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Genetic Regulation of Dna2 Localization During the DNA Damage Response.

Yimit A, Riffle M, Brown GW - G3 (Bethesda) (2015)

Bottom Line: We find that Dna2-GFP focus formation occurs mainly during S phase in unperturbed cells.To systematically identify genes that affect Dna2 focus formation, we crossed Dna2-GFP into 4293 nonessential gene deletion mutants and assessed Dna2-GFP nuclear focus formation after phleomycin treatment.We identified 37 gene deletions that affect Dna2-GFP focus formation, 12 with fewer foci and 25 with increased foci.

View Article: PubMed Central - PubMed

Affiliation: Department of Biochemistry and Donnelly Centre, University of Toronto, Toronto, ON M5S 3E1, Canada.

No MeSH data available.


Related in: MedlinePlus

Dna2 focus protein–protein interaction network. The proteins that were tested for Dna2 focus colocalization are represented as nodes colored according to function, with the 25 proteins detected at the Dna2 focus on the left and the 28 proteins not found in Dna2 foci on the right. Edges correspond to protein–protein interactions curated by BioGRID, with interactions between Dna2 focus proteins in red, interactions between non-Dna2 focus proteins in blue, and interactions that bridge the two groups in green.
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fig3: Dna2 focus protein–protein interaction network. The proteins that were tested for Dna2 focus colocalization are represented as nodes colored according to function, with the 25 proteins detected at the Dna2 focus on the left and the 28 proteins not found in Dna2 foci on the right. Edges correspond to protein–protein interactions curated by BioGRID, with interactions between Dna2 focus proteins in red, interactions between non-Dna2 focus proteins in blue, and interactions that bridge the two groups in green.

Mentions: We analyzed the extent of protein–protein interactions among the 25 proteins that colocalize with Dna2 foci, and among the 28 proteins that form nuclear foci but do not colocalize detectably with Dna2 foci following phleomycin treatment (Figure 3). We noted that the proteins that colocalized with Dna2 form a dense network of protein–protein interactions (5.04 interactions on average), whereas the protein–protein interactions among the proteins that did not colocalize with Dna2 are sparser (1.75 interactions on average). Additionally, proteins that colocalize with Dna2 foci for the most part are annotated on GO processes involved in DNA repair, DNA replication, and DNA damage response. The proteins that did not colocalize with Dna2 foci are involved in some distinct processes, notably RNA catabolism, suggesting that some of these proteins form nuclear foci with functions that are distinct from Rad52 repair centers. Consistent with this possibility, Cmr1 was recently shown to form a distinct intranuclear compartment that also contains four additional proteins that fail to colocalize with Dna2 (Pph3, Apj1, Hos2, and Dus3) (Gallina et al. 2015). Together our data indicate that Dna2 foci colocalize with a subset of repair and checkpoint proteins that likely define the canonical Rad52 double-strand break repair foci (Gasior et al. 1998; Lisby et al. 2001, 2004; Yu et al. 2013).


Genetic Regulation of Dna2 Localization During the DNA Damage Response.

Yimit A, Riffle M, Brown GW - G3 (Bethesda) (2015)

Dna2 focus protein–protein interaction network. The proteins that were tested for Dna2 focus colocalization are represented as nodes colored according to function, with the 25 proteins detected at the Dna2 focus on the left and the 28 proteins not found in Dna2 foci on the right. Edges correspond to protein–protein interactions curated by BioGRID, with interactions between Dna2 focus proteins in red, interactions between non-Dna2 focus proteins in blue, and interactions that bridge the two groups in green.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4555230&req=5

fig3: Dna2 focus protein–protein interaction network. The proteins that were tested for Dna2 focus colocalization are represented as nodes colored according to function, with the 25 proteins detected at the Dna2 focus on the left and the 28 proteins not found in Dna2 foci on the right. Edges correspond to protein–protein interactions curated by BioGRID, with interactions between Dna2 focus proteins in red, interactions between non-Dna2 focus proteins in blue, and interactions that bridge the two groups in green.
Mentions: We analyzed the extent of protein–protein interactions among the 25 proteins that colocalize with Dna2 foci, and among the 28 proteins that form nuclear foci but do not colocalize detectably with Dna2 foci following phleomycin treatment (Figure 3). We noted that the proteins that colocalized with Dna2 form a dense network of protein–protein interactions (5.04 interactions on average), whereas the protein–protein interactions among the proteins that did not colocalize with Dna2 are sparser (1.75 interactions on average). Additionally, proteins that colocalize with Dna2 foci for the most part are annotated on GO processes involved in DNA repair, DNA replication, and DNA damage response. The proteins that did not colocalize with Dna2 foci are involved in some distinct processes, notably RNA catabolism, suggesting that some of these proteins form nuclear foci with functions that are distinct from Rad52 repair centers. Consistent with this possibility, Cmr1 was recently shown to form a distinct intranuclear compartment that also contains four additional proteins that fail to colocalize with Dna2 (Pph3, Apj1, Hos2, and Dus3) (Gallina et al. 2015). Together our data indicate that Dna2 foci colocalize with a subset of repair and checkpoint proteins that likely define the canonical Rad52 double-strand break repair foci (Gasior et al. 1998; Lisby et al. 2001, 2004; Yu et al. 2013).

Bottom Line: We find that Dna2-GFP focus formation occurs mainly during S phase in unperturbed cells.To systematically identify genes that affect Dna2 focus formation, we crossed Dna2-GFP into 4293 nonessential gene deletion mutants and assessed Dna2-GFP nuclear focus formation after phleomycin treatment.We identified 37 gene deletions that affect Dna2-GFP focus formation, 12 with fewer foci and 25 with increased foci.

View Article: PubMed Central - PubMed

Affiliation: Department of Biochemistry and Donnelly Centre, University of Toronto, Toronto, ON M5S 3E1, Canada.

No MeSH data available.


Related in: MedlinePlus