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  1. Article: Controlling Genome Topology with Sequences that Trigger Post-replication Gap Formation During Replisome Passage: The

    Pham, Phuong / Wood, Elizabeth A / Dunbar, Emma L / Cox, Michael M / Goodman, Myron F

    bioRxiv : the preprint server for biology

    2024  

    Abstract: We report that ... ...

    Abstract We report that the
    Language English
    Publishing date 2024-04-10
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.10.01.560376
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Controlling genome topology with sequences that trigger post-replication gap formation during replisome passage: the E. coli RRS elements.

    Pham, Phuong / Wood, Elizabeth A / Dunbar, Emma L / Cox, Michael M / Goodman, Myron F

    Nucleic acids research

    2024  

    Abstract: We report that the Escherichia coli chromosome includes novel GC-rich genomic structural elements that trigger formation of post-replication gaps upon replisome passage. The two nearly perfect 222 bp repeats, designated Replication Risk Sequences or RRS, ...

    Abstract We report that the Escherichia coli chromosome includes novel GC-rich genomic structural elements that trigger formation of post-replication gaps upon replisome passage. The two nearly perfect 222 bp repeats, designated Replication Risk Sequences or RRS, are each 650 kb from the terminus sequence dif and flank the Ter macrodomain. RRS sequence and positioning is highly conserved in enterobacteria. At least one RRS appears to be essential unless a 200 kb region encompassing one of them is amplified. The RRS contain a G-quadruplex on the lagging strand which impedes DNA polymerase extension producing lagging strand ssDNA gaps, $ \le$2000 bp long, upon replisome passage. Deletion of both RRS elements has substantial effects on global genome structure and topology. We hypothesize that RRS elements serve as topological relief valves during chromosome replication and segregation. There have been no screens for genomic sequences that trigger transient gap formation. Functional analogs of RRS could be widespread, possibly including some enigmatic G-quadruplexes in eukaryotes.
    Language English
    Publishing date 2024-04-27
    Publishing country England
    Document type Journal Article
    ZDB-ID 186809-3
    ISSN 1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
    ISSN (online) 1362-4962 ; 1362-4954
    ISSN 0301-5610 ; 0305-1048
    DOI 10.1093/nar/gkae320
    Database MEDical Literature Analysis and Retrieval System OnLINE

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