One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products, P Natl Acad Sci USA, vol.97, pp.6640-6645, 2000. ,
Evolved Cas9 variants with broad PAM compatibility and high DNA specificity, Nature, vol.556, pp.57-63, 2018. ,
Design rules of synthetic non-coding RNAs in bacteria, Methods, vol.143, pp.58-69, 2018. ,
Identification of critical staphylococcal genes using conditional phenotypes generated by antisense RNA, Science, vol.293, pp.2266-2269, 2001. ,
A genome-wide inducible phenotypic screen identifies antisense RNA constructs silencing Escherichia coli essential genes, FEMS Microbiol. Lett, vol.329, pp.45-53, 2012. ,
Metabolic engineering of Escherichia coli using synthetic small regulatory RNAs, Nat. Biotechnol, vol.31, pp.170-174, 2013. ,
Toehold switches: de-novo-designed regulators of gene expression, Cell, vol.159, pp.925-939, 2014. ,
RNA-based dynamic genetic controllers: development strategies and applications, Curr. Opin. Biotechnol, vol.53, pp.1-11, 2018. ,
A modular and extensible RNA-based gene-regulatory platform for engineering cellular function, Proc. Natl. Acad. Sci. U.S.A, vol.104, pp.14283-14288, 2007. ,
Model-driven engineering of RNA devices to quantitatively program gene expression, Science, vol.334, pp.1716-1719, 2011. ,
Development of Design Rules for Reliable Antisense RNA Behavior in E. coli, ACS Synth. Biol, vol.5, pp.1441-1454, 2016. ,
Creating small transcription activating RNAs, Nat. Chem. Biol, vol.11, pp.214-220, 2015. ,
Versatile RNA-sensing transcriptional regulators for engineering genetic networks, Proc. Natl. Acad. Sci. U.S.A, vol.108, pp.8617-8622, 2011. ,
Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression, Cell, vol.152, pp.1173-1183, 2013. ,
Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system, Nucleic Acids Res, vol.41, pp.7429-7437, 2013. ,
CRISPR provides acquired resistance against viruses in prokaryotes, Science, vol.315, pp.1709-1712, 2007. ,
CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea, Nat. Rev. Genet, vol.11, pp.181-190, 2010. ,
A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity, Science, vol.337, pp.816-821, 2012. ,
An updated evolutionary classification of CRISPR-Cas systems, Nature Reviews Microbiology, vol.13, pp.722-736, 2015. ,
Crystal Structure of Cas9 in Complex with Guide RNA and Target DNA, Cell, vol.156, pp.935-949, 2014. ,
CRISPR interference can prevent natural transformation and virulence acquisition during in vivo bacterial infection, Cell Host Microbe, vol.12, pp.177-186, 2012. ,
URL : https://hal.archives-ouvertes.fr/pasteur-02505336
Development of sequence-specific antimicrobials based on programmable CRISPR-Cas nucleases, Nat Biotechnol, vol.32, pp.1146-1150, 2014. ,
Consequences of Cas9 cleavage in the chromosome of Escherichia coli, Nucleic Acids Res, vol.44, pp.4243-4251, 2016. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01967442
Sequence-specific antimicrobials using efficiently delivered RNA-guided nucleases, Nature Biotechnology, vol.32, pp.1141-1145, 2014. ,
,
CRISPR-based Functional Analysis of Essential Genes in Bacteria, Cell, vol.165, pp.1493-1506, 2016. ,
High-throughput CRISPRi phenotyping identifies new essential genes in Streptococcus pneumoniae, Mol. Syst. Biol, vol.13, p.931, 2017. ,
A CRISPRi screen in E. coli reveals sequence-specific toxicity of dCas9, Nat Commun, vol.9, p.1912, 2018. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01819630
Genome-wide CRISPR-dCas9 screens in E. coli identify essential genes and phage host factors, PLoS Genet, vol.14, p.1007749, 2018. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01975438
Gene silencing by CRISPR interference in mycobacteria, Nat Commun, vol.6, p.6267, 2015. ,
Construction of a Gene Knockdown System Based on Catalytically Inactive, Appl. Environ. Microbiol, vol.83, 2017. ,
Tuning Gene Activity by Inducible and Targeted Regulation of Gene Expression in Minimal Bacterial Cells, ACS Synth. Biol, vol.7, pp.1538-1552, 2018. ,
A Robust CRISPR Interference Gene Repression System in Pseudomonas, Journal of Bacteriology, vol.200, pp.575-592, 2018. ,
Pooled CRISPR interference screening enables genome-scale functional genomics study in bacteria with superior performance, Nat Commun, vol.9, 2018. ,
CRISPR/dCas9-mediated inhibition of gene expression in Staphylococcus aureus, J. Microbiol. Methods, vol.139, pp.79-86, 2017. ,
Nucleotide sequence and functional map of pC194, a plasmid that specifies inducible chloramphenicol resistance, J. Bacteriol, vol.150, pp.815-825, 1982. ,
, Gene cloning in lactic streptococci., Neth. Milk Dairy J, pp.141-154, 1986.
