Tree Species Shape Soil Bacterial Community Structure and Function in Temperate Deciduous Forests

Root Exudation of Primary Metabolites: Mechanisms and Their Roles in Plant Responses to Environmental Stimuli

(2019) Alberto Canarini et al.   Frontiers in Plant Science

Rapid Transfer of Plant Photosynthates to Soil Bacteria via Ectomycorrhizal Hyphae and Its Interaction With Nitrogen Availability

(2019) Stefan Gorka et al.   Frontiers in Microbiology

Drivers of microbial community structure in forest soils

(2018) Salvador Lladó et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Effects of timber harvesting on the genetic potential for carbon and nitrogen cycling in five North American forest ecozones

(2018) Erick Cardenas et al.   Scientific Reports

Seasonal Effects on Microbial Community Structure and Nitrogen Dynamics in Temperate Forest Soil

(2018) Tomohiro Yokobe et al.   Forests

Bacterial diversity is positively correlated with soil heterogeneity

(2018) Emily E. Curd et al.   Ecosphere

Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly

(2018) Kateryna Zhalnina et al.   Nature Microbiology

Forest Soil Bacteria: Diversity, Involvement in Ecosystem Processes, and Response to Global Change

(2017) Salvador Lladó et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Consequences of tropical forest conversion to oil palm on soil bacterial community and network structure

(2017) Stephen A. Wood et al.   SOIL BIOLOGY & BIOCHEMISTRY

The mycorrhizal type governs root exudation and nitrogen uptake of temperate tree species

(2017) Rebecca Liese et al.   TREE PHYSIOLOGY

Do temperate tree species diversity and identity influence soil microbial community function and composition?

(2017) Rim Khlifa et al.   Ecology and Evolution

Acidotolerant Bacteria and Fungi as a Sink of Methanol-Derived Carbon in a Deciduous Forest Soil

(2017) Mareen Morawe et al.   Frontiers in Microbiology

Feed in summer, rest in winter: microbial carbon utilization in forest topsoil

(2017) Lucia Žifčáková et al.   Microbiome

Wanted dead or alive? Using metabarcoding of environmental DNA and RNA to distinguish living assemblages for biosecurity applications

(2017) Xavier Pochon et al.   PLoS One

Seasonal soil microbial responses are limited to changes in functionality at two Alpine forest sites differing in altitude and vegetation

(2017) José A. Siles et al.   Scientific Reports

Taxonomic and functional shifts in the beech rhizosphere microbiome across a natural soil toposequence

(2017) Y. Colin et al.   Scientific Reports

Ecological network analysis reveals the inter-connection between soil biodiversity and ecosystem function as affected by land use across Europe

(2016) R.E. Creamer et al.   APPLIED SOIL ECOLOGY

Composition and activity of soil microbial communities in different types of temperate forests

(2016) Marcin Chodak et al.   BIOLOGY AND FERTILITY OF SOILS

The first representative of the globally widespread subdivision 6 Acidobacteria, Vicinamibacter silvestris gen. nov., sp. nov., isolated from subtropical savannah soil

(2016) Katharina J. Huber et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Consortia of low-abundance bacteria drive sulfate reduction-dependent degradation of fermentation products in peat soil microcosms

(2016) Bela Hausmann et al.   ISME Journal

Potential sources of microbial colonizers in an initial soil ecosystem after retreat of an alpine glacier

(2016) Thomas Rime et al.   ISME Journal

The importance of C, N and P as driver for bacterial community structure in German beech dominated forest soils

(2016) Fabian Bergkemper et al.   JOURNAL OF PLANT NUTRITION AND SOIL SCIENCE

Phosphorus in forest ecosystems: New insights from an ecosystem nutrition perspective

(2016) Friederike Lang et al.   JOURNAL OF PLANT NUTRITION AND SOIL SCIENCE

Tree-microbial biomass competition for nutrients in a temperate deciduous forest, central Germany

(2016) Marcus Schmidt et al.   PLANT AND SOIL

Ecology of the forest microbiome: Highlights of temperate and boreal ecosystems

(2016) S. Uroz et al.   SOIL BIOLOGY & BIOCHEMISTRY

Bacterial Community Succession in Pine-Wood Decomposition

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

Fine Spatial Scale Variation of Soil Microbial Communities under European Beech and Norway Spruce

(2016) Heiko Nacke et al.   Frontiers in Microbiology

The Ecology of Acidobacteria: Moving beyond Genes and Genomes

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

Specific impacts of beech and Norway spruce on the structure and diversity of the rhizosphere and soil microbial communities

(2016) S. Uroz et al.   Scientific Reports

Cellulose and hemicellulose decomposition by forest soil bacteria proceeds by the action of structurally variable enzymatic systems

(2016) Rubén López-Mondéjar et al.   Scientific Reports

Driving forces of soil bacterial community structure, diversity, and function in temperate grasslands and forests

(2016) Kristin Kaiser et al.   Scientific Reports

Consistent responses of the microbial community structure to organic farming along the middle and lower reaches of the Yangtze River

(2016) Wenhui Wang et al.   Scientific Reports

Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data: Fig. 1.

