Tracking heavy water (D2O) incorporation for identifying and sorting active microbial cells

15N- and2H proteomic stable isotope probing links nitrogen flow to archaeal heterotrophic activity

(2014) Nicholas B. Justice et al.   ENVIRONMENTAL MICROBIOLOGY

In situvisualization of newly synthesized proteins in environmental microbes using amino acid tagging and click chemistry

(2014) Roland Hatzenpichler et al.   ENVIRONMENTAL MICROBIOLOGY

Revisiting N2 fixation in Guerrero Negro intertidal microbial mats with a functional single-cell approach

(2014) Dagmar Woebken et al.   ISME Journal

Obtaining genomes from uncultivated environmental microorganisms using FACS–based single-cell genomics

(2014) Christian Rinke et al.   Nature Protocols

Stable-Isotope Probing Reveals That Hydrogen Isotope Fractionation in Proteins and Lipids in a Microbial Community Are Different and Species-Specific

(2013) Curt R. Fischer et al.   ACS Chemical Biology

Culture Independent Raman Spectroscopic Identification of Urinary Tract Infection Pathogens: A Proof of Principle Study

(2013) Sandra Kloß et al.   ANALYTICAL CHEMISTRY

New Methods for Analysis of Spatial Distribution and Coaggregation of Microbial Populations in Complex Biofilms

(2013) Robert Almstrand et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Xenobiotics Shape the Physiology and Gene Expression of the Active Human Gut Microbiome

(2013) Corinne Ferrier Maurice et al.   CELL

Evaluating rRNA as an indicator of microbial activity in environmental communities: limitations and uses

(2013) Steven J Blazewicz et al.   ISME Journal

Dynamic responses ofBacteroides thetaiotaomicronduring growth on glycan mixtures

(2013) Theresa E. Rogers et al.   MOLECULAR MICROBIOLOGY

Microbiota-liberated host sugars facilitate post-antibiotic expansion of enteric pathogens

(2013) Katharine M. Ng et al.   NATURE

Enrichment and Genome Sequence of the Group I.1a Ammonia-Oxidizing Archaeon “Ca. Nitrosotenuis uzonensis” Representing a Clade Globally Distributed in Thermal Habitats

(2013) Elena V. Lebedeva et al.   PLoS One

Host-compound foraging by intestinal microbiota revealed by single-cell stable isotope probing

(2013) D. Berry et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

In Vivo Characterization of Atherosclerotic Plaque Depositions by Raman-Probe Spectroscopy and in Vitro Coherent Anti-Stokes Raman Scattering Microscopic Imaging on a Rabbit Model

(2012) Christian Matthäus et al.   ANALYTICAL CHEMISTRY

Click-Mediated Labeling of Bacterial Membranes through Metabolic Modification of the Lipopolysaccharide Inner Core

(2012) Audrey Dumont et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

In Situ Probing of Newly Synthesized Peptidoglycan in Live Bacteria with FluorescentD-Amino Acids

(2012) Erkin Kuru et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Assessing sub-seafloor microbial activity by combined stable isotope probing with deuterated water and 13C-bicarbonate

(2012) Gunter Wegener et al.   ENVIRONMENTAL MICROBIOLOGY

Microbes inside—from diversity to function: the case of Akkermansia

(2012) Clara Belzer et al.   ISME Journal

Microbial individuality in the natural environment

(2012) M Ackermann   ISME Journal

Phylotype-level 16S rRNA analysis reveals new bacterial indicators of health state in acute murine colitis

(2012) David Berry et al.   ISME Journal

Fucose sensing regulates bacterial intestinal colonization

(2012) Alline R. Pacheco et al.   NATURE

Functional interactions between the gut microbiota and host metabolism

(2012) Valentina Tremaroli et al.   NATURE

Genomic approaches to studying the human microbiota

(2012) George M. Weinstock   NATURE

How glycan metabolism shapes the human gut microbiota

(2012) Nicole M. Koropatkin et al.   NATURE REVIEWS MICROBIOLOGY

Autotrophy as a predominant mode of carbon fixation in anaerobic methane-oxidizing microbial communities

(2012) M. Y. Kellermann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

How to pre-process Raman spectra for reliable and stable models?

