Microbial communities along the soil-root continuum are determined by root anatomical boundaries, soil properties, and root exudation

Minimal gene set from Sinorhizobium (Ensifer) meliloti pSymA required for efficient symbiosis with Medicago

(2021) Barney A. Geddes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Influence of Plant Fraction, Soil, and Plant Species on Microbiota: a Multikingdom Comparison

(2020) Andrzej Tkacz et al.   mBio

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

An extended root phenotype: the rhizosphere, its formation and impacts on plant fitness

(2020) Carla de la Fuente Cantó et al.   PLANT JOURNAL

Soil origin and plant genotype structure distinct microbiome compartments in the model legume Medicago truncatula

(2020) Shawn P. Brown et al.   Microbiome

Core Microbiota in Agricultural Soils and Their Potential Associations with Nutrient Cycling

(2019) Shuo Jiao et al.   mSystems

Semi‐polar root exudates in natural grassland communities

(2019) Sophie Dietz et al.   Ecology and Evolution

Unprecedented bacterial community richness in soybean nodules vary with cultivar and water status

(2019) Hazem Sharaf et al.   Microbiome

Maize synthesized benzoxazinoids affect the host associated microbiome

(2019) Enoch Narh Kudjordjie et al.   Microbiome

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

(2019) Evan Bolyen et al.   NATURE BIOTECHNOLOGY

Large‐scale Trichoderma diversity was associated with ecosystem, climate and geographic location

(2019) Jindong Hu et al.   ENVIRONMENTAL MICROBIOLOGY

Soil seed bank and vegetation differences following channel diversion in the Yellow River Delta

(2019) Bo Guan et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Effects of humic substances and indole-3-acetic acid on Arabidopsis sugar and amino acid metabolic profile

(2018) Giovanni Battista Conselvan et al.   PLANT AND SOIL

A global atlas of the dominant bacteria found in soil

(2018) Manuel Delgado-Baquerizo et al.   SCIENCE

Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice

(2018) Joseph A. Edwards et al.   PLOS BIOLOGY

Microbial Interkingdom Interactions in Roots Promote Arabidopsis Survival

(2018) Paloma Durán et al.   CELL

Rhizosheath microbial community assembly of sympatric desert speargrasses is independent of the plant host

(2018) Ramona Marasco et al.   Microbiome

Environment and geographic distance differ in relative importance for determining fungal community of rhizosphere and bulk soil

(2017) Kaoping Zhang et al.   ENVIRONMENTAL MICROBIOLOGY

Carbon input by roots into the soil: Quantification of rhizodeposition from root to ecosystem scale

(2017) Johanna Pausch et al.   GLOBAL CHANGE BIOLOGY

Drought and host selection influence bacterial community dynamics in the grass root microbiome

(2017) Dan Naylor et al.   ISME Journal

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

(2017) Xiao Xiao et al.   MOLECULAR ECOLOGY

Comparative Evaluation of Four Bacteria-Specific Primer Pairs for 16S rRNA Gene Surveys

(2017) Sofie Thijs et al.   Frontiers in Microbiology

Inner Plant Values: Diversity, Colonization and Benefits from Endophytic Bacteria

(2017) Hongwei Liu et al.   Frontiers in Microbiology

Root microbiota dynamics of perennial Arabis alpina are dependent on soil residence time but independent of flowering time

(2016) Nina Dombrowski et al.   ISME Journal

Life in leaf litter: novel insights into community dynamics of bacteria and fungi during litter decomposition

(2016) Witoon Purahong et al.   MOLECULAR ECOLOGY

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Anatomical changes to protect organelle integrity account for tolerance to alkali and salt stresses in Melilotus officinalis

(2016) Yong-mei Zhang et al.   PLANT AND SOIL

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

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

iNEXT: an R package for rarefaction and extrapolation of species diversity (Hill numbers)

(2016) T. C. Hsieh et al.   Methods in Ecology and Evolution

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

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 apoplast as battleground for plant-microbe interactions

(2015) Yu Du et al.   NEW PHYTOLOGIST

Grapevine colonization by endophytic bacteria shifts secondary metabolism and suggests activation of defense pathways

(2015) Sebastiàn Lòpez-Fernàndez et al.   PLANT AND SOIL

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

(2015) S. L. Lebeis et al.   SCIENCE

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

Yellow River Sediment as a Soil Amendment for Amelioration of Saline Land in the Yellow River Delta

(2014) Weibing Mao et al.   LAND DEGRADATION & DEVELOPMENT

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

Rhizosphere microbiome assemblage is affected by plant development

(2013) Jacqueline M Chaparro et al.   ISME Journal

Nontarget effects of foliar fungicide application on the rhizosphere: diversity of nifH gene and nodulation in chickpea field

(2012) C. Yang et al.   JOURNAL OF APPLIED MICROBIOLOGY

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

(2012) Davide Bulgarelli et al.   NATURE

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

The rhizosphere microbiome and plant health

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

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

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

Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria

(2011) R. Mendes et al.   SCIENCE

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Regulation and function of root exudates

(2009) DAYAKAR V. BADRI et al.   PLANT CELL AND ENVIRONMENT

A soil bacterium regulates plant acquisition of iron via deficiency-inducible mechanisms

(2009) Huiming Zhang et al.   PLANT JOURNAL

Plant growth-promoting bacteria in the rhizo- and endosphere of plants: Their role, colonization, mechanisms involved and prospects for utilization

(2009) Stéphane Compant et al.   SOIL BIOLOGY & BIOCHEMISTRY

Diversity ofnifHgene pools in the rhizosphere of two cultivars of sorghum (Sorghum bicolor) treated with contrasting levels of nitrogen fertilizer

(2008) Marcia Reed Rodrigues Coelho et al.   FEMS MICROBIOLOGY LETTERS