Protective role of the Arabidopsis leaf microbiota against a bacterial pathogen

The plant NADPH oxidase RBOHD is required for microbiota homeostasis in leaves

(2021) Sebastian Pfeilmeier et al.   Nature Microbiology

A plant genetic network for preventing dysbiosis in the phyllosphere

(2020) Tao Chen et al.   NATURE

Microbiome-Mediated Stress Resistance in Plants

(2020) Hongwei Liu et al.   TRENDS IN PLANT SCIENCE

Systemic propagation of immunity in plants

(2020) A. Corina Vlot et al.   NEW PHYTOLOGIST

Plant pathogenic Agrobacterium tumefaciens strains have diverse type VI effector-immunity pairs and vary in in planta competitiveness

(2019) Chih-Feng Wu et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Convergent gain and loss of genomic islands drive lifestyle changes in plant-associated Pseudomonas

(2019) Ryan A. Melnyk et al.   ISME Journal

Mechanistic insights into host adaptation, virulence and epidemiology of the phytopathogen Xanthomonas

(2019) Shi-Qi An et al.   FEMS MICROBIOLOGY REVIEWS

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

(2019) Víctor J. Carrión et al.   SCIENCE

In Planta Colonization and Role of T6SS in Two Rice Kosakonia Endophytes

(2019) Susan Mosquito et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R

(2018) Emmanuel Paradis et al.   BIOINFORMATICS

Arabidopsis thaliana and Pseudomonas Pathogens Exhibit Stable Associations over Evolutionary Timescales

(2018) Talia L. Karasov et al.   Cell Host & Microbe

Disease-induced assemblage of a plant-beneficial bacterial consortium

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

In situ relationships between microbiota and potential pathobiota in Arabidopsis thaliana

(2018) Claudia Bartoli et al.   ISME Journal

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

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

Nutrient- and Dose-Dependent Microbiome-Mediated Protection against a Plant Pathogen

(2018) Maureen Berg et al.   CURRENT BIOLOGY

OUP accepted manuscript

(2018)   NUCLEIC ACIDS RESEARCH

Rhizosphere microbiome structure alters to enable wilt resistance in tomato

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

Genomes OnLine database (GOLD) v.7: updates and new features

(2018) Supratim Mukherjee et al.   NUCLEIC ACIDS RESEARCH

Type VI secretion systems in plant-associated bacteria

(2017) Patricia Bernal et al.   ENVIRONMENTAL MICROBIOLOGY

The Pseudomonas putida T6SS is a plant warden against phytopathogens

(2017) Patricia Bernal et al.   ISME Journal

Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

(2017) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic features of bacterial adaptation to plants

(2017) Asaf Levy et al.   NATURE GENETICS

Research priorities for harnessing plant microbiomes in sustainable agriculture

(2017) Posy E. Busby et al.   PLOS BIOLOGY

Evolutionary transitions between beneficial and phytopathogenic Rhodococcus challenge disease management

(2017) Elizabeth A Savory et al.   eLife

The Plant Microbiota: Systems-Level Insights and Perspectives

(2016) Daniel B. Müller et al.   Annual Review of Genetics

Versatile Vectors for Efficient Mutagenesis of Bradyrhizobium diazoefficiens and Other Alphaproteobacteria

(2016) Raphael Ledermann et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Arabidopsis leaf transcriptome reveals distinct but also overlapping responses to colonization by phyllosphere commensals and pathogen infection with impact on plant health

(2016) Christine Vogel et al.   NEW PHYTOLOGIST

The microbiome of the leaf surface of Arabidopsis protects against a fungal pathogen

(2016) Unyarat Ritpitakphong et al.   NEW PHYTOLOGIST

SERKing Coreceptors for Receptors

(2016) Xiyu Ma et al.   TRENDS IN PLANT SCIENCE

Unravelling Linkages between Plant Community Composition and the Pathogen-Suppressive Potential of Soils

(2016) Ellen Latz et al.   Scientific Reports

A Pseudomonas fluorescens type 6 secretion system is related to mucoidy, motility and bacterial competition

