Two Distinct Pathways Support Gene Correction by Single-Stranded Donors at DNA Nicks

Cell Reports

Volumn 17, Issue 7, 2016, Pages 1872-1881

  Davis, Luther ^a   Maizels, Nancy ^a  

^a UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

Author keywords

breast cancer; deletion; DNA double strand break; DNA single strand break; gene correction; gene therapy; genome engineering; mutagenesis; recombination; replication

Indexed keywords

RAD51 PROTEIN; SINGLE STRANDED DNA; BIOLOGICAL MARKER; REPLICATION FACTOR A;

ARTICLE; CONTROLLED STUDY; DNA DAMAGE; DNA END JOINING REPAIR; DNA NICK TRANSLATION; DNA SYNTHESIS; EMBRYO; GENETIC ENGINEERING; GENOMIC INSTABILITY; HETERODUPLEX ANALYSIS; HUMAN; HUMAN CELL; PLASMID; PRIORITY JOURNAL; SIGNAL TRANSDUCTION; DOUBLE STRANDED DNA BREAK; GENE EDITING; HEK293 CELL LINE; METABOLISM; RECOMBINATION REPAIR; SINGLE STRANDED DNA BREAK;

BIOMARKERS; DNA BREAKS, DOUBLE-STRANDED; DNA BREAKS, SINGLE-STRANDED; DNA DAMAGE; DNA, SINGLE-STRANDED; GENE EDITING; HEK293 CELLS; HUMANS; RAD51 RECOMBINASE; RECOMBINATIONAL DNA REPAIR; REPLICATION PROTEIN A;

EID: 84994410009     PISSN: None     EISSN: 22111247     Source Type: Journal    
DOI: 10.1016/j.celrep.2016.10.049     Document Type: Article

References (23)

1. Certo, M.T., Ryu, B.Y., Annis, J.E., Garibov, M., Jarjour, J., Rawlings, D.J., Scharenberg, A.M., Tracking genome engineering outcome at individual DNA breakpoints. Nat. Methods 8 (2011), 671–676.
2. Chen, R., Wold, M.S., Replication protein A: single-stranded DNA's first responder: dynamic DNA-interactions allow replication protein A to direct single-strand DNA intermediates into different pathways for synthesis or repair. BioEssays 36 (2014), 1156–1161.
3. Chen, F., Pruett-Miller, S.M., Huang, Y., Gjoka, M., Duda, K., Taunton, J., Collingwood, T.N., Frodin, M., Davis, G.D., High-frequency genome editing using ssDNA oligonucleotides with zinc-finger nucleases. Nat. Methods 8 (2011), 753–755.
4. Ciccia, A., McDonald, N., West, S.C., Structural and functional relationships of the XPF/MUS81 family of proteins. Annu. Rev. Biochem. 77 (2008), 259–287.
5. Cong, L., Ran, F.A., Cox, D., Lin, S., Barretto, R., Habib, N., Hsu, P.D., Wu, X., Jiang, W., Marraffini, L.A., Zhang, F., Multiplex genome engineering using CRISPR/Cas systems. Science 339 (2013), 819–823.
6. Davis, L., Maizels, N., DNA nicks promote efficient and safe targeted gene correction. PLoS ONE, 6, 2011, e23981.
7. Davis, L., Maizels, N., Homology-directed repair of DNA nicks via pathways distinct from canonical double-strand break repair. Proc. Natl. Acad. Sci. USA 111 (2014), E924–E932.
8. Deng, S.K., Chen, H., Symington, L.S., Replication protein A prevents promiscuous annealing between short sequence homologies: implications for genome integrity. BioEssays 37 (2015), 305–313.
9. Gasiunas, G., Barrangou, R., Horvath, P., Siksnys, V., Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria. Proc. Natl. Acad. Sci. USA 109 (2012), E2579–E2586.
10. Goodman, M.F., Creighton, S., Bloom, L.B., Petruska, J., Biochemical basis of DNA replication fidelity. Crit. Rev. Biochem. Mol. Biol. 28 (1993), 83–126.
11. Heyer, W.D., Ehmsen, K.T., Liu, J., Regulation of homologous recombination in eukaryotes. Annu. Rev. Genet. 44 (2010), 113–139.
12. Jinek, M., Chylinski, K., Fonfara, I., Hauer, M., Doudna, J.A., Charpentier, E., A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity. Science 337 (2012), 816–821.
13. Kamath-Loeb, A.S., Shen, J.C., Schmitt, M.W., Loeb, L.A., The Werner syndrome exonuclease facilitates DNA degradation and high fidelity DNA polymerization by human DNA polymerase δ. J. Biol. Chem. 287 (2012), 12480–12490.
14. Kowalczykowski, S.C., An overview of the molecular mechanisms of recombinational DNA repair. Cold Spring Harb. Perspect. Biol., 7, 2015, a016410.
15. Kunkel, T.A., DNA replication fidelity. J. Biol. Chem. 279 (2004), 16895–16898.
16. Mali, P., Yang, L., Esvelt, K.M., Aach, J., Guell, M., DiCarlo, J.E., Norville, J.E., Church, G.M., RNA-guided human genome engineering via Cas9. Science 339 (2013), 823–826.
17. Pepe, A., West, S.C., Substrate specificity of the MUS81-EME2 structure selective endonuclease. Nucleic Acids Res. 42 (2014), 3833–3845.
18. Prakash, R., Zhang, Y., Feng, W., Jasin, M., Homologous recombination and human health: the roles of BRCA1, BRCA2, and associated proteins. Cold Spring Harb. Perspect. Biol., 7, 2015, a016600.
19. Richardson, C.D., Ray, G.J., DeWitt, M.A., Curie, G.L., Corn, J.E., Enhancing homology-directed genome editing by catalytically active and inactive CRISPR-Cas9 using asymmetric donor DNA. Nat. Biotechnol. 34 (2016), 339–344.
20. Storici, F., Snipe, J.R., Chan, G.K., Gordenin, D.A., Resnick, M.A., Conservative repair of a chromosomal double-strand break by single-strand DNA through two steps of annealing. Mol. Cell. Biol. 26 (2006), 7645–7657.
21. Symington, L.S., Gautier, J., Double-strand break end resection and repair pathway choice. Annu. Rev. Genet. 45 (2011), 247–271.
22. Wang, X., Haber, J.E., Role of Saccharomyces single-stranded DNA-binding protein RPA in the strand invasion step of double-strand break repair. PLoS Biol., 2, 2004, E21.
23. Yan, F., Doronina, V.A., Sharma, P., Brown, J.D., Orchestrating ribosomal activity from inside: effects of the nascent chain on the peptidyltransferase centre. Biochem. Soc. Trans. 38 (2010), 1576–1580.