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Integrating a novel layer of synthetic biology tools in Pseudomonas, inspired by bacterial viruses


Phage proteins target and co-opt host ribosomes immediately upon infection

Autori: Milan Gerovac, Kotaro Chihara, Laura Wicke, Bettina Böttcher, Rob Lavigne, Jörg Vogel
Pubblicato in: Nature Microbiology, Numero 9(3), 2024, Pagina/e 787-800, ISSN 2058-5276
Editore: Nature Portfolio
DOI: 10.1038/s41564-024-01616-x

Refining the transcriptional landscapes for distinct clades of virulent phages infecting Pseudomonas aeruginosa

Autori: Leena Putzeys, Laura Wicke, Maarten Boon, Vera van Noort, Jörg Vogel, Rob Lavigne
Pubblicato in: microLife, Numero 5, 2024, Pagina/e uqae002, ISSN 2633-6693
Editore: Oxford: Oxford University Press
DOI: 10.1093/femsml/uqae002

Impact of phage predation on <i>P. aeruginosa</i> adhered to human airway epithelium: major transcriptomic changes in metabolism and virulence-associated genes

Autori: Ana C. Brandão; Leena Putzeys; Diana P. Pires; Marleen Voet; Jan Paeshuyse; Joana Azeredo; Rob Lavigne
Pubblicato in: RNA Biology, Numero Vol 20, Iss 1, 2023, Pagina/e 235-247, ISSN 1555-8584
Editore: Taylor & Francis
DOI: 10.1080/15476286.2023.2216065

Exploring the transcriptional landscape of phage–host interactions using novel high-throughput approaches

Autori: Leena Putzeys; Laura Wicke; Ana Brandão; Maarten Boon; Diana P Pires; Joana Azeredo; Jörg Vogel; Rob Lavigne; Milan Gerovac
Pubblicato in: Current Opinion in Microbiology, Numero 77, 2024, Pagina/e 102419, ISSN 1369-5274
Editore: Elsevier BV
DOI: 10.1016/j.mib.2023.102419

Sourcing Phage-Encoded Terminators Using ONT-cappable-seq for SynBio Applications in <i>Pseudomonas</i>

Autori: Eveline-Marie Lammens; Leena Putzeys; Maarten Boon; Rob Lavigne
Pubblicato in: ACS Synthetic Biology, Numero 12(5), 2023, Pagina/e 1415-1423, ISSN 2161-5063
Editore: American Chemical Society
DOI: 10.1021/acssynbio.3c00101

SEVAtile: a standardised DNA assembly method optimised for Pseudomonas.

Autori: Eveline-Marie Lammens; M. Boon; Dennis Grimon; Yves Briers; Rob Lavigne
Pubblicato in: Microbial biotechnology, 2021, ISSN 1751-7915
Editore: Society for Applied Microbiology and John Wiley & Sons Ltd
DOI: 10.1111/1751-7915.13922

A SEVA-based, CRISPR-Cas3-assisted genome engineering approach for Pseudomonas with efficient vector curing

Autori: Eveline-Marie Lammens, Daniel Christophe Volke, Kaat Schroven, Marleen Voet, Alison Kerremans, Rob Lavigne, Hanne Hendrix
Pubblicato in: Microbiology Spectrum, Numero 11(6), 2023, Pagina/e e02707-23, ISSN 2165-0497
Editore: Washington DC: ASM Press
DOI: 10.1128/spectrum.02707-23

Exploring the synthetic biology potential of bacteriophages for engineering non-model bacteria

Autori: Eveline-Marie Lammens, Pablo Ivan Nikel, Rob Lavigne
Pubblicato in: Nature Communications, Numero 11/1, 2020, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-020-19124-x

The phage-encoded PIT4 protein affects multiple two-component systems of Pseudomonas aeruginosa

Autori: Kaat Schroven, Leena Putzeys, Alison Kerremans, Pieter-Jan Ceyssens, Marta Vallino, Jan Paeshuyse, Farhana Haque, Ahmed Yusuf, Matthias D Koch, Rob Lavigne
Pubblicato in: Microbiology Spectrum, Numero 12;11(6), 2023, Pagina/e e0237223, ISSN 2165-0497
Editore: Washington DC: ASM Press
DOI: 10.1128/spectrum.02372-23

Development of ONT-cappable-seq to unravel the transcriptional landscape of Pseudomonas phages

Autori: Leena Putzeys; Maarten Boon; Eveline-Marie Lammens; Konstantin Kuznedelov; Konstantin Severinov; Rob Lavigne
Pubblicato in: Computational and Structural Biotechnology Journal, Numero 20010370, 2022, ISSN 2001-0370
Editore: Elsevier
DOI: 10.1016/j.csbj.2022.05.034

