Home LiteratureArticle Details
PMID: 14560028 Published · ppublish English Journal Article Research Support, U.S. Gov't, P.H.S.

Mutations in yeast replication proteins that increase CAG/CTG expansions also increase repeat fragility.

Molecular and cellular biology ·Vol. 23 ·No. 21 ·2003-11-00 ·Pages 7849-60

Callahan JL, Andrews KJ, Zakian VA, Freudenreich CH

Abstract

Expansion of trinucleotide repeats (TNRs) is the causative mutation in several human genetic diseases. Expanded TNR tracts are both unstable (changing in length) and fragile (displaying an increased propensity to break). We have investigated the relationship between fidelity of lagging-strand replication and both stability and fragility of TNRs. We devised a new yeast artificial chromomosme (YAC)-based assay for chromosome breakage to analyze fragility of CAG/CTG tracts in mutants deficient for proteins involved in lagging-strand replication: Fen1/Rad27, an endo/exonuclease involved in Okazaki fragment maturation, the nuclease/helicase Dna2, RNase HI, DNA ligase, polymerase delta, and primase. We found that deletion of RAD27 caused a large increase in breakage of short and long CAG/CTG tracts, and defects in DNA ligase and primase increased breakage of long tracts. We also found a correlation between mutations that increase CAG/CTG tract breakage and those that increase repeat expansion. These results suggest that processes that generate strand breaks, such as faulty Okazaki fragment processing or DNA repair, are an important source of TNR expansions.

MeSH Terms
Adenosine Triphosphatases/genetics,metabolism Biological Assay Chromosomes, Artificial DNA Damage DNA Helicases/genetics,metabolism DNA Ligases/genetics,metabolism DNA Polymerase III/genetics,metabolism DNA Primase/genetics,metabolism DNA Replication Flap Endonucleases/genetics,metabolism Fungal Proteins/genetics,metabolism Humans Mutation Reproducibility of Results Ribonuclease H/genetics,metabolism Saccharomyces cerevisiae Proteins Trinucleotide Repeat Expansion Yeasts/genetics,metabolism
Chemicals
Fungal Proteins Saccharomyces cerevisiae Proteins DNA Primase DNA Polymerase III Flap Endonucleases Ribonuclease H ribonuclease HI Adenosine Triphosphatases DNA Helicases DNA2 protein, S cerevisiae DNA Ligases
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Callahan Julie L
Department of Biology, Program in Genetics, Tufts University, Medford, Massachusetts 02155, USA.
Andrews Kenneth J
Zakian Virginia A
Freudenreich Catherine H
References (93)
93 references, click to expand
  1. Double-strand break repair can lead to high frequencies of deletions within short CAG/CTG trinucleotide repeats.
    Mol Gen Genet. 1999 Jun;261(4-5):871-82 PMID: 10394925
  2. Trinucleotide repeat DNA structures: dynamic mutations from dynamic DNA.
    Curr Opin Struct Biol. 1998 Jun;8(3):321-30 PMID: 9666328
  3. CTG repeats show bimodal amplification in E. coli.
    Cell. 1998 Nov 13;95(4):531-40 PMID: 9827805
  4. Accumulation of single-stranded DNA and destabilization of telomeric repeats in yeast mutant strains carrying a deletion of RAD27.
    Mol Cell Biol. 1999 Jun;19(6):4143-52 PMID: 10330154
  5. Replication fork pausing and recombination or "gimme a break".
    Genes Dev. 2000 Jan 1;14(1):1-10 PMID: 10640269
  6. Characterization of the enzymatic properties of the yeast dna2 Helicase/endonuclease suggests a new model for Okazaki fragment processing.
    J Biol Chem. 2000 Dec 1;275(48):38022-31 PMID: 10984490
  7. Enzymes and reactions at the eukaryotic DNA replication fork.
    J Biol Chem. 1997 Feb 21;272(8):4647-50 PMID: 9081985
  8. Trinucleotide repeats associated with human disease.
    Nucleic Acids Res. 1997 Jun 15;25(12):2245-54 PMID: 9171073
  9. Expansion and deletion of CTG repeats from human disease genes are determined by the direction of replication in E. coli.
