Genome-scale genetic manipulation methods for exploring bacterial molecular biology

Ribosome-Dependent ATPase Interacts with Conserved Membrane Protein in Escherichia coli to Modulate Protein Synthesis and Oxidative Phosphorylation

(2011) Mohan Babu et al.   PLoS One

High Diversity of the Saliva Microbiome in Batwa Pygmies

(2011) Ivan Nasidze et al.   PLoS One

On the Future of Genomic Data

(2011) S. D. Kahn   SCIENCE

Drosophila Microbiome Modulates Host Developmental and Metabolic Homeostasis via Insulin Signaling

(2011) S. C. Shin et al.   SCIENCE

The vaginal microbiome in health and disease

(2011) Bryan A. White et al.   TRENDS IN ENDOCRINOLOGY AND METABOLISM

Genetic Interaction Maps in Escherichia coli Reveal Functional Crosstalk among Cell Envelope Biogenesis Pathways

(2011) Mohan Babu et al.   PLoS Genetics

Key technologies for bioethanol production from lignocellulose

(2010) Hongzhang Chen et al.   BIOTECHNOLOGY ADVANCES

Regulation of Peptidoglycan Synthesis by Outer-Membrane Proteins

(2010) Athanasios Typas et al.   CELL

Second Messenger-Mediated Adjustment of Bacterial Swimming Velocity

(2010) Alex Boehm et al.   CELL

Phenotypic Landscape of a Bacterial Cell

(2010) Robert J. Nichols et al.   CELL

Regulatory RNA in Bacterial Pathogens

(2010) Kai Papenfort et al.   Cell Host & Microbe

Biotechnological strategies to overcome inhibitors in lignocellulose hydrolysates for ethanol production: review

(2010) W. Parawira et al.   CRITICAL REVIEWS IN BIOTECHNOLOGY

A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair

(2010) Mohan Babu et al.   MOLECULAR MICROBIOLOGY

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Rapid profiling of a microbial genome using mixtures of barcoded oligonucleotides

(2010) Joseph R Warner et al.   NATURE BIOTECHNOLOGY

Microbiome Profiling by Illumina Sequencing of Combinatorial Sequence-Tagged PCR Products

(2010) Gregory B. Gloor et al.   PLoS One

Tracking, tuning, and terminating microbial physiology using synthetic riboregulators

(2010) J. M. Callura et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metabolic Syndrome and Altered Gut Microbiota in Mice Lacking Toll-Like Receptor 5

(2010) M. Vijay-Kumar et al.   SCIENCE

Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome

(2010) D. G. Gibson et al.   SCIENCE

The Genetic Landscape of a Cell

(2010) M. Costanzo et al.   SCIENCE

Structure of a SLC26 Anion Transporter STAS Domain in Complex with Acyl Carrier Protein: Implications for E. coli YchM in Fatty Acid Metabolism

(2010) Mohan Babu et al.   STRUCTURE

The Bacterial Cell Envelope

(2010) T. J. Silhavy et al.   Cold Spring Harbor Perspectives in Biology

Comparative analysis of human saliva microbiome diversity by barcoded pyrosequencing and cloning approaches

(2009) Ivan Nasidze et al.   ANALYTICAL BIOCHEMISTRY

Genome sequence data: management, storage, and visualization

(2009) Jacqueline Batley et al.   BIOTECHNIQUES

Combining chemical genomics screens in yeast to reveal spectrum of effects of chemical inhibition of sphingolipid biosynthesis

(2009) Danielle Kemmer et al.   BMC MICROBIOLOGY

Regulation of c-di-GMP metabolism in biofilms

(2009) Kristina Jonas et al.   Future Microbiology

Quantitative phenotyping via deep barcode sequencing

(2009) A. M. Smith et al.   GENOME RESEARCH

Systems-level approaches for identifying and analyzing genetic interaction networks in Escherichia coli and extensions to other prokaryotes

(2009) Mohan Babu et al.   Molecular BioSystems

Programming cells by multiplex genome engineering and accelerated evolution

(2009) Harris H. Wang et al.   NATURE

Tn-seq: high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms

(2009) Tim van Opijnen et al.   NATURE METHODS

Enzymatic assembly of DNA molecules up to several hundred kilobases

(2009) Daniel G Gibson et al.   NATURE METHODS

Sequencing technologies — the next generation

(2009) Michael L. Metzker   NATURE REVIEWS GENETICS

Structural and mechanistic determinants of c-di-GMP signalling

(2009) Tilman Schirmer et al.   NATURE REVIEWS MICROBIOLOGY

Conditional gene silencing of multiple genes with antisense RNAs and generation of a mutator strain of Escherichia coli

(2009) Nobutaka Nakashima et al.   NUCLEIC ACIDS RESEARCH

Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung

(2009) J. D. Gawronski et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Recent advances and method development for drug target identification

(2009) Janet N.Y. Chan et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins

(2009) Pingzhao Hu et al.   PLOS BIOLOGY

Escherichia coli strains with promoter libraries constructed by Red/ET recombination pave the way for transcriptional fine-tuning

(2008) Stephan Braatsch et al.   BIOTECHNIQUES

Genetic Interaction Screens with Ordered Overexpression and Deletion Clone Sets Implicate the Escherichia coli GTPase YjeQ in Late Ribosome Biogenesis

(2008) T. L. Campbell et al.   JOURNAL OF BACTERIOLOGY

eSGA: E. coli synthetic genetic array analysis

(2008) Gareth Butland et al.   NATURE METHODS

High-throughput, quantitative analyses of genetic interactions in E. coli

(2008) Athanasios Typas et al.   NATURE METHODS

Defining genetic interaction

(2008) R. Mani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epidemiology of community-acquired pneumonia in older adults: A population-based study

(2008) Angel Vila-Corcoles et al.   RESPIRATORY MEDICINE

Complete Chemical Synthesis, Assembly, and Cloning of a Mycoplasma genitalium Genome

(2008) D. G. Gibson et al.   SCIENCE

The impact of next-generation sequencing technology on genetics

(2008) Elaine R. Mardis   TRENDS IN GENETICS

Yeast chemical genomics and drug discovery: an update

(2008) Shawn Hoon et al.   TRENDS IN PHARMACOLOGICAL SCIENCES