(2011) Thomas Bocklitz et al.   ANALYTICA CHIMICA ACTA

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Blautia stercoris sp. nov., isolated from human faeces

(2011) S.-K. Park et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

High-throughput isotopic analysis of RNA microarrays to quantify microbial resource use

(2011) Xavier Mayali et al.   ISME Journal

Quantitative Tracking of Isotope Flows in Proteomes of Microbial Communities

(2011) Chongle Pan et al.   MOLECULAR & CELLULAR PROTEOMICS

The Genome of Akkermansia muciniphila, a Dedicated Intestinal Mucin Degrader, and Its Use in Exploring Intestinal Metagenomes

(2011) Mark W. J. van Passel et al.   PLoS One

Recognition and Degradation of Plant Cell Wall Polysaccharides by Two Human Gut Symbionts

(2011) Eric C. Martens et al.   PLOS BIOLOGY

Proteomics and Transcriptomics Characterization of Bile Stress Response in ProbioticLactobacillus rhamnosusGG

(2010) Kerttu Koskenniemi et al.   MOLECULAR & CELLULAR PROTEOMICS

Raman microspectroscopy reveals long-term extracellular activity of chlamydiae

(2010) Susanne Haider et al.   MOLECULAR MICROBIOLOGY

The Genome Sequence of the Rumen Methanogen Methanobrevibacter ruminantium Reveals New Possibilities for Controlling Ruminant Methane Emissions

(2010) Sinead C. Leahy et al.   PLoS One

Single-Cell Ecophysiology of Microbes as Revealed by Raman Microspectroscopy or Secondary Ion Mass Spectrometry Imaging

(2009) Michael Wagner   Annual Review of Microbiology

Double Labeling of Oligonucleotide Probes for Fluorescence In Situ Hybridization (DOPE-FISH) Improves Signal Intensity and Increases rRNA Accessibility

(2009) K. Stoecker et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Hydrogen isotopic fractionation in lipid biosynthesis by H2-consuming Desulfobacterium autotrophicum

(2009) Brian J. Campbell et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Hydrogen-isotopic variability in lipids from Santa Barbara Basin sediments

(2009) Chao Li et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Functional analysis of natural microbial consortia using community proteomics

(2009) Nathan C. VerBerkmoes et al.   NATURE REVIEWS MICROBIOLOGY

Large D/H variations in bacterial lipids reflect central metabolic pathways

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

Deep-Sea Archaea Fix and Share Nitrogen in Methane-Consuming Microbial Consortia

(2009) A. E. Dekas et al.   SCIENCE

Raman tweezers sorting of single microbial cells

(2009) Wei E. Huang et al.   Environmental Microbiology Reports

Noninvasive Imaging of Protein Metabolic Labeling in Single Human Cells Using Stable Isotopes and Raman Microscopy

(2008) Henk-Jan van Manen et al.   ANALYTICAL CHEMISTRY

Differences of heterotrophic 13CO2 assimilation by Pseudomonas knackmussii strain B13 and Rhodococcus opacus 1CP and potential impact on biomarker stable isotope probing

(2008) Stefan Feisthauer et al.   ENVIRONMENTAL MICROBIOLOGY

Protein-based stable isotope probing (Protein-SIP) reveals active species within anoxic mixed cultures

(2008) Nico Jehmlich et al.   ISME Journal

Simultaneous Assessment of Soil Microbial Community Structure and Function through Analysis of the Meta-Transcriptome

(2008) Tim Urich et al.   PLoS One

Microbial community gene expression in ocean surface waters

(2008) J. Frias-Lopez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY