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TnpAREP and REP sequences dissemination in bacterial genomes: REP recognition determinants
Alix Corneloup1, Anne Caumont-Sarcos1, Alain Kamgoue2
1Laboratoire de Microbiologie et de Génétique Moléculaires (LMGM), CBI, CNRS, Université Toulouse UPS, Toulouse, France.
Nucleic Acids Research
|June 23, 2021
Summary
REP elements, bacterial DNA sequences, are mobilized by TnpAREP transposases. This study reveals two TnpAREP groups co-evolved with REP, using distinct strategies for substrate recognition and mobilization.
Area of Science:
- Bacterial genetics
- Molecular biology
- DNA transposition
Background:
- REP (Repetitive Extragenic Palindromic) sequences are abundant in bacterial genomes.
- Their role in cell physiology is recognized, but dissemination mechanisms remain unclear.
- TnpAREP transposases are proposed to mobilize REP elements, representing a unique class of prokaryotic domesticated transposases.
Purpose of the Study:
- To investigate the structural and sequence determinants governing TnpAREP/REP interactions.
- To understand how TnpAREP recognizes different REP structures, including perfect palindromes.
- To elucidate the cleavage site selection mechanism employed by TnpAREP.
Main Methods:
- Development of an in vitro activity assay for TnpAREP/REP systems.
- In vitro mutational analysis of three TnpAREP/REP duos.
- Application of the SELEX (Systematic Evolution of Ligands by Exponential Enrichment) approach.
- Investigation of cleavage site selection.
Main Results:
- Demonstrated co-evolution between TnpAREP and their cognate REP elements.
- Identified distinct recognition strategies employed by different TnpAREP groups for their REP substrates.
- Provided insights into the structural requirements for REP processing by TnpAREP.
Conclusions:
- TnpAREP transposases exhibit specialized co-evolution with REP sequences.
- Two distinct TnpAREP/REP systems utilize different molecular mechanisms for DNA recognition and processing.
- This study clarifies REP dissemination mechanisms and TnpAREP function in bacterial genomes.
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