ABF1-binding sites promote efficient global genome nucleotide excision repair

Shirong Yu, Julia B. Smirnova, Errol C. Friedberg, Bruce Stillman, Masahiro Akiyama, Tom Owen-Hughes, Raymond Waters, Simon H. Reed

    Research output: Contribution to journalArticle

    16 Citations (Scopus)

    Abstract

    Global genome nucleotide excision repair (GG-NER) removes DNA damage from nontranscribing DNA. In Saccharomyces cerevisiae, the RAD7 and RAD16 genes are specifically required for GG-NER. We have reported that autonomously replicating sequence-binding factor 1 (ABF1) protein forms a stable complex with Rad7 and Rad16 proteins. ABF1 functions in transcription, replication, gene silencing, and NER in yeast. Here we show that binding of ABF1 to its DNA recognition sequence found at multiple genomic locations promotes efficient GG-NER in yeast. Mutation of the I silencer ABF1-binding site at the HML alpha locus caused loss of ABF1 binding, which resulted in a domain of reduced GG-NER efficiency on one side of the ABF1-binding site. During GG-NER, nucleosome positioning at this site was not altered, and this correlated with an inability of the GG-NER complex to reposition nucleosomes in vitro. We discuss how the GG-NER complex might facilitate GG-NER while preventing unregulated gene transcription during this process.

    Original languageEnglish
    Pages (from-to)966-973
    Number of pages8
    JournalJournal of Biological Chemistry
    Volume284
    Issue number2
    DOIs
    Publication statusPublished - 9 Jan 2009

    Keywords

    • YEAST SACCHAROMYCES-CEREVISIAE
    • SEQUENCE BINDING-FACTOR
    • III-SENSITIVE SITES
    • IN-VITRO
    • DNA TRANSLOCATION
    • DIRECTIONAL ESTABLISHMENT
    • UV-IRRADIATION
    • BUDDING YEAST
    • ABF1 PROTEIN
    • HML-ALPHA

    Cite this

    Yu, S., Smirnova, J. B., Friedberg, E. C., Stillman, B., Akiyama, M., Owen-Hughes, T., ... Reed, S. H. (2009). ABF1-binding sites promote efficient global genome nucleotide excision repair. Journal of Biological Chemistry, 284(2), 966-973. https://doi.org/10.1074/jbc.M806830200
    Yu, Shirong ; Smirnova, Julia B. ; Friedberg, Errol C. ; Stillman, Bruce ; Akiyama, Masahiro ; Owen-Hughes, Tom ; Waters, Raymond ; Reed, Simon H. / ABF1-binding sites promote efficient global genome nucleotide excision repair. In: Journal of Biological Chemistry. 2009 ; Vol. 284, No. 2. pp. 966-973.
    @article{8fda323b1a2347718b1e48d6274451ff,
    title = "ABF1-binding sites promote efficient global genome nucleotide excision repair",
    abstract = "Global genome nucleotide excision repair (GG-NER) removes DNA damage from nontranscribing DNA. In Saccharomyces cerevisiae, the RAD7 and RAD16 genes are specifically required for GG-NER. We have reported that autonomously replicating sequence-binding factor 1 (ABF1) protein forms a stable complex with Rad7 and Rad16 proteins. ABF1 functions in transcription, replication, gene silencing, and NER in yeast. Here we show that binding of ABF1 to its DNA recognition sequence found at multiple genomic locations promotes efficient GG-NER in yeast. Mutation of the I silencer ABF1-binding site at the HML alpha locus caused loss of ABF1 binding, which resulted in a domain of reduced GG-NER efficiency on one side of the ABF1-binding site. During GG-NER, nucleosome positioning at this site was not altered, and this correlated with an inability of the GG-NER complex to reposition nucleosomes in vitro. We discuss how the GG-NER complex might facilitate GG-NER while preventing unregulated gene transcription during this process.",
    keywords = "YEAST SACCHAROMYCES-CEREVISIAE, SEQUENCE BINDING-FACTOR, III-SENSITIVE SITES, IN-VITRO, DNA TRANSLOCATION, DIRECTIONAL ESTABLISHMENT, UV-IRRADIATION, BUDDING YEAST, ABF1 PROTEIN, HML-ALPHA",
    author = "Shirong Yu and Smirnova, {Julia B.} and Friedberg, {Errol C.} and Bruce Stillman and Masahiro Akiyama and Tom Owen-Hughes and Raymond Waters and Reed, {Simon H.}",
    year = "2009",
    month = "1",
    day = "9",
    doi = "10.1074/jbc.M806830200",
    language = "English",
    volume = "284",
    pages = "966--973",
    journal = "Journal of Biological Chemistry",
    issn = "0021-9258",
    publisher = "American Society for Biochemistry and Molecular Biology",
    number = "2",

    }

    Yu, S, Smirnova, JB, Friedberg, EC, Stillman, B, Akiyama, M, Owen-Hughes, T, Waters, R & Reed, SH 2009, 'ABF1-binding sites promote efficient global genome nucleotide excision repair', Journal of Biological Chemistry, vol. 284, no. 2, pp. 966-973. https://doi.org/10.1074/jbc.M806830200

    ABF1-binding sites promote efficient global genome nucleotide excision repair. / Yu, Shirong; Smirnova, Julia B.; Friedberg, Errol C.; Stillman, Bruce; Akiyama, Masahiro; Owen-Hughes, Tom; Waters, Raymond; Reed, Simon H.

    In: Journal of Biological Chemistry, Vol. 284, No. 2, 09.01.2009, p. 966-973.

    Research output: Contribution to journalArticle

    TY - JOUR

    T1 - ABF1-binding sites promote efficient global genome nucleotide excision repair

    AU - Yu, Shirong

    AU - Smirnova, Julia B.

    AU - Friedberg, Errol C.

    AU - Stillman, Bruce

    AU - Akiyama, Masahiro

    AU - Owen-Hughes, Tom

    AU - Waters, Raymond

    AU - Reed, Simon H.

    PY - 2009/1/9

    Y1 - 2009/1/9

    N2 - Global genome nucleotide excision repair (GG-NER) removes DNA damage from nontranscribing DNA. In Saccharomyces cerevisiae, the RAD7 and RAD16 genes are specifically required for GG-NER. We have reported that autonomously replicating sequence-binding factor 1 (ABF1) protein forms a stable complex with Rad7 and Rad16 proteins. ABF1 functions in transcription, replication, gene silencing, and NER in yeast. Here we show that binding of ABF1 to its DNA recognition sequence found at multiple genomic locations promotes efficient GG-NER in yeast. Mutation of the I silencer ABF1-binding site at the HML alpha locus caused loss of ABF1 binding, which resulted in a domain of reduced GG-NER efficiency on one side of the ABF1-binding site. During GG-NER, nucleosome positioning at this site was not altered, and this correlated with an inability of the GG-NER complex to reposition nucleosomes in vitro. We discuss how the GG-NER complex might facilitate GG-NER while preventing unregulated gene transcription during this process.

    AB - Global genome nucleotide excision repair (GG-NER) removes DNA damage from nontranscribing DNA. In Saccharomyces cerevisiae, the RAD7 and RAD16 genes are specifically required for GG-NER. We have reported that autonomously replicating sequence-binding factor 1 (ABF1) protein forms a stable complex with Rad7 and Rad16 proteins. ABF1 functions in transcription, replication, gene silencing, and NER in yeast. Here we show that binding of ABF1 to its DNA recognition sequence found at multiple genomic locations promotes efficient GG-NER in yeast. Mutation of the I silencer ABF1-binding site at the HML alpha locus caused loss of ABF1 binding, which resulted in a domain of reduced GG-NER efficiency on one side of the ABF1-binding site. During GG-NER, nucleosome positioning at this site was not altered, and this correlated with an inability of the GG-NER complex to reposition nucleosomes in vitro. We discuss how the GG-NER complex might facilitate GG-NER while preventing unregulated gene transcription during this process.

    KW - YEAST SACCHAROMYCES-CEREVISIAE

    KW - SEQUENCE BINDING-FACTOR

    KW - III-SENSITIVE SITES

    KW - IN-VITRO

    KW - DNA TRANSLOCATION

    KW - DIRECTIONAL ESTABLISHMENT

    KW - UV-IRRADIATION

    KW - BUDDING YEAST

    KW - ABF1 PROTEIN

    KW - HML-ALPHA

    U2 - 10.1074/jbc.M806830200

    DO - 10.1074/jbc.M806830200

    M3 - Article

    VL - 284

    SP - 966

    EP - 973

    JO - Journal of Biological Chemistry

    JF - Journal of Biological Chemistry

    SN - 0021-9258

    IS - 2

    ER -