(2015) Kathrin P. Aßhauer et al.   BIOINFORMATICS

Functional screening of abundant bacteria from acidic forest soil indicates the metabolic potential of Acidobacteria subdivision 1 for polysaccharide decomposition

(2015) Salvador Lladó et al.   BIOLOGY AND FERTILITY OF SOILS

Soil processes drive seasonal variation in retention of15N tracers in a deciduous forest catchment

(2015) Christine L. Goodale et al.   ECOLOGY

Microbial activity in forest soil reflects the changes in ecosystem properties between summer and winter

(2015) Lucia Žifčáková et al.   ENVIRONMENTAL MICROBIOLOGY

The relationship between soil bacteria substrate utilisation patterns and the vegetation structure in temperate forests

(2015) Beata Klimek et al.   EUROPEAN JOURNAL OF FOREST RESEARCH

Tree species diversity effects on productivity, soil nutrient availability and nutrient response efficiency in a temperate deciduous forest

(2015) Marcus Schmidt et al.   FOREST ECOLOGY AND MANAGEMENT

Contrasting soil bacterial community structure between the phyla Acidobacteria and Proteobacteria in tropical Southeast Asian and temperate Japanese forests

(2015) Naohiko T. Miyashita   GENES & GENETIC SYSTEMS

Benchmark values for forest soil carbon stocks in Europe: Results from a large scale forest soil survey

(2015) Bruno De Vos et al.   GEODERMA

Forest harvesting reduces the soil metagenomic potential for biomass decomposition

(2015) Erick Cardenas et al.   ISME Journal

Role of root microbiota in plant productivity

(2015) A. Tkacz et al.   JOURNAL OF EXPERIMENTAL BOTANY

Soil Parameters Drive the Structure, Diversity and Metabolic Potentials of the Bacterial Communities Across Temperate Beech Forest Soil Sequences

(2015) M. Jeanbille et al.   MICROBIAL ECOLOGY

Taxonomy, Physiology, and Natural Products of Actinobacteria

(2015) Essaid Ait Barka et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Effects of tree identity dominate over tree diversity on the soil microbial community structure

(2015) Andrea Scheibe et al.   SOIL BIOLOGY & BIOCHEMISTRY

Composition of fungal and bacterial communities in forest litter and soil is largely determined by dominant trees

(2015) Michaela Urbanová et al.   SOIL BIOLOGY & BIOCHEMISTRY

A pyrosequencing insight into sprawling bacterial diversity and community dynamics in decaying deadwood logs of Fagus sylvatica and Picea abies

(2015) Björn Hoppe et al.   Scientific Reports

Distribution of iron- and sulfate-reducing bacteria across a coastal acid sulfate soil (CASS) environment: implications for passive bioremediation by tidal inundation

(2015) Yu-Chen Ling et al.   Frontiers in Microbiology

Potential Activity, Size, and Structure of Sulfate-Reducing Microbial Communities in an Exposed, Grazed and a Sheltered, Non-Grazed Mangrove Stand at the Red Sea Coast

(2015) Melike Balk et al.   Frontiers in Microbiology

Impact of Lowland Rainforest Transformation on Diversity and Composition of Soil Prokaryotic Communities in Sumatra (Indonesia)

(2015) Dominik Schneider et al.   Frontiers in Microbiology

Long-term forest soil warming alters microbial communities in temperate forest soils

(2015) Kristen M. DeAngelis et al.   Frontiers in Microbiology

Do ectomycorrhizal and arbuscular mycorrhizal temperate tree species systematically differ in root order-related fine root morphology and biomass?

(2015) Petra Kubisch et al.   Frontiers in Plant Science

Pyrosequencing analysis of a bacterial community associated with lava-formed soil from the Gotjawal forest in Jeju, Korea

(2015) Jong-Shik Kim et al.   MicrobiologyOpen

Genomic resolution of linkages in carbon, nitrogen, and sulfur cycling among widespread estuary sediment bacteria

(2015) Brett J Baker et al.   Microbiome

Effects of Fertilization and Sampling Time on Composition and Diversity of Entire and Active Bacterial Communities in German Grassland Soils

(2015) Sarah Herzog et al.   PLoS One

Influences of evergreen gymnosperm and deciduous angiosperm tree species on the functioning of temperate and boreal forests

(2014) Laurent Augusto et al.   BIOLOGICAL REVIEWS

Differential distribution and abundance of diazotrophic bacterial communities across different soil niches using a gene-targeted clone library approach

(2014) Basit Yousuf et al.   FEMS MICROBIOLOGY LETTERS

Invasive species as driving factors for the structure of benthic communities in Lake Constance, Germany

(2014) René Gergs et al.   HYDROBIOLOGIA

Distinct soil microbial diversity under long-term organic and conventional farming

(2014) Martin Hartmann et al.   ISME Journal

Relationships between protein-encoding gene abundance and corresponding process are commonly assumed yet rarely observed

(2014) Jennifer D Rocca et al.   ISME Journal

Land Use Type Significantly Affects Microbial Gene Transcription in Soil

(2014) Heiko Nacke et al.   MICROBIAL ECOLOGY

Plant host and soil origin influence fungal and bacterial assemblages in the roots of woody plants

(2014) Gregory Bonito et al.   MOLECULAR ECOLOGY

Exploring the transfer of recent plant photosynthates to soil microbes: mycorrhizal pathway vs direct root exudation

(2014) Christina Kaiser et al.   NEW PHYTOLOGIST

Deep 16S rRNA Pyrosequencing Reveals a Bacterial Community Associated with Banana Fusarium Wilt Disease Suppression Induced by Bio-Organic Fertilizer Application

(2014) Zongzhuan Shen et al.   PLoS One

Unravelling the Carbon and Sulphur Metabolism in Coastal Soil Ecosystems Using Comparative Cultivation-Independent Genome-Level Characterisation of Microbial Communities

(2014) Basit Yousuf et al.   PLoS One

Soil properties and tree species drive ß-diversity of soil bacterial communities

(2014) William J. Landesman et al.   SOIL BIOLOGY & BIOCHEMISTRY

Conditionally Rare Taxa Disproportionately Contribute to Temporal Changes in Microbial Diversity

(2014) A. Shade et al.   mBio

Seasonal Pattern of Decomposition and N, P, and C Dynamics in Leaf litter in a Mongolian Oak Forest and a Korean Pine Plantation

(2014) Jaeeun Sohng et al.   Forests

When, where and how does microbial community composition matter?

(2014) Diana R. Nemergut et al.   Frontiers in Microbiology

Soil bacterial community composition altered by increased nutrient availability in Arctic tundra soils

(2014) Akihiro Koyama et al.   Frontiers in Microbiology

Leaf litter is the main driver for changes in bacterial community structures in the rhizosphere of ash and beech

(2013) Birgit Pfeiffer et al.   APPLIED SOIL ECOLOGY

Acetic Acid Bacteria: Physiology and Carbon Sources Oxidation

(2013) Dhouha Mamlouk et al.   INDIAN JOURNAL OF MICROBIOLOGY

Reyranella soli sp. nov., isolated from forest soil, and emended description of the genus Reyranella Pagnier et al. 2011

(2013) S.-J. Kim et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

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

(2013) Steven J Blazewicz et al.   ISME Journal

Changes in assembly processes in soil bacterial communities following a wildfire disturbance

(2013) Scott Ferrenberg et al.   ISME Journal

Does mixing of beech (Fagus sylvatica) and spruce (Picea abies) litter hasten decomposition?

(2013) Torsten W. Berger et al.   PLANT AND SOIL

Comparative Genomic Analysis Indicates that Niche Adaptation of Terrestrial Flavobacteria Is Strongly Linked to Plant Glycan Metabolism

(2013) Max Kolton et al.   PLoS One

Towards a molecular understanding of N cycling in northern hardwood forests under future rates of N deposition

(2013) Zachary Freedman et al.   SOIL BIOLOGY & BIOCHEMISTRY

Aliphatic, Cyclic, and Aromatic Organic Acids, Vitamins, and Carbohydrates in Soil: A Review

(2013) Valerie Vranova et al.   TheScientificWorldJOURNAL

Diversity of epothilone producers amongSorangiumstrains in producer-positive soil habitats

(2013) Shu-guang Li et al.   Microbial Biotechnology

Environmental Factors Affect Acidobacterial Communities below the Subgroup Level in Grassland and Forest Soils

(2012) Astrid Naether et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fungal communities influence root exudation rates in pine seedlings

(2012) Ina C. Meier et al.   FEMS MICROBIOLOGY ECOLOGY

Sizing up metatranscriptomics

(2012) Mary Ann Moran et al.   ISME Journal

Distinctive Bacterial Communities in the Rhizoplane of Four Tropical Tree Species

(2012) Yoon Myung Oh et al.   MICROBIAL ECOLOGY

Fast, accurate error-correction of amplicon pyrosequences using Acacia

(2012) Lauren Bragg et al.   NATURE METHODS

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

On the significance of belowground overyielding in temperate mixed forests: separating species identity and species diversity effects

(2012) Andreas Jacob et al.   OIKOS

Distinct Soil Bacterial Communities Revealed under a Diversely Managed Agroecosystem

(2012) Raymon S. Shange et al.   PLoS One

Cross-biome metagenomic analyses of soil microbial communities and their functional attributes

(2012) N. Fierer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dominant trees affect microbial community composition and activity in post-mining afforested soils

(2012) Jaroslav Šnajdr et al.   SOIL BIOLOGY & BIOCHEMISTRY

RNA-Based Assessment of Diversity and Composition of Active Archaeal Communities in the German Bight

(2012) Bernd Wemheuer et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

Soil nitrate reducing processes – drivers, mechanisms for spatial variation, and significance for nitrous oxide production

(2012) Madeline Giles et al.   Frontiers in Microbiology

Denitrifying Bacteria from the Genus Rhodanobacter Dominate Bacterial Communities in the Highly Contaminated Subsurface of a Nuclear Legacy Waste Site

(2011) Stefan J. Green et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Changes in soil bacterial communities following liming of acidified forests

(2011) Hugues Clivot et al.   APPLIED SOIL ECOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Effects of selected root exudate components on soil bacterial communities

(2011) Shengjing Shi et al.   FEMS MICROBIOLOGY ECOLOGY

Multi-element regulation of the tropical forest carbon cycle

(2011) Alan R Townsend et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

Rhodanobacter denitrificans sp. nov., isolated from nitrate-rich zones of a contaminated aquifer

(2011) O. Prakash et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Hippea jasoniae sp. nov. and Hippea alviniae sp. nov., thermoacidophilic members of the class Deltaproteobacteria isolated from deep-sea hydrothermal vent deposits

(2011) G. E. Flores et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Active and total microbial communities in forest soil are largely different and highly stratified during decomposition

(2011) Petr Baldrian et al.   ISME Journal

Molecular analysis of the diversity of nitrifying bacteria in the soils of the forest and steppe zones of European Russia

(2011) A. S. Cherobaeva et al.   MICROBIOLOGY

Effects of beech (Fagus sylvatica), ash (Fraxinus excelsior) and lime (Tilia spec.) on soil chemical properties in a mixed deciduous forest

(2011) Christina Langenbruch et al.   PLANT AND SOIL

Pyrosequencing-Based Assessment of Bacterial Community Structure Along Different Management Types in German Forest and Grassland Soils

(2011) Heiko Nacke et al.   PLoS One

Bacterial community assembly based on functional genes rather than species

(2011) C. Burke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacterial weathering and its contribution to nutrient cycling in temperate forest ecosystems

(2011) Stéphane Uroz et al.   RESEARCH IN MICROBIOLOGY

Genomic and evolutionary comparisons of diazotrophic and pathogenic bacteria of the order Rhizobiales

(2010) Fabiola M Carvalho et al.   BMC MICROBIOLOGY

Denitrification at pH 4 by a soil-derived Rhodanobacter-dominated community

(2010) R. N. Van Den Heuvel et al.   ENVIRONMENTAL MICROBIOLOGY

UniFrac: an effective distance metric for microbial community comparison

(2010) Catherine Lozupone et al.   ISME Journal

Seasonality and resource availability control bacterial and archaeal communities in soils of a temperate beech forest

(2010) Frank Rasche et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Direct and indirect effects of tree diversity drive soil microbial diversity in temperate deciduous forest

(2010) Carolin Thoms et al.   SOIL BIOLOGY & BIOCHEMISTRY

Metabolic responses of novel cellulolytic and saccharolytic agricultural soil Bacteria to oxygen

(2009) Stefanie Schellenberger et al.   ENVIRONMENTAL MICROBIOLOGY

Complete genome of the cellulolytic thermophile Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evolutionary adaptations

(2009) R. D. Barabote et al.   GENOME RESEARCH

Conservative Fragments in Bacterial 16S rRNA Genes and Primer Design for 16S Ribosomal DNA Amplicons in Metagenomic Studies

(2009) Yong Wang et al.   PLoS One

Nutrient release from decomposing leaf litter of temperate deciduous forest trees along a gradient of increasing tree species diversity

(2009) Mascha Jacob et al.   SOIL BIOLOGY & BIOCHEMISTRY

Forests and Climate Change: Forcings, Feedbacks, and the Climate Benefits of Forests

(2008) G. B. Bonan   SCIENCE

The influence of soil properties on the structure of bacterial and fungal communities across land-use types

(2008) Christian L. Lauber et al.   SOIL BIOLOGY & BIOCHEMISTRY