Fertilization alters protistan consumers and parasites in crop‐associated microbiomes

Fungal community assembly in drought-stressed sorghum shows stochasticity, selection, and universal ecological dynamics

(2020) Cheng Gao et al.   Nature Communications

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

Rhizosphere protists are key determinants of plant health

(2020) Wu Xiong et al.   Microbiome

The global-scale distributions of soil protists and their contributions to belowground systems

(2020) Angela M. Oliverio et al.   Science Advances

Diversity and coexistence are influenced by time‐dependent species interactions in a predator–prey system

(2020) Canan Karakoç et al.   ECOLOGY LETTERS

Harnessing rhizosphere microbiomes for drought-resilient crop production

(2020) Franciska T. de Vries et al.   SCIENCE

Fertilization changes soil microbiome functioning, especially phagotrophic protists

(2020) Zhi-Bo Zhao et al.   SOIL BIOLOGY & BIOCHEMISTRY

The Plant Microbiome: From Ecology to Reductionism and Beyond

(2020) Connor R. Fitzpatrick et al.   Annual Review of Microbiology

Soil bacterial taxonomic diversity is critical to maintaining the plant productivity

(2020) Qing-Lin Chen et al.   ENVIRONMENT INTERNATIONAL

Oxytetracycline and Ciprofloxacin Exposure Altered the Composition of Protistan Consumers in an Agricultural Soil

(2020) Bao-Anh T. Nguyen et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Plant–microbiome interactions: from community assembly to plant health

(2020) Pankaj Trivedi et al.   NATURE REVIEWS MICROBIOLOGY

Linking the Phyllosphere Microbiome to Plant Health

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

Microbial communities in crop phyllosphere and root endosphere are more resistant than soil microbiota to fertilization

(2020) Anqi Sun et al.   SOIL BIOLOGY & BIOCHEMISTRY

Changes in Trophic Groups of Protists With Conversion of Rainforest Into Rubber and Oil Palm Plantations

(2019) Garvin Schulz et al.   Frontiers in Microbiology

Plant Defense by VOC-Induced Microbial Priming

(2019) Hongwei Liu et al.   TRENDS IN PLANT SCIENCE

New frontiers in agriculture productivity: Optimised microbial inoculants and in situ microbiome engineering

(2019) Zhiguang Qiu et al.   BIOTECHNOLOGY ADVANCES

Trophic Regulations of the Soil Microbiome

(2019) Madhav P. Thakur et al.   TRENDS IN MICROBIOLOGY

Plant Symbionts Are Engineers of the Plant-Associated Microbiome

(2019) Stephane Uroz et al.   TRENDS IN PLANT SCIENCE

Functional Traits and Spatio-Temporal Structure of a Major Group of Soil Protists (Rhizaria: Cercozoa) in a Temperate Grassland

(2019) Anna Maria Fiore-Donno et al.   Frontiers in Microbiology

Site‐specific distribution of oak rhizosphere‐associated oomycetes revealed by cytochrome c oxidase subunit II metabarcoding

(2019) Melanie Sapp et al.   Ecology and Evolution

Consistent host and organ occupancy of phyllosphere bacteria in a community of wild herbaceous plant species

(2019) Julien Massoni et al.   ISME Journal

Floral organs act as environmental filters and interact with pollinators to structure the yellow monkeyflower ( Mimulus guttatus ) floral microbiome

(2019) María Rebolleda Gómez et al.   MOLECULAR ECOLOGY

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

(2019) Víctor J. Carrión et al.   SCIENCE

Agricultural management and plant selection interactively affect rhizosphere microbial community structure and nitrogen cycling

(2019) Jennifer E. Schmidt et al.   Microbiome

Aerobic composting reduces antibiotic resistance genes in cattle manure and the resistome dissemination in agricultural soils

(2018) Min Gou et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Fertilization strategy can affect the estimation of soil nitrogen mineralization potential with chemical methods

(2018) Nicolas Wyngaard et al.   PLANT AND SOIL

Microbial Interkingdom Interactions in Roots Promote Arabidopsis Survival

(2018) Paloma Durán et al.   CELL

The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications

(2018) Rolf Henrik Nilsson et al.   NUCLEIC ACIDS RESEARCH

Protists: Puppet Masters of the Rhizosphere Microbiome

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

Protists are an integral part of the Arabidopsis thaliana microbiome

(2017) Melanie Sapp et al.   ENVIRONMENTAL MICROBIOLOGY

Grazing of leaf-associated Cercomonads (Protists: Rhizaria: Cercozoa) structures bacterial community composition and function

(2017) Sebastian Flues et al.   ENVIRONMENTAL MICROBIOLOGY

New barcoded primers for efficient retrieval of cercozoan sequences in high-throughput environmental diversity surveys, with emphasis on worldwide biological soil crusts

(2017) Anna Maria Fiore-Donno et al.   Molecular Ecology Resources

The evolution of the host microbiome as an ecosystem on a leash

(2017) Kevin R. Foster et al.   NATURE

Soil protistology rebooted: 30 fundamental questions to start with

(2017) Stefan Geisen et al.   SOIL BIOLOGY & BIOCHEMISTRY

Long-term effects of imbalanced fertilization on the composition and diversity of soil bacterial community

(2016) Jinu Eo et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

The Plant Microbiota: Systems-Level Insights and Perspectives

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

Changes in activity and structure of the soil microbial community after application of azoxystrobin or pirimicarb and an organic amendment to an agricultural soil

(2016) Alba Álvarez-Martín et al.   APPLIED SOIL ECOLOGY

The prey’s scent – Volatile organic compound mediated interactions between soil bacteria and their protist predators

(2016) Kristin Schulz-Bohm et al.   ISME Journal

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

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

Organic Amendments, Beneficial Microbes, and Soil Microbiota: Toward a Unified Framework for Disease Suppression

(2015) Giuliano Bonanomi et al.   Annual Review of Phytopathology

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

The rice endophyte Harpophora oryzae genome reveals evolution from a pathogen to a mutualistic endophyte

(2014) Xi-Hui Xu et al.   Scientific Reports

21st century agriculture: integration of plant microbiomes for improved crop production and food security

(2014) Angela Sessitsch et al.   Microbial Biotechnology

Structure and Functions of the Bacterial Microbiota of Plants

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

Improved Selection of Internal Transcribed Spacer-Specific Primers Enables Quantitative, Ultra-High-Throughput Profiling of Fungal Communities

(2013) Nicholas A. Bokulich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy

(2012) Laure Guillou et al.   NUCLEIC ACIDS RESEARCH

High-Coverage ITS Primers for the DNA-Based Identification of Ascomycetes and Basidiomycetes in Environmental Samples

(2012) Hirokazu Toju et al.   PLoS One

Learning predator promotes coexistence of prey species in host-parasitoid systems

(2012) Y. Ishii et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predation and resource fluctuations drive eco-evolutionary dynamics of a bacterial community

(2011) Teppo Hiltunen et al.   ACTA OECOLOGICA-INTERNATIONAL JOURNAL OF ECOLOGY

Ecological and evolutive implications of bacterial defences against predators

(2011) Alexandre Jousset   ENVIRONMENTAL MICROBIOLOGY

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

(2011) Albert Barberán et al.   ISME Journal

Closely related protist strains have different grazing impacts on natural bacterial communities

(2010) Edvard Glücksman et al.   ENVIRONMENTAL MICROBIOLOGY

Examining the global distribution of dominant archaeal populations in soil

(2010) Scott T Bates et al.   ISME Journal

Multiple marker parallel tag environmental DNA sequencing reveals a highly complex eukaryotic community in marine anoxic water

(2010) THORSTEN STOECK et al.   MOLECULAR ECOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Soil amoebae rapidly change bacterial community composition in the rhizosphere of Arabidopsis thaliana

(2009) Katja Rosenberg et al.   ISME Journal