The Nexus Between Plant and Plant Microbiome: Revelation of the Networking Strategies

Metagenomics methods for the study of plant-associated microbial communities: A review

(2020) Ayomide Emmanuel Fadiji et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Modulation of the Root Microbiome by Plant Molecules: The Basis for Targeted Disease Suppression and Plant Growth Promotion

(2020) Alberto Pascale et al.   Frontiers in Plant Science

Bacterial communities associated with the surface of fresh sweet pepper (Capsicum annuum) and their potential as biocontrol

(2020) Tshifhiwa Paris Mamphogoro et al.   Scientific Reports

Elucidating Mechanisms of Endophytes Used in Plant Protection and Other Bioactivities With Multifunctional Prospects

(2020) Ayomide Emmanuel Fadiji et al.   Frontiers in Bioengineering and Biotechnology

A review on the plant microbiome: Ecology, functions, and emerging trends in microbial application

(2019) Stéphane Compant et al.   Journal of Advanced Research

Nitrogen- and phosphorus-starved Triticum aestivum show distinct belowground microbiome profiles

(2019) Antoine P. Pagé et al.   PLoS One

Microbial network and soil properties are changed in bacterial wilt susceptible soil

(2019) Gaofu Qi et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Isolation and genetic characterization of Erwinia amylovora bacteria from Kyrgyzstan

(2019) Tinatin Doolotkeldieva et al.   EUROPEAN JOURNAL OF PLANT PATHOLOGY

Effects of Phosphate Solubilizing Bacteria on the Growth, Photosynthesis, and Nutrient Uptake of Camellia oleifera Abel.

(2019) Fei Wu et al.   Forests

Soil Photosynthetic Microbial Communities Mediate Aggregate Stability: Influence of Cropping Systems and Herbicide Use in an Agricultural Soil

(2019) Olivier Crouzet et al.   Frontiers in Microbiology

Consortium of Plant Growth-Promoting Rhizobacteria Strains Suppresses Sweet Pepper Disease by Altering the Rhizosphere Microbiota

(2019) Li-Na Zhang et al.   Frontiers in Microbiology

Sediment microbiomes associated with the rhizosphere of emergent macrophytes in a shallow, subtropical lake

(2019) Rui Huang et al.   LIMNOLOGY AND OCEANOGRAPHY

A methodological framework to embrace soil biodiversity

(2019) Stefan Geisen et al.   SOIL BIOLOGY & BIOCHEMISTRY

Interactions between plants and soil shaping the root microbiome under abiotic stress

(2019) Kyle Hartman et al.   BIOCHEMICAL JOURNAL

Bacterial microbiome associated with the rhizosphere and root interior of crops in Saskatchewan, Canada

(2019) Jorge Cordero et al.   CANADIAN JOURNAL OF MICROBIOLOGY

First report of bacterial wilt of tomato caused by Ralstonia pseudosolanacearum (Ralstonia solanacearum phylotype I) in Cambodia

(2019) Taylor L. Klass et al.   PLANT DISEASE

The dialogue between protozoa and bacteria in a microfluidic device

(2019) Anna Gaines et al.   PLoS One

Microbiome Multi-Omics Network Analysis: Statistical Considerations, Limitations, and Opportunities

(2019) Duo Jiang et al.   Frontiers in Genetics

Bacterial and Fungal Endophytes: Tiny Giants with Immense Beneficial Potential for Plant Growth and Sustainable Agricultural Productivity

(2019) Omomowo et al.   Microorganisms

Can dynamic network modelling be used to identify adaptive microbiomes?

(2019) Joshua Garcia et al.   FUNCTIONAL ECOLOGY

Suppression of root-knot disease in Pogostemon cablin caused by Meloidogyne incognita in a rhizobacteria mediated activation of phenylpropanoid pathway

(2018) Bitupon Borah et al.   BIOLOGICAL CONTROL

Cytokinin signaling in plant development

(2018) Joseph J. Kieber et al.   DEVELOPMENT

Plant–Microbe Interaction 2017—The Good, the Bad and the Diverse

(2018) Jan Schirawski et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Transcriptome Analysis of Kiwifruit in Response to Pseudomonas syringae pv. actinidiae Infection

(2018) Tao Wang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

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

Management of Tobacco Mosaic Virus through Natural Metabolites

(2018) Waqar Islam et al.   Records of Natural Products

Greatest soil microbial diversity found in micro-habitats

(2018) Elizabeth M. Bach et al.   SOIL BIOLOGY & BIOCHEMISTRY

Co-occurrence patterns of soybean rhizosphere microbiome at a continental scale

(2018) Baogang Zhang et al.   SOIL BIOLOGY & BIOCHEMISTRY

Feed Your Friends: Do Plant Exudates Shape the Root Microbiome?

