Microbial community assembly differs across minerals in a rhizosphere microcosm

Impact of root diversity upon coupling between soil C and N accumulation and bacterial community dynamics and activity: Result of a 30 year rotation experiment

(2017) Ying Wang et al.   GEODERMA

Stochastic Community Assembly: Does It Matter in Microbial Ecology?

(2017) Jizhong Zhou et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

An Endohyphal Bacterium (Chitinophaga, Bacteroidetes) Alters Carbon Source Use by Fusarium keratoplasticum (F. solani Species Complex, Nectriaceae)

(2017) Justin P. Shaffer et al.   Frontiers in Microbiology

Mineral Types and Tree Species Determine the Functional and Taxonomic Structures of Forest Soil Bacterial Communities

(2016) Y. Colin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Conservation of the Essential Genome Among Caulobacter and Brevundimonas Species

(2016) Derrick Scott et al.   CURRENT MICROBIOLOGY

FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild

(2016) Nhu H. Nguyen et al.   Fungal Ecology

Mineral Type Structures Soil Microbial Communities

(2016) Engy Ahmed et al.   GEOMICROBIOLOGY JOURNAL

Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls

(2016) Cynthia M. Kallenbach et al.   Nature Communications

The Ecology of Acidobacteria: Moving beyond Genes and Genomes

(2016) Anna M. Kielak et al.   Frontiers in Microbiology

Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis

(2015) Liyou Wu et al.   BMC MICROBIOLOGY

Decreases in average bacterial community rRNA operon copy number during succession

(2015) Diana R Nemergut et al.   ISME Journal

A continental view of pine-associated ectomycorrhizal fungal spore banks: a quiescent functional guild with a strong biogeographic pattern

(2015) Sydney I. Glassman et al.   NEW PHYTOLOGIST

Microbial hotspots and hot moments in soil: Concept & review

(2015) Yakov Kuzyakov et al.   SOIL BIOLOGY & BIOCHEMISTRY

The Mineralosphere Concept: Mineralogical Control of the Distribution and Function of Mineral-associated Bacterial Communities

(2015) Stephane Uroz et al.   TRENDS IN MICROBIOLOGY

Successional Trajectories of Rhizosphere Bacterial Communities over Consecutive Seasons

(2015) Shengjing Shi et al.   mBio

Microbial mineral colonization across a subsurface redox transition zone

(2015) Brandon J. Converse et al.   Frontiers in Microbiology

Estimating and mapping ecological processes influencing microbial community assembly

(2015) James C. Stegen et al.   Frontiers in Microbiology

Microbial degradation of organic carbon sorbed to phyllosilicate clays with and without hydrous iron oxide coating

(2014) A. R. Saidy et al.   EUROPEAN JOURNAL OF SOIL SCIENCE

rrnDB: improved tools for interpreting rRNA gene abundance in bacteria and archaea and a new foundation for future development

(2014) Steven F. Stoddard et al.   NUCLEIC ACIDS RESEARCH

Spatial Ecology of Bacteria at the Microscale in Soil

(2014) Xavier Raynaud et al.   PLoS One

Stochasticity, succession, and environmental perturbations in a fluidic ecosystem

(2014) Jizhong Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Illumina metabarcoding pipeline for fungi

(2014) Miklós Bálint et al.   Ecology and Evolution

PEAR: a fast and accurate Illumina Paired-End reAd mergeR

(2013) J. Zhang et al.   BIOINFORMATICS

Exploring links between pH and bacterial community composition in soils from the Craibstone Experimental Farm

(2013) Andrea K. Bartram et al.   FEMS MICROBIOLOGY ECOLOGY

Evaluating rRNA as an indicator of microbial activity in environmental communities: limitations and uses

(2013) Steven J Blazewicz et al.   ISME Journal

Quantifying community assembly processes and identifying features that impose them

(2013) James C Stegen et al.   ISME Journal

Towards a unified paradigm for sequence-based identification of fungi

(2013) Urmas Kõljalg et al.   MOLECULAR ECOLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Aggregate-associated soil organic matter as an ecosystem property and a measurement tool

