Taxon-specific microbial growth and mortality patterns reveal distinct temporal population responses to rewetting in a California grassland soil

Evolutionary history constrains microbial traits across environmental variation

(2019) Ember M. Morrissey et al.   Nature Ecology & Evolution

Depth matters: effects of precipitation regime on soil microbial activity upon rewetting of a plant-soil system

(2018) Ilonka C. Engelhardt et al.   ISME Journal

Consistent changes in the taxonomic structure and functional attributes of bacterial communities during primary succession

(2018) Rüdiger Ortiz-Álvarez et al.   ISME Journal

Large Blooms of Bacillales (Firmicutes) Underlie the Response to Wetting of Cyanobacterial Biocrusts at Various Stages of Maturity

(2018) Ulas Karaoz et al.   mBio

Life in Dry Soils: Effects of Drought on Soil Microbial Communities and Processes

(2018) Joshua P. Schimel   Annual Review of Ecology Evolution and Systematics

Optimization of lag phase shapes the evolution of a bacterial enzyme

(2017) Bharat V. Adkar et al.   Nature Ecology & Evolution

Measurement of bacterial replication rates in microbial communities

(2016) Christopher T Brown et al.   NATURE BIOTECHNOLOGY

Quantitative Microbial Ecology through Stable Isotope Probing

(2015) Bruce A. Hungate et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples

(2015) T. Korem et al.   SCIENCE

Dynamics of extracellular DNA decomposition and bacterial community composition in soil

(2015) Ember M. Morrissey et al.   SOIL BIOLOGY & BIOCHEMISTRY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Changing precipitation pattern alters soil microbial community response to wet-up under a Mediterranean-type climate

(2014) Romain L Barnard et al.   ISME Journal

Growth and death of bacteria and fungi underlie rainfall-induced carbon dioxide pulses from seasonally dried soil

(2013) Steven J. Blazewicz et al.   ECOLOGY

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

(2013) Steven J Blazewicz et al.   ISME Journal

Responses of soil bacterial and fungal communities to extreme desiccation and rewetting

(2013) Romain L Barnard et al.   ISME Journal

RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics

(2012) M. Lohse et al.   NUCLEIC ACIDS RESEARCH

Rainfall-induced carbon dioxide pulses result from sequential resuscitation of phylogenetically clustered microbial groups

(2012) S. A. Placella et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Validation of Heavy-Water Stable Isotope Probing for the Characterization of Rapidly Responding Soil Bacteria

(2011) Zachary T. Aanderud et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

PCR Amplification-Independent Methods for Detection of Microbial Communities by the High-Density Microarray PhyloChip

(2011) Kristen M. DeAngelis et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Growth of saprotrophic fungi and bacteria in soil

(2011) Johannes Rousk et al.   FEMS MICROBIOLOGY ECOLOGY

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

(2011) Petr Baldrian et al.   ISME Journal

Dynamics of 18O Incorporation from H 2 18O into Soil Microbial DNA

(2011) Steven J. Blazewicz et al.   MICROBIAL ECOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Ribosomal tag pyrosequencing of DNA and RNA from benthic coral reef microbiota: community spatial structure, rare members and nitrogen-cycling guilds

(2010) Eric Gaidos et al.   ENVIRONMENTAL MICROBIOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

The ecological coherence of high bacterial taxonomic ranks

(2010) Laurent Philippot et al.   NATURE REVIEWS MICROBIOLOGY

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The influence of precipitation pulses on soil respiration – Assessing the “Birch effect” by stable carbon isotopes

(2010) Stephan Unger et al.   SOIL BIOLOGY & BIOCHEMISTRY

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Spatial patterns of bacterial taxa in nature reflect ecological traits of deep branches of the 16S rRNA bacterial tree

(2009) Laurent Philippot et al.   ENVIRONMENTAL MICROBIOLOGY

Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes

(2009) Iwanka Kozarewa et al.   NATURE METHODS