ArticleJournal of bacteriology2010
Predicting plasmid promiscuity based on genomic signature.
Article in Journal of bacteriology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 88 papers.
What it found
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Who cites it
88 citing papers in PubMed.
- Advancements in Technologies Targeting Horizontal Gene TransferRoutes to Control Drug Resistance Evolution.ACS bio & med chem Au · 2026Review
- Recovery and microbial host assignment of mobile genetic elements in complex microbiomes: insights from a spiked gut sample.mSystems · 2026Article
- A global soil plasmidome resource unveils functional and ecological roles of plasmids in soil microbiomes.Nature communications · 2025Article
- Megaplasmids associate withbioRxiv : the preprint server for biology · 2025Article
- Genome-Wide Survey of Donor Chromosomal Genes Involved in Trans-Kingdom Conjugation via the RP4-T4SS Machinery.Microorganisms · 2025Article
- Predicting the bacterial host range of plasmid genomes using the language model-based one-class support vector machine algorithm.Microbial genomics · 2025Article
- Toxin-Antitoxin Systems Reflect Community Interactions Through Horizontal Gene Transfer.Molecular biology and evolution · 2024Article
- Article
- MOBFinder: a tool for mobilization typing of plasmid metagenomic fragments based on a language model.GigaScience · 2024Article
- Unrecognized risk of perfluorooctane sulfonate in promoting conjugative transfers of bacterial antibiotic resistance genes.Applied and environmental microbiology · 2023Article
- Restriction-modification systems have shaped the evolution and distribution of plasmids across bacteria.Nucleic acids research · 2023Article
- Transconjugant range of PromA plasmids in microbial communities is predicted by sequence similarity with the bacterial host chromosome.Microbial genomics · 2023Article
- Polluted wetlands contain multidrug-resistance plasmids encoding CTX-M-type extended-spectrum β-lactamases.Plasmid · 2023Article
- Genomic Insights into CRISPR-Harboring Plasmids in the Klebsiella Genus: Distribution, Backbone Structures, Antibiotic Resistance, and Virulence Determinant Profiles.Antimicrobial agents and chemotherapy · 2023Article
- Genomic Signature in Evolutionary Biology: A Review.Biology · 2023Review
- Hitherto-Unnoticed Self-Transmissible Plasmids Widely Distributed among Different Environments in Japan.Applied and environmental microbiology · 2022Article
- Article
- CRISPR-Cas systems are widespread accessory elements across bacterial and archaeal plasmids.Nucleic acids research · 2022Article
- Article
- Roles of Proteins Containing Immunoglobulin-Like Domains in the Conjugation of Bacterial Plasmids.mSphere · 2022Article
28 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
Despite the important contribution of self-transmissible plasmids to bacterial evolution, little is understood about the range of hosts in which these plasmids have evolved. Our goal was to infer this so-called evolutionary host range. The nucleotide composition, or genomic signature, of plasmids is often similar to that of the chromosome of their current host, suggesting that plasmids acquire their hosts' signature over time. Therefore, we examined whether the evolutionary host range of plasmids could be inferred by comparing their trinucleotide composition to that of all completely sequenced bacterial chromosomes. The diversity of candidate hosts was determined using taxonomic classification and genetic distance. The method was first tested using plasmids from six incompatibility (Inc) groups whose host ranges are generally thought to be narrow (IncF, IncH, and IncI) or broad (IncN, IncP, and IncW) and then applied to other plasmid groups. The evolutionary host range was found to be broad for IncP plasmids, narrow for IncF and IncI plasmids, and intermediate for IncH and IncN plasmids, which corresponds with their known host range. The IncW plasmids as well as several plasmids from the IncA/C, IncP, IncQ, IncU, and PromA groups have signatures that were not similar to any of the chromosomal signatures, raising the hypothesis that these plasmids have not been ameliorated in any host due to their promiscuous nature. The inferred evolutionary host range of IncA/C, IncP-9, and IncL/M plasmids requires further investigation. In this era of high-throughput sequencing, this genomic signature method is a useful tool for predicting the host range of novel mobile elements.
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Registered trials
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