Genome-Wide Detection of Meiotic DNA Double-Strand Break Hotspots Using Single-Stranded DNA

Methods in Molecular Biology

Volumn 745, Issue , 2011, Pages 47-63

  Blitzblau, Hannah G ^a   Hochwagen, Andreas ^a  

^a WHITEHEAD INSTITUTE FOR BIOMEDICAL RESEARCH   (United States)

Author keywords

double strand breaks; hotspots; meiosis; microarray; ssDNA

Indexed keywords

SINGLE STRANDED DNA;

ARTICLE; DNA MICROARRAY; DOUBLE STRANDED DNA BREAK; GENETICS; MEIOSIS; SACCHAROMYCES CEREVISIAE;

DNA BREAKS, DOUBLE-STRANDED; DNA, SINGLE-STRANDED; MEIOSIS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; SACCHAROMYCES CEREVISIAE;

EID: 80052408088     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-129-1_4     Document Type: Chapter

References (16)

1. Keeney, S., Giroux, C.N., and Kleckner, N. (1997) Meiosis-specific DNA double-strand breaks are catalyzed by spo11, a member of a widely conserved protein family. Cell 88, 375–384.
2. Bishop, D.K., and Zickler, D. (2004) Early decision; meiotic crossover interference prior to stable strand exchange and synapsis. Cell 117, 9–15.
3. Petes, T.D. (2001) Meiotic recombination hot spots and cold spots. Nat Rev Genet 2, 360–369.
4. Baudat, F., and Nicolas, A. (1997) Clustering of meiotic double-strand breaks on yeast chromosome III. Proc Natl Acad Sci USA 94, 5213–5218.
5. Game, J.C. (1992) Pulsed-field gel analysis of the pattern of DNA double-strand breaks in the Saccharomyces genome during meiosis. Dev Genet 13, 485–497.
6. Zenvirth, D., Arbel, T., Sherman, A., Goldway, M., Klein, S., and Simchen, G. (1992) Multiple sites for double-strand breaks in whole meiotic chromosomes of Saccharomyces cerevisiae. EMBO J 11, 3441–3447.
7. Gerton, J.L., DeRisi, J., Shroff, R., Lichten, M., Brown, P.O., and Petes, T.D. (2000) Inaugural article: global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae. Proc Natl Acad Sci USA 97, 11383–11390.
8. Pan, J., Sasaki, M., Kniewel, R., Murakami, H., Blitzblau, H.G., Tischfield, S.E., Zhu, X., Neale, M.J., Jasin, M., Socci, N.D., Hochwagen, A., and Keeney, S. (2011) A hierarchical combination of factors shapes the genome-wide topography of yeast meiotic recombination initiation. Cell 144, 719–731.
9. Blitzblau, H.G., Bell, G.W., Rodriguez, J., Bell, S.P., and Hochwagen, A. (2007) Mapping of meiotic single-stranded DNA reveals double-strand-break hotspots near centromeres and telomeres. Curr Biol 17, 2003–2012.
10. Buhler, C., Borde, V., and Lichten, M. (2007) Mapping meiotic single-strand DNA reveals a new landscape of DNA double strand breaks in Saccharomyces cerevisiae. PLoS Biol 5, 2797–2808.
11. Huberman, J.A., Spotila, L.D., Nawotka, K.A., el-Assouli, S.M., and Davis, L.R. (1987) The in vivo replication origin of the yeast 2 microns plasmid. Cell 51, 473–481.
12. Feng, W., Collingwood, D., Boeck, M.E., Fox, L.A., Alvino, G.M., Fangman, W.L., Raghuraman, M.K., and Brewer, B.J. (2006) Genomic mapping of single-stranded DNA in hydroxyurea-challenged yeasts identifies origins of replication. Nat Cell Biol 8, 148–155.
13. Smyth, G.K. (2005) Limma: linear models for microarray data. In Bioinformatics and computational biology solutions using R and bioconductor, R.C. Gentleman, V.J. Carey, S. Dudoit, R. Irizarry, W. Huber, eds. (New York, NY: Springer), pp. 397–420.
14. Yang, Y.H., Dudoit, S., Luu, P., and Speed, T.P. (2001) Normalization of cDNA microarray data. In SPIE BiOS 2001. San Jose, CA.
15. Bishop, D.K., Park, D., Xu, L., and Kleckner, N. (1992) DMC1: a meiosis-specific yeast homolog of E. coli recA required for recombination, synaptonemal complex formation, and cell cycle progression. Cell 69, 439–456.
16. Yabuki, N., Terashima, H., and Kitada, K. (2002) Mapping of early firing origins on a replication profile of budding yeast. Genes Cells 7, 781–789.