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. 2012 Sep 27;489(7417):576-80.
doi: 10.1038/nature11355. Epub 2012 Sep 9.

The Fun30 nucleosome remodeller promotes resection of DNA double-strand break ends (V体育安卓版)

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The Fun30 nucleosome remodeller promotes resection of DNA double-strand break ends (VSports手机版)

Xuefeng Chen et al. Nature. .

Abstract (V体育2025版)

Chromosomal double-strand breaks (DSBs) are resected by 5' nucleases to form 3' single-stranded DNA substrates for binding by homologous recombination and DNA damage checkpoint proteins. Two redundant pathways of extensive resection have been described both in cells and in vitro, one relying on Exo1 exonuclease and the other on Sgs1 helicase and Dna2 nuclease VSports手机版. However, it remains unknown how resection proceeds within the context of chromatin, where histones and histone-bound proteins represent barriers for resection enzymes. Here we identify the yeast nucleosome-remodelling enzyme Fun30 as a factor promoting DSB end resection. Fun30 is the major nucleosome remodeller promoting extensive Exo1- and Sgs1-dependent resection of DSBs. The RSC and INO80 chromatin-remodelling complexes and Fun30 have redundant roles in resection adjacent to DSB ends. ATPase and helicase domains of Fun30, which are needed for nucleosome remodelling, are also required for resection. Fun30 is robustly recruited to DNA breaks and spreads along the DSB coincident with resection. Fun30 becomes less important for resection in the absence of the histone-bound Rad9 checkpoint adaptor protein known to block 5' strand processing and in the absence of either histone H3 K79 methylation or γ-H2A, which mediate recruitment of Rad9 (refs 9, 10). Together these data suggest that Fun30 helps to overcome the inhibitory effect of Rad9 on DNA resection. .

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Figures

Figure 1
Figure 1. A genome-wide screen identifies novel genes that regulate gene integration in yeast
a. A barcode microarray-based screen for mutants with altered frequency of gene integration. A mixed population of 4,836 homozygous diploid deletion mutant strains was transformed with an integrating cassette (i.e. isu1Δ∷URA3) or a centromeric plasmid (control). Molecular barcodes representing the deletion mutants were PCR-amplified from genomic DNA samples isolated from both transformed pools using Cy5- or Cy3-labeled primers and co-hybridized to a barcode microarray to reveal mutants with altered gene integration efficiency. b. Integration frequency in selected mutants. Error bars represent standard deviation, (n=3).
Figure 2
Figure 2. fun30Δ mutants are deficient in resection
a. (i) Diagram of the MAT locus and probes used to follow resection kinetics are shown. Southern blot analysis (ii) and kinetics (iii) of DSB end resection in wild-type and fun30Δ mutants. Plotted in this and all following graphs are mean values of three independent experiments with error bars denoting standard deviation. b. (i) Schematic representation of SSA assay (ii) Southern blot analysis of SSA kinetics, and (iii) cell viability in response to a DSB repaired by SSA. c. ChIP analysis of Rad51 and RPA recruitment in wild-type and fun30Δ cells.
Figure 3
Figure 3. Fun30 plays a direct role in DSB ends resection
a. ChIP analysis of Fun30-13xMyc recruitment at DSB. b. Recruitment of resection enzymes analyzed by ChIP. Statistically significant differences in protein enrichment are indicated by “*” (P<0.05) or “**” (P<0.01, t-test). Relative enrichment in fun30Δ is shown. c. Analysis of resection kinetics in indicated FUN30 mutants. The level of mutant proteins and their recruitment to DSB were comparable to wild-type Fun30 (Fig. S5). d. ChIP analysis of Fun30-13xMyc recruitment in mutants deficient in resection or DNA damage checkpoint. Recruitment at the ARO1 locus was used as a control.
Figure 4
Figure 4. Fun30 chromatin remodeling factor promotes resection within Rad9-bound nucleosomes
a. Analysis of DSB end resection (i) and Western blot showing Rad53 phosphorylation (ii). STH1 expression (component of RSC) was eliminated by adding doxycycline. b. Analysis of resection at 28 kb from a DSB. Southern blots are shown in Figure S10. c. ChIP analysis of Rad9-HA binding. d. Model of coupled resection and chromatin remodeling. (i) Nucleases and helicases resect DNA within a nucleosome-free region next to a break. Histones/histone-bound Rad9 impedes further resection. (ii) Fun30 is recruited to nucleosomes being resected and increases the access to nucleosomal DNA.

"VSports注册入口" References

    1. Gravel S, Chapman JR, Magill C, Jackson SP. DNA helicases Sgs1 and BLM promote DNA double-strand break resection. Genes Dev. 2008;22:2767–2772. - PMC - PubMed
    1. Mimitou EP, Symington LS. Sae2, Exo1 and Sgs1 collaborate in DNA double-strand break processing. Nature. 2008;455:770–774. - "VSports手机版" PMC - PubMed
    1. Zhu Z, Chung WH, Shim EY, Lee SE, Ira G. Sgs1 helicase and two nucleases dna2 and exo1 resect DNA double-strand break ends. Cell. 2008;134:981–994. - PMC - PubMed
    1. Cejka P, et al. DNA end resection by Dna2-Sgs1-RPA and its stimulation by Top3-Rmi1 and Mre11-Rad50-Xrs2. Nature. 2010;467:112–116. - PMC - PubMed
    1. Nicolette ML, et al. Mre11-Rad50-Xrs2 and Sae2 promote 5’ strand resection of DNA double-strand breaks. Nat Struct Mol Biol. 2010;17:1478–1485. - PMC - PubMed

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