Metagenomic mining of regulatory elements enables programmable species-selective gene expression

Vibrio natriegens as a fast-growing host for molecular biology

(2016) Matthew T Weinstock et al.   NATURE METHODS

Manipulating Bacterial Communities by in situ Microbiome Engineering

(2016) Ravi U. Sheth et al.   TRENDS IN GENETICS

Global repositioning of transcription start sites in a plant-fermenting bacterium

(2016) Magali Boutard et al.   Nature Communications

Promoter Screening from Bacillus subtilis in Various Conditions Hunting for Synthetic Biology and Industrial Applications

(2016) Yafeng Song et al.   PLoS One

A portable expression resource for engineering cross-species genetic circuits and pathways

(2015) Manish Kushwaha et al.   Nature Communications

Expression of heterologous sigma factors enables functional screening of metagenomic and heterologous genomic libraries

(2015) Stefan M. Gaida et al.   Nature Communications

Synthetic biology platform of CoryneBrick vectors for gene expression in Corynebacterium glutamicum and its application to xylose utilization

(2014) Min-Kyoung Kang et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Tuning constitutive recombinant gene expression in Lactobacillus plantarum

(2014) Christopher Tauer et al.   Microbial Cell Factories

Sequence-specific antimicrobials using efficiently delivered RNA-guided nucleases

(2014) Robert J Citorik et al.   NATURE BIOTECHNOLOGY

Exploiting CRISPR-Cas nucleases to produce sequence-specific antimicrobials

(2014) David Bikard et al.   NATURE BIOTECHNOLOGY

Large-scale de novo DNA synthesis: technologies and applications

(2014) Sriram Kosuri et al.   NATURE METHODS

Principles of genetic circuit design

(2014) Jennifer A N Brophy et al.   NATURE METHODS

Unique nucleotide sequence–guided assembly of repetitive DNA parts for synthetic biology applications

(2014) Joseph P Torella et al.   Nature Protocols

Programmable bacteria detect and record an environmental signal in the mammalian gut

(2014) Jonathan W. Kotula et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Programmable Removal of Bacterial Strains by Use of Genome-Targeting CRISPR-Cas Systems

(2014) A. A. Gomaa et al.   mBio

Synthetic Biology Toolbox for Controlling Gene Expression in the Cyanobacterium Synechococcus sp. strain PCC 7002

(2014) Andrew L. Markley et al.   ACS Synthetic Biology

Design of orthogonal genetic switches based on a crosstalk map of  s, anti- s, and promoters

(2013) V. A. Rhodius et al.   Molecular Systems Biology

Genomic mining of prokaryotic repressors for orthogonal logic gates

(2013) Brynne C Stanton et al.   Nature Chemical Biology

Precise and reliable gene expression via standard transcription and translation initiation elements

(2013) Vivek K Mutalik et al.   NATURE METHODS

Quantitative estimation of activity and quality for collections of functional genetic elements

(2013) Vivek K Mutalik et al.   NATURE METHODS

Composability of regulatory sequences controlling transcription and translation inEscherichia coli

(2013) Sriram Kosuri et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Causes and Effects of N-Terminal Codon Bias in Bacterial Genes

(2013) D. B. Goodman et al.   SCIENCE

Contextualizing context for synthetic biology - identifying causes of failure of synthetic biological systems

(2012) Stefano Cardinale et al.   Biotechnology Journal

Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters

(2012) Eilon Sharon et al.   NATURE BIOTECHNOLOGY

Modular control of multiple pathways using engineered orthogonal T7 polymerases

(2012) Karsten Temme et al.   NUCLEIC ACIDS RESEARCH

Turning self-destructing Salmonella into a universal DNA vaccine delivery platform

(2012) W. Kong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dual-acting riboswitch control of translation initiation and mRNA decay

(2012) M.-P. Caron et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative Analysis of Regulatory Elements between Escherichia coli and Klebsiella pneumoniae by Genome-Wide Transcription Start Site Profiling

(2012) Donghyuk Kim et al.   PLoS Genetics

The Single-Nucleotide Resolution Transcriptome of Pseudomonas aeruginosa Grown in Body Temperature

(2012) Omri Wurtzel et al.   PLoS Pathogens

Identification and remediation of biases in the activity of RNA ligases in small-RNA deep sequencing

(2011) Anitha D. Jayaprakash et al.   NUCLEIC ACIDS RESEARCH

IMG: the integrated microbial genomes database and comparative analysis system

(2011) V. M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

Synthesis of high-quality libraries of long (150mer) oligonucleotides by a novel depurination controlled process

(2010) Emily M. LeProust et al.   NUCLEIC ACIDS RESEARCH

Using deep sequencing to characterize the biophysical mechanism of a transcriptional regulatory sequence

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

Designing and engineering evolutionary robust genetic circuits

(2010) Sean C Sleight et al.   Journal of Biological Engineering

Synthesis of Methyl Halides from Biomass Using Engineered Microbes

(2009) Travis S. Bayer et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Automated design of synthetic ribosome binding sites to control protein expression

(2009) Howard M Salis et al.   NATURE BIOTECHNOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH