ArticleGenome biology and evolution2018
Packaging of Dinoroseobacter shibae DNA into Gene Transfer Agent Particles Is Not Random.
Article in Genome biology and evolution, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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Who cites it
39 citing papers in PubMed, 58 citations in OpenAlex.
- Perturbations shift the composition of bacterial DNA carried by virus-like particles in the murine gut microbiome.bioRxiv : the preprint server for biology · 2026Article
- High throughput chromatographic ultra-purification of virus-like particles for downstream viromics.bioRxiv : the preprint server for biology · 2026Article
- TrIdent - An R package to automate transductomics analysis of virus-like particle mediated DNA mobilization.bioRxiv : the preprint server for biology · 2026Article
- Large-scale capsid-mediated mobilisation of bacterial genomic DNA in the gut microbiome.Nature communications · 2026Article
- Phenomenal Diversity of the Photosynthetic Apparatus Evolved in Aerobic Anoxygenic Phototrophs.Microorganisms · 2025Review
- Article
- Gene transfer agents: The ambiguous role of selfless viruses in genetic exchange and bacterial evolution.Molecular microbiology · 2025Review
- Phage-host co-evolution has led to distinct generalized transduction strategies.Nucleic acids research · 2024Article
- The effect of site-specific recombinases XerCD on the removal of over-replicated chromosomal DNA through outer membrane vesicles in bacteria.Microbiology spectrum · 2024Article
- Co-evolution of gene transfer agents and their alphaproteobacterial hosts.Journal of bacteriology · 2024Article
- Extracellular vesicles are the main contributor to the non-viral protected extracellular sequence space.ISME communications · 2023Article
- Article
- Viriforms-A New Category of Classifiable Virus-Derived Genetic Elements.Biomolecules · 2023Article
- Purification of Functional Gene Transfer Agents Using Two-Step Preparative Monolithic Chromatography.PHAGE (New Rochelle, N.Y.) · 2022Article
- DNA Gyrase Inhibitors Increase the Frequency of Bacteriophage-like RcGTA-Mediated Gene Transfer inGenes · 2022Article
- Shared properties of gene transfer agent and core genes revealed by comparative genomics of Alphaproteobacteria.Microbial genomics · 2022Article
- Loss of the Rhodobacter capsulatus Serine Acetyl Transferase Gene,Applied and environmental microbiology · 2022Article
- The Sixth Element: a 102-kb RepABC Plasmid of Xenologous Origin Modulates Chromosomal Gene Expression in Dinoroseobacter shibae.mSystems · 2022Article
- The archetypal gene transfer agent RcGTA is regulated via direct interaction with the enigmatic RNA polymerase omega subunit.Cell reports · 2022Article
- Fatal affairs - conjugational transfer of a dinoflagellate-killing plasmid between marineMicrobial genomics · 2022Article
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Authors and funding
13 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene transfer agents (GTAs) are phage-like particles which contain a fragment of genomic DNA of the bacterial or archaeal producer and deliver this to a recipient cell. GTA gene clusters are present in the genomes of almost all marine Rhodobacteraceae (Roseobacters) and might be important contributors to horizontal gene transfer in the world's oceans. For all organisms studied so far, no obvious evidence of sequence specificity or other nonrandom process responsible for packaging genomic DNA into GTAs has been found. Here, we show that knock-out of an autoinducer synthase gene of Dinoroseobacter shibae resulted in overproduction and release of functional GTA particles (DsGTA). Next-generation sequencing of the 4.2-kb DNA fragments isolated from DsGTAs revealed that packaging was not random. DNA from low-GC conjugative plasmids but not from high-GC chromids was excluded from packaging. Seven chromosomal regions were strongly overrepresented in DNA isolated from DsGTA. These packaging peaks lacked identifiable conserved sequence motifs that might represent recognition sites for the GTA terminase complex. Low-GC regions of the chromosome, including the origin and terminus of replication, were underrepresented in DNA isolated from DsGTAs. DNA methylation reduced packaging frequency while the level of gene expression had no influence. Chromosomal regions found to be over- and underrepresented in DsGTA-DNA were regularly spaced. We propose that a "headful" type of packaging is initiated at the sites of coverage peaks and, after linearization of the chromosomal DNA, proceeds in both directions from the initiation site. GC-content, DNA-modifications, and chromatin structure might influence at which sides GTA packaging can be initiated.
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