(2018) Joelle Sasse et al.   TRENDS IN PLANT SCIENCE

Fungal Endophytes: Beyond Herbivore Management

(2018) Bamisope S. Bamisile et al.   Frontiers in Microbiology

Comparative Metatranscriptomics of Wheat Rhizosphere Microbiomes in Disease Suppressive and Non-suppressive Soils for Rhizoctonia solani AG8

(2018) Helen L. Hayden et al.   Frontiers in Microbiology

Inorganic Nitrogen Application Affects Both Taxonomical and Predicted Functional Structure of Wheat Rhizosphere Bacterial Communities

(2018) Vanessa N. Kavamura et al.   Frontiers in Microbiology

Metagenomic and Metatranscriptomic Analyses of Diverse Watermelon Cultivars Reveal the Role of Fruit Associated Microbiome in Carbohydrate Metabolism and Ripening of Mature Fruits

(2018) Thangasamy Saminathan et al.   Frontiers in Plant Science

Trees, fungi and bacteria: tripartite metatranscriptomics of a root microbiome responding to soil contamination

(2018) E. Gonzalez 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

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

(2018) Maureen Berg et al.   CURRENT BIOLOGY

Microbial Community Composition in Take-All Suppressive Soils

(2018) Paola Durán et al.   Frontiers in Microbiology

The Endophytic Bacterial Microbiota Associated with Sweet Sorghum (Sorghum bicolor) Is Modulated by the Application of Chemical N Fertilizer to the Field

(2018) Cintia Mareque et al.   International Journal of Genomics

The wild side of plant microbiomes

(2018) Juan E. Pérez-Jaramillo et al.   Microbiome

Plant health: feedback effect of root exudates-rhizobiome interactions

(2018) Oluwaseyi Samuel Olanrewaju et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Potentials and pitfalls in the analysis of bipartite networks to understand plant-microbe interactions in changing environments

(2018) Alison E. Bennett et al.   FUNCTIONAL ECOLOGY

Crown gall caused by Agrobacterium tumefaciens species complex: a novel nursery disease of Tectona grandis in Brazil

(2018) Rafaela C. F. Borges et al.   JOURNAL OF PLANT PATHOLOGY

Rhizosphere microbiome structure alters to enable wilt resistance in tomato

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

Combining Different Potato-Associated Pseudomonas Strains for Improved Biocontrol of Phytophthora infestans

(2018) Mout De Vrieze et al.   Frontiers in Microbiology

Leaf Epiphytic Bacteria of Plants Colonizing Mine Residues: Possible Exploitation for Remediation of Air Pollutants

(2018) Ariadna S. Sánchez-López et al.   Frontiers in Microbiology

Analysis of the community composition and bacterial diversity of the rhizosphere microbiome across different plant taxa

(2018) Shaonan Lei et al.   MicrobiologyOpen

Shared and host-specific microbiome diversity and functioning of grapevine and accompanying weed plants

(2017) Abdul Samad et al.   ENVIRONMENTAL MICROBIOLOGY

Plant infection by two different viruses induce contrasting changes of vectors fitness and behavior

(2017) Quentin Chesnais et al.   Insect Science

Transcriptome Analysis of Tomato Leaf Spot Pathogen Fusarium proliferatum: De novo Assembly, Expression Profiling, and Identification of Candidate Effectors

(2017) Meiling Gao et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Identification and Initial Characterization of the Effectors of an Anther Smut Fungus and Potential Host Target Proteins

(2017) Venkata Kuppireddy et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Two cultivated legume plants reveal the enrichment process of the microbiome in the rhizocompartments

(2017) Xiao Xiao et al.   MOLECULAR ECOLOGY

Embracing the unknown: disentangling the complexities of the soil microbiome

(2017) Noah Fierer   NATURE REVIEWS MICROBIOLOGY

First Report of Cucumber mosaic virus Infecting Pimpinella brachycarpa in Korea

(2017) J. Y. Yoon et al.   PLANT DISEASE

First Report of Cephaleuros virescens Causing Algal Leaf Spot of Manilkara zapota in Thailand

(2017) A. Sunpapao et al.   PLANT DISEASE

Live imaging of root–bacteria interactions in a microfluidics setup

(2017) Hassan Massalha 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

Plant cultivars imprint the rhizosphere bacterial community composition and association networks

(2017) Yuji Jiang et al.   SOIL BIOLOGY & BIOCHEMISTRY

Root exudation patterns in a beech forest: Dependence on soil depth, root morphology, and environment

(2017) Timo Tückmantel et al.   SOIL BIOLOGY & BIOCHEMISTRY

Disentangling Interactions in the Microbiome: A Network Perspective

(2017) Mehdi Layeghifard et al.   TRENDS IN MICROBIOLOGY

Defensive Symbionts Mediate Host–Parasite Interactions at Multiple Scales

(2017) Skylar R. Hopkins et al.   TRENDS IN PARASITOLOGY

Let the Core Microbiota Be Functional

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

Mechanisms of action of plant growth promoting bacteria

(2017) Oluwaseyi Samuel Olanrewaju et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Nitrogen fertilizer rate affects root exudation, the rhizosphere microbiome and nitrogen-use-efficiency of maize

(2016) Shusheng Zhu et al.   APPLIED SOIL ECOLOGY

The interconnected rhizosphere: High network complexity dominates rhizosphere assemblages

(2016) Shengjing Shi et al.   ECOLOGY LETTERS

Geographic patterns of co-occurrence network topological features for soil microbiota at continental scale in eastern China

(2016) Bin Ma et al.   ISME Journal

Network modules and hubs in plant-root fungal biomes

(2016) Hirokazu Toju et al.   Journal of the Royal Society Interface

Structural and functional differentiation of the root-associated bacterial microbiomes of perennial ryegrass

(2016) Lin Chen et al.   SOIL BIOLOGY & BIOCHEMISTRY

Network analysis reveals functional redundancy and keystone taxa amongst bacterial and fungal communities during organic matter decomposition in an arable soil

(2016) Samiran Banerjee et al.   SOIL BIOLOGY & BIOCHEMISTRY

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

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

Integrated analysis of root microbiomes of soybean and wheat from agricultural fields

(2016) Nicolás Rascovan et al.   Scientific Reports

Nematodes enhance plant growth and nutrient uptake under C and N-rich conditions

(2016) Mesfin T. Gebremikael et al.   Scientific Reports

Habitat generalists and specialists in microbial communities across a terrestrial-freshwater gradient

(2016) C. Monard et al.   Scientific Reports

Roots Shaping Their Microbiome: Global Hotspots for Microbial Activity

(2015) Barbara Reinhold-Hurek et al.   Annual Review of Phytopathology

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

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

Using plant growth-promoting rhizobacteria (PGPR) to improve plant growth

(2015) A. Grobelak et al.   ECOLOGICAL ENGINEERING

A widespread plant-fungal-bacterial symbiosis promotes plant biodiversity, plant nutrition and seedling recruitment

(2015) Marcel GA van der Heijden et al.   ISME Journal

Metagenomic and network analysis reveal wide distribution and co-occurrence of environmental antibiotic resistance genes

(2015) Bing Li et al.   ISME Journal

Phytohormones enabled endophytic fungal symbiosis improve aluminum phytoextraction in tolerant Solanum lycopersicum: An examples of Penicillium janthinellum LK5 and comparison with exogenous GA3

(2015) Abdul Latif Khan et al.   JOURNAL OF HAZARDOUS MATERIALS

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

The Plant Microbiome at Work

(2015) Klaus Schlaeppi et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Plant vascular development: from early specification to differentiation

(2015) Bert De Rybel et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Disentangling the factors shaping microbiota composition across the plant holobiont

(2015) Stéphane Hacquard   NEW PHYTOLOGIST

Plant-associated microbiomes in arid lands: diversity, ecology and biotechnological potential

(2015) Asma Soussi et al.   PLANT AND SOIL

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

Metabolic dependencies drive species co-occurrence in diverse microbial communities

(2015) Aleksej Zelezniak et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Role of plant growth promoting rhizobacteria in sustainable production of vegetables: Current perspective

(2015) Almas Zaidi et al.   SCIENTIA HORTICULTURAE

Plant genotype-specific archaeal and bacterial endophytes but similar Bacillus antagonists colonize Mediterranean olive trees

(2015) Henry Müller et al.   Frontiers in Microbiology

Burkholderia phytofirmans PsJN reduces impact of freezing temperatures on photosynthesis in Arabidopsis thaliana

(2015) Fan Su et al.   Frontiers in Plant Science

Wild plant species growing closely connected in a subalpine meadow host distinct root-associated bacterial communities

(2015) Kristin Aleklett et al.   PeerJ

Diversity and Plant Growth Promoting Capacity of Endophytic Fungi Associated with Halophytic Plants from the West Coast of Korea

(2015) Irina Khalmuratova et al.   MYCOBIOLOGY

Associations with rhizosphere bacteria can confer an adaptive advantage to plants

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

Epiphytes improve host plant water use by microenvironment modification

(2014) Daniel E. Stanton et al.   FUNCTIONAL ECOLOGY

Exploring interactions of plant microbiomes

(2014) Fernando Dini Andreote et al.   SCIENTIA AGRICOLA

Impact of Endophytic Microorganisms on Plants, Environment and Humans

(2014) Dhanya N. Nair et al.   TheScientificWorldJOURNAL

Tropical Legume Crop Rotation and Nitrogen Fertilizer Effects on Agronomic and Nitrogen Efficiency of Rice

(2014) Motior M. Rahman et al.   TheScientificWorldJOURNAL

Assembly of complex plant–fungus networks

(2014) Hirokazu Toju et al.   Nature Communications

Unraveling the plant microbiome: looking back and future perspectives

(2014) Gabriele Berg et al.   Frontiers in Microbiology

The plant microbiome and its importance for plant and human health

(2014) Gabriele Berg   Frontiers in Microbiology

Demonstrating microbial co-occurrence pattern analyses within and between ecosystems

(2014) Ryan J. Williams et al.   Frontiers in Microbiology

Deciphering microbial interactions and detecting keystone species with co-occurrence networks

(2014) David Berry et al.   Frontiers in Microbiology

Core sediment bacteria drive community response to anthropogenic contamination over multiple environmental gradients

(2013) Melanie Y. Sun et al.   ENVIRONMENTAL MICROBIOLOGY

Endophyte research: going beyond isolation and metabolite documentation

(2013) Trichur S. Suryanarayanan   Fungal Ecology

Rhizosphere microbiome assemblage is affected by plant development

(2013) Jacqueline M Chaparro et al.   ISME Journal

Application of Natural Blends of Phytochemicals Derived from the Root Exudates ofArabidopsisto the Soil Reveal That Phenolic-related Compounds Predominantly Modulate the Soil Microbiome

(2013) Dayakar V. Badri et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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

(2013) Bernard R. Glick   MICROBIOLOGICAL RESEARCH

Top 10 plant-parasitic nematodes in molecular plant pathology

(2013) John T. Jones et al.   MOLECULAR PLANT PATHOLOGY

Effects of different plant root exudates and their organic acid components on chemotaxis, biofilm formation and colonization by beneficial rhizosphere-associated bacterial strains

(2013) Nan Zhang et al.   PLANT AND SOIL

Root Exudation of Phytochemicals in Arabidopsis Follows Specific Patterns That Are Developmentally Programmed and Correlate with Soil Microbial Functions

(2013) Jacqueline M. Chaparro et al.   PLoS One

Symptoms of Fern Distortion Syndrome Resulting from Inoculation with Opportunistic Endophytic Fluorescent Pseudomonas spp.

