Phosphorus depletion in forest soils shapes bacterial communities towards phosphorus recycling systems

Crystal Structure of theBacillus subtilisPhosphodiesterase PhoD Reveals an Iron and Calcium-containing Active Site

(2014) Fernanda Rodriguez et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

CDD: NCBI's conserved domain database

(2014) Aron Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Isolating the influence of pH on the amounts and forms of soil organic phosphorus

(2013) B. L. Turner et al.   EUROPEAN JOURNAL OF SOIL SCIENCE

RefSeq microbial genomes database: new representation and annotation strategy

(2013) Tatiana Tatusova et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Long-term phosphorus fertilisation increased the diversity of the total bacterial community and the phoD phosphorus mineraliser group in pasture soils

(2012) Hao Tan et al.   BIOLOGY AND FERTILITY OF SOILS

TIGRFAMs and Genome Properties in 2013

(2012) Daniel H. Haft et al.   NUCLEIC ACIDS RESEARCH

Evaluation of the ISO Standard 11063 DNA Extraction Procedure for Assessing Soil Microbial Abundance and Community Structure

(2012) Pierre Plassart et al.   PLoS One

Metagenomic Analysis of a Southern Maritime Antarctic Soil

(2012) David A. Pearce et al.   Frontiers in Microbiology

Integrative analysis of environmental sequences using MEGAN4

(2011) D. H. Huson et al.   GENOME RESEARCH

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

(2011) Petr Baldrian et al.   ISME Journal

Improved protocol for the simultaneous extraction and column-based separation of DNA and RNA from different soils

(2011) Stefanie Töwe et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Soil Microorganisms Mediating Phosphorus Availability Update on Microbial Phosphorus

(2011) A. E. Richardson et al.   PLANT PHYSIOLOGY

Biological Consequences of Ancient Gene Acquisition and Duplication in the Large Genome of Candidatus Solibacter usitatus Ellin6076

(2011) Jean F. Challacombe et al.   PLoS One

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

(2010) Murray P Cox et al.   BMC BIOINFORMATICS

Global regulation by the seven-component Pi signaling system

(2010) Yi-Ju Hsieh et al.   CURRENT OPINION IN MICROBIOLOGY

Terrestrial phosphorus limitation: mechanisms, implications, and nitrogen–phosphorus interactions

(2010) Peter M. Vitousek et al.   ECOLOGICAL APPLICATIONS

Abundances and potential activities of nitrogen cycling microbial communities along a chronosequence of a glacier forefield

(2010) Robert Brankatschk et al.   ISME Journal

Soil bacterial and fungal communities across a pH gradient in an arable soil

(2010) Johannes Rousk et al.   ISME Journal

FragGeneScan: predicting genes in short and error-prone reads

(2010) Mina Rho et al.   NUCLEIC ACIDS RESEARCH

A Primer on Metagenomics

(2010) John C. Wooley et al.   PLoS Computational Biology

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

Three Genomes from the Phylum Acidobacteria Provide Insight into the Lifestyles of These Microorganisms in Soils

(2009) N. L. Ward et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Global patterns in belowground communities

(2009) Noah Fierer et al.   ECOLOGY LETTERS

Subcellular localization of marine bacterial alkaline phosphatases

(2009) Haiwei Luo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS