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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

Autores: Milan Gerovac, Kotaro Chihara, Laura Wicke, Bettina Böttcher, Rob Lavigne, Jörg Vogel
Publicado en: Nature Microbiology, Edición 9(3), 2024, Página(s) 787-800, ISSN 2058-5276
Editor: Nature Portfolio
DOI: 10.1038/s41564-024-01616-x

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

Autores: Leena Putzeys, Laura Wicke, Maarten Boon, Vera van Noort, Jörg Vogel, Rob Lavigne
Publicado en: microLife, Edición 5, 2024, Página(s) uqae002, ISSN 2633-6693
Editor: 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

Autores: Ana C. Brandão; Leena Putzeys; Diana P. Pires; Marleen Voet; Jan Paeshuyse; Joana Azeredo; Rob Lavigne
Publicado en: RNA Biology, Edición Vol 20, Iss 1, 2023, Página(s) 235-247, ISSN 1555-8584
Editor: Taylor & Francis
DOI: 10.1080/15476286.2023.2216065

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

Autores: Leena Putzeys; Laura Wicke; Ana Brandão; Maarten Boon; Diana P Pires; Joana Azeredo; Jörg Vogel; Rob Lavigne; Milan Gerovac
Publicado en: Current Opinion in Microbiology, Edición 77, 2024, Página(s) 102419, ISSN 1369-5274
Editor: Elsevier BV
DOI: 10.1016/j.mib.2023.102419

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

Autores: Eveline-Marie Lammens; Leena Putzeys; Maarten Boon; Rob Lavigne
Publicado en: ACS Synthetic Biology, Edición 12(5), 2023, Página(s) 1415-1423, ISSN 2161-5063
Editor: American Chemical Society
DOI: 10.1021/acssynbio.3c00101

SEVAtile: a standardised DNA assembly method optimised for Pseudomonas.

Autores: Eveline-Marie Lammens; M. Boon; Dennis Grimon; Yves Briers; Rob Lavigne
Publicado en: Microbial biotechnology, 2021, ISSN 1751-7915
Editor: 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

Autores: Eveline-Marie Lammens, Daniel Christophe Volke, Kaat Schroven, Marleen Voet, Alison Kerremans, Rob Lavigne, Hanne Hendrix
Publicado en: Microbiology Spectrum, Edición 11(6), 2023, Página(s) e02707-23, ISSN 2165-0497
Editor: Washington DC: ASM Press
DOI: 10.1128/spectrum.02707-23

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

Autores: Eveline-Marie Lammens, Pablo Ivan Nikel, Rob Lavigne
Publicado en: Nature Communications, Edición 11/1, 2020, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-020-19124-x

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

Autores: Kaat Schroven, Leena Putzeys, Alison Kerremans, Pieter-Jan Ceyssens, Marta Vallino, Jan Paeshuyse, Farhana Haque, Ahmed Yusuf, Matthias D Koch, Rob Lavigne
Publicado en: Microbiology Spectrum, Edición 12;11(6), 2023, Página(s) e0237223, ISSN 2165-0497
Editor: Washington DC: ASM Press
DOI: 10.1128/spectrum.02372-23

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

Autores: Leena Putzeys; Maarten Boon; Eveline-Marie Lammens; Konstantin Kuznedelov; Konstantin Severinov; Rob Lavigne
Publicado en: Computational and Structural Biotechnology Journal, Edición 20010370, 2022, ISSN 2001-0370
Editor: Elsevier
DOI: 10.1016/j.csbj.2022.05.034

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

Autores: Leena Putzeys; Jorien Poppeliers; Maarten Boon; Cédric Lood; Marta Vallino; Rob Lavigne
Publicado en: mSystems, Edición Vol. 8 No. 2, 2023, Página(s) e01189-22, ISSN 2379-5077
Editor: Washington DC: American Society for Microbiology
DOI: 10.1128/msystems.01189-22

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

Autores: Lucas Coppens, Rob Lavigne
Publicado en: BMC Bioinformatics, Edición 21/1, 2020, ISSN 1471-2105
Editor: BioMed Central
DOI: 10.1186/s12859-020-03730-z

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

Autores: 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
Publicado en: Nucleic Acids Research, Edición 48/1, 2020, ISSN 0305-1048
Editor: Oxford University Press
DOI: 10.1093/nar/gkz1048

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

Autores: Lucas Coppens; Laura Wicke; Rob Lavigne
Publicado en: Computational and Structural Biotechnology Journal, Edición 20010370, 2022, ISSN 2001-0370
Editor: Elsevier
DOI: 10.1016/j.csbj.2022.09.006

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

Autores: Kaat Schroven, Leena Putzeys, Anne-Laure Swinnen, Hanne Hendrix, Jan Paeshuyse, Rob Lavigne
Publicado en: iScience, Edición 26(10), 2023, Página(s) 107745, ISSN 2589-0042
Editor: 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

Autores: Laura Wicke, Falk Ponath, Lucas Coppens, Milan Gerovac, Rob Lavigne, Jörg Vogel
Publicado en: RNA Biology, 2020, ISSN 1547-6286
Editor: 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

Autores: Milan Gerovac, Laura Wicke, Kotaro Chihara, Cornelius Schneider, Rob Lavigne, Jörg Vogel
Publicado en: mBio, Edición 12/1, 2021, ISSN 2150-7511
Editor: American Society for Microbiology
DOI: 10.1128/mbio.03454-20

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

Autores: Kaat Schroven, Abram Aertsen, Rob Lavigne
Publicado en: FEMS Microbiology Reviews, Edición 45/1, 2020, ISSN 1574-6976
Editor: FEMS microbiology reviews
DOI: 10.1093/femsre/fuaa041

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

Autores: Eveline-Marie Lammens; Nathalie Feyaerts; Alison Kerremans; Maarten Boon; Rob Lavigne
Publicado en: International Journal of Molecular Sciences, Edición Volume 24; Edición 8, 2023, Página(s) 7175, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms24087175

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

Autores: Annegrete Visnapuu; Marie Van der Gucht; Jeroen Wagemans; Rob Lavigne
Publicado en: Viruses, Edición 19994915, 2022, ISSN 1999-4915
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v14051057

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

Autores: Ana Brandão, Diana P. Pires, Lucas Coppens, Marleen Voet, Rob Lavigne, Joana Azeredo
Publicado en: RNA Biology, 2021, Página(s) 1-13, ISSN 1547-6286
Editor: Landes Bioscience
DOI: 10.1080/15476286.2020.1870844

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