Transcriptomics-Driven Characterization of LUZ100, a T7-like Pseudomonas Phage with Temperate Features

Autori: Leena Putzeys; Jorien Poppeliers; Maarten Boon; Cédric Lood; Marta Vallino; Rob Lavigne
Pubblicato in: mSystems, Numero Vol. 8 No. 2, 2023, Pagina/e e01189-22, ISSN 2379-5077
Editore: Washington DC: American Society for Microbiology
DOI: 10.1128/msystems.01189-22

SAPPHIRE: a neural network based classifier for σ70 promoter prediction in Pseudomonas

Autori: Lucas Coppens, Rob Lavigne
Pubblicato in: BMC Bioinformatics, Numero 21/1, 2020, ISSN 1471-2105
Editore: BioMed Central
DOI: 10.1186/s12859-020-03730-z

‘Drc’, a structurally novel ssDNA-binding transcriptionregulator of N4-related bacterial viruses

Autori: Maarten Boon, Elke De Zitter, Jeroen De Smet, Jeroen Wagemans, Marleen Voet, Lisa Friederike Pennemann, Thomas Schalk, Konstantin Kuznedelov, Konstantin Severinov, Luc Van Meervelt, Marc De Maeyer, Rob Lavigne
Pubblicato in: Nucleic Acids Research, Numero 48/1, 2020, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkz1048

SAPPHIRE.CNN: Implementation of dRNA-seq-driven, species-specific promoter prediction using convolutional neural networks

Autori: Lucas Coppens; Laura Wicke; Rob Lavigne
Pubblicato in: Computational and Structural Biotechnology Journal, Numero 20010370, 2022, ISSN 2001-0370
Editore: Elsevier
DOI: 10.1016/j.csbj.2022.09.006

The phage-encoded protein PIT2 impacts Pseudomonas aeruginosa quorum sensing by direct interaction with LasR

Autori: Kaat Schroven, Leena Putzeys, Anne-Laure Swinnen, Hanne Hendrix, Jan Paeshuyse, Rob Lavigne
Pubblicato in: iScience, Numero 26(10), 2023, Pagina/e 107745, ISSN 2589-0042
Editore: Cell Press Elsevier Inc.
DOI: 10.1016/j.isci.2023.107745

Introducing differential RNA-seq mapping to track the early infection phase for Pseudomonas phage ɸKZ

Autori: Laura Wicke, Falk Ponath, Lucas Coppens, Milan Gerovac, Rob Lavigne, Jörg Vogel
Pubblicato in: RNA Biology, 2020, ISSN 1547-6286
Editore: Landes Bioscience
DOI: 10.1080/15476286.2020.1827785

A Grad-seq View of RNA and Protein Complexes in Pseudomonas aeruginosa under Standard and Bacteriophage Predation Conditions

Autori: Milan Gerovac, Laura Wicke, Kotaro Chihara, Cornelius Schneider, Rob Lavigne, Jörg Vogel
Pubblicato in: mBio, Numero 12/1, 2021, ISSN 2150-7511
Editore: American Society for Microbiology
DOI: 10.1128/mbio.03454-20

Bacteriophages as drivers of bacterial virulence and their potential for biotechnological exploitation

Autori: Kaat Schroven, Abram Aertsen, Rob Lavigne
Pubblicato in: FEMS Microbiology Reviews, Numero 45/1, 2020, ISSN 1574-6976
Editore: FEMS microbiology reviews
DOI: 10.1093/femsre/fuaa041

Assessing the Orthogonality of Phage-Encoded RNA Polymerases for Tailored Synthetic Biology Applications in Pseudomonas Species

Autori: Eveline-Marie Lammens; Nathalie Feyaerts; Alison Kerremans; Maarten Boon; Rob Lavigne
Pubblicato in: International Journal of Molecular Sciences, Numero Volume 24; Numero 8, 2023, Pagina/e 7175, ISSN 1422-0067
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms24087175

Deconstructing the Phage–Bacterial Biofilm Interaction as a Basis to Establish New Antibiofilm Strategies

Autori: Annegrete Visnapuu; Marie Van der Gucht; Jeroen Wagemans; Rob Lavigne
Pubblicato in: Viruses, Numero 19994915, 2022, ISSN 1999-4915
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v14051057

Differential transcription profiling of the phage LUZ19 infection process in different growth media

Autori: Ana Brandão, Diana P. Pires, Lucas Coppens, Marleen Voet, Rob Lavigne, Joana Azeredo
Pubblicato in: RNA Biology, 2021, Pagina/e 1-13, ISSN 1547-6286
Editore: Landes Bioscience
DOI: 10.1080/15476286.2020.1870844

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