    Nat Genet. 1995 Jun;10(2):213-8 PMID: 7663518
  10. Cleavage specificity of Saccharomyces cerevisiae flap endonuclease 1 suggests a double-flap structure as the cellular substrate.
    J Biol Chem. 2002 Apr 26;277(17):14379-89 PMID: 11825897
  11. The saccharomyces PIF1 DNA helicase inhibits telomere elongation and de novo telomere formation.
    Cell. 1994 Jan 14;76(1):145-55 PMID: 8287473
  12. Internuclear transfer of genetic information in kar1-1/KAR1 heterokaryons in Saccharomyces cerevisiae.
    Mol Cell Biol. 1981 Mar;1(3):245-53 PMID: 6765600
  13. Homologous recombination is required for the viability of rad27 mutants.
    Nucleic Acids Res. 1998 Dec 15;26(24):5589-95 PMID: 9837987
  14. DNA ligation during excision repair in yeast cell-free extracts is specifically catalyzed by the CDC9 gene product.
    Biochemistry. 1999 Mar 2;38(9):2628-35 PMID: 10052932
  15. The distribution of the numbers of mutants in bacterial populations.
    J Genet. 1949 Dec;49(3):264-85 PMID: 24536673
  16. Requirement of the yeast RTH1 5' to 3' exonuclease for the stability of simple repetitive DNA.
    Science. 1995 Jul 14;269(5221):238-40 PMID: 7618086
  17. Genetic factors affecting the impact of DNA polymerase delta proofreading activity on mutation avoidance in yeast.
    Genetics. 1999 May;152(1):47-59 PMID: 10224242
  18. Double-strand break repair in yeast requires both leading and lagging strand DNA polymerases.
    Cell. 1999 Feb 5;96(3):415-24 PMID: 10025407
  19. Weak strand displacement activity enables human DNA polymerase beta to expand CAG/CTG triplet repeats at strand breaks.
    J Biol Chem. 2002 Nov 1;277(44):41379-89 PMID: 12196536
  20. Trinucleotide repeats affect DNA replication in vivo.
    Nat Genet. 1997 Nov;17(3):298-304 PMID: 9354793
  21. Stability of a CTG/CAG trinucleotide repeat in yeast is dependent on its orientation in the genome.
    Mol Cell Biol. 1997 Apr;17(4):2090-8 PMID: 9121457
  22. The contribution of cis-elements to disease-associated repeat instability: clinical and experimental evidence.
    Cytogenet Genome Res. 2003;100(1-4):25-55 PMID: 14526163
  23. Saccharomyces cerevisiae RNase H(35) functions in RNA primer removal during lagging-strand DNA synthesis, most efficiently in cooperation with Rad27 nuclease.
    Mol Cell Biol. 1999 Dec;19(12):8361-71 PMID: 10567561
  24. Instability of the human minisatellite CEB1 in rad27Delta and dna2-1 replication-deficient yeast cells.
    EMBO J. 2002 Jun 17;21(12):3201-11 PMID: 12065432
  25. Role of yeast Rth1 nuclease and its homologs in mutation avoidance, DNA repair, and DNA replication.
    Curr Genet. 1998 Jul;34(1):21-9 PMID: 9683672
  26. Genetic Control of the Cell Division Cycle in Yeast: V. Genetic Analysis of cdc Mutants.
    Genetics. 1973 Jun;74(2):267-86 PMID: 17248617
  27. Orientation dependence of trinucleotide CAG repeat instability in Saccharomyces cerevisiae.
    Mol Cell Biol. 1996 Dec;16(12):6617-22 PMID: 8943315
  28. Defective flap endonuclease 1 activity in mammalian cells is associated with impaired DNA repair and prolonged S phase delay.
    J Biol Chem. 2002 Jan 4;277(1):746-54 PMID: 11687589
  29. Increased instability of human CTG repeat tracts on yeast artificial chromosomes during gametogenesis.
    Mol Cell Biol. 1999 Jun;19(6):4153-8 PMID: 10330155
  30. CGG/CCG repeats exhibit orientation-dependent instability and orientation-independent fragility in Saccharomyces cerevisiae.
    Hum Mol Genet. 2000 Jan 1;9(1):93-100 PMID: 10587583
  31. Somatic expansion behaviour of the (CTG)n repeat in myotonic dystrophy knock-in mice is differentially affected by Msh3 and Msh6 mismatch-repair proteins.
    Hum Mol Genet. 2002 Jan 15;11(2):191-8 PMID: 11809728
  32. Characterization of a mutant strain of Saccharomyces cerevisiae with a deletion of the RAD27 gene, a structural homolog of the RAD2 nucleotide excision repair gene.
    J Bacteriol. 1995 Jan;177(2):364-71 PMID: 7814325
  33. A yeast gene required for DNA replication encodes a protein with homology to DNA helicases.
    Proc Natl Acad Sci U S A. 1995 Aug 15;92(17):7642-6 PMID: 7644470
  34. The human minisatellites MS1, MS32, MS205 and CEB1 integrated into the yeast genome exhibit different degrees of mitotic instability but are all stabilised by RAD27.
    Curr Genet. 2002 Aug;41(5):333-41 PMID: 12185499
  35. Structural features of trinucleotide repeats associated with DNA expansion.
    Biochem Cell Biol. 2001;79(3):325-36 PMID: 11467746
  36. Expansion and length-dependent fragility of CTG repeats in yeast.
    Science. 1998 Feb 6;279(5352):853-6 PMID: 9452383
  37. Recombination occurs during telomere formation in yeast.
    Nature. 1989 Feb 2;337(6206):429-33 PMID: 2536898
  38. Structure of the DNA repair and replication endonuclease and exonuclease FEN-1: coupling DNA and PCNA binding to FEN-1 activity.
    Cell. 1998 Oct 2;95(1):135-46 PMID: 9778254
  39. Meiotic alterations in CAG repeat tracts.
    Genetics. 2001 Dec;159(4):1861-5 PMID: 11779820
  40. Replication fork arrest and DNA recombination.
    Trends Biochem Sci. 2000 Apr;25(4):173-8 PMID: 10754549
  41. The endonuclease activity of the yeast Dna2 enzyme is essential in vivo.
    Nucleic Acids Res. 2000 Aug 1;28(15):2873-81 PMID: 10908349
  42. Msh2 deficiency prevents in vivo somatic instability of the CAG repeat in Huntington disease transgenic mice.
    Nat Genet. 1999 Dec;23(4):471-3 PMID: 10581038
  43. A novel role in DNA metabolism for the binding of Fen1/Rad27 to PCNA and implications for genetic risk.
    Mol Cell Biol. 1999 Aug;19(8):5373-82 PMID: 10409728
  44. Conditional lethality of null mutations in RTH1 that encodes the yeast counterpart of a mammalian 5'- to 3'-exonuclease required for lagging strand DNA synthesis in reconstituted systems.
    J Biol Chem. 1995 Mar 3;270(9):4193-6 PMID: 7876174
  45. The function of DNA polymerase alpha at telomeric G tails is important for telomere homeostasis.
    Mol Cell Biol. 2000 Feb;20(3):786-96 PMID: 10629035
  46. Mutations in conserved yeast DNA primase domains impair DNA replication in vivo.
    Proc Natl Acad Sci U S A. 1991 May 1;88(9):3877-81 PMID: 2023935
  47. Replication slippage between distant short repeats in Saccharomyces cerevisiae depends on the direction of replication and the RAD50 and RAD52 genes.
    Mol Cell Biol. 1995 Oct;15(10):5607-17 PMID: 7565712
  48. Telomerase-mediated telomere addition in vivo requires DNA primase and DNA polymerases alpha and delta.
    Cell. 1999 Dec 23;99(7):723-33 PMID: 10619426
  49. Trinucleotide repeats that expand in human disease form hairpin structures in vitro.
    Cell. 1995 May 19;81(4):533-40 PMID: 7758107
  50. Analysis of human flap endonuclease 1 mutants reveals a mechanism to prevent triplet repeat expansion.
    J Biol Chem. 2003 Apr 18;278(16):13728-39 PMID: 12554738
  51. The impact of lagging strand replication mutations on the stability of CAG repeat tracts in yeast.
    Genetics. 2000 Aug;155(4):1657-65 PMID: 10924464
  52. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1).