(2013) Johan Six et al.   SOIL BIOLOGY & BIOCHEMISTRY

Correlation of the Abundance of Betaproteobacteria on Mineral Surfaces with Mineral Weathering in Forest Soils

(2012) C. Lepleux et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Bacterial Associations with Weathering Minerals at the Regolith-Bedrock Interface, Luquillo Experimental Forest, Puerto Rico

(2012) Morgan L. Minyard et al.   GEOMICROBIOLOGY JOURNAL

The Microbial Efficiency-Matrix Stabilization (MEMS) framework integrates plant litter decomposition with soil organic matter stabilization: do labile plant inputs form stable soil organic matter?

(2012) M. Francesca Cotrufo et al.   GLOBAL CHANGE BIOLOGY

Long-term effect of apatite on ectomycorrhizal growth and community structure

(2012) Christoffer Berner et al.   MYCORRHIZA

Initial Ecosystem Processes as Key Factors of Landscape Development—A Review

(2012) Thomas Raab et al.   PHYSICAL GEOGRAPHY

SOM genesis: microbial biomass as a significant source

(2011) Anja Miltner et al.   BIOGEOCHEMISTRY

Minerals Affect the Specific Diversity of Forest Soil Bacterial Communities

(2011) S. Uroz et al.   GEOMICROBIOLOGY JOURNAL

Persistence of soil organic matter as an ecosystem property

(2011) Michael W. I. Schmidt et al.   NATURE

Using null models to disentangle variation in community dissimilarity from variation in α-diversity

(2011) Jonathan M. Chase et al.   Ecosphere

Differential Growth Responses of Soil Bacterial Taxa to Carbon Substrates of Varying Chemical Recalcitrance

(2011) Katherine C. Goldfarb et al.   Frontiers in Microbiology

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

Meter-Scale Diversity of Microbial Communities on a Weathered Pegmatite Granite Outcrop in the Wicklow Mountains, Ireland; Evidence for Mineral Induced Selection?

(2010) Elena Hutchens et al.   GEOMICROBIOLOGY JOURNAL

Soil bacterial and fungal communities across a pH gradient in an arable soil

(2010) Johannes Rousk et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Hydration-controlled bacterial motility and dispersal on surfaces

(2010) A. Dechesne et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale

(2009) C. L. Lauber et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Minerals in soil select distinct bacterial communities in their microhabitats

(2009) Jennifer K. Carson et al.   FEMS MICROBIOLOGY ECOLOGY

Metals, minerals and microbes: geomicrobiology and bioremediation

(2009) G. M. Gadd   MICROBIOLOGY-SGM

Mineral weathering by bacteria: ecology, actors and mechanisms

(2009) Stéphane Uroz et al.   TRENDS IN MICROBIOLOGY

Microbial selectivity on mineral surfaces: possible implications for weathering processes

(2009) Elena Hutchens   Fungal Biology Reviews

Bacterial quorum sensing and nitrogen cycling in rhizosphere soil

(2008) Kristen M. DeAngelis et al.   FEMS MICROBIOLOGY ECOLOGY

Clay minerals: Precise markers of the spatial and temporal variability of the biogeochemical soil environment

(2008) M.-P. Turpault et al.   GEODERMA

Selective progressive response of soil microbial community to wild oat roots

(2008) Kristen M DeAngelis et al.   ISME Journal

Organo-mineral associations in temperate soils: Integrating biology, mineralogy, and organic matter chemistry

(2008) Ingrid Kögel-Knabner et al.   JOURNAL OF PLANT NUTRITION AND SOIL SCIENCE

Does the preferential microbial colonisation of ferromagnesian minerals affect mineral weathering in soil?

(2008) Michael J. Wilson et al.   NATURWISSENSCHAFTEN

rrnDB: documenting the number of rRNA and tRNA genes in bacteria and archaea

(2008) Z. M.-P. Lee et al.   NUCLEIC ACIDS RESEARCH