The Fungal and Bacterial Rhizosphere Microbiome Associated With Grapevine Rootstock Genotypes in Mature and Young Vineyards

Isolation, characterization and comparative analysis of plant-associated bacteria for suppression of soil-borne diseases of field-grown groundnut in Vietnam

(2018) C.N. Le et al.   BIOLOGICAL CONTROL

Unraveling the mode of antifungal action of Bacillus subtilis and Bacillus amyloliquefaciens as potential biocontrol agents against aflatoxigenic Aspergillus parasiticus

(2018) Fatemeh Siahmoshteh et al.   FOOD CONTROL

Metagenomic Approaches to Investigate the Contribution of the Vineyard Environment to the Quality of Wine Fermentation: Potentials and Difficulties

(2018) Irene Stefanini et al.   Frontiers in Microbiology

Apple endophytic microbiota of different rootstock/scion combinations suggests a genotype-specific influence

(2018) Jia Liu et al.   Microbiome

Grapevine rootstocks shape underground bacterial microbiome and networking but not potential functionality

(2018) Ramona Marasco et al.   Microbiome

High-throughput amplicon sequencing-based analysis of active fungal communities inhabiting grapevine after hot-water treatments reveals unexpectedly high fungal diversity

(2018) Ales Eichmeier et al.   Fungal Ecology

Soil microbiota respond to green manure in organic vineyards

(2017) C.M.O. Longa et al.   JOURNAL OF APPLIED MICROBIOLOGY

Host Genotype and Nitrogen Form Shape the Root Microbiome of Pinus radiata

(2017) Marta Gallart et al.   MICROBIAL ECOLOGY

MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data

(2017) Achal Dhariwal et al.   NUCLEIC ACIDS RESEARCH

Estimation of viable propagules of black-foot disease pathogens in grapevine cultivated soils and their relation to production systems and soil properties

(2017) Carmen Berlanas et al.   PLANT AND SOIL

Plant cultivars imprint the rhizosphere bacterial community composition and association networks

(2017) Yuji Jiang et al.   SOIL BIOLOGY & BIOCHEMISTRY

Metagenomic analysis exploring taxonomic and functional diversity of soil microbial communities in Chilean vineyards and surrounding native forests

(2017) Luis E. Castañeda et al.   PeerJ

The Variation in the Rhizosphere Microbiome of Cotton with Soil Type, Genotype and Developmental Stage

(2017) Qinghua Qiao et al.   Scientific Reports

Evaluating the diversity of soil microbial communities in vineyards relative to adjacent native ecosystems

(2016) Taylor C. Holland et al.   APPLIED SOIL ECOLOGY

Endophytic bacteria with antagonistic traits inhabit the wood tissues of grapevines from Tunisian vineyards

(2016) A. Rezgui et al.   BIOLOGICAL CONTROL

Rootstocks: Diversity, Domestication, and Impacts on Shoot Phenotypes

(2016) Emily J. Warschefsky et al.   TRENDS IN PLANT SCIENCE

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

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

Arbuscular mycorrhiza symbiosis in viticulture: a review

(2015) Sophie Trouvelot et al.   Agronomy for Sustainable Development

Roots Shaping Their Microbiome: Global Hotspots for Microbial Activity

(2015) Barbara Reinhold-Hurek et al.   Annual Review of Phytopathology

Genotype-Specific Variation in the Structure of Root Fungal Communities Is Related to Chickpea Plant Productivity

(2015) Navid Bazghaleh et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fungal invasion of the rhizosphere microbiome

(2015) Emilie Chapelle et al.   ISME Journal

Fitting Linear Mixed-Effects Models Usinglme4

(2015) Douglas Bates et al.   Journal of Statistical Software

Sequencing and beyond: integrating molecular 'omics' for microbial community profiling

(2015) Eric A. Franzosa et al.   NATURE REVIEWS MICROBIOLOGY

Disentangling the factors shaping microbiota composition across the plant holobiont

(2015) Stéphane Hacquard   NEW PHYTOLOGIST

Host genotype is an important determinant of the cereal phyllosphere mycobiome

(2015) Rumakanta Sapkota et al.   NEW PHYTOLOGIST

Native root-associated bacteria rescue a plant from a sudden-wilt disease that emerged during continuous cropping

(2015) Rakesh Santhanam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metagenomics as a tool for the investigation of uncultured microorganisms

(2015) N. V. Ravin et al.   RUSSIAN JOURNAL OF GENETICS

Vineyard soil bacterial diversity and composition revealed by 16S rRNA genes: Differentiation by geographic features

(2015) Kayla N. Burns et al.   SOIL BIOLOGY & BIOCHEMISTRY

Roots from distinct plant developmental stages are capable of rapidly selecting their own microbiome without the influence of environmental and soil edaphic factors

(2015) Jun Yuan et al.   SOIL BIOLOGY & BIOCHEMISTRY

The Soil Microbiome Influences Grapevine-Associated Microbiota

(2015) Iratxe Zarraonaindia et al.   mBio

Bacterial communities in the rhizosphere of Vitis vinifera L. cultivated under distinct agricultural practices in Argentina

(2014) A. D. Vega-Avila et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Plant age and genotype affect the bacterial community composition in the tuber rhizosphere of field-grown sweet potato plants

