How Rainforest Conversion to Agricultural Systems in Sumatra (Indonesia) Affects Active Soil Bacterial Communities

Global analysis of agricultural soil denitrification in response to fertilizer nitrogen

(2018) Jinyang Wang et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Comparison of two bioinformatics tools used to characterize the microbial diversity and predictive functional attributes of microbial mats from Lake Obersee, Antarctica

(2017) Hyunmin Koo et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Exploration of bacterial N2-fixation systems in association with soil-grown sugarcane, sweet potato, and paddy rice: a review and synthesis

(2017) Tadakatsu Yoneyama et al.   SOIL SCIENCE AND PLANT NUTRITION

Bioinformatic Approaches Including Predictive Metagenomic Profiling Reveal Characteristics of Bacterial Response to Petroleum Hydrocarbon Contamination in Diverse Environments

(2017) Arghya Mukherjee et al.   Scientific Reports

Fertilization Shapes Bacterial Community Structure by Alteration of Soil pH

(2017) Yuting Zhang et al.   Frontiers in Microbiology

The impact of swidden decline on livelihoods and ecosystem services in Southeast Asia: A review of the evidence from 1990 to 2015

(2016) Wolfram H. Dressler et al.   AMBIO

Liming in the sugarcane burnt system and the green harvest practice affect soil bacterial community in northeastern São Paulo, Brazil

(2016) Silvana Pompeia Val-Moraes et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Residual effects of paper mill biosolids and liming materials on soil microbial biomass and community structure

(2016) Dalel Abdi et al.   CANADIAN JOURNAL OF SOIL SCIENCE

The Role of cheA Genes in Swarming and Swimming Motility of Pseudomonas pseudoalcaligenes KF707

(2016) Stefano Fedi et al.   MICROBES AND ENVIRONMENTS

Temporal Changes Rather than Long-Term Repeated Burning Predominately Control the Shift in the Abundance of Soil Denitrifying Community in an Australian Sclerophyll Forest

(2016) Xian Liu et al.   MICROBIAL ECOLOGY

Rainforest Conversion to Rubber Plantation May Not Result in Lower Soil Diversity of Bacteria, Fungi, and Nematodes

(2016) Dorsaf Kerfahi et al.   MICROBIAL ECOLOGY

The impact of tropical forest logging and oil palm agriculture on the soil microbiome

(2016) Binu M. Tripathi et al.   MOLECULAR ECOLOGY

Total and active microbial communities and phoD as affected by phosphate depletion and pH in soil

(2016) Sabine A. Ragot et al.   PLANT AND SOIL

The fate of fertilizer nitrogen in a high nitrate accumulated agricultural soil

(2016) Zhi Quan et al.   Scientific Reports

Ecology of Nitrogen Fixing, Nitrifying, and Denitrifying Microorganisms in Tropical Forest Soils

(2016) Silvia Pajares et al.   Frontiers in Microbiology

The Ecology of Acidobacteria: Moving beyond Genes and Genomes

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

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

(2016) Kristin Kaiser et al.   Scientific Reports

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

(2015) Kathrin P. Aßhauer et al.   BIOINFORMATICS

Available nitrogen is the key factor influencing soil microbial functional gene diversity in tropical rainforest

(2015) Jing Cong et al.   BMC MICROBIOLOGY

Land use, soil and litter chemistry drive bacterial community structures in samples of the rainforest and Cerrado (Brazilian Savannah) biomes in Southern Amazonia

(2015) Daniel Renato Lammel et al.   EUROPEAN JOURNAL OF SOIL BIOLOGY

Quantifying above- and belowground biomass carbon loss with forest conversion in tropical lowlands of Sumatra (Indonesia)

(2015) Martyna M. Kotowska et al.   GLOBAL CHANGE BIOLOGY

Promoting sustainable palm oil: viewed from a global networks and flows perspective

(2015) Peter Oosterveer   JOURNAL OF CLEANER PRODUCTION

Assembly of Active Bacterial and Fungal Communities Along a Natural Environmental Gradient

(2015) Rebecca C Mueller et al.   MICROBIAL ECOLOGY

Soil Nitrogen-Cycling Responses to Conversion of Lowland Forests to Oil Palm and Rubber Plantations in Sumatra, Indonesia

(2015) Kara Allen et al.   PLoS One

Consistent responses of soil microbial communities to elevated nutrient inputs in grasslands across the globe

(2015) Jonathan W. Leff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Positioning of bacterial chemoreceptors

(2015) Christopher W. Jones et al.   TRENDS IN MICROBIOLOGY

Structural conservation of chemotaxis machinery across Archaea and Bacteria

(2015) Ariane Briegel et al.   Environmental Microbiology Reports

Different bulk and active bacterial communities in cryoconite from the margin and interior of the Greenland ice sheet

(2015) Marek Stibal et al.   Environmental Microbiology Reports

pH-driven shifts in overall and transcriptionally active denitrifiers control gaseous product stoichiometry in growth experiments with extracted bacteria from soil

(2015) Kristof Brenzinger et al.   Frontiers in Microbiology

The green impact: bacterioplankton response toward a phytoplankton spring bloom in the southern North Sea assessed by comparative metagenomic and metatranscriptomic approaches

(2015) Bernd Wemheuer 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

Differential Response of Acidobacteria Subgroups to Forest-to-Pasture Conversion and Their Biogeographic Patterns in the Western Brazilian Amazon

(2015) Acacio A. Navarrete et al.   Frontiers in Microbiology

Shotgun Metagenomic Sequencing Reveals Functional Genes and Microbiome Associated with Bovine Digital Dermatitis

(2015) Martin Zinicola et al.   PLoS One

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

Biofertilizers function as key player in sustainable agriculture by improving soil fertility, plant tolerance and crop productivity

