Frameshift mutagenesis: The roles of primer- template misalignment and the nonhomologous end-joining pathway in Saccharomyces cerevisiae

Genetics

Volumn 190, Issue 2, 2012, Pages 501-510

  Lehner, Kevin ^a   Mudrak, Sarah V ^a   Minesinger, Brenda K ^b,c   Jinks Robertson, Sue ^a  

^a DUKE UNIVERSITY MEDICAL CENTER   (United States)

^b EMORY UNIVERSITY   (United States)

^c MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALLELE; ARTICLE; DNA END JOINING REPAIR; DNA FLANKING REGION; FRAMESHIFT MUTATION; FUNGAL STRAIN; GENE DELETION; GENE INSERTION; GENE REPLICATION; MISMATCH REPAIR; NONHUMAN; OPEN READING FRAME; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE;

ALLELES; BASE PAIR MISMATCH; BASE SEQUENCE; DNA END-JOINING REPAIR; DNA MISMATCH REPAIR; DNA REPLICATION; FRAMESHIFT MUTATION; GENE DUPLICATION; MOLECULAR SEQUENCE DATA; MUTAGENESIS; RECOMBINATION, GENETIC; SACCHAROMYCES CEREVISIAE;

EID: 84857386361     PISSN: 00166731     EISSN: 19432631     Source Type: Journal    
DOI: 10.1534/genetics.111.134890     Document Type: Article

References (32)

1. Abdulovic, A. L., B. K. Minesinger, and S. Jinks-Robertson, 2007 Identification of a strand-related bias in the PCNA-mediated bypass of spontaneous lesions by yeast Polh. DNA Repair (Amst.) 6: 1307-1318.
2. Bahmed, K., K. C. Nitiss, and J. L. Nitiss, 2010 Yeast Tdp1 regulates the fidelity of nonhomologous end joining. Proc. Natl. Acad. Sci. USA 107: 4057-4062.
3. Bahmed, K., A. Seth, K. C. Nitiss, and J. L. Nitiss, 2011 Endprocessing during non-homologous end-joining: a role for exonuclease 1. Nucleic Acids Res. 39: 970-978.
4. Bebenek, K., and T. A. Kunkel, 1990 Frameshift errors initiated by nucleotide misincorporation. Proc. Natl. Acad. Sci. USA 87:4946-4950.
5. Daley, J. M., P. L. Palmbos, D. Wu, and T. E. Wilson, 2005 Nonhomologousend joining in yeast. Annu. Rev. Genet. 39: 431-451.
6. Efrati, E., G. Tocco, R. Eritja, S. H. Wilson, and M. F. Goodman, 1997 Abasic translesion synthesis by DNA polymerase b violates the "A-rule". Novel types of nucleotide incorporation by human DNA polymerase b at an abasic lesion in different sequence contexts. J. Biol. Chem. 272: 2559-2569.
7. Garcia-Diaz, M., and T. A. Kunkel, 2006 Mechanism of a genetic glissando: structural biology of indel mutations. Trends Biochem. Sci. 31: 206-214.
8. Greene, C. N., and S. Jinks-Robertson, 1997 Frameshift intermediates in homopolymer runs are removed efficiently by yeast mismatch repair proteins. Mol. Cell. Biol. 17: 2844-2850.
9. Greene, C. N., and S. Jinks-Robertson, 2001 Spontaneous frameshift mutations in Saccharomyces cerevisiae: accumulation during DNA replication and removal by proofreading and mismatch repair activities. Genetics 159: 65-75.
10. Gueldener, U., J. Heinisch, G. J. Koehler, D. Voss, and J. H. Hegemann, 2002 A second set of loxP marker cassettes for Cre-mediated multiple gene knockouts in budding yeast. Nucleic Acids Res. 30: e23.
11. Harfe, B. D., and S. Jinks-Robertson, 1999 Removal of frameshift intermediates by mismatch repair proteins in Saccharomyces cerevisiae. Mol. Cell. Biol. 19: 4766-4773.
12. Harfe, B. D., B. K. Minesinger, and S. Jinks-Robertson, 2000 Discrete in vivo roles for the MutL homologs Mlh2p and Mlh3p in the removal of frameshift intermediates in budding yeast. Curr. Biol. 10: 145-148.
13. Heidenreich, E., R. Novotny, B. Kneidinger, V. Holzmann, and U. Wintersberger, 2003 Non-homologous end joining as an important mutagenic process in cell cycle-arrested cells. EMBO J. 22: 2274-2283.
14. Klapacz, J., G. M. Lingaraju, H. H. Guo, D. Shah, A. Moar-Shoshani et al., 2010 Frameshift mutagenesis and microsatellite instability induced by human alkyladenine DNA glycosylase. Mol. Cell 37: 843-853.
15. Kunkel, T. A., 1990 Misalignment-mediated DNA synthesis errors. Biochemistry 29: 8003-8011.
16. Kunkel, T. A., and D. A. Erie, 2005 DNA mismatch repair. Annu. Rev. Biochem. 74: 681-710.
17. Leclercq, S., E. Rivals, and P. Jarne, 2010 DNA slippage occurs at microsatellite loci without minimal threshold length in humans: a comparative genomic approach. Genome Biol. Evol. 2: 325-335.
18. Lehner, K., and S. Jinks-Robertson, 2009 The mismatch repair system promotes Polz-dependent translesion synthesis in yeast. Proc. Natl. Acad. Sci. USA 106: 5749-5754.
19. Longtine, M. S., A. Mckenzie Iii, D. J. Demarini, N. G. Shah, A. Wach et al., 1998 Additional modules for versatile and economicalPCR-based gene deletion and modification in Saccharomyces cerevisiae. Yeast 14: 953-961.
20. Marsischky, G. T., N. Filosi, M. F. Kane, and R. Kolodner, 1996 Redundancy of Saccharomyces cerevisiae MSH3 and MSH6 in MSH2-dependent mismatch repair. Genes Dev. 10: 407-420.
21. Moore, J. K., and J. E. Haber, 1996 Cell cycle and genetic requirements of two pathways of nonhomologous end-joining repair of double-strand breaks in Saccharomyces cerevisiae. Mol. Cell. Biol. 16: 2164-2173.
22. Nelson, J. R., C. W. Lawrence, and D. C. Hinkle, 1996 Thyminethymine dimer bypass by yeast DNA polymerase z. Science 272:1646-1649.
23. Pupko, T., and D. Graur, 1999 Evolution of microsatellites in the yeast Saccharomyces cerevisiae: role of length and number of repeated units. J. Mol. Evol. 48: 313-316.
24. Rothstein, R., 1991 Targeting, disruption, replacement, and allele rescue: integrative DNA transformation in yeast. Methods Enzymol. 194: 281-301.
25. Shah, S. N., S. E. Hile, and K. A. Eckert, 2010 Defective mismatch repair, microsatellite mutation bias, and variability in clinical cancer phenotypes. Cancer Res. 70: 431-435.
26. Steele, D. F., and S. Jinks-Robertson, 1992 An examination of adaptive reversion in Saccharomyces cerevisiae. Genetics 132: 9-21.
27. Streisinger, G., Y. Okada, J. Emrich, J. Newton, A. Tsugita et al., 1966 Frameshift mutations and the genetic code Cold Spring Harbor Symp. Quant. Biol. 31: 77-84.
28. Symington, L. S., 2002 Role of RAD52 epistasis group genes in homologous recombination and double-strand break repair. Microbiol. Mol. Biol. Rev. 66: 630-670.
29. Teo, S. H., and S. P. Jackson, 1997 Identification of Saccharomyces cerevisiae DNA ligase IV: involvement in DNA double-strand break repair. EMBO J. 16: 4788-4795.
30. Tran, H. T., J. D. Keen, M. Kricker, M. A. Resnick, and D. A. Gordenin,1997 Hyper mutability of homonucleotide runs in mismatch repair and DNA polymerase proofreading yeast mutants. Mol. Cell. Biol. 17: 2859-2865.
31. Zheng, Q., 2005 New algorithms for Luria-Delbruck fluctuation analysis. Math. Biosci. 196: 198-214.
32. Zhu, Y., J. E. Strassmann, and D. C. Queller, 2000 Insertions, substitutions, and the origin of microsatellites. Genet. Res. 76: 227-236.