ArticleNucleic acids research2016
Experimental single-strain mobilomics reveals events that shape pathogen emergence.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Integrase-On-Demand: bioprospecting integrases for targeted genomic insertion of genetic cargo.Nucleic acids research · 2026Article
- ISMicrobiology and molecular biology reviews : MMBR · 2024Review
- A programmable seekRNA guides target selection by IS1111 and IS110 type insertion sequences.Nature communications · 2024Article
- Helper-embedded satellites from an integrase clade that repeatedly targets prophage late genes.NAR genomics and bioinformatics · 2023Article
- Computational Basis for On-Demand Production of Diversified Therapeutic Phage Cocktails.mSystems · 2020Article
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Authors and funding
5 authors.
Funding
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Abstract
Virulence genes on mobile DNAs such as genomic islands (GIs) and plasmids promote bacterial pathogen emergence. Excision is an early step in GI mobilization, producing a circular GI and a deletion site in the chromosome; circular forms are also known for some bacterial insertion sequences (ISs). The recombinant sequence at the junctions of such circles and deletions can be detected sensitively in high-throughput sequencing data, using new computational methods that enable empirical discovery of mobile DNAs. For the rich mobilome of a hospital Klebsiella pneumoniae strain, circularization junctions (CJs) were detected for six GIs and seven IS types. Our methods revealed differential biology of multiple mobile DNAs, imprecision of integrases and transposases, and differential activity among identical IS copies for IS26, ISKpn18 and ISKpn21 Using the resistance of circular dsDNA molecules to exonuclease, internally calibrated with the native plasmids, showed that not all molecules bearing GI CJs were circular. Transpositions were also detected, revealing replicon preference (ISKpn18 prefers a conjugative IncA/C2 plasmid), local action (IS26), regional preferences, selection (against capsule synthesis) and IS polarity inversion. Efficient discovery and global characterization of numerous mobile elements per experiment improves accounting for the new gene combinations that arise in emerging pathogens.
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Registered trials
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