial Partnerships of Pathogenic Oomycetes

(2017) Marie Larousse et al.   PLoS Pathogens

Microbiomes associated with infective stages of root-knot and lesion nematodes in soil

(2017) Ahmed Elhady et al.   PLoS One

Host genotype and age shape the leaf and root microbiomes of a wild perennial plant

(2016) Maggie R. Wagner et al.   Nature Communications

Microbial Hub Taxa Link Host and Abiotic Factors to Plant Microbiome Variation

(2016) Matthew T. Agler et al.   PLOS BIOLOGY

The Cacti Microbiome: Interplay between Habitat-Filtering and Host-Specificity

(2016) Citlali Fonseca-García et al.   Frontiers in Microbiology

Root-hair endophyte stacking in finger millet creates a physicochemical barrier to trap the fungal pathogen Fusarium graminearum

(2016) Walaa K. Mousa et al.   Nature Microbiology

Structure and Function of the Bacterial Root Microbiota in Wild and Domesticated Barley

(2015) Davide Bulgarelli et al.   Cell Host & Microbe

Non-random species loss in bacterial communities reduces antifungal volatile production

(2015) W. H. Gera Hol et al.   ECOLOGY

Microbial and biochemical basis of a Fusarium wilt-suppressive soil

(2015) Jae-Yul Cha et al.   ISME Journal

The Hidden World within Plants: Ecological and Evolutionary Considerations for Defining Functioning of Microbial Endophytes

(2015) Pablo R. Hardoim et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Functional overlap of the Arabidopsis leaf and root microbiota

(2015) Yang Bai et al.   NATURE

The importance of the microbiome of the plant holobiont

(2015) Philippe Vandenkoornhuyse et al.   NEW PHYTOLOGIST

Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species

(2015) Devin Coleman-Derr et al.   NEW PHYTOLOGIST

Structure, variation, and assembly of the root-associated microbiomes of rice

(2015) Joseph Edwards et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Native root-associated bacteria rescue a plant from a sudden-wilt disease that emerged during continuous cropping

(2015) Rakesh Santhanam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Soil Microbiome Influences Grapevine-Associated Microbiota

(2015) Iratxe Zarraonaindia et al.   mBio

Editorial: Plant responses to bacterial quorum sensing molecules

(2015) Anton Hartmann et al.   Frontiers in Plant Science

Induced Systemic Resistance by Beneficial Microbes

(2014) Corné M.J. Pieterse et al.   Annual Review of Phytopathology

Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative

(2014) Maggie R. Wagner et al.   ECOLOGY LETTERS

Type VI secretion system effectors: poisons with a purpose

(2014) Alistair B. Russell et al.   NATURE REVIEWS MICROBIOLOGY

Fungal Community Structure in Disease Suppressive Soils Assessed by 28S LSU Gene Sequencing

(2014) C. Ryan Penton et al.   PLoS One

Ecological Succession and Stochastic Variation in the Assembly of Arabidopsis thaliana Phyllosphere Communities

(2014) L. Maignien et al.   mBio

Niche and host-associated functional signatures of the root surface microbiome

(2014) Maya Ofek-Lalzar et al.   Nature Communications

Diversity and heritability of the maize rhizosphere microbiome under field conditions

(2013) J. A. Peiffer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbial modulators of soil carbon storage: integrating genomic and metabolic knowledge for global prediction

(2013) Pankaj Trivedi et al.   TRENDS IN MICROBIOLOGY

Bacterial Quorum Sensing: Its Role in Virulence and Possibilities for Its Control

(2013) S. T. Rutherford et al.   Cold Spring Harbor Perspectives in Medicine

Pythium oligandrum: an example of opportunistic success

(2012) N. Benhamou et al.   MICROBIOLOGY-SGM

Defining the core Arabidopsis thaliana root microbiome

(2012) Derek S. Lundberg et al.   NATURE

Microbial life in the phyllosphere

(2012) Julia A. Vorholt   NATURE REVIEWS MICROBIOLOGY

Identification of innate immunity elicitors using molecular signatures of natural selection

(2012) H. C. McCann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid responses of soil microorganisms improve plant fitness in novel environments

(2012) J. A. Lau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metaproteogenomic analysis of microbial communities in the phyllosphere and rhizosphere of rice

(2011) Claudia Knief et al.   ISME Journal

Isolation and Characterization of Beneficial Bacteria Associated with Citrus Roots in Florida

(2011) Pankaj Trivedi et al.   MICROBIAL ECOLOGY

Functional Characteristics of an Endophyte Community Colonizing Rice Roots as Revealed by Metagenomic Analysis

(2011) A. Sessitsch et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Soil Microorganisms Mediating Phosphorus Availability Update on Microbial Phosphorus

(2011) A. E. Richardson et al.   PLANT PHYSIOLOGY

Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria

(2011) R. Mendes et al.   SCIENCE

NB-LRR proteins: pairs, pieces, perception, partners, and pathways

(2010) Timothy K Eitas et al.   CURRENT OPINION IN PLANT BIOLOGY

Community proteogenomics reveals insights into the physiology of phyllosphere bacteria

(2009) N. Delmotte et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA