ArticlePloS one2015
Genome-based identification of active prophage regions by next generation sequencing in Bacillus licheniformis DSM13.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 33 citations in OpenAlex.
- Deciphering pervasive domestication and active "dark matter" of proviruses in prokaryotes via precision border mapping.Science advances · 2026Article
- Reversible conjugation of a CBASS nucleotide cyclase regulates bacterial immune response to phage infection.Nature microbiology · 2024Article
- Novel insights into phage biology of the pathogenFrontiers in microbiology · 2024Article
- Isolation and characterization of novel acetogenic strains of the generaFrontiers in microbiology · 2024Article
- vRhyme enables binning of viral genomes from metagenomes.Nucleic acids research · 2022Article
- Deciphering Active Prophages from Metagenomes.mSystems · 2022Article
- Chronic Release of Tailless Phage Particles from Lactococcus lactis.Applied and environmental microbiology · 2022Article
- Prophage Tracer: precisely tracing prophages in prokaryotic genomes using overlapping split-read alignment.Nucleic acids research · 2021Article
- Putative plasmid prophages of Bacillus cereus sensu lato may hold the key to undiscovered phage diversity.Scientific reports · 2021Article
- High throughput sequencing provides exact genomic locations of inducible prophages and accurate phage-to-host ratios in gut microbial strains.Microbiome · 2021Article
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- Closely RelatedViruses · 2020Article
- Prophage Hunter: an integrative hunting tool for active prophages.Nucleic acids research · 2019Article
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- Fighting Fire with Fire: Phage Potential for the Treatment ofAntibiotics (Basel, Switzerland) · 2018Article
- Genomic Analysis of the Recent Viral Isolate vB_BthP-Goe4 Reveals Increased Diversity of φ29-Like Phages.Viruses · 2018Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Prophages are viruses, which have integrated their genomes into the genome of a bacterial host. The status of the prophage genome can vary from fully intact with the potential to form infective particles to a remnant state where only a few phage genes persist. Prophages have impact on the properties of their host and are therefore of great interest for genomic research and strain design. Here we present a genome- and next generation sequencing (NGS)-based approach for identification and activity evaluation of prophage regions. Seven prophage or prophage-like regions were identified in the genome of Bacillus licheniformis DSM13. Six of these regions show similarity to members of the Siphoviridae phage family. The remaining region encodes the B. licheniformis orthologue of the PBSX prophage from Bacillus subtilis. Analysis of isolated phage particles (induced by mitomycin C) from the wild-type strain and prophage deletion mutant strains revealed activity of the prophage regions BLi_Pp2 (PBSX-like), BLi_Pp3 and BLi_Pp6. In contrast to BLi_Pp2 and BLi_Pp3, neither phage DNA nor phage particles of BLi_Pp6 could be visualized. However, the ability of prophage BLi_Pp6 to generate particles could be confirmed by sequencing of particle-protected DNA mapping to prophage locus BLi_Pp6. The introduced NGS-based approach allows the investigation of prophage regions and their ability to form particles. Our results show that this approach increases the sensitivity of prophage activity analysis and can complement more conventional approaches such as transmission electron microscopy (TEM).
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