Terroir is a key driver of seed-associated microbial assemblages

Sourdough microbial community dynamics: An analysis during French organic bread-making processes

(2016) Emilie Lhomme et al.   FOOD MICROBIOLOGY

The Soil Microbiome Influences Grapevine-Associated Microbiota

(2015) Iratxe Zarraonaindia et al.   mBio

qgraph: Network Visualizations of Relationships in Psychometric Data

(2015) Sacha Epskamp et al.   Journal of Statistical Software

A potential role for endogenous microflora in dormancy release, cytokinin metabolism and the response to fluridone in Lolium rigidum seeds

(2014) Danica E. Goggin et al.   ANNALS OF BOTANY

Emergence Shapes the Structure of the Seed Microbiota

(2014) Matthieu Barret et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Selection on soil microbiomes reveals reproducible impacts on plant function

(2014) Kevin Panke-Buisse et al.   ISME Journal

Local-scale biogeography and spatiotemporal variability in communities of mycorrhizal fungi

(2014) Mohammad Bahram et al.   NEW PHYTOLOGIST

Simultaneous profiling of seed-associated bacteria and fungi reveals antagonistic interactions between microorganisms within a shared epiphytic microbiome onTriticumandBrassicaseeds

(2014) Matthew G. Links et al.   NEW PHYTOLOGIST

Molecular and genetic aspects of controlling the soilborne necrotrophic pathogens Rhizoctonia and Pythium

(2014) Patricia A. Okubara et al.   PLANT SCIENCE

Ecological Succession and Stochastic Variation in the Assembly of Arabidopsis thaliana Phyllosphere Communities

(2014) L. Maignien et al.   mBio

Genome-wide association study of Arabidopsis thaliana leaf microbial community

(2014) Matthew W. Horton et al.   Nature Communications

Assembly of complex plant–fungus networks

(2014) Hirokazu Toju et al.   Nature Communications

Structure and Functions of the Bacterial Microbiota of Plants

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

Diversity of the spinach (Spinacia oleracea) spermosphere and phyllosphere bacterial communities

(2013) Gabriela Lopez-Velasco et al.   FEMS MICROBIOLOGY LETTERS

Complex Patterns of Local Adaptation in Teosinte

(2013) Tanja Pyhäjärvi et al.   Genome Biology and Evolution

Ecological genomics of local adaptation

(2013) Outi Savolainen et al.   NATURE REVIEWS GENETICS

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

(2013) Laurent Philippot et al.   NATURE REVIEWS MICROBIOLOGY

Potential impact of soil microbiomes on the leaf metabolome and on herbivore feeding behavior

(2013) Dayakar V. Badri et al.   NEW PHYTOLOGIST

Meta-analysis of deep-sequenced fungal communities indicates limited taxon sharing between studies and the presence of biogeographic patterns

(2013) Anjuli Meiser et al.   NEW PHYTOLOGIST

The root microbiota—a fingerprint in the soil?

(2013) Aleklett Kristin et al.   PLANT AND SOIL

Molecular polymorphism related to flowering trait variation in a Phaseolus vulgaris L. collection

(2013) Lorenzo Raggi et al.   PLANT SCIENCE

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

Alternaria redefined

(2013) J.H.C. Woudenberg et al.   STUDIES IN MYCOLOGY

Unexpected Diversity during Community Succession in the Apple Flower Microbiome

(2013) A. Shade et al.   mBio

Relationships between Arabidopsis genotype-specific biomass accumulation and associated soil microbial communities

(2012) Akifumi Sugiyama et al.   Botany

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 life in the phyllosphere

(2012) Julia A. Vorholt   NATURE REVIEWS MICROBIOLOGY

The Arabidopsis thaliana-Alternaria brassicicola pathosystem: A model interaction for investigating seed transmission of necrotrophic fungi

(2012) Stephanie Pochon et al.   Plant Methods

Dynamics of Seed-Borne Rice Endophytes on Early Plant Growth Stages

(2012) Pablo R. Hardoim et al.   PLoS One

Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

(2012) C. L. Schoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The genus Cladosporium

(2012) K. Bensch et al.   STUDIES IN MYCOLOGY

Inferring Correlation Networks from Genomic Survey Data

(2012) Jonathan Friedman et al.   PLoS Computational Biology

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Interactive metagenomic visualization in a Web browser

(2011) Brian D Ondov et al.   BMC BIOINFORMATICS

Bacterial community diversity and variation in spray water sources and the tomato fruit surface

(2011) Adriana Telias et al.   BMC MICROBIOLOGY

Colonization of cucumber seeds by bacteria during germination

(2011) Maya Ofek et al.   ENVIRONMENTAL MICROBIOLOGY

Bacterial Communities Associated with Chenopodium album and Stellaria media Seeds from Arable Soils

(2011) Leonard S. van Overbeek et al.   MICROBIAL ECOLOGY

Conservation and Diversity of Seed Associated Endophytes in Zea across Boundaries of Evolution, Ethnography and Ecology

(2011) David Johnston-Monje et al.   PLoS One

Reducing the Effects of PCR Amplification and Sequencing Artifacts on 16S rRNA-Based Studies

(2011) Patrick D. Schloss et al.   PLoS One

Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria

(2011) R. Mendes et al.   SCIENCE

Transmission of Plant-Pathogenic Bacteria by Nonhost Seeds without Induction of an Associated Defense Reaction at Emergence

(2010) A. Darrasse et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Effectiveness of in situ and ex situ conservation of crop diversity. What a Phaseolus vulgaris L. landrace case study can tell us

(2010) Valeria Negri et al.   GENETICA

Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows

(2010) LAURENT EXCOFFIER et al.   Molecular Ecology Resources

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

The UNITE database for molecular identification of fungi - recent updates and future perspectives

(2010) Kessy Abarenkov et al.   NEW PHYTOLOGIST

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

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

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity

(2009) M. Buée et al.   NEW PHYTOLOGIST

The Type III Secretion System of Xanthomonas fuscans subsp. fuscans Is Involved in the Phyllosphere Colonization Process and in Transmission to Seeds of Susceptible Beans

(2008) A. Darsonval et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH