Massively parallel sequencing of single cells by epicPCR links functional genes with phylogenetic markers

Single gene-based distinction of individual microbial genomes from a mixed population of microbial cells

(2015) Manu V. Tamminen et al.   Frontiers in Microbiology

Agreement betweenamoAGene-Specific Quantitative PCR and FluorescenceIn SituHybridization in the Measurement of Ammonia-Oxidizing Bacteria in Activated Sludge

(2014) J. D. C. Baptista et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic and environmental diversity of DsrAB-type dissimilatory (bi)sulfite reductases

(2014) Albert Leopold Müller et al.   ISME Journal

Pairing of T-cell receptor chains via emulsion PCR

(2013) Maria A. Turchaninova et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

(2012) Elmar Pruesse et al.   BIOINFORMATICS

Genomic Mining for Novel FADH2-Dependent Halogenases in Marine Sponge-Associated Microbial Consortia

(2012) Kristina Bayer et al.   MARINE BIOTECHNOLOGY

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

High-throughput single-cell sequencing identifies photoheterotrophs and chemoautotrophs in freshwater bacterioplankton

(2011) Manuel Martinez-Garcia et al.   ISME Journal

An improved method for extracting bacteria from soil for high molecular weight DNA recovery and BAC library construction

(2011) Juan Liu et al.   JOURNAL OF MICROBIOLOGY

New cell extraction procedure applied to deep subsurface sediments

(2011) Jens Kallmeyer et al.   LIMNOLOGY AND OCEANOGRAPHY-METHODS

The Three-Dimensional Architecture of a Bacterial Genome and Its Alteration by Genetic Perturbation

(2011) Mark A. Umbarger et al.   MOLECULAR CELL

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy

(2011) I. Letunic et al.   NUCLEIC ACIDS RESEARCH

Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging

(2011) A. M. Valm et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing Individual Environmental Bacteria for Viruses by Using Microfluidic Digital PCR

(2011) A. D. Tadmor et al.   SCIENCE

High-Performance Single Cell Genetic Analysis Using Microfluidic Emulsion Generator Arrays

(2010) Yong Zeng et al.   ANALYTICAL CHEMISTRY

Nested PCR and New Primers for Analysis of Sulfate-Reducing Bacteria in Low-Cell-Biomass Environments

(2010) L. Giloteaux et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

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

High-throughput haplotype determination over long distances by haplotype fusion PCR and ligation haplotyping

(2009) Daniel J Turner et al.   Nature Protocols

PKS and NRPS gene clusters from microbial symbiont cells of marine sponges by whole genome amplification

(2009) Alexander Siegl et al.   Environmental Microbiology Reports

The ecology and biotechnology of sulphate-reducing bacteria

(2008) Gerard Muyzer et al.   NATURE REVIEWS MICROBIOLOGY