title: A new type of illegitimate recombination is dependent on restriction and homologous interaction.
abstract: Illegitimate (nonhomologous) recombination requires little or no sequence homology between recombining DNAs and has been regarded as being a process distinct from homologous recombination, which requires a long stretch of homology between recombining DNAs. Under special conditions in Escherichia coli, we have found a new type of illegitimate recombination that requires an interaction between homologous DNA sequences. It was detected when a plasmid that carried 2-kb-long inverted repeats was subjected to type II restriction in vitro and type I (EcoKI) restriction in vivo within a delta rac recBC recG ruvC strain. Removal of one of the repeats or its replacement with heterologous DNA resulted in a reduction in the level of recombination. The recombining sites themselves shared, at most, a few base pairs of homology. Many of the recombination events joined a site in one of the repeats with a site in another repeat. In two of the products, one of the recombining sites was at the end of one of the repeats. Removal of one of the EcoKI sites resulted in decreased recombination. We discuss the possibility that some structure made by homologous interaction between the long repeats is used by the EcoKI restriction enzyme to promote illegitimate recombination. The possible roles and consequences of this type of homologous interaction are discussed.
authors.affiliation: Department of Molecular Biology, Institute of Medical Science, University of Tokyo, Japan.
authors.forename: K
authors.initials: K
authors.lastname: Kusano
authors.forename: K
authors.initials: K
authors.lastname: Sakagami
authors.forename: T
authors.initials: T
authors.lastname: Yokochi
authors.forename: T
authors.initials: T
authors.lastname: Naito
authors.forename: Y
authors.initials: Y
authors.lastname: Tokinaga
authors.forename: E
authors.initials: E
authors.lastname: Ueda
authors.forename: I
authors.initials: I
authors.lastname: Kobayashi
mesh_terms: D001483:Base Sequence; D004260:DNA Repair / Q000235:genetics; D004262:DNA Restriction Enzymes; D004269:DNA, Bacterial / Q000235:genetics*; D015252:Deoxyribonucleases, Type II Site-Specific; D004926:Escherichia coli / Q000235:genetics; D008957:Models, Genetic; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D010957:Plasmids / Q000737:chemistry / Q000235:genetics*; D011995:Recombination, Genetic / Q000235:genetics*; D012091:Repetitive Sequences, Nucleic Acid / Q000235:genetics; D012689:Sequence Homology, Nucleic Acid
chemical_list: D004269:DNA, Bacterial; D004262:DNA Restriction Enzymes; C089629:endodeoxyribonuclease EcoKI; C034510:CTCGAG-specific type II deoxyribonucleases; D015252:Deoxyribonucleases, Type II Site-Specific