Mry, a trans-acting positive regulator of the M protein gene of Streptococcus pyogenes with similarity to the receptor proteins of two-component regulatory systems, J. Bacteriol, vol.173, pp.2617-2624, 1991. ,
Molecular basis of H2O2 resistance mediated by Streptococcal Dpr. Demonstration of the functional involvement of the putative ferroxidase center by site-directed mutagenesis in Streptococcus suis, J. Biol. Chem, vol.278, pp.7996-8005, 2003. ,
Rational Design of a Plasmid Origin That Replicates Efficiently in Both Gram-Positive and Gram-Negative Bacteria, PLoS One, vol.5, 2010. ,
Expression of the Arp protein, a member of the M protein family, is not sufficient to inhibit phagocytosis of Streptococcus pyogenes, Infect. Immun, vol.63, pp.345-348, 1995. ,
Gene cloning and expression in lactic streptococci, FEMS Microbiology Letters, vol.46, pp.90113-90116, 1987. ,
Electrotransformation of Lactobacillus manihotivorans LMG 18010T and LMG 18011, Journal of Applied Microbiology, vol.87, pp.99-107, 1999. ,
Shuttle expression plasmids for genetic studies in Streptococcus mutans, Microbiology, vol.154, pp.2275-2282, 2008. ,
Investigation of the Role That NADH Peroxidase Plays in Oxidative Stress Survival in Group B Streptococcus, Front. Microbiol, vol.9, 2018. ,
A new family of mobilizable suicide plasmids based on broad host range R388 plasmid (IncW) and RP4 plasmid (IncPalpha) conjugative machineries and their cognate Escherichia coli host strains, Res. Microbiol, vol.156, pp.245-255, 2005. ,
Silent Mischief: Bacteriophage Mu Insertions Contaminate Products of Escherichia coli Random Mutagenesis Performed Using Suicidal Transposon Delivery Plasmids Mobilized by Broad-Host-Range RP4 Conjugative Machinery, Journal of Bacteriology, vol.192, pp.6418-6427, 2010. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01372302
Enabling genetic analysis of diverse bacteria with Mobile-CRISPRi, Nature Microbiology, vol.4, p.244, 2019. ,
A One Pot, One Step, Precision Cloning Method with High Throughput Capability, PLoS ONE, vol.3, p.3647, 2008. ,
The toxic shock syndrome exotoxin structural gene is not detectably transmitted by a prophage, Nature, vol.305, pp.709-712, 1983. ,
High-throughput biochemical profiling reveals sequence determinants of dCas9 off-target binding and unbinding, Proc Natl Acad Sci, vol.114, pp.5461-5466, 2017. ,
, Identifying and Visualizing Functional PAM Diversity across CRISPR-Cas Systems, vol.62, pp.137-147, 2016.
, Transformation of Chemically Competent E. coli, pp.329-336, 2013.
Properties of a cryptic high-frequency transducing phage in Staphylococcus aureus, Virology, vol.33, pp.155-166, 1967. ,
Complete Bypass of Restriction Systems for Major Staphylococcus aureus Lineages, MBio, vol.6, pp.308-323, 2015. ,
Redox sensing by a Rex-family repressor is involved in the regulation of anaerobic gene expression in Staphylococcus aureus, Mol. Microbiol, vol.76, pp.1142-1161, 2010. ,
Regulation of noise in the expression of a single gene, Nat Genet, vol.31, pp.69-73, 2002. ,
Models of stochastic gene expression, Physics of Life Reviews, vol.2, pp.157-175, 2005. ,
Enzymatic assembly of DNA molecules up to several hundred kilobases, Nat. Methods, vol.6, pp.343-345, 2009. ,
One-step cloning and chromosomal integration of DNA, ACS Synth Biol, vol.2, pp.537-541, 2013. ,
Automated design of synthetic ribosome binding sites to control protein expression, Nature Biotechnology, vol.27, pp.946-950, 2009. ,
Efficient search, mapping, and optimization of multi-protein genetic systems in diverse bacteria, Molecular Systems Biology, vol.10, p.731, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-01860867
Quantifying cellular capacity identifies gene expression designs with reduced burden, Nat Methods, vol.12, pp.415-418, 2015. ,