Why are some microbes more ubiquitous than others? Predicting the habitat breadth of soil bacteria

Cell Size Distributions of Soil Bacterial and Archaeal Taxa

(2013) Maria C. Portillo et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Functional traits explain phytoplankton responses to environmental gradients across lakes of the United States

(2013) Kyle F. Edwards et al.   ECOLOGY

Niche breadth predicts geographical range size: a general ecological pattern

(2013) Rachel A. Slatyer et al.   ECOLOGY LETTERS

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Delivering on a promise: integrating species traits to transform descriptive community ecology into a predictive science

(2013) W. C. E. P. Verberk et al.   Freshwater Science

Metabolically versatile large-genome prokaryotes

(2012) Benoit Guieysse et al.   CURRENT OPINION IN BIOTECHNOLOGY

Mapping the niche space of soil microorganisms using taxonomy and traits

(2012) Jay T. Lennon et al.   ECOLOGY

Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts

(2012) C. Lozupone et al.   GENOME RESEARCH

Towards a more mechanistic understanding of traits and range sizes

(2012) Irina Laube et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY

Phylogenetic conservatism of functional traits in microorganisms

(2012) Adam C Martiny et al.   ISME Journal

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

(2012) J Gregory Caporaso et al.   ISME Journal

PrimerProspector: de novo design and taxonomic analysis of barcoded polymerase chain reaction primers

(2011) William A. Walters et al.   BIOINFORMATICS

Comparative metagenomic, phylogenetic and physiological analyses of soil microbial communities across nitrogen gradients

(2011) Noah Fierer 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

Exploration of community traits as ecological markers in microbial metagenomes

(2011) ALBERT BARBERÁN et al.   MOLECULAR ECOLOGY

IMG: the integrated microbial genomes database and comparative analysis system

(2011) V. M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

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

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

An integrative approach to understanding microbial diversity: from intracellular mechanisms to community structure

(2010) Ivana Gudelj et al.   ECOLOGY LETTERS

The ecological coherence of high bacterial taxonomic ranks

(2010) Laurent Philippot et al.   NATURE REVIEWS MICROBIOLOGY

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

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

The Systemic Imprint of Growth and Its Uses in Ecological (Meta)Genomics

(2010) Sara Vieira-Silva et al.   PLoS Genetics

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

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

The impact of long-distance horizontal gene transfer on prokaryotic genome size

(2009) O. X. Cordero et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The genomic basis of trophic strategy in marine bacteria

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

A Parsimony Approach to Biological Pathway Reconstruction/Inference for Genomes and Metagenomes

(2009) Yuzhen Ye et al.   PLoS Computational Biology

Comparative genomics: the bacterial pan-genome

(2008) Hervé Tettelin et al.   CURRENT OPINION IN MICROBIOLOGY

Phylogenetic niche conservatism, phylogenetic signal and the relationship between phylogenetic relatedness and ecological similarity among species

(2008) Jonathan B. Losos   ECOLOGY LETTERS

Ecophysiological significance of scale-dependent patterns in prokaryotic genomes unveiled by a combination of statistic and genometric analyses

(2008) Juan A.L. Garcia et al.   GENOMICS

Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world

(2008) E. V. Koonin et al.   NUCLEIC ACIDS RESEARCH

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

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

Microbial Biogeography: From Taxonomy to Traits

(2008) J. L. Green et al.   SCIENCE