(2014) Deepak Bhardwaj et al.   Microbial Cell Factories

pH as a Driver for Ammonia-Oxidizing Archaea in Forest Soils

(2014) Barbara Stempfhuber et al.   MICROBIAL ECOLOGY

Soil pH Determines Microbial Diversity and Composition in the Park Grass Experiment

(2014) Kateryna Zhalnina et al.   MICROBIAL ECOLOGY

Drivers shaping the diversity and biogeography of total and active bacterial communities in the South China Sea

(2014) Yao Zhang et al.   MOLECULAR ECOLOGY

Key components of the eight classes of type IV secretion systems involved in bacterial conjugation or protein secretion

(2014) Julien Guglielmini et al.   NUCLEIC ACIDS RESEARCH

Relationships between ammonia oxidizers and N2O and CH4fluxes in agricultural fields with different soil types

(2014) Hiroko Akiyama et al.   SOIL SCIENCE AND PLANT NUTRITION

Consequences of tropical land use for multitrophic biodiversity and ecosystem functioning

(2014) Andrew D. Barnes et al.   Nature Communications

Impact of Logging and Forest Conversion to Oil Palm Plantations on Soil Bacterial Communities in Borneo

(2013) Larisa Lee-Cruz et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Ecoenzymatic stoichiometry of microbial nutrient acquisition in tropical soils

(2013) Bonnie Grace Waring et al.   BIOGEOCHEMISTRY

Determinants ofAcidobacteriaactivity inferred from the relative abundances of 16S rRNA transcripts in German grassland and forest soils

(2013) Bärbel U. Foesel et al.   ENVIRONMENTAL MICROBIOLOGY

Ammonium induces differential expression of methane and nitrogen metabolism-related genes inMethylocystissp. strain SC2

(2013) Bomba Dam et al.   ENVIRONMENTAL MICROBIOLOGY

Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches

(2013) Bernd Wemheuer et al.   FEMS MICROBIOLOGY ECOLOGY

Review on iron availability in soil: interaction of Fe minerals, plants, and microbes

(2013) Claudio Colombo et al.   JOURNAL OF SOILS AND SEDIMENTS

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

The Variability of the 16S rRNA Gene in Bacterial Genomes and Its Consequences for Bacterial Community Analyses

(2013) Tomáš Větrovský et al.   PLoS One

Analysis of Nitrification Efficiency and Microbial Community in a Membrane Bioreactor Fed with Low COD/N-Ratio Wastewater

(2013) Jinxing Ma et al.   PLoS One

Navjot's nightmare revisited: logging, agriculture, and biodiversity in Southeast Asia

(2013) David S. Wilcove et al.   TRENDS IN ECOLOGY & EVOLUTION

High abundance of ammonia-oxidizing archaea in acidified subtropical forest soils in southern China after long-term N deposition

(2012) Kazuo Isobe et al.   FEMS MICROBIOLOGY ECOLOGY

Pre-exposure to drought increases the resistance of tropical forest soil bacterial communities to extended drought

(2012) Nicholas J Bouskill et al.   ISME Journal

Structure, fluctuation and magnitude of a natural grassland soil metagenome

(2012) Tom O Delmont et al.   ISME Journal

Tropical Soil Bacterial Communities in Malaysia: pH Dominates in the Equatorial Tropics Too

(2012) Binu M. Tripathi et al.   MICROBIAL ECOLOGY

Fast, accurate error-correction of amplicon pyrosequences using Acacia

(2012) Lauren Bragg et al.   NATURE METHODS

Structural biology of type VI secretion systems

(2012) E. Cascales et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

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

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

The Effects of Soil Bacterial Community Structure on Decomposition in a Tropical Rain Forest

(2011) Jonathan W. Leff et al.   ECOSYSTEMS

Endosymbiotic bacteria associated with nematodes, ticks and amoebae

(2011) Mark Taylor et al.   FEMS IMMUNOLOGY AND MEDICAL MICROBIOLOGY

Remotely sensed evidence of tropical peatland conversion to oil palm

(2011) L. P. Koh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Soil beneficial bacteria and their role in plant growth promotion: a review

(2010) Rifat Hayat et al.   ANNALS OF MICROBIOLOGY

Influence of Soil Characteristics on the Diversity of Bacteria in the Southern Brazilian Atlantic Forest

(2010) H. Faoro et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Accessing the Soil Metagenome for Studies of Microbial Diversity

(2010) Tom O. Delmont et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UniFrac: an effective distance metric for microbial community comparison

(2010) Catherine Lozupone et al.   ISME 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

A Nitrospira metagenome illuminates the physiology and evolution of globally important nitrite-oxidizing bacteria

(2010) S. Lucker et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantification of Key Genes Steering the Microbial Nitrogen Cycle in the Rhizosphere of Sorghum Cultivars in Tropical Agroecosystems

(2009) B. Hai et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic and functional marker genes to study ammonia-oxidizing microorganisms (AOM) in the environment

(2009) Pilar Junier et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Bacterial competition: surviving and thriving in the microbial jungle

(2009) Michael E. Hibbing et al.   NATURE REVIEWS MICROBIOLOGY

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

Temporal shifts in diversity and quantity of nirS and nirK in a rice paddy field soil

(2009) Megumi Yoshida et al.   SOIL BIOLOGY & BIOCHEMISTRY

Changes in Bacterial and Archaeal Community Structure and Functional Diversity along a Geochemically Variable Soil Profile

(2008) C. M. Hansel et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Molybdenum limitation of asymbiotic nitrogen fixation in tropical forest soils

(2008) Alexander R. Barron et al.   Nature Geoscience

Simultaneous Assessment of Soil Microbial Community Structure and Function through Analysis of the Meta-Transcriptome

(2008) Tim Urich et al.   PLoS One