Influence of resistance breeding in common bean on rhizosphere microbiome composition and function

Inducing the rhizosphere microbiome by biofertilizer application to suppress banana Fusarium wilt disease

(2017) Lin Fu et al.   SOIL BIOLOGY & BIOCHEMISTRY

Microbiome Networks: A Systems Framework for Identifying Candidate Microbial Assemblages for Disease Management

(2016) R. Poudel et al.   PHYTOPATHOLOGY

Lignin engineering in field-grown poplar trees affects the endosphere bacterial microbiome

(2016) Bram Beckers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Soil immune responses

(2016) J. M. Raaijmakers et al.   SCIENCE

Declined soil suppressiveness to Fusarium oxysporum by rhizosphere microflora of cotton in soil sickness

(2015) Xiaogang Li et al.   BIOLOGY AND FERTILITY OF SOILS

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

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

Impacts of bulk soil microbial community structure on rhizosphere microbiomes of Zea mays

(2015) Matthew G. Bakker et al.   PLANT AND SOIL

Impact of plant domestication on rhizosphere microbiome assembly and functions

(2015) Juan E. Pérez-Jaramillo et al.   PLANT MOLECULAR BIOLOGY

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

(2015) S. L. Lebeis et al.   SCIENCE

Microbial Invasions: The Process, Patterns, and Mechanisms

(2015) Cyrus Alexander Mallon et al.   TRENDS IN MICROBIOLOGY

Trophic network architecture of root-associated bacterial communities determines pathogen invasion and plant health

(2015) Zhong Wei et al.   Nature Communications

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

Taxonomical and functional microbial community selection in soybean rhizosphere

(2014) Lucas W Mendes et al.   ISME Journal

Assessment of Bacterial bph Gene in Amazonian Dark Earth and Their Adjacent Soils

(2014) Maria Julia de Lima Brossi et al.   PLoS One

Consequences of plant invasions on compartmentalization and species' roles in plant-pollinator networks

(2014) M. Albrecht et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

IAC-Alvorada and IAC-Diplomata: new common bean cultivars

(2014) S.A.M. Carbonell et al.   Crop Breeding and Applied Biotechnology

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

(2013) Laurent Philippot et al.   NATURE REVIEWS MICROBIOLOGY

Ribosomal Database Project: data and tools for high throughput rRNA analysis

(2013) James R. Cole et al.   NUCLEIC ACIDS RESEARCH

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

Plant diversity improves protection against soil-borne pathogens by fostering antagonistic bacterial communities

(2012) Ellen Latz et al.   JOURNAL OF ECOLOGY

Defining the core Arabidopsis thaliana root microbiome

(2012) Derek S. Lundberg et al.   NATURE

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

(2012) Davide Bulgarelli et al.   NATURE

Microbial interactions: from networks to models

(2012) Karoline Faust et al.   NATURE REVIEWS MICROBIOLOGY

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

Harnessing the rhizosphere microbiome through plant breeding and agricultural management

(2012) Matthew G. Bakker 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

Inferring Correlation Networks from Genomic Survey Data

(2012) Jonathan Friedman et al.   PLoS Computational Biology

The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome

(2012) Daniel McDonald et al.   GigaScience

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Genetic analysis of resistance to Fusarium root rot in common bean

(2011) Clare Mukankusi et al.   EUPHYTICA

Marine bacterial, archaeal and protistan association networks reveal ecological linkages

(2011) Joshua A Steele et al.   ISME Journal

Soil and Cultivar Type Shape the Bacterial Community in the Potato Rhizosphere

(2011) Özgül İnceoğlu et al.   MICROBIAL ECOLOGY

Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria

(2011) R. Mendes et al.   SCIENCE

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Soil microbial community structure in cucumber rhizosphere of different resistance cultivars to fusarium wilt

(2010) Huaiying Yao et al.   FEMS MICROBIOLOGY ECOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

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

Phenazine antibiotics produced by fluorescent pseudomonads contribute to natural soil suppressiveness to Fusarium wilt

(2009) Sylvie Mazurier et al.   ISME Journal

Carbon flow in the rhizosphere: carbon trading at the soil–root interface

(2009) D. L. Jones et al.   PLANT AND SOIL

Type VI secretion apparatus and phage tail-associated protein complexes share a common evolutionary origin

(2009) P. G. Leiman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Novel approaches in plant breeding for rhizosphere-related traits

(2008) Matthias Wissuwa et al.   PLANT AND SOIL