    EMBO J. 1997 Jun 2;16(11):3341-8 PMID: 9214649
  53. Relationships between yeast Rad27 and Apn1 in response to apurinic/apyrimidinic (AP) sites in DNA.
    Nucleic Acids Res. 1999 Feb 15;27(4):956-62 PMID: 9927726
  54. Fragile sites still breaking.
    Trends Genet. 1998 Dec;14(12):501-6 PMID: 9865156
  55. A role for FEN-1 in nonhomologous DNA end joining: the order of strand annealing and nucleolytic processing events.
    Proc Natl Acad Sci U S A. 1999 Feb 16;96(4):1303-8 PMID: 9990019
  56. Evidence of cis-acting factors in replication-mediated trinucleotide repeat instability in primate cells.
    Nat Genet. 2002 May;31(1):37-46 PMID: 11967533
  57. Links between replication and recombination in Saccharomyces cerevisiae: a hypersensitive requirement for homologous recombination in the absence of Rad27 activity.
    Proc Natl Acad Sci U S A. 2001 Jul 17;98(15):8263-9 PMID: 11459962
  58. Mini- and microsatellite expansions: the recombination connection.
    EMBO Rep. 2000 Aug;1(2):122-6 PMID: 11265750
  59. Meiotic instability of CAG repeat tracts occurs by double-strand break repair in yeast.
    Proc Natl Acad Sci U S A. 2000 Feb 29;97(5):2134-9 PMID: 10681451
  60. Inhibition of flap endonuclease 1 by flap secondary structure and relevance to repeat sequence expansion.
    J Biol Chem. 2000 Jun 2;275(22):16420-7 PMID: 10748145
  61. Trinucleotide expansion in haploid germ cells by gap repair.
    Nat Genet. 2001 Apr;27(4):407-11 PMID: 11279522
  62. RPA governs endonuclease switching during processing of Okazaki fragments in eukaryotes.
    Nature. 2001 Jul 26;412(6845):456-61 PMID: 11473323
  63. Trinucleotide repeat instability: a hairpin curve at the crossroads of replication, recombination, and repair.
    Cytogenet Genome Res. 2003;100(1-4):7-24 PMID: 14526162
  64. Biological implications of the DNA structures associated with disease-causing triplet repeats.
    Am J Hum Genet. 1999 Feb;64(2):346-53 PMID: 9973271
  65. The effect of DNA replication mutations on CAG tract stability in yeast.
    Genetics. 1999 Jul;152(3):953-63 PMID: 10388815
  66. Abasic sites induce triplet-repeat expansion during DNA replication in vitro.
    J Biol Chem. 1999 Sep 10;274(37):25975-8 PMID: 10473539
  67. A novel mutation avoidance mechanism dependent on S. cerevisiae RAD27 is distinct from DNA mismatch repair.
    Cell. 1997 Jan 24;88(2):253-63 PMID: 9008166
  68. A simple and efficient method for direct gene deletion in Saccharomyces cerevisiae.
    Nucleic Acids Res. 1993 Jul 11;21(14):3329-30 PMID: 8341614
  69. Genetic instabilities in (CTG.CAG) repeats occur by recombination.
    J Biol Chem. 1999 Aug 13;274(33):23468-79 PMID: 10438526
  70. The nuclease activity of the yeast DNA2 protein, which is related to the RecB-like nucleases, is essential in vivo.
    J Biol Chem. 2000 Jun 2;275(22):16518-29 PMID: 10748138
  71. Expansions of CAG repeat tracts are frequent in a yeast mutant defective in Okazaki fragment maturation.
    Hum Mol Genet. 1998 Jan;7(1):69-74 PMID: 9384605
  72. Most meiotic CAG repeat tract-length alterations in yeast are SPO11 dependent.
    Mol Genet Genomics. 2002 Mar;267(1):64-70 PMID: 11919716
  73. A yeast replicative helicase, Dna2 helicase, interacts with yeast FEN-1 nuclease in carrying out its essential function.
