Two Poplar-Associated Bacterial Isolates Induce Additive Favorable Responses in a Constructed Plant-Microbiome System

Diversity of Pseudomonas Genomes, Including Populus-Associated Isolates, as Revealed by Comparative Genome Analysis

(2015) Se-Ran Jun et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

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

Involvement of plant stress hormones in Burkholderia phytofirmans-induced shoot and root growth promotion

(2015) Leonid V. Kurepin et al.   PLANT GROWTH REGULATION

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

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

(2015) S. L. Lebeis et al.   SCIENCE

The ecology of the microbiome: Networks, competition, and stability

(2015) K. Z. Coyte et al.   SCIENCE

The Soil Microbiome Influences Grapevine-Associated Microbiota

(2015) Iratxe Zarraonaindia et al.   mBio

Transcriptome Profiling of the Endophyte Burkholderia phytofirmans PsJN Indicates Sensing of the Plant Environment and Drought Stress

(2015) Raheleh Sheibani-Tezerji et al.   mBio

Metabolic functions of Pseudomonas fluorescens strains from Populus deltoides depend on rhizosphere or endosphere isolation compartment

(2015) Collin M. Timm et al.   Frontiers in Microbiology

Legume-rhizobia signal exchange: promiscuity and environmental effects

(2015) Mario A. Lira et al.   Frontiers in Microbiology

Plant growth promotion induced by phosphate solubilizing endophytic Pseudomonas isolates

(2015) Nicholas Oteino et al.   Frontiers in Microbiology

L-Tryptophan-dependent biosynthesis of indole-3-acetic acid (IAA) improves plant growth and colonization of maize by Burkholderia phytofirmans PsJN

(2014) Muhammad Naveed et al.   ANNALS OF MICROBIOLOGY

Evaluation and validation of de novo and hybrid assembly techniques to derive high-quality genome sequences

(2014) Sagar M. Utturkar et al.   BIOINFORMATICS

Microbial genome-enabled insights into plant–microorganism interactions

(2014) David S. Guttman et al.   NATURE REVIEWS GENETICS

Shading decreases plant carbon preferential allocation towards the most beneficial mycorrhizal mutualist

(2014) Chaoyuan Zheng et al.   NEW PHYTOLOGIST

Functional Soil Microbiome: Belowground Solutions to an Aboveground Problem

(2014) V. Lakshmanan et al.   PLANT PHYSIOLOGY

A Synthetic Community Approach Reveals Plant Genotypes Affecting the Phyllosphere Microbiota

(2014) Natacha Bodenhausen et al.   PLoS Genetics

Building the crops of tomorrow: advantages of symbiont-based approaches to improving abiotic stress tolerance

(2014) Devin Coleman-Derr et al.   Frontiers in Microbiology

The potential for give and take in plant–microbiome relationships

(2014) Sarah L. Lebeis   Frontiers in Plant Science

Structure and Functions of the Bacterial Microbiota of Plants

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

Baseline survey of the anatomical microbial ecology of an important food plant: Solanum lycopersicum (tomato)

(2013) Andrea R Ottesen et al.   BMC MICROBIOLOGY

Biological nitrogen fixation and biomass accumulation within poplar clones as a result of inoculations with diazotrophic endophyte consortia

(2013) Jenny L. Knoth et al.   NEW PHYTOLOGIST

A Multifactor Analysis of Fungal and Bacterial Community Structure in the Root Microbiome of Mature Populus deltoides Trees

(2013) Migun Shakya et al.   PLoS One

Moss-cyanobacteria associations as biogenic sources of nitrogen in boreal forest ecosystems

(2013) Kathrin Rousk et al.   Frontiers in Microbiology

Comparative genome analysis of Burkholderia phytofirmans PsJN reveals a wide spectrum of endophytic lifestyles based on interaction strategies with host plants

(2013) Birgit Mitter et al.   Frontiers in Plant Science

Down-regulation of the caffeic acid O-methyltransferase gene in switchgrass reveals a novel monolignol analog