(2015) Victorien Decoin et al.   BMC MICROBIOLOGY

Predicting microbial traits with phylogenies

(2015) Marta Goberna et al.   ISME Journal

Against friend and foe: Type 6 effectors in plant-associated bacteria

(2015) Choong-Min Ryu   JOURNAL OF MICROBIOLOGY

Functional overlap of the Arabidopsis leaf and root microbiota

(2015) Yang Bai et al.   NATURE

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

(2015) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

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

Salicylic acid modulates colonization of the root microbiome by specific bacterial taxa

(2015) S. L. Lebeis et al.   SCIENCE

Associations with rhizosphere bacteria can confer an adaptive advantage to plants

(2015) Cara H. Haney et al.   Nature Plants

Induced Systemic Resistance by Beneficial Microbes

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

circlize implements and enhances circular visualization in R

(2014) Zuguang Gu et al.   BIOINFORMATICS

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Agrobacterium tumefaciens Deploys a Superfamily of Type VI Secretion DNase Effectors as Weapons for Interbacterial Competition In Planta

(2014) Lay-Sun Ma et al.   Cell Host & Microbe

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

Spatial distribution analyses of natural phyllosphere-colonizing bacteria onArabidopsis thalianarevealed by fluorescencein situhybridization

(2014) Mitja N. P. Remus-Emsermann et al.   ENVIRONMENTAL MICROBIOLOGY

A Type VI Secretion System Is Involved in Pseudomonas fluorescens Bacterial Competition

(2014) Victorien Decoin et al.   PLoS One

Metagenome-Wide Association of Microbial Determinants of Host Phenotype in Drosophila melanogaster

(2014) J. M. Chaston et al.   mBio

A Synthetic Community Approach Reveals Plant Genotypes Affecting the Phyllosphere Microbiota

(2014) Natacha Bodenhausen et al.   PLoS Genetics

Transport and Metabolism in Legume-Rhizobia Symbioses

(2013) Michael Udvardi et al.   Annual Review of Plant Biology

Structure and Functions of the Bacterial Microbiota of Plants

(2013) Davide Bulgarelli et al.   Annual Review of Plant Biology

Bacteria with ACC deaminase can promote plant growth and help to feed the world

(2013) Bernard R. Glick   MICROBIOLOGICAL RESEARCH

In Planta Biocontrol of Pectobacterium atrosepticum by Rhodococcus erythropolis Involves Silencing of Pathogen Communication by the Rhodococcal Gamma-Lactone Catabolic Pathway

(2013) Corinne Barbey et al.   PLoS One

Systematic Dissection of the Agrobacterium Type VI Secretion System Reveals Machinery and Secreted Components for Subcomplex Formation

(2013) Jer-Sheng Lin et al.   PLoS One

Pivoting the Plant Immune System from Dissection to Deployment

(2013) J. L. Dangl et al.   SCIENCE

Diversity and Natural Functions of Antibiotics Produced by Beneficial and Plant Pathogenic Bacteria

(2012) Jos M. Raaijmakers et al.   Annual Review of Phytopathology

Forward GeneticIn PlantaScreen for Identification of Plant-Protective Traits of Sphingomonas sp. Strain Fr1 against Pseudomonas syringae DC3000

(2012) Christine Vogel et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Protection of Arabidopsis thaliana against Leaf-Pathogenic Pseudomonas syringae by Sphingomonas Strains in a Controlled Model System

(2011) Gerd Innerebner et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

TheArabidopsisLeucine-Rich Repeat Receptor–Like Kinases BAK1/SERK3 and BKK1/SERK4 Are Required for Innate Immunity to Hemibiotrophic and Biotrophic Pathogens

(2011) Milena Roux et al.   PLANT CELL

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

Efficient learning of microbial genotype–phenotype association rules

(2010) Norman J. MacDonald et al.   BIOINFORMATICS

adephylo: new tools for investigating the phylogenetic signal in biological traits

(2010) Thibaut Jombart et al.   BIOINFORMATICS

Plant–microbe interactions promoting plant growth and health: perspectives for controlled use of microorganisms in agriculture

(2009) Gabriele Berg   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources?

(2009) Frédéric Boyer et al.   BMC GENOMICS

Arbuscular mycorrhiza: the mother of plant root endosymbioses

(2008) Martin Parniske   NATURE REVIEWS MICROBIOLOGY

Root-Secreted Malic Acid Recruits Beneficial Soil Bacteria

(2008) T. Rudrappa et al.   PLANT PHYSIOLOGY