    Mol Cell Biol. 1997 Apr;17(4):2136-42 PMID: 9121462
  74. Replication and expansion of trinucleotide repeats in yeast.
    Mol Cell Biol. 2003 Feb;23(4):1349-57 PMID: 12556494
  75. The fragile X syndromes.
    Semin Cell Biol. 1995 Feb;6(1):5-11 PMID: 7620122
  76. Okazaki fragment maturation in yeast. I. Distribution of functions between FEN1 AND DNA2.
    J Biol Chem. 2003 Jan 17;278(3):1618-25 PMID: 12424238
  77. Instability of CAG and CTG trinucleotide repeats in Saccharomyces cerevisiae.
    Mol Cell Biol. 1997 Jun;17(6):3382-7 PMID: 9154837
  78. Dna2 of Saccharomyces cerevisiae possesses a single-stranded DNA-specific endonuclease activity that is able to act on double-stranded DNA in the presence of ATP.
    J Biol Chem. 1998 Oct 9;273(41):26880-90 PMID: 9756935
  79. Coupling of DNA helicase and endonuclease activities of yeast Dna2 facilitates Okazaki fragment processing.
    J Biol Chem. 2002 Jul 19;277(29):26632-41 PMID: 12004053
  80. Gross chromosomal rearrangements in Saccharomyces cerevisiae replication and recombination defective mutants.
    Nat Genet. 1999 Sep;23(1):81-5 PMID: 10471504
  81. Yeast RNase H(35) is the counterpart of the mammalian RNase HI, and is evolutionarily related to prokaryotic RNase HII.
    FEBS Lett. 1998 Jan 2;421(1):23-6 PMID: 9462832
  82. Discrete start sites for DNA synthesis in the yeast ARS1 origin.
    Science. 1998 Jan 2;279(5347):95-8 PMID: 9417033
  83. Recombination-induced CAG trinucleotide repeat expansions in yeast involve the MRE11-RAD50-XRS2 complex.
    EMBO J. 2000 May 15;19(10):2381-90 PMID: 10811629
  84. Metabolism of Okazaki fragments during simian virus 40 DNA replication.
    J Biol Chem. 1979 Nov 25;254(22):11495-504 PMID: 227871
  85. Fourteen and counting: unraveling trinucleotide repeat diseases.
    Hum Mol Genet. 2000 Apr 12;9(6):909-16 PMID: 10767314
  86. Inhibition of FEN-1 processing by DNA secondary structure at trinucleotide repeats.
    Mol Cell. 1999 Dec;4(6):1079-85 PMID: 10635332
  87. Junction ribonuclease: an activity in Okazaki fragment processing.
    Proc Natl Acad Sci U S A. 1998 Mar 3;95(5):2244-9 PMID: 9482870
  88. Dynamic mutations: a decade of unstable expanded repeats in human genetic disease.
    Hum Mol Genet. 2001 Oct 1;10(20):2187-94 PMID: 11673400
  89. DNA ligase I competes with FEN1 to expand repetitive DNA sequences in vitro.
    J Biol Chem. 2002 Jun 21;277(25):22361-9 PMID: 11948189
  90. Destabilization of yeast micro- and minisatellite DNA sequences by mutations affecting a nuclease involved in Okazaki fragment processing (rad27) and DNA polymerase delta (pol3-t).
    Mol Cell Biol. 1998 May;18(5):2779-88 PMID: 9566897
  91. Involvement of flap endonuclease 1 in base excision DNA repair.
    J Biol Chem. 1998 Apr 10;273(15):8842-8 PMID: 9535864
  92. DNA double-strand breaks caused by replication arrest.
    EMBO J. 1997 Jan 15;16(2):430-8 PMID: 9029161
  93. Repeat expansion--all in a flap?
    Nat Genet. 1997 Jun;16(2):116-8 PMID: 9171819
Article Info
Journal
Molecular and cellular biology
Abbr.
Mol Cell Biol
ISSN
0270-7306
Published
2003-11-00
Pages
7849-60
Language
English
Region
United States
NLM ID
8109087
PMCID
PMC207578
Subset
IM
Grants
NCI NIH HHS · R01 CA079441 · United States
NIGMS NIH HHS · R01 GM063066 · United States
NCI NIH HHS · CA79441 · United States
NIGMS NIH HHS · GM63066 · United States
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com