Searched for: author%3A%22van+den+Berg%2C+D.F.%22
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Martins Costa, A.R. (author), van den Berg, D.F. (author), Esser, J.Q. (author), Muralidharan, A. (author), van den Bossche, Halewijn (author), Estrada Bonilla, B.A. (author), van der Steen, B.A. (author), Haas, Pieter Jan (author), Brouns, S.J.J. (author)
Prokaryotes encode multiple distinct anti-phage defense systems in their genomes. However, the impact of carrying a multitude of defense systems on phage resistance remains unclear, especially in a clinical context. Using a collection of antibiotic-resistant clinical strains of Pseudomonas aeruginosa and a broad panel of phages, we...
journal article 2024
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Mahler, M.S. (author), Malone Portu, L.M. (author), van den Berg, D.F. (author), Smith, Leah M. (author), Brouns, S.J.J. (author), Fineran, Peter C. (author)
Serratia sp. ATCC 39006 is a Gram-negative bacterium that has been used to study the function of phage defences, such as CRISPR-Cas, and phage counter-defence mechanisms. To expand our phage collection to study the phage-host interaction with Serratia sp. ATCC 39006, we isolated the T4-like myovirus LC53 in Ōtepoti Dunedin, Aotearoa New...
journal article 2023
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van den Berg, D.F. (author), van der Steen, B.A. (author), Martins Costa, A.R. (author), Brouns, S.J.J. (author)
Transfer RNAs (tRNAs) in bacteriophage genomes are widespread across bacterial host genera, but their exact function has remained unclear for more than 50 years. Several hypotheses have been proposed, and the most widely accepted one is codon compensation, which suggests that phages encode tRNAs that supplement codons that are less frequently...
journal article 2023
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Japaridze, A. (author), van Wee, R.G. (author), Gogou, C. (author), Kerssemakers, J.W.J. (author), van den Berg, D.F. (author), Dekker, C. (author)
The bacterial chromosome is spatially organized through protein-mediated compaction, supercoiling, and cell-boundary confinement. Structural Maintenance of Chromosomes (SMC) complexes are a major class of chromosome-organizing proteins present throughout all domains of life. Here, we study the role of the Escherichia coli SMC complex MukBEF...
journal article 2023
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van Beljouw, S.P.B. (author), van Eijkeren-Haagsma, A.C. (author), Rodriguez Molina, A. (author), van den Berg, D.F. (author), Vink, J.N.A. (author), Brouns, S.J.J. (author)
Type III CRISPR-Cas immunity is widespread in prokaryotes and is generally mediated by multisubunit effector complexes. These complexes recognize complementary viral transcripts and can activate ancillary immune proteins. Here, we describe a type III-E effector from Candidatus “Scalindua brodae” (Sb-gRAMP), which is natively encoded by a...
journal article 2021
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Estrada Bonilla, B.A. (author), Martins Costa, A.R. (author), van den Berg, D.F. (author), van Rossum, T. (author), Hagedoorn, Stefan (author), Walinga, Hielke (author), Xiao, Minfeng (author), Haas, Pieter Jan (author), Brouns, S.J.J. (author)
Bacteriophages are an invaluable source of novel genetic diversity. Sequencing of phage genomes can reveal new proteins with potential uses as biotechnological and medical tools, and help unravel the diversity of biological mechanisms employed by phages to take over the host during viral infection. Aiming to expand the available collection of...
journal article 2021
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