Effects of bio-based residue amendments on greenhouse gas emission from agricultural soil are stronger than effects of soil type with different microbial community composition

Microbial communities of an arable soil treated for 8 years with organic and inorganic fertilizers

(2016) Chen Chen et al.   BIOLOGY AND FERTILITY OF SOILS

Phylogenetic organization of bacterial activity

(2016) Ember M Morrissey et al.   ISME Journal

Climate-smart soils

(2016) Keith Paustian et al.   NATURE

A Combination of Biochar–Mineral Complexes and Compost Improves Soil Bacterial Processes, Soil Quality, and Plant Properties

(2016) Jun Ye et al.   Frontiers in Microbiology

Spatial Interaction of Archaeal Ammonia-Oxidizers and Nitrite-Oxidizing Bacteria in an Unfertilized Grassland Soil

(2016) Barbara Stempfhuber et al.   Frontiers in Microbiology

The Ecology of Acidobacteria: Moving beyond Genes and Genomes

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

VSEARCH: a versatile open source tool for metagenomics

(2016) Torbjørn Rognes et al.   PeerJ

Biochar alters nitrogen transformations but has minimal effects on nitrous oxide emissions in an organically managed lettuce mesocosm

(2015) Engil Isadora Pujol Pereira et al.   BIOLOGY AND FERTILITY OF SOILS

Manure-associated stimulation of soil-borne methanogenic activity in agricultural soils

(2015) Adrian Ho et al.   BIOLOGY AND FERTILITY OF SOILS

Long-term climate change mitigation potential with organic matter management on grasslands

(2015) Rebecca Ryals et al.   ECOLOGICAL APPLICATIONS

Unexpected stimulation of soil methane uptake as emergent property of agricultural soils following bio-based residue application

(2015) Adrian Ho et al.   GLOBAL CHANGE BIOLOGY

Bacterial Community Diversity in Soil Under two Tillage Practices as Determined by Pyrosequencing

(2015) Aditi Sengupta et al.   MICROBIAL ECOLOGY

Intercropping affects the rate of decomposition of soil organic matter and root litter

(2015) Wen-Feng Cong et al.   PLANT AND SOIL

Soil restoration with organic amendments: linking cellular functionality and ecosystem processes

(2015) F. Bastida et al.   Scientific Reports

Forest-to-pasture conversion increases the diversity of the phylum Verrucomicrobia in Amazon rainforest soils

(2015) Kshitij Ranjan et al.   Frontiers in Microbiology

Comparison of methane emission characteristics in air-dried and composted cattle manure amended paddy soil during rice cultivation

(2014) Sang Yoon Kim et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

Microbial community development and unseen diversity recovery in inoculated sterile soil

(2014) Tom O. Delmont et al.   BIOLOGY AND FERTILITY OF SOILS

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

(2014) Martin Hartmann et al.   ISME Journal

Perennial grasslands enhance biodiversity and multiple ecosystem services in bioenergy landscapes

(2014) B. P. Werling et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Soil biodiversity and soil community composition determine ecosystem multifunctionality

(2014) C. Wagg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Linking N2O emissions from biochar-amended soil to the structure and function of the N-cycling microbial community

(2013) Johannes Harter et al.   ISME Journal

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

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

Ribosomal Database Project: data and tools for high throughput rRNA analysis

(2013) James R. Cole et al.   NUCLEIC ACIDS RESEARCH

Selective stimulation in a natural community of methane oxidizing bacteria: Effects of copper on pmoA transcription and activity

(2013) Adrian Ho et al.   SOIL BIOLOGY & BIOCHEMISTRY

Carbon-nutrient stoichiometry to increase soil carbon sequestration

(2013) Clive A. Kirkby et al.   SOIL BIOLOGY & BIOCHEMISTRY

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

Emissions of N2O and CH4 from agricultural soils amended with two types of biogas residues

(2012) M. Odlare et al.   BIOMASS & BIOENERGY

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

Biological sources and sinks of nitrous oxide and strategies to mitigate emissions

(2012) A. J. Thomson et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome

(2012) Daniel McDonald et al.   GigaScience

Short term effects of bioenergy by-products on soil C and N dynamics, nutrient availability and biochemical properties

(2011) A. Galvez et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

Changes in Diversity and Functional Gene Abundances of Microbial Communities Involved in Nitrogen Fixation, Nitrification, and Denitrification in a Tidal Wetland versus Paddy Soils Cultivated for Different Time Periods

(2011) Andrea Bannert et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Soil and plant factors driving the community of soil-borne microorganisms across chronosequences of secondary succession of chalk grasslands with a neutral pH

(2011) Eiko Kuramae et al.   FEMS MICROBIOLOGY ECOLOGY

Soil characteristics more strongly influence soil bacterial communities than land-use type

(2011) Eiko E. Kuramae et al.   FEMS MICROBIOLOGY ECOLOGY

Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria

(2011) R. Mendes et al.   SCIENCE

The under-recognized dominance of Verrucomicrobia in soil bacterial communities

(2011) Gaddy T. Bergmann et al.   SOIL BIOLOGY & BIOCHEMISTRY

Ageing well: methane oxidation and methane oxidizing bacteria along a chronosequence of 2000 years

(2011) Adrian Ho et al.   Environmental Microbiology Reports

Moving pictures of the human microbiome

(2011) J Gregory Caporaso et al.   GENOME BIOLOGY

Impacts of Inter- and Intralaboratory Variations on the Reproducibility of Microbial Community Analyses

(2010) Y. Pan et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic and Multivariate Analyses To Determine the Effects of Different Tillage and Residue Management Practices on Soil Bacterial Communities

(2010) J. A. Ceja-Navarro et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Emission of greenhouse gases from an agricultural soil amended with urea: A laboratory study

(2010) Nancy Serrano-Silva et al.   APPLIED SOIL ECOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Long-term effects of organic amendments on soil fertility. A review

(2009) Mariangela Diacono et al.   Agronomy for Sustainable Development

Bacteriarather thanArchaeadominate microbial ammonia oxidation in an agricultural soil

(2009) Zhongjun Jia et al.   ENVIRONMENTAL MICROBIOLOGY

A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses

(2009) Ryan T Jones et al.   ISME Journal

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(2008) David F. Herridge et al.   PLANT AND SOIL

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