Detecting macroecological patterns in bacterial communities across independent studies of global soils

Where less may be more: how the rare biosphere pulls ecosystems strings

(2017) Alexandre Jousset et al.   ISME Journal

Spatial scale drives patterns in soil bacterial diversity

(2016) Sarah L. O'Brien et al.   ENVIRONMENTAL MICROBIOLOGY

Effects of dispersal and selection on stochastic assembly in microbial communities

(2016) Sarah Evans et al.   ISME Journal

Filling in biodiversity threat gaps

(2016) L. N. Joppa et al.   SCIENCE

Disaggregating the evidence linking biodiversity and ecosystem services

(2016) Taylor H. Ricketts et al.   Nature Communications

Quantitative evaluation of bias in PCR amplification and next-generation sequencing derived from metabarcoding samples

(2015) Marta Pawluczyk et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Free and open-access satellite data are key to biodiversity conservation

(2015) W. Turner et al.   BIOLOGICAL CONSERVATION

Dispersing misconceptions and identifying opportunities for the use of 'omics' in soil microbial ecology

(2015) James I. Prosser   NATURE REVIEWS MICROBIOLOGY

The MG-RAST metagenomics database and portal in 2015

(2015) Andreas Wilke et al.   NUCLEIC ACIDS RESEARCH

Global assessment of arbuscular mycorrhizal fungus diversity reveals very low endemism

(2015) J. Davison et al.   SCIENCE

Microbial Malaise: How Can We Classify the Microbiome?

(2015) Robert G. Beiko   TRENDS IN MICROBIOLOGY

Standardizing metadata and taxonomic identification in metabarcoding studies

(2015) Leho Tedersoo et al.   GigaScience

The Earth Microbiome project: successes and aspirations

(2014) Jack A Gilbert et al.   BMC BIOLOGY

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

(2014) Albert Barberán et al.   ECOLOGY LETTERS

Meta-analyses of human gut microbes associated with obesity and IBD

(2014) William A. Walters et al.   FEBS LETTERS

Are there links between responses of soil microbes and ecosystem functioning to elevated CO2, N deposition and warming? A global perspective

(2014) Pablo García-Palacios et al.   GLOBAL CHANGE BIOLOGY

Assessment of microbial diversity bias associated with soil heterogeneity and sequencing resolution in pyrosequencing analyses

(2014) Sokhee P. Jung et al.   JOURNAL OF MICROBIOLOGY

Temperature sensitivity of soil respiration rates enhanced by microbial community response

(2014) Kristiina Karhu et al.   NATURE

Belowground biodiversity and ecosystem functioning

(2014) Richard D. Bardgett et al.   NATURE

Endemism and functional convergence across the North American soil mycobiome

(2014) J. M. Talbot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Biogeographic patterns in below-ground diversity in New York City's Central Park are similar to those observed globally

(2014) K. S. Ramirez et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Global diversity and geography of soil fungi

(2014) L. Tedersoo et al.   SCIENCE

Defaunation in the Anthropocene

(2014) R. Dirzo et al.   SCIENCE

The microbial contribution to macroecology

(2014) Albert Barberán   Frontiers in Microbiology

Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences

(2014) Jai Ram Rideout et al.   PeerJ

Meta-analyses of studies of the human microbiota

(2013) C. A. Lozupone et al.   GENOME RESEARCH

A meta-analysis of changes in bacterial and archaeal communities with time

(2013) Ashley Shade et al.   ISME Journal

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

Turnover of soil bacterial diversity driven by wide-scale environmental heterogeneity

(2013) L. Ranjard et al.   Nature Communications

Global soil carbon projections are improved by modelling microbial processes

(2013) William R. Wieder et al.   Nature Climate Change

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

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

(2012) J Gregory Caporaso et al.   ISME Journal

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Sequencing our way towards understanding global eukaryotic biodiversity

(2012) Holly M. Bik et al.   TRENDS IN ECOLOGY & EVOLUTION

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

(2012) Daniel McDonald et al.   GigaScience

The genomic standards consortium: bringing standards to life for microbial ecology

(2011) Pelin Yilmaz 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

Bayesian community-wide culture-independent microbial source tracking

(2011) Dan Knights et al.   NATURE METHODS

The quality of name-based species records in databases

(2011) António M. Santos et al.   TRENDS IN ECOLOGY & EVOLUTION

Integrating biodiversity distribution knowledge: toward a global map of life

(2011) Walter Jetz et al.   TRENDS IN ECOLOGY & EVOLUTION

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

Names are key to the big new biology

(2010) D.J. Patterson et al.   TRENDS IN ECOLOGY & EVOLUTION

Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale

(2009) C. L. Lauber et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Associations between species and groups of sites: indices and statistical inference

(2009) Miquel De Cáceres et al.   ECOLOGY