(2014) Joana M. Marques et al.   FEMS MICROBIOLOGY ECOLOGY

Effects of Elevated Carbon Dioxide, Elevated Temperature, and Rice Growth Stage on the Community Structure of Rice Root–Associated Bacteria

(2014) Takashi Okubo et al.   MICROBES AND ENVIRONMENTS

Moderate Warming in Microcosm Experiment Does Not Affect Microbial Communities in Temperate Vineyard Soils

(2014) Paola Elisa Corneo et al.   MICROBIAL ECOLOGY

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible

(2014) Paul J. McMurdie et al.   PLoS Computational Biology

Effect of the soil type on the microbiome in the rhizosphere of field-grown lettuce

(2014) Susanne Schreiter et al.   Frontiers in Microbiology

Susceptiblity of common rootstock and scion varieties of grapevines to Botryosphaeriaceae species

(2013) R. Billones-Baaijens et al.   AUSTRALASIAN PLANT PATHOLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Practical innovations for high-throughput amplicon sequencing

(2013) Derek S Lundberg et al.   NATURE METHODS

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

(2013) Laurent Philippot et al.   NATURE REVIEWS MICROBIOLOGY

Detection and quantification ofIlyonectriaspp. associated with black-foot disease of grapevine in nursery soils using multiplex nested PCR and quantitative PCR

(2013) C. Agustí-Brisach et al.   PLANT PATHOLOGY

Diversity and heritability of the maize rhizosphere microbiome under field conditions

(2013) J. A. Peiffer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbial terroir for wine grapes

(2013) J. A. Gilbert et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamics of the bacterial community structure in the rhizosphere of a maize cultivar

(2013) Xiangzhen Li et al.   SOIL BIOLOGY & BIOCHEMISTRY

EMPeror: a tool for visualizing high-throughput microbial community data

(2013) Yoshiki Vázquez-Baeza et al.   GigaScience

The effect of organic acids from tomato root exudates on rhizosphere colonization of Bacillus amyloliquefaciens T-5

(2012) Shiyong Tan et al.   APPLIED SOIL ECOLOGY

Intraspecific ITS Variability in the Kingdom Fungi as Expressed in the International Sequence Databases and Its Implications for Molecular Species Identification

(2012) R. Henrik Nilsson et al.   Evolutionary Bioinformatics

Combining ecophysiological and microbial ecological approaches to study the relationship between Medicago truncatula genotypes and their associated rhizosphere bacterial communities

(2012) A. Zancarini et al.   PLANT AND SOIL

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

(2012) Hirokazu Toju 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 rhizosphere microbiome and plant health

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

Is diversification history of maize influencing selection of soil bacteria by roots?

(2011) MARIE-LARA BOUFFAUD et al.   MOLECULAR ECOLOGY

Metagenomic biomarker discovery and explanation

(2011) Nicola Segata et al.   GENOME BIOLOGY

Field Evaluation of Grapevine Rootstocks Inoculated with Fungi Associated with Petri Disease and Esca

(2010) David Gramaje et al.   AMERICAN JOURNAL OF ENOLOGY AND VITICULTURE

Effects of Plant Genotype and Growth Stage on the Betaproteobacterial Communities Associated with Different Potato Cultivars in Two Fields

(2010) O. Inceoglu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Microbial community structure of vineyard soils with different pH and copper content

(2010) D. Fernández-Calviño et al.   APPLIED SOIL ECOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Cylindrocarpon species associated with apple tree roots in South Africa and their quantification using real-time PCR

(2010) Yared Tesfai Tewoldemedhin et al.   EUROPEAN JOURNAL OF PLANT PATHOLOGY

Are root exudates more important than other sources of rhizodeposits in structuring rhizosphere bacterial communities?

(2010) Paul G. Dennis et al.   FEMS MICROBIOLOGY ECOLOGY

Quantifying microbial communities with 454 pyrosequencing: does read abundance count?

(2010) ANTHONY S. AMEND et al.   MOLECULAR ECOLOGY

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

Susceptibility of grapevine rootstocks to Cylindrocarpon liriodendri and C. macrodidymum

(2010) Sandra Alaniz et al.   SCIENTIA HORTICULTURAE

Plant genotype strongly modifies the structure and growth of maize rhizosphere microbial communities

(2010) Manuel Aira et al.   SOIL BIOLOGY & BIOCHEMISTRY

Cohorts of arbuscular mycorrhizal fungi (AMF) in Vitis vinifera, a typical Mediterranean fruit crop

(2010) Raffaella Balestrini et al.   Environmental Microbiology Reports

Actinobacterial community dynamics in long term managed grasslands

(2009) Sasha N. Jenkins et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Comparison of Species Richness Estimates Obtained Using Nearly Complete Fragments and Simulated Pyrosequencing-Generated Fragments in 16S rRNA Gene-Based Environmental Surveys

(2009) N. Youssef et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

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

The MIQE Guidelines: Minimum Information for Publication of Quantitative Real-Time PCR Experiments

(2009) S. A. Bustin et al.   CLINICAL CHEMISTRY

Bacterial Succession on the Leaf Surface: A Novel System for Studying Successional Dynamics

(2009) Amanda J. Redford et al.   MICROBIAL ECOLOGY

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION

The diversity of arbuscular mycorrhizal fungi amplified from grapevine roots (Vitis vinifera L.) in Oregon vineyards is seasonally stable and influenced by soil and vine age

(2009) R. Paul Schreiner et al.   MYCOLOGIA