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

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

(2011) Silke Langenheder et al.   ISME Journal

Robust Computational Analysis of rRNA Hypervariable Tag Datasets

(2011) Maksim Sipos 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

The Unified Neutral Theory of Biodiversity and Biogeography at Age Ten

(2011) James Rosindell et al.   TRENDS IN ECOLOGY & EVOLUTION

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

Different but equal: the implausible assumption at the heart of neutral theory

(2010) Drew W. Purves et al.   JOURNAL OF ANIMAL ECOLOGY

A mathematical synthesis of niche and neutral theories in community ecology

(2010) Bart Haegeman et al.   JOURNAL OF THEORETICAL BIOLOGY

Balance of Neutral and Deterministic Components in the Dynamics of Activated Sludge Floc Assembly

(2010) Joaquín M. Ayarza et al.   MICROBIAL ECOLOGY

Niche and neutral models predict asymptotically equivalent species abundance distributions in high-diversity ecological communities

(2010) R. A. Chisholm et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Infernal 1.0: inference of RNA alignments

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

A general framework for neutral models of community dynamics

(2009) Omri Allouche et al.   ECOLOGY LETTERS

The merging of community ecology and phylogenetic biology

(2009) Jeannine Cavender-Bares et al.   ECOLOGY LETTERS

Phylogenetic diversity metrics for ecological communities: integrating species richness, abundance and evolutionary history

(2009) Marc W. Cadotte et al.   ECOLOGY LETTERS

Quantifying the relative importance of niches and neutrality for coexistence in a model microbial system

(2009) Quan-Guo Zhang et al.   FUNCTIONAL ECOLOGY

Reproducible Community Dynamics of the Gastrointestinal Microbiota following Antibiotic Perturbation

(2009) D. A. Antonopoulos et al.   INFECTION AND IMMUNITY

Ecological Equivalence: A Realistic Assumption for Niche Theory as a Testable Alternative to Neutral Theory

(2009) C. Patrick Doncaster   PLoS One

Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases

(2009) Jennifer M. Brulc et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Inferring species interactions in tropical forests

(2009) I. Volkov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Innate and Adaptive Immunity Cooperate Flexibly to Maintain Host-Microbiota Mutualism

(2009) E. Slack et al.   SCIENCE

Species Synchrony and Its Drivers: Neutral and Nonneutral Community Dynamics in Fluctuating Environments

(2008) Michel Loreau et al.   AMERICAN NATURALIST

PHYLOGENY, NICHES, AND RELATIVE ABUNDANCE IN NATURAL COMMUNITIES

(2008) Colleen K. Kelly et al.   ECOLOGY

Neutral metacommunity models predict fish diversity patterns in Mississippi–Missouri basin

(2008) Rachata Muneepeerakul et al.   NATURE

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH

Comparative Metagenomics Reveals Host Specific Metavirulomes and Horizontal Gene Transfer Elements in the Chicken Cecum Microbiome

(2008) Ani Qu et al.   PLoS One

Symbiotic gut microbes modulate human metabolic phenotypes

(2008) M. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenetic analysis of community assembly and structure over space and time

(2008) Brent C. Emerson et al.   TRENDS IN ECOLOGY & EVOLUTION

Exploring Microbial Diversity and Taxonomy Using SSU rRNA Hypervariable Tag Sequencing

(2008) Susan M. Huse et al.   PLoS Genetics