Genomic and metabolic differences between Pseudomonas putida populations inhabiting sugarcane rhizosphere or bulk soil

Genome-based evolutionary history of Pseudomonas spp

(2018) Cedar Hesse et al.   ENVIRONMENTAL MICROBIOLOGY

Genome variations between rhizosphere and bulk soil ecotypes of a Pseudomonas koreensis population

(2018) Lucas Dantas Lopes et al.   ENVIRONMENTAL MICROBIOLOGY

Tropical soils are a reservoir for fluorescent Pseudomonas spp. biodiversity

(2017) Lucas Dantas Lopes et al.   ENVIRONMENTAL MICROBIOLOGY

Phylogenetic analysis reveals the taxonomically diverse distribution of the Pseudomonas putida group

(2017) Kenta Yonezuka et al.   JOURNAL OF GENERAL AND APPLIED MICROBIOLOGY

Disease Suppressive Soils: New Insights from the Soil Microbiome

(2017) Daniel Schlatter et al.   PHYTOPATHOLOGY

Phosphorus pools responses to land-use change for sugarcane expansion in weathered Brazilian soils

(2016) Maurício R. Cherubin et al.   GEODERMA

Molecular Mechanisms of Two-Component Signal Transduction

(2016) Christopher P. Zschiedrich et al.   JOURNAL OF MOLECULAR BIOLOGY

Using long-term experimental evolution to uncover the patterns and determinants of molecular evolution of an Escherichia coli natural isolate in the streptomycin-treated mouse gut

(2016) Mathilde Lescat et al.   MOLECULAR ECOLOGY

Observing cellulose biosynthesis and membrane translocation in crystallo

(2016) Jacob L. W. Morgan et al.   NATURE

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Signaling in the Rhizosphere

(2016) Vittorio Venturi et al.   TRENDS IN PLANT SCIENCE

Bacterial Abilities and Adaptation Toward the Rhizosphere Colonization

(2016) Lucas D. Lopes et al.   Frontiers in Microbiology

Gall-ID: tools for genotyping gall-causing phytopathogenic bacteria

(2016) Edward W. Davis II et al.   PeerJ

Genomic and Genetic Diversity within the Pseudomonas fluorescens Complex

(2016) Daniel Garrido-Sanz et al.   PLoS One

Analysis of the core genome and pangenome of P seudomonas putida

(2015) Zulema Udaondo et al.   ENVIRONMENTAL MICROBIOLOGY

The Matrix Reloaded: How Sensing the Extracellular Matrix Synchronizes Bacterial Communities

(2015) Nitai Steinberg et al.   JOURNAL OF BACTERIOLOGY

Formation of soil organic matter via biochemical and physical pathways of litter mass loss

(2015) M. Francesca Cotrufo et al.   Nature Geoscience

The importance of the microbiome of the plant holobiont

(2015) Philippe Vandenkoornhuyse et al.   NEW PHYTOLOGIST

Lipopolysaccharide O-Chain Core Region Required for Cellular Cohesion and Compaction ofIn Vitroand Root Biofilms Developed by Rhizobium leguminosarum

(2014) Daniela M. Russo et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Expression of the lipopolysaccharide biosynthesis gene lpxD affects biofilm formation of Pseudomonas aeruginosa

(2014) Sahar A. Alshalchi et al.   ARCHIVES OF MICROBIOLOGY

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Taxonomical and functional microbial community selection in soybean rhizosphere

(2014) Lucas W Mendes et al.   ISME Journal

Explaining microbial genomic diversity in light of evolutionary ecology

(2014) Otto X. Cordero et al.   NATURE REVIEWS MICROBIOLOGY

Microbial Growth and Carbon Use Efficiency in the Rhizosphere and Root-Free Soil

(2014) Evgenia Blagodatskaya et al.   PLoS One

GET_HOMOLOGUES, a Versatile Software Package for Scalable and Robust Microbial Pangenome Analysis

(2013) Bruno Contreras-Moreira et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Genome sequence-based species delimitation with confidence intervals and improved distance functions

(2013) Jan P Meier-Kolthoff et al.   BMC BIOINFORMATICS

The Role of Bacterial Biofilms and Surface Components in Plant-Bacterial Associations

(2013) Pablo Bogino et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

METABOLITE PROFILING OF SHOOT EXTRACTS, ROOT EXTRACTS, AND ROOT EXUDATES OF RICE PLANT UNDER PHOSPHORUS DEFICIENCY

(2013) Keitaro Tawaraya et al.   JOURNAL OF PLANT NUTRITION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

(2013) Laurent Philippot et al.   NATURE REVIEWS MICROBIOLOGY

Analysis of the plant growth-promoting properties encoded by the genome of the rhizobacteriumPseudomonas putida BIRD-1

(2012) Amalia Roca et al.   ENVIRONMENTAL MICROBIOLOGY

Population Genomics of Early Events in the Ecological Differentiation of Bacteria

(2012) B. J. Shapiro et al.   SCIENCE

Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria

(2011) R. Mendes et al.   SCIENCE

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

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

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

Dynamics of soil water content in the rhizosphere

(2010) Andrea Carminati et al.   PLANT AND SOIL

Fate of lignins in soils: A review

(2010) Mathieu Thevenot et al.   SOIL BIOLOGY & BIOCHEMISTRY

Pyrosequencing reveals a contrasted bacterial diversity between oak rhizosphere and surrounding soil

(2010) Stéphane Uroz et al.   Environmental Microbiology Reports

Identification in Agrobacterium tumefaciens of the d-galacturonic acid dehydrogenase gene

(2009) Harry Boer et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

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

Genome Survey and Characterization of Endophytic Bacteria Exhibiting a Beneficial Effect on Growth and Development of Poplar Trees

(2008) S. Taghavi et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS