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

Publikacje

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

Autorzy: Milan Gerovac, Kotaro Chihara, Laura Wicke, Bettina Böttcher, Rob Lavigne, Jörg Vogel
Opublikowane w: Nature Microbiology, Numer 9(3), 2024, Strona(/y) 787-800, ISSN 2058-5276
Wydawca: Nature Portfolio
DOI: 10.1038/s41564-024-01616-x

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

Autorzy: Leena Putzeys, Laura Wicke, Maarten Boon, Vera van Noort, Jörg Vogel, Rob Lavigne
Opublikowane w: microLife, Numer 5, 2024, Strona(/y) uqae002, ISSN 2633-6693
Wydawca: 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

Autorzy: Ana C. Brandão; Leena Putzeys; Diana P. Pires; Marleen Voet; Jan Paeshuyse; Joana Azeredo; Rob Lavigne
Opublikowane w: RNA Biology, Numer Vol 20, Iss 1, 2023, Strona(/y) 235-247, ISSN 1555-8584
Wydawca: Taylor & Francis
DOI: 10.1080/15476286.2023.2216065

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

Autorzy: Leena Putzeys; Laura Wicke; Ana Brandão; Maarten Boon; Diana P Pires; Joana Azeredo; Jörg Vogel; Rob Lavigne; Milan Gerovac
Opublikowane w: Current Opinion in Microbiology, Numer 77, 2024, Strona(/y) 102419, ISSN 1369-5274
Wydawca: Elsevier BV
DOI: 10.1016/j.mib.2023.102419

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

Autorzy: Eveline-Marie Lammens; Leena Putzeys; Maarten Boon; Rob Lavigne
Opublikowane w: ACS Synthetic Biology, Numer 12(5), 2023, Strona(/y) 1415-1423, ISSN 2161-5063
Wydawca: American Chemical Society
DOI: 10.1021/acssynbio.3c00101

SEVAtile: a standardised DNA assembly method optimised for Pseudomonas.

Autorzy: Eveline-Marie Lammens; M. Boon; Dennis Grimon; Yves Briers; Rob Lavigne
Opublikowane w: Microbial biotechnology, 2021, ISSN 1751-7915
Wydawca: 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

Autorzy: Eveline-Marie Lammens, Daniel Christophe Volke, Kaat Schroven, Marleen Voet, Alison Kerremans, Rob Lavigne, Hanne Hendrix
Opublikowane w: Microbiology Spectrum, Numer 11(6), 2023, Strona(/y) e02707-23, ISSN 2165-0497
Wydawca: Washington DC: ASM Press
DOI: 10.1128/spectrum.02707-23

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

Autorzy: Eveline-Marie Lammens, Pablo Ivan Nikel, Rob Lavigne
Opublikowane w: Nature Communications, Numer 11/1, 2020, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-020-19124-x

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

Autorzy: Kaat Schroven, Leena Putzeys, Alison Kerremans, Pieter-Jan Ceyssens, Marta Vallino, Jan Paeshuyse, Farhana Haque, Ahmed Yusuf, Matthias D Koch, Rob Lavigne
Opublikowane w: Microbiology Spectrum, Numer 12;11(6), 2023, Strona(/y) e0237223, ISSN 2165-0497
Wydawca: Washington DC: ASM Press
DOI: 10.1128/spectrum.02372-23

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

Autorzy: Leena Putzeys; Maarten Boon; Eveline-Marie Lammens; Konstantin Kuznedelov; Konstantin Severinov; Rob Lavigne
Opublikowane w: Computational and Structural Biotechnology Journal, Numer 20010370, 2022, ISSN 2001-0370
Wydawca: Elsevier
DOI: 10.1016/j.csbj.2022.05.034

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

Autorzy: Leena Putzeys; Jorien Poppeliers; Maarten Boon; Cédric Lood; Marta Vallino; Rob Lavigne
Opublikowane w: mSystems, Numer Vol. 8 No. 2, 2023, Strona(/y) e01189-22, ISSN 2379-5077
Wydawca: Washington DC: American Society for Microbiology
DOI: 10.1128/msystems.01189-22

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

Autorzy: Lucas Coppens, Rob Lavigne
Opublikowane w: BMC Bioinformatics, Numer 21/1, 2020, ISSN 1471-2105
Wydawca: BioMed Central
DOI: 10.1186/s12859-020-03730-z

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

Autorzy: 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
Opublikowane w: Nucleic Acids Research, Numer 48/1, 2020, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkz1048

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

Autorzy: Lucas Coppens; Laura Wicke; Rob Lavigne
Opublikowane w: Computational and Structural Biotechnology Journal, Numer 20010370, 2022, ISSN 2001-0370
Wydawca: Elsevier
DOI: 10.1016/j.csbj.2022.09.006

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

Autorzy: Kaat Schroven, Leena Putzeys, Anne-Laure Swinnen, Hanne Hendrix, Jan Paeshuyse, Rob Lavigne
Opublikowane w: iScience, Numer 26(10), 2023, Strona(/y) 107745, ISSN 2589-0042
Wydawca: 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

Autorzy: Laura Wicke, Falk Ponath, Lucas Coppens, Milan Gerovac, Rob Lavigne, Jörg Vogel
Opublikowane w: RNA Biology, 2020, ISSN 1547-6286
Wydawca: 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

Autorzy: Milan Gerovac, Laura Wicke, Kotaro Chihara, Cornelius Schneider, Rob Lavigne, Jörg Vogel
Opublikowane w: mBio, Numer 12/1, 2021, ISSN 2150-7511
Wydawca: American Society for Microbiology
DOI: 10.1128/mbio.03454-20

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

Autorzy: Kaat Schroven, Abram Aertsen, Rob Lavigne
Opublikowane w: FEMS Microbiology Reviews, Numer 45/1, 2020, ISSN 1574-6976
Wydawca: FEMS microbiology reviews
DOI: 10.1093/femsre/fuaa041

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

Autorzy: Eveline-Marie Lammens; Nathalie Feyaerts; Alison Kerremans; Maarten Boon; Rob Lavigne
Opublikowane w: International Journal of Molecular Sciences, Numer Volume 24; Numer 8, 2023, Strona(/y) 7175, ISSN 1422-0067
Wydawca: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms24087175

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

Autorzy: Annegrete Visnapuu; Marie Van der Gucht; Jeroen Wagemans; Rob Lavigne
Opublikowane w: Viruses, Numer 19994915, 2022, ISSN 1999-4915
Wydawca: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v14051057

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

Autorzy: Ana Brandão, Diana P. Pires, Lucas Coppens, Marleen Voet, Rob Lavigne, Joana Azeredo
Opublikowane w: RNA Biology, 2021, Strona(/y) 1-13, ISSN 1547-6286
Wydawca: Landes Bioscience
DOI: 10.1080/15476286.2020.1870844

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