ArticleThe ISME journal2016
Cold adaptation regulated by cryptic prophage excision in Shewanella oneidensis.
Article in The ISME journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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44 citing papers in PubMed, 75 citations in OpenAlex.
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- VIRGO2: an enhanced gene catalog of the vaginal microbiome provides insights into its functional and ecology complexity.Nature communications · 2025Article
- Glucose-induced active lysogeny of prophage ΦSa3XN promotes Staphylococcus aureus virulence.Virology journal · 2025Article
- Type I-F CRISPR-associated transposons contribute to genomic plasticity inMicrobial genomics · 2025Article
- Bacteriophage-driven microbial phenotypic heterogeneity: ecological and biogeochemical importance.NPJ biofilms and microbiomes · 2025Review
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- Post-translational modifications of the nucleoid protein H-NS: sites, mechanisms, and regulatory cues.FEMS microbiology reviews · 2025Review
- Isolation of phages infecting the zoonotic pathogenbioRxiv : the preprint server for biology · 2025Article
- Shewanella oneidensis: Biotechnological Application of Metal-Reducing Bacteria.Advances in biochemical engineering/biotechnology · 2025Review
- Comprehensive discovery and functional characterization of diverse prophages in the pig gut microbiome.Frontiers in microbiology · 2025Article
- Comparative omics directed gene discovery and rewiring for normal temperature-adaptive red pigment synthesis by polar psychrotrophic fungusSynthetic and systems biotechnology · 2024Article
- Combining CRISPR/Cas9 and natural excision for the precise and complete removal of mobile genetic elements in bacteria.Applied and environmental microbiology · 2024Article
- Acetylation of xenogeneic silencer H-NS regulates biofilm development through the nitrogen homeostasis regulator in Shewanella.Nucleic acids research · 2024Article
- Active prophages in coral-associated Halomonas capable of lateral transduction.The ISME journal · 2024Article
- Genomic Island-Encoded Diguanylate Cyclase fromMicroorganisms · 2023Article
- A systematic analysis of marine lysogens and proviruses.Nature communications · 2023Article
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Authors and funding
8 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Among the environmental stresses experienced by bacteria, temperature shifts are one of the most important. In this study, we discovered a novel cold adaptation mechanism in Shewanella oneidensis that occurs at the DNA level and is regulated by cryptic prophage excision. Previous studies on bacterial cold tolerance mainly focus on the structural change of cell membrane and changes at the RNA and protein levels. Whether or not genomic change can also contribute to this process has not been explored. Here we employed a whole-genome deep-sequencing method to probe the changes at DNA level in a model psychrotrophic bacteria strain. We found that temperature downshift induced a 10 000-fold increase of the excision of a novel P4-like cryptic prophage. Importantly, although prophage excision only occurred in a relatively small population of bacteria, it was able to facilitate biofilm formation and promote the survival of the entire population. This prophage excision affected cell physiology by disrupting a critical gene encoding transfer-messenger RNA (tmRNA). In addition, we found that the histone-like nucleoid-structuring protein (H-NS) could silence prophage excision via binding to the promoter of the putative excisionase gene at warm temperatures. H-NS level was reduced at cold temperatures, leading to de-repression of prophage excision. Collectively, our results reveal that cryptic prophage excision acts as a regulatory switch to enable the survival of the host at low temperature by controlling the activity of tmRNA and biofilm formation.
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