Disturbed subsurface microbial communities follow equivalent trajectories despite different structural starting points

Response of lotic microbial communities to altered water source and nutritional state in a glaciated alpine floodplain

(2016) Remo Freimann et al.   LIMNOLOGY AND OCEANOGRAPHY

Community history affects the predictability of microbial ecosystem development

(2013) Eulyn Pagaling et al.   ISME Journal

Stochastic changes over time and not founder effects drive cage effects in microbial community assembly in a mouse model

(2013) Jonathan McCafferty et al.   ISME Journal

Effect of Seawater–Sewage Cross-Transplants on Bacterial Metabolism and Diversity

(2013) Jie Xu et al.   MICROBIAL ECOLOGY

Short-Read Assembly of Full-Length 16S Amplicons Reveals Bacterial Diversity in Subsurface Sediments

(2013) Christopher S. Miller et al.   PLoS One

Uranium reduction and microbial community development in response to stimulation with different electron donors

(2012) Melissa Barlett et al.   BIODEGRADATION

High-density PhyloChip profiling of stimulated aquifer microbial communities reveals a complex response to acetate amendment

(2012) Kim M. Handley et al.   FEMS MICROBIOLOGY ECOLOGY

Microbial composition affects the functioning of estuarine sediments

(2012) Heather E Reed et al.   ISME Journal

Stochastic and deterministic assembly processes in subsurface microbial communities

(2012) James C Stegen et al.   ISME Journal

Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community

(2012) Kim M Handley et al.   ISME Journal

Quantification of the relative roles of niche and neutral processes in structuring gastrointestinal microbiomes

(2012) P. Jeraldo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fundamentals of Microbial Community Resistance and Resilience

(2012) Ashley Shade et al.   Frontiers in Microbiology

DECIPHER, a Search-Based Approach to Chimera Identification for 16S rRNA Sequences

(2011) Erik S. Wright et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Compositional divergence and convergence in arbuscular mycorrhizal fungal communities

(2011) T Caruso et al.   ECOLOGY

Acetate Availability and its Influence on Sustainable Bioremediation of Uranium-Contaminated Groundwater

(2011) Kenneth H. Williams et al.   GEOMICROBIOLOGY JOURNAL

Species sorting and neutral processes are both important during the initial assembly of bacterial communities

(2011) Silke Langenheder et al.   ISME Journal

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Disentangling the importance of ecological niches from stochastic processes across scales

(2011) J. M. Chase et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data

(2011) Christopher S Miller et al.   GENOME BIOLOGY

The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell

(2010) T. Junier et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

UniFrac: an effective distance metric for microbial community comparison

(2010) Catherine Lozupone et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Combined niche and neutral effects in a microbial wastewater treatment community

(2010) I. D. Ofiteru et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Ultramicrobacterium "Elusimicrobium minutum" gen. nov., sp. nov., the First Cultivated Representative of the Termite Group 1 Phylum

(2009) O. Geissinger et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Proteogenomic Monitoring of Geobacter Physiology during Stimulated Uranium Bioremediation

(2009) M. J. Wilkins et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Infernal 1.0: inference of RNA alignments

(2009) E. P. Nawrocki et al.   BIOINFORMATICS

Contrasts between habitat generalists and specialists: an empirical extension to the basic metacommunity framework

(2009) Shubha N. Pandit et al.   ECOLOGY

Relative roles of niche and neutral processes in structuring a soil microbial community

(2009) Alex J Dumbrell et al.   ISME Journal

Albidoferax, a new genus of Comamonadaceae and reclassification of Rhodoferax ferrireducens (Finneran et al., 2003) as Albidoferax ferrireducens comb. nov.

(2009) Chintalapati Venkata Ramana et al.   JOURNAL OF GENERAL AND APPLIED MICROBIOLOGY

Metals, minerals and microbes: geomicrobiology and bioremediation

(2009) G. M. Gadd   MICROBIOLOGY-SGM

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rules of Engagement: Interspecies Interactions that Regulate Microbial Communities

(2008) Ainslie E.F. Little et al.   Annual Review of Microbiology

Functional Diversity and Electron Donor Dependence of Microbial Populations Capable of U(VI) Reduction in Radionuclide-Contaminated Subsurface Sediments

(2008) D. M. Akob et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Psychrosinus fermentansgen. nov., sp. nov., a lactate-fermenting bacterium from near-freezing oxycline waters of a meromictic Antarctic lake

(2008) W. Matthew Sattley et al.   FEMS MICROBIOLOGY LETTERS

Transcriptome of Geobacter uraniireducens growing in uranium-contaminated subsurface sediments

(2008) Dawn E Holmes et al.   ISME Journal

Resistance, resilience, and redundancy in microbial communities

(2008) S. D. Allison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA