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ArticlesPeer ReviewedFull Text
Editing the microbiome the CRISPR way
Author / Creator:Ramachandran, Gayetri ; Bikard, David
Publisher:England: Royal Society, The
Journal title:Philosophical transactions of the Royal Society of London. Series B. Biological sciences, 2019-05, Vol.374 (1772), p.20180103-20180103
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ArticlesPeer ReviewedFull Text
Generating functional protein variants with variational autoencoders
Author / Creator:Hawkins-Hooker, Alex ; Depardieu, Florence ; Baur, Sebastien ; Couairon, Guillaume ; Chen, Arthur ; Bikard, David
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2021-02, Vol.17 (2), p.e1008736-e1008736
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ArticlesPeer ReviewedFull Text
Microbial defenses against mobile genetic elements and viruses: Who defends whom from what?
Author / Creator:Rocha, Eduardo P C ; Bikard, David
Publisher:United States: Public Library of Science
Journal title:PLoS biology, 2022-01, Vol.20 (1), p.e3001514-e3001514
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ArticlesPeer ReviewedFull Text
A CRISPRi screen in E. coli reveals sequence-specific toxicity of dCas9
Author / Creator:Cui, Lun ; Vigouroux, Antoine ; Rousset, François ; Varet, Hugo ; Khanna, Varun ; Bikard, David
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2018-05, Vol.9 (1), p.1912-10, Article 1912
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ArticlesPeer ReviewedFull Text
PhageTerm: a tool for fast and accurate determination of phage termini and packaging mechanism using next-generation sequencing data
Author / Creator:Garneau, Julian R. ; Depardieu, Florence ; Fortier, Louis-Charles ; Bikard, David ; Monot, Marc
Publisher:London: Nature Publishing Group UK
Journal title:Scientific reports, 2017-08, Vol.7 (1), p.8292-10, Article 8292
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ArticlesPeer ReviewedFull Text
Conditional tolerance of temperate phages via transcription-dependent CRISPR-Cas targeting
Author / Creator:Goldberg, Gregory W. ; Jiang, Wenyan ; Bikard, David ; Marraffini, Luciano A.
Publisher:London: Nature Publishing Group UK
Journal title:Nature (London), 2014-10, Vol.514 (7524), p.633-637
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ArticlesPeer ReviewedFull Text
Conjugative DNA transfer induces the bacterial SOS response and promotes antibiotic resistance development through integron activation
Author / Creator:Baharoglu, Zeynep ; Bikard, David ; Mazel, Didier
Publisher:United States: Public Library of Science
Journal title:PLoS genetics, 2010-10, Vol.6 (10), p.e1001165
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ArticlesPeer ReviewedFull Text
Tuning dCas9's ability to block transcription enables robust, noiseless knockdown of bacterial genes
Author / Creator:Vigouroux, Antoine ; Oldewurtel, Enno ; Cui, Lun ; Bikard, David ; van Teeffelen, Sven
Publisher:London: Nature Publishing Group UK
Journal title:Molecular systems biology, 2018-03, Vol.14 (3), p.e7899-n/a
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ArticlesPeer ReviewedFull Text
Inhibition of NHEJ repair by type II-A CRISPR-Cas systems in bacteria
Author / Creator:Bernheim, Aude ; Calvo-Villamañán, Alicia ; Basier, Clovis ; Cui, Lun ; Rocha, Eduardo P. C. ; Touchon, Marie ; Bikard, David
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2017-12, Vol.8 (1), p.2094-9, Article 2094
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Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessment
Author / Creator:Malbranke, Cyril ; Rostain, William ; Depardieu, Florence ; Cocco, Simona ; Monasson, Rémi ; Bikard, David
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2023-11, Vol.19 (11), p.e1011621-e1011621
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ArticlesPeer ReviewedFull Text
Class-A penicillin binding proteins do not contribute to cell shape but repair cell-wall defects
Author / Creator:Vigouroux, Antoine ; Cordier, Baptiste ; Aristov, Andrey ; Alvarez, Laura ; Özbaykal, Gizem ; Chaze, Thibault ; Oldewurtel, Enno Rainer ; Matondo, Mariette ; Cava, Felipe ; Bikard, David ; van Teeffelen, Sven
Publisher:England: eLife Sciences Publications Ltd
Journal title:eLife, 2020-01, Vol.9
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ArticlesPeer ReviewedFull Text
Fine-tuning of a CRISPRi screen in the seventh pandemic Vibrio cholerae
Author / Creator:Debatisse, Kevin ; Niault, Théophile ; Peeters, Sarah ; Maire, Amandine ; Toktas, Busra ; Darracq, Baptiste ; Baharoglu, Zeynep ; Bikard, David ; Mazel, Didier ; Loot, Céline
Publisher:England: BioMed Central Ltd
Journal title:BMC genomics, 2024-10, Vol.25 (1), p.985-16, Article 985
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ArticlesPeer ReviewedFull Text
Genome-wide CRISPR-dCas9 screens in E. coli identify essential genes and phage host factors
Author / Creator:Rousset, François ; Cui, Lun ; Siouve, Elise ; Becavin, Christophe ; Depardieu, Florence ; Bikard, David
Publisher:United States: Public Library of Science
Journal title:PLoS genetics, 2018-11, Vol.14 (11), p.e1007749-e1007749
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ArticlesPeer ReviewedFull Text
Microbial-derived products as potential new antimicrobials
Author / Creator:Seal, Bruce S ; Drider, Djamel ; Oakley, Brian B ; Brüssow, Harald ; Bikard, David ; Rich, Joseph O ; Miller, Stefan ; Devillard, Estelle ; Kwan, Jason ; Bertin, Gérard ; Reeves, Stuart ; Swift, Steven M ; Raicek, Margot ; Gay, Cyril G
Publisher:England: BioMed Central Ltd
Journal title:Veterinary research (Paris), 2018-07, Vol.49 (1), p.66-66, Article 66
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ArticlesPeer ReviewedFull Text
Generation of a Biotin-Tagged Dual-Display Phage
Author / Creator:De Plano, Laura Maria ; Oddo, Salvatore ; Bikard, David ; Caccamo, Antonella ; Conoci, Sabrina
Publisher:Switzerland: MDPI AG
Journal title:Cells (Basel, Switzerland), 2024-10, Vol.13 (20), p.1696
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ArticlesPeer ReviewedFull Text
High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome
Author / Creator:Garneau, Julian R. ; Legrand, Véronique ; Marbouty, Martial ; Press, Maximilian O. ; Vik, Dean R. ; Fortier, Louis-Charles ; Sullivan, Matthew B. ; Bikard, David ; Monot, Marc
Publisher:London: Nature Publishing Group UK
Journal title:Scientific reports, 2021-09, Vol.11 (1), p.18319-18319, Article 18319
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ArticlesPeer ReviewedFull Text
Author Correction: High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome
Author / Creator:Garneau, Julian R. ; Legrand, Véronique ; Marbouty, Martial ; Press, Maximilian O. ; Vik, Dean R. ; Fortier, Louis-Charles ; Sullivan, Matthew B. ; Bikard, David ; Monot, Marc
Publisher:London: Nature Publishing Group UK
Journal title:Scientific reports, 2022-05, Vol.12 (1), p.7556-7556, Article 7556
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Newsletter articlesFull Text
WIPO PUBLISHES PATENT OF THE BROAD INSTITUTE, MASSACHUSETTS INSTITUTE OF TECHNOLOGY, PRESIDENT AND FELLOWS OF HARVARD COLLEGE, THE ROCKEFELLER UNIVERSITY, FENG ZHANG, DAVID OLIVIER BIKARD, DAVID BENJA...
Publisher:Washington, D.C: HT Digital Streams Limited
Journal title:US Fed News Service, Including US State News, 2014
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ArticlesPeer ReviewedFull Text
Lipoprotein DolP supports proper folding of BamA in the bacterial outer membrane promoting fitness upon envelope stress
Author / Creator:Ranava, David ; Yang, Yiying ; Orenday-Tapia, Luis ; Rousset, François ; Turlan, Catherine ; Morales, Violette ; Cui, Lun ; Moulin, Cyril ; Froment, Carine ; Munoz, Gladys ; Rech, Jérôme ; Marcoux, Julien ; Caumont-Sarcos, Anne ; Albenne, Cécile ; Bikard, David ; Ieva, Raffaele
Publisher:England: eLife Science Publications, Ltd
Journal title:eLife, 2021-04, Vol.10
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ArticlesPeer ReviewedFull Text
Structural features of single-stranded integron cassette attC sites and their role in strand selection
Author / Creator:Bouvier, Marie ; Ducos-Galand, Magaly ; Loot, Céline ; Bikard, David ; Mazel, Didier
Publisher:United States: Public Library of Science
Journal title:PLoS genetics, 2009-09, Vol.5 (9), p.e1000632-e1000632
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Editing the microbiome the CRISPR way

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Generating functional protein variants with variational autoencoders

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Microbial defenses against mobile genetic elements and viruses: Who defends whom from what?

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A CRISPRi screen in E. coli reveals sequence-specific toxicity of dCas9

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PhageTerm: a tool for fast and accurate determination of phage termini and packaging mechanism using next-generation sequencing data

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Conditional tolerance of temperate phages via transcription-dependent CRISPR-Cas targeting

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Conjugative DNA transfer induces the bacterial SOS response and promotes antibiotic resistance development through integron activation

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Tuning dCas9's ability to block transcription enables robust, noiseless knockdown of bacterial genes

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Inhibition of NHEJ repair by type II-A CRISPR-Cas systems in bacteria

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Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessment

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Class-A penicillin binding proteins do not contribute to cell shape but repair cell-wall defects

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Fine-tuning of a CRISPRi screen in the seventh pandemic Vibrio cholerae

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Genome-wide CRISPR-dCas9 screens in E. coli identify essential genes and phage host factors

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Microbial-derived products as potential new antimicrobials

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Generation of a Biotin-Tagged Dual-Display Phage

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High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome

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Author Correction: High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome

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WIPO PUBLISHES PATENT OF THE BROAD INSTITUTE, MASSACHUSETTS INSTITUTE OF TECHNOLOGY, PRESIDENT AND FELLOWS OF HARVARD COLLEGE, THE ROCKEFELLER UNIVERSITY, FENG ZHANG, DAVID OLIVIER BIKARD, DAVID BENJA...

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Lipoprotein DolP supports proper folding of BamA in the bacterial outer membrane promoting fitness upon envelope stress

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Structural features of single-stranded integron cassette attC sites and their role in strand selection

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