(2012) Timothy J Tschaplinski et al.   Biotechnology for Biofuels

Combined inactivation of the Clostridium cellulolyticum lactate and malate dehydrogenase genes substantially increases ethanol yield from cellulose and switchgrass fermentations

(2012) Yongchao Li et al.   Biotechnology for Biofuels

Twenty-One Genome Sequences from Pseudomonas Species and 19 Genome Sequences from Diverse Bacteria Isolated from the Rhizosphere and Endosphere of Populus deltoides

(2012) S. D. Brown et al.   JOURNAL OF BACTERIOLOGY

Pseudomonas fluorescensInduces Strain-Dependent and Strain-Independent Host Plant Responses in Defense Networks, Primary Metabolism, Photosynthesis, and Fitness

(2012) David J. Weston et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Burkholderia phytofirmansPsJN Acclimates Grapevine to Cold by Modulating Carbohydrate Metabolism

(2012) Olivier Fernandez et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Defining the core Arabidopsis thaliana root microbiome

(2012) Derek S. Lundberg et al.   NATURE

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

A comprehensive comparison of RNA-Seq-based transcriptome analysis from reads to differential gene expression and cross-comparison with microarrays: a case study in Saccharomyces cerevisiae

(2012) Intawat Nookaew et al.   NUCLEIC ACIDS RESEARCH

Lipid Profiling of the Arabidopsis Hypersensitive Response Reveals Specific Lipid Peroxidation and Fragmentation Processes: Biogenesis of Pimelic and Azelaic Acid

(2012) M. Zoeller et al.   PLANT PHYSIOLOGY

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

The Application of Ecological Theory Toward an Understanding of the Human Microbiome

(2012) E. K. Costello et al.   SCIENCE

Endophytic Insect-Parasitic Fungi Translocate Nitrogen Directly from Insects to Plants

(2012) S. W. Behie et al.   SCIENCE

The rhizosphere microbiome and plant health

(2012) Roeland L. Berendsen et al.   TRENDS IN PLANT SCIENCE

Comparative Genomics of Plant-Associated Pseudomonas spp.: Insights into Diversity and Inheritance of Traits Involved in Multitrophic Interactions

(2012) Joyce E. Loper et al.   PLoS Genetics

Distinct Microbial Communities within the Endosphere and Rhizosphere of Populus deltoides Roots across Contrasting Soil Types

(2011) Neil R. Gottel et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Root Nodulation: A Paradigm for How Plant-Microbe Symbiosis Influences Host Developmental Pathways

(2011) Guilhem J. Desbrosses et al.   Cell Host & Microbe

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

(2011) Claudia Knief et al.   ISME Journal

Common Features of Environmental and Potentially Beneficial Plant-Associated Burkholderia

(2011) Zulma Rocío Suárez-Moreno 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

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

(2010) Murray P Cox et al.   BMC BIOINFORMATICS

PhyloChip hybridization uncovered an enormous bacterial diversity in the rhizosphere of different potato cultivars: many common and few cultivar-dependent taxa

(2010) Nicole Weinert et al.   FEMS MICROBIOLOGY ECOLOGY

Organic acid production in vitro and plant growth promotion in maize under controlled environment by phosphate-solubilizing fluorescent Pseudomonas

(2009) Pratibha Vyas et al.   BMC MICROBIOLOGY

A guide to using MapMan to visualize and compare Omics data in plants: a case study in the crop species, Maize

(2009) BJÖRN USADEL et al.   PLANT CELL AND ENVIRONMENT

Homing in on iron homeostasis in plants

(2009) Jeeyon Jeong et al.   TRENDS IN PLANT SCIENCE

Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens

(2009) Mark W Silby et al.   GENOME BIOLOGY

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Selective progressive response of soil microbial community to wild oat roots

(2008) Kristen M DeAngelis et al.   ISME Journal

Properties of bacterial endophytes and their proposed role in plant growth

(2008) Pablo R. Hardoim et al.   TRENDS IN MICROBIOLOGY