Microbiome Modulation—Toward a Better Understanding of Plant Microbiome Response to Microbial Inoculants

Experimental evidence of microbial inheritance in plants and transmission routes from seed to phyllosphere and root

(2021) Ahmed Abdelfattah et al.   ENVIRONMENTAL MICROBIOLOGY

High-throughput cultivation and identification of bacteria from the plant root microbiota

(2021) Jingying Zhang et al.   Nature Protocols

Salmonella persistence in soil depends on reciprocal interactions with indigenous microorganisms

(2020) Jasper Schierstaedt et al.   ENVIRONMENTAL MICROBIOLOGY

Biocontrol of Bacterial Wilt Disease Through Complex Interaction Between Tomato Plant, Antagonists, the Indigenous Rhizosphere Microbiota, and Ralstonia solanacearum

(2020) Tarek R. Elsayed et al.   Frontiers in Microbiology

Insights into the community structure and lifestyle of the fungal root endophytes of tomato by combining amplicon sequencing and isolation approaches with phytohormone profiling

(2020) Andrea Manzotti et al.   FEMS MICROBIOLOGY ECOLOGY

Plant–microbiome interactions: from community assembly to plant health

(2020) Pankaj Trivedi et al.   NATURE REVIEWS MICROBIOLOGY

Towards Nutrition-Sensitive Agriculture: An evaluation of biocontrol effects, nutritional value, and ecological impact of bacterial inoculants

(2020) Alessandro Passera et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Bifidobacterium bifidum Suppresses Gut Inflammation Caused by Repeated Antibiotic Disturbance Without Recovering Gut Microbiome Diversity in Mice

(2020) Miriam N. Ojima et al.   Frontiers in Microbiology

Siderophore-Mediated Interactions Determine the Disease Suppressiveness of Microbial Consortia

(2020) Shaohua Gu et al.   mSystems

Human Skin Bacterial Community Response to Probiotic (Lactobacillus reuteri DSM 17938) Introduction

(2020) Marie Frerejacques et al.   Microorganisms

Exploring microbial determinants of apple replant disease (ARD): A microhabitat approach under split-root design

(2020) Alicia Balbín-Suárez et al.   FEMS MICROBIOLOGY ECOLOGY

Achieving similar root microbiota composition in neighbouring plants through airborne signalling

(2020) Hyun Gi Kong et al.   ISME Journal

Disruption of Firmicutes and Actinobacteria abundance in tomato rhizosphere causes the incidence of bacterial wilt disease

(2020) Sang-Moo Lee et al.   ISME Journal

The Soil-Borne Identity and Microbiome-Assisted Agriculture: Looking Back to the Future

(2020) Peter A.H.M. Bakker et al.   Molecular Plant

Deliberate introduction of invisible invaders: A critical appraisal of the impact of microbial inoculants on soil microbial communities

(2020) Panji Cahya Mawarda et al.   SOIL BIOLOGY & BIOCHEMISTRY

Understanding the Impact of Cultivar, Seed Origin, and Substrate on Bacterial Diversity of the Sugar Beet Rhizosphere and Suppression of Soil-Borne Pathogens

(2020) Adrian Wolfgang et al.   Frontiers in Plant Science

Bio-organic fertilizers stimulate indigenous soil Pseudomonas populations to enhance plant disease suppression

(2020) Chengyuan Tao et al.   Microbiome

Microbiome Management by Biological and Chemical Treatments in Maize Is Linked to Plant Health

(2020) Peter Kusstatscher et al.   Microorganisms

Effect of long‐term organic and mineral fertilization strategies on rhizosphere microbiota assemblage and performance of lettuce

(2019) Soumitra Paul Chowdhury et al.   ENVIRONMENTAL MICROBIOLOGY

Biocontrol of Root Diseases and Growth Promotion of the Tuberous Plant Aconitum carmichaelii Induced by Actinomycetes Are Related to Shifts in the Rhizosphere Microbiota

(2019) Yulong Li et al.   MICROBIAL ECOLOGY

A novel group of Rhizobium tumorigenes-like agrobacteria associated with crown gall disease of rhododendron and blueberry

(2019) Nemanja Kuzmanović et al.   PHYTOPATHOLOGY

The tea leaf microbiome shows specific responses to chemical pesticides and biocontrol applications

(2019) Tomislav Cernava et al.   SCIENCE OF THE TOTAL ENVIRONMENT

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

Seeds of native alpine plants host unique microbial communities embedded in cross-kingdom networks

(2019) Birgit Wassermann et al.   Microbiome

Generating amplicon reads for microbial community assessment with next‐generation sequencing

(2019) M. Gołębiewski et al.   JOURNAL OF APPLIED MICROBIOLOGY

Resistance Breeding of Common Bean Shapes the Physiology of the Rhizosphere Microbiome

(2019) Lucas William Mendes et al.   Frontiers in Microbiology

Mode of Action of Microbial Biological Control Agents Against Plant Diseases: Relevance Beyond Efficacy

(2019) Jürgen Köhl et al.   Frontiers in Plant Science

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

(2019) Víctor J. Carrión et al.   SCIENCE

Saving seed microbiomes

(2018) Gabriele Berg et al.   ISME Journal

Phyllosphere microbiology: at the interface between microbial individuals and the plant host

(2018) Mitja N. P. Remus-Emsermann et al.   NEW PHYTOLOGIST

Rhizosphere Competence and Biocontrol Effect of Pseudomonas sp. RU47 Independent from Plant Species and Soil Type at the Field Scale

(2018) Susanne Schreiter et al.   Frontiers in Microbiology

Traits-Based Integration of Multi-Species Inoculants Facilitates Shifts of Indigenous Soil Bacterial Community

(2018) Jingjing Wang et al.   Frontiers in Microbiology

The wild side of plant microbiomes

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

Impact of Bactrocera oleae on the fungal microbiota of ripe olive drupes

(2018) Ahmed Abdelfattah et al.   PLoS One

The Transferable Resistome of Produce

(2018) Khald Blau et al.   mBio

Arbuscular mycorrhizal fungi inoculation mediated changes in rhizosphere bacterial community structure while promoting revegetation in a semiarid ecosystem

(2017) G. Rodríguez-Caballero et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Effects of Soil Pre-Treatment with Basamid® Granules, Brassica juncea, Raphanus sativus, and Tagetes patula on Bacterial and Fungal Communities at Two Apple Replant Disease Sites

(2017) Bunlong Yim et al.   Frontiers in Microbiology

Probiotic strain Stenotrophomonas acidaminiphila BJ1 degrades and reduces chlorothalonil toxicity to soil enzymes, microbial communities and plant roots

(2017) Qingming Zhang et al.   AMB Express

Stress and stability: applying the Anna Karenina principle to animal microbiomes

(2017) Jesse R. Zaneveld et al.   Nature Microbiology

Rhizoctonia solani and Bacterial Inoculants Stimulate Root Exudation of Antifungal Compounds in Lettuce in a Soil-Type Specific Manner

(2017) Saskia Windisch et al.   Agronomy-Basel

Effect of Trichoderma harzianum on maize rhizosphere microbiome and biocontrol of Fusarium Stalk rot

(2017) Kandasamy Saravanakumar et al.   Scientific Reports

The Cucurbita pepo seed microbiome: genotype-specific composition and implications for breeding

(2016) Eveline Adam et al.   PLANT AND SOIL

A perspective on inter-kingdom signaling in plant–beneficial microbe interactions

(2016) Amanda Rosier et al.   PLANT MOLECULAR BIOLOGY

Signaling in the Rhizosphere

(2016) Vittorio Venturi et al.   TRENDS IN PLANT SCIENCE

Controlling the Microbiome: Microhabitat Adjustments for Successful Biocontrol Strategies in Soil and Human Gut

(2016) Eveline Adam et al.   Frontiers in Microbiology

Microbial Small Talk: Volatiles in Fungal–Bacterial Interactions

(2016) Ruth Schmidt et al.   Frontiers in Microbiology

Differences in stability of seed-associated microbial assemblages in response to invasion by phytopathogenic microorganisms

(2016) Samir Rezki et al.   PeerJ

A multi-omic future for microbiome studies

(2016) Janet K. Jansson et al.   Nature Microbiology

Single-cell genomics based on Raman sorting reveals novel carotenoid-containing bacteria in the Red Sea

(2016) Yizhi Song et al.   Microbial Biotechnology

Biological control in the microbiome era: Challenges and opportunities

(2015) Sébastien Massart et al.   BIOLOGICAL CONTROL

Rhizosphere microbial community manipulated by 2 years of consecutive biofertilizer application associated with banana Fusarium wilt disease suppression

(2015) Zongzhuan Shen et al.   BIOLOGY AND FERTILITY OF SOILS

Cross-kingdom similarities in microbiome functions

(2015) Rodrigo Mendes et al.   ISME Journal

The plant microbiome explored: implications for experimental botany

(2015) Gabriele Berg et al.   JOURNAL OF EXPERIMENTAL BOTANY

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 importance of the microbiome of the plant holobiont

(2015) Philippe Vandenkoornhuyse et al.   NEW PHYTOLOGIST

Back to Basics – The Influence of DNA Extraction and Primer Choice on Phylogenetic Analysis of Activated Sludge Communities

(2015) Mads Albertsen et al.   PLoS One

Cross-Kingdom Similarities in Microbiome Ecology and Biocontrol of Pathogens

(2015) Gabriele Berg et al.   Frontiers in Microbiology

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

Soil type-dependent effects of a potential biocontrol inoculant on indigenous bacterial communities in the rhizosphere of field-grown lettuce

(2014) Susanne Schreiter et al.   FEMS MICROBIOLOGY ECOLOGY

TheSphagnummicrobiome supports bog ecosystem functioning under extreme conditions

(2014) Anastasia Bragina et al.   MOLECULAR ECOLOGY

Soil Type Dependent Rhizosphere Competence and Biocontrol of Two Bacterial Inoculant Strains and Their Effects on the Rhizosphere Microbial Community of Field-Grown Lettuce

(2014) Susanne Schreiter et al.   PLoS One

Shifting the paradigm from pathogens to pathobiome: new concepts in the light of meta-omics

(2014) Muriel Vayssier-Taussat et al.   Frontiers in Cellular and Infection Microbiology

Root exudation and root development of lettuce (Lactuca sativa L. cv. Tizian) as affected by different soils

(2014) G. Neumann et al.   Frontiers in Microbiology

Effects of bacterial inoculants on the indigenous microbiome and secondary metabolites of chamomile plants

(2014) Ruth Schmidt et al.   Frontiers in Microbiology

The impact of the pathogen Rhizoctonia solani and its beneficial counterpart Bacillus amyloliquefaciens on the indigenous lettuce microbiome

(2014) Armin Erlacher et al.   Frontiers in Microbiology

Effect of the strain Bacillus amyloliquefaciens FZB42 on the microbial community in the rhizosphere of lettuce under field conditions analyzed by whole metagenome sequencing

(2014) Magdalena Kröber et al.   Frontiers in Microbiology

The Effect of Biocontrol Bacteria on Rhizosphere Bacterial Communities Analyzed by Plating and PCR-DGGE

(2013) Fang Chen et al.   CURRENT MICROBIOLOGY

Impact of biocontrol agents Pseudomonas fluorescens 2P24 and CPF10 on the bacterial community in the cucumber rhizosphere

(2013) Danhan Yin et al.   EUROPEAN JOURNAL OF SOIL BIOLOGY

Going back to the roots: the microbial ecology of the rhizosphere

(2013) Laurent Philippot et al.   NATURE REVIEWS MICROBIOLOGY

Effects of Bacillus amyloliquefaciens FZB42 on Lettuce Growth and Health under Pathogen Pressure and Its Impact on the Rhizosphere Bacterial Community

(2013) Soumitra Paul Chowdhury et al.   PLoS One

Plant growth-promoting rhizobacteria suppressive to Phytophthora blight affect microbial activities and communities in the rhizosphere of pepper (Capsicum annuum L.) in the field

(2012) Mee Kyung Sang et al.   APPLIED SOIL ECOLOGY

Stenotrophomonas rhizophila DSM14405T promotes plant growth probably by altering fungal communities in the rhizosphere

(2012) Christoph Stephan Schmidt et al.   BIOLOGY AND FERTILITY OF SOILS

Microbial life in the phyllosphere

(2012) Julia A. Vorholt   NATURE REVIEWS MICROBIOLOGY

Biocontrol of Rhizoctonia solani: complex interaction of biocontrol strains, pathogen and indigenous microbial community in the rhizosphere of lettuce shown by molecular methods

(2012) Rita Grosch et al.   PLANT AND SOIL

Microbial diversity determines the invasion of soil by a bacterial pathogen

(2012) J. D. van Elsas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Effect of bacterial inoculation, plant genotype and developmental stage on root-associated and endophytic bacterial communities in potato (Solanum tuberosum)

(2010) Fernando Dini Andreote et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

The use of attenuated isolates of Pepino mosaic virus for cross-protection

(2010) Martijn F. Schenk et al.   EUROPEAN JOURNAL OF PLANT PATHOLOGY

Monitoring the plant epiphyte Methylobacterium extorquens DSM 21961 by real-time PCR and its influence on the strawberry flavor

(2010) Markus Verginer et al.   FEMS MICROBIOLOGY ECOLOGY

Plant-Growth-Promoting Rhizobacteria

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

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

(2009) Gabriele Berg   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

In vitro antagonists of Rhizoctonia solani tested on lettuce: rhizosphere competence, biocontrol efficiency and rhizosphere microbial community response

(2009) Modupe F. Adesina et al.   FEMS MICROBIOLOGY ECOLOGY

Plant species and soil type cooperatively shape the structure and function of microbial communities in the rhizosphere

(2009) Gabriele Berg et al.   FEMS MICROBIOLOGY ECOLOGY

Effect of bacterial antagonists on lettuce: active biocontrol of Rhizoctonia solani and negligible, short-term effects on nontarget microorganisms

(2008) Katja Scherwinski et al.   FEMS MICROBIOLOGY ECOLOGY