ArticleNucleic acids research2012
Structuring the bacterial genome: Y1-transposases associated with REP-BIME sequences.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 54 citations in OpenAlex.
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- Canonical transcription termination mechanisms explain a minority of operons in cyanobacteria.bioRxiv : the preprint server for biology · 2025Article
- The ISPpu9 insertion sequence of Pseudomonas putida KT2440 generates various circular intermediates enabling modular transposition.Nucleic acids research · 2025Article
- Discovery of the widespread site-specific single-stranded nuclease family Ssn.Nature communications · 2025Article
- Multilayered safety framework for living diagnostics in the colon.Frontiers in systems biology · 2023Article
- TnpAREP and REP sequences dissemination in bacterial genomes: REP recognition determinants.Nucleic acids research · 2021Article
- How sequence populations persist inside bacterial genomes.Genetics · 2021Article
- Single-strand DNA processing: phylogenomics and sequence diversity of a superfamily of potential prokaryotic HuH endonucleases.BMC genomics · 2018Article
- Article
- Exchange of functional domains between a bacterial conjugative relaxase and the integrase of the human adeno-associated virus.PloS one · 2018Article
- Identification and Characterization of Domesticated Bacterial Transposases.Genome biology and evolution · 2017Article
- Discovering Complete Quasispecies in Bacterial Genomes.Genetics · 2017Article
- DNA repeat sequences: diversity and versatility of functions.Current genetics · 2017Review
- The Different Faces of Rolling-Circle Replication and Its Multifunctional Initiator Proteins.Frontiers in microbiology · 2017Review
- Consequences of Cas9 cleavage in the chromosome of Escherichia coli.Nucleic acids research · 2016Article
- Translatomics combined with transcriptomics and proteomics reveals novel functional, recently evolved orphan genes in Escherichia coli O157:H7 (EHEC).BMC genomics · 2016Article
- Conformational diversity of single-stranded DNA from bacterial repetitive extragenic palindromes: Implications for the DNA recognition elements of transposases.Biopolymers · 2015Article
- Mechanisms of DNA Transposition.Microbiology spectrum · 2015Review
- Bacterial insertion sequences: their genomic impact and diversity.FEMS microbiology reviews · 2014Review
- Bacterial genome instability.Microbiology and molecular biology reviews : MMBR · 2014Review
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
REPs are highly repeated intergenic palindromic sequences often clustered into structures called BIMEs including two individual REPs separated by short linker of variable length. They play a variety of key roles in the cell. REPs also resemble the sub-terminal hairpins of the atypical IS200/605 family of insertion sequences which encode Y1 transposases (TnpA(IS200/IS605)). These belong to the HUH endonuclease family, carry a single catalytic tyrosine (Y) and promote single strand transposition. Recently, a new clade of Y1 transposases (TnpA(REP)) was found associated with REP/BIME in structures called REPtrons. It has been suggested that TnpA(REP) is responsible for REP/BIME proliferation over genomes. We analysed and compared REP distribution and REPtron structure in numerous available E. coli and Shigella strains. Phylogenetic analysis clearly indicated that tnpA(REP) was acquired early in the species radiation and was lost later in some strains. To understand REP/BIME behaviour within the host genome, we also studied E. coli K12 TnpA(REP) activity in vitro and demonstrated that it catalyses cleavage and recombination of BIMEs. While TnpA(REP) shared the same general organization and similar catalytic characteristics with TnpA(IS200/IS605) transposases, it exhibited distinct properties potentially important in the creation of BIME variability and in their amplification. TnpA(REP) may therefore be one of the first examples of transposase domestication in prokaryotes.
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