(2013) Joseph W. Kloepper et al.   PLoS One

PNAS Plus: From the Cover: Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate

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

Rhizosphere: its structure, bacterial diversity and significance

(2013) Pratibha Prashar et al.   REVIEWS IN ENVIRONMENTAL SCIENCE AND BIO-TECHNOLOGY

Fungal networks in yield-invigorating and -debilitating soils induced by prolonged potato monoculture

(2013) Lihua Lu et al.   SOIL BIOLOGY & BIOCHEMISTRY

Biodegradation of Trichloroethylene by an Endophyte of Hybrid Poplar

(2012) Jun Won Kang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Molecular ecological network analyses

(2012) Ye Deng et al.   BMC BIOINFORMATICS

Plant growth promoting potential and soil enzyme production of the most abundantStreptomycesspp. from wheat rhizosphere

(2012) R. Jog et al.   JOURNAL OF APPLIED MICROBIOLOGY

Fungal Diversity and Plant Growth Promotion of Endophytic Fungi from Six Halophytes in Suncheon Bay

(2012) Young-Hyun You   JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY

Top 10 plant pathogenic bacteria in molecular plant pathology

(2012) JOHN MANSFIELD et al.   MOLECULAR PLANT PATHOLOGY

Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota

(2012) Davide Bulgarelli et al.   NATURE

Microbial life in the phyllosphere

(2012) Julia A. Vorholt   NATURE REVIEWS MICROBIOLOGY

Drought-tolerant endophytic actinobacteria promote growth of wheat (Triticum aestivum) under water stress conditions

(2012) Mahesh S. Yandigeri et al.   PLANT GROWTH REGULATION

Microbial Co-occurrence Relationships in the Human Microbiome

(2012) Karoline Faust et al.   PLoS Computational Biology

A Gene Regulatory Network for Root Epidermis Cell Differentiation in Arabidopsis

(2012) Angela Bruex et al.   PLoS Genetics

Co-Occurrence Patterns of Plants and Soil Bacteria in the High-Alpine Subnival Zone Track Environmental Harshness

(2012) Andrew J. King et al.   Frontiers in Microbiology

Isolation and characterization of new plant growth-promoting bacterial endophytes

(2011) Shimaila Rashid et al.   APPLIED SOIL ECOLOGY

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

(2011) Claudia Knief et al.   ISME Journal

Using network analysis to explore co-occurrence patterns in soil microbial communities

(2011) Albert Barberán et al.   ISME Journal

Coherent dynamics and association networks among lake bacterioplankton taxa

(2011) Alexander Eiler et al.   ISME Journal

Microbial Diversity Inside Pumpkins: Microhabitat-Specific Communities Display a High Antagonistic Potential Against Phytopathogens

(2011) Michael Fürnkranz et al.   MICROBIAL ECOLOGY

The ecology of the phyllosphere: geographic and phylogenetic variability in the distribution of bacteria on tree leaves

(2010) Amanda J. Redford et al.   ENVIRONMENTAL MICROBIOLOGY

Are root exudates more important than other sources of rhizodeposits in structuring rhizosphere bacterial communities?

(2010) Paul G. Dennis et al.   FEMS MICROBIOLOGY ECOLOGY

Photoassimilate allocation and dynamics of hotspots in roots visualized by 14C phosphor imaging

(2010) Johanna Pausch et al.   JOURNAL OF PLANT NUTRITION AND SOIL SCIENCE

Soil Microbial Diversity in the Vicinity of a Negev Desert Shrub—Reaumuria negevensis

(2010) Vered Saul-Tcherkas et al.   MICROBIAL ECOLOGY

Functional Molecular Ecological Networks

(2010) J. Zhou et al.   mBio

MECHANISMS AND PRACTICAL CONSIDERATIONS INVOLVED IN PLANT GROWTH PROMOTION BY RHIZOBACTERIA

(2010) O Martínez-Viveros et al.   Journal of Soil Science and Plant Nutrition

Plant-Growth-Promoting Rhizobacteria

(2009) Ben Lugtenberg et al.   Annual Review of Microbiology

Exogenous glucosinolate produced by Arabidopsis thaliana has an impact on microbes in the rhizosphere and plant roots

(2009) Mélanie Bressan et al.   ISME Journal

Short Peptide Induces an "Uncultivable" Microorganism To Grow In Vitro

(2008) D. Nichols et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Selective progressive response of soil microbial community to wild oat roots

(2008) Kristen M DeAngelis et al.   ISME Journal

Plant-driven selection of microbes

(2008) Anton Hartmann et al.   PLANT AND SOIL

Properties of bacterial endophytes and their proposed role in plant growth

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