A simple model for the influence of meiotic conversion tracts on GC content

PLoS ONE

Volumn 6, Issue 1, 2011, Pages

  Marsolier Kergoat, Marie Claude ^a  

^a SERVICE DE CHIMIE BIOORGANIQUE ET DE MARQUAGE   (France)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CODON; DNA BASE COMPOSITION; DNA RECOMBINATION; DNA SEQUENCE; DOUBLE STRANDED DNA BREAK; GENE CONVERSION; GENETIC VARIABILITY; MEIOSIS; MOLECULAR EVOLUTION; SACCHAROMYCES CEREVISIAE; SEXUAL BEHAVIOR; STATISTICAL ANALYSIS; STATISTICAL MODEL; ANIMAL; BIOLOGICAL MODEL; CANDIDA; CHICKEN; GENETIC RECOMBINATION; GENETICS; HUMAN; NUCLEOTIDE SEQUENCE;

CANDIDA; EUKARYOTA; SACCHAROMYCES CEREVISIAE;

FUNGAL DNA;

ANIMALS; BASE COMPOSITION; BASE SEQUENCE; CANDIDA; CHICKENS; DNA BREAKS, DOUBLE-STRANDED; DNA, FUNGAL; GENE CONVERSION; HUMANS; MEIOSIS; MODELS, GENETIC; RECOMBINATION, GENETIC; SACCHAROMYCES CEREVISIAE;

EID: 79251577732     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0016109     Document Type: Article

References (34)

1. Gerton JL, DeRisi J, Shroff R, Lichten M, Brown PO, et al. (2000) Global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae. Proc Natl Acad Sci U S A 97: 11383-11390.
2. Marais G, Mouchiroud D, Duret L (2001) Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes. Proc Natl Acad Sci U S A 98: 5688-5692.
3. Birdsell JA (2002) Integrating genomics, bioinformatics, and classical genetics to study the effects of recombination on genome evolution. Mol Biol Evol 19: 1181-1197.
4. Kong A, Gudbjartsson DF, Sainz J, Jonsdottir GM, Gudjonsson SA, et al. (2002) A high-resolution recombination map of the human genome. Nat Genet 31: 241-247.
5. Meunier J, Duret L (2004) Recombination drives the evolution of GC-content in the human genome. Mol Biol Evol 21: 984-990.
6. Duret L, Galtier N (2009) Biased gene conversion and the evolution of mammalian genomic landscapes. Annu Rev Genomics Hum Genet 10: 285-311.
7. Paques F, Haber JE (1999) Multiple pathways of recombination induced by doublestrand breaks in Saccharomyces cerevisiae. Microbiol Mol Biol Rev 63: 349-404.
8. Mazon G, Mimitou EP, Symington LS (2010) Snapshot: Homologous recombination in DNA double-strand break repair. Cell 142: 646-646.e1.
9. Mancera E, Bourgon R, Brozzi A, Huber W, Steinmetz LM (2008) Highresolution mapping of meiotic crossovers and non-crossovers in yeast. Nature 454: 479-485.
10. Hilliker AJ, Harauz G, Reaume AG, Gray M, Clark SH, et al. (1994) Meiotic gene conversion tract length distribution within the rosy locus of Drosophila melanogaster. Genetics 137: 1019-1026.
11. de Massy B (2003) Distribution of meiotic recombination sites. Trends in Genetics 19: 514-522.
12. Baudat F, Nicolas A (1997) Clustering of meiotic double-strand breaks on yeast chromosome III. Proc Natl Acad Sci U S A 94: 5213-5218.
13. Petes TD (2001) Meiotic recombination hot spots and cold spots. Nat Rev Genet 2: 360-369.
14. Blitzblau HG, Bell GW, Rodriguez J, Bell SP, Hochwagen A (2007) Mapping of meiotic single-stranded DNA reveals double-stranded-break hotspots near centromeres and telomeres. Curr Biol 17: 2003-2012.
15. Buhler C, Borde V, Lichten M (2007) Mapping meiotic single-strand DNA reveals a new landscape of DNA double-strand breaks in Saccharomyces cerevisiae. PLoS Biol 5: e324.
16. Butler G, Rasmussen MD, Lin MF, Santos MA, Sakthikumar S, et al. (2009) Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Nature 459: 657-662.
17. Reedy JL, Floyd AM, Heitman J (2009) Mechanistic plasticity of sexual reproduction and meiosis in the Candida pathogenic species complex. Curr Biol 19: 891-899.
18. Forche A, Alby K, Schaefer D, Johnson AD, Berman J, et al. (2008) The parasexual cycle in Candida albicans provides an alternative pathway to meiosis for the formation of recombinant strains. PLoS Biol 6: e110.
19. Odds FC, Bougnoux ME, Shaw DJ, Bain JM, Davidson AD, et al. (2007) Molecular phylogenetics of Candida albicans. Eukaryot Cell 6: 1041-1052.
20. Duret L, Arndt PF (2008) The impact of recombination on nucleotide substitutions in the human genome. PLoS Genet 4: e1000071.
21. Webster MT, Axelsson E, Ellegren H (2006) Strong regional biases in nucleotide substitution in the chicken genome. Mol Biol Evol 23: 1203-1216.
22. Groenen MA, Wahlberg P, Foglio M, Cheng HH, Megens HJ, et al. (2009) A high-density SNP-based linkage map of the chicken genome reveals sequence features correlated with recombination rate. Genome Res 19: 510-519.
23. Myers S, Bottolo L, Freeman C, McVean G, Donnelly P (2005) A fine-scale map of recombination rates and hotspots across the human genome. Science 310: 321-324.
24. Wu ZK, Getun IV, Bois PR (2010) Anatomy of mouse recombination hot spots. Nucleic Acids Res 38: 2346-2354.
25. Gardiner-Garden M, Frommer M (1987) CpG islands in vertebrate genomes. J Mol Biol 196: 261-282.
26. Marsolier-Kergoat M, Yeramian E (2009) GC content and recombination: reassessing the causal effects for the Saccharomyces cerevisiae genome. Genetics 183: 31-38.
27. Noor MA (2008) Mutagenesis from meiotic recombination is not a primary driver of sequence divergence between Saccharomyces species. Mol Biol Evol 25: 2439-2444.
28. Tsai IJ, Burt A, Koufopanou V (2010) Conservation of recombination hotspots in yeast. Proc Natl Acad Sci U S A 107: 7847-7852.
29. Baudat F, Buard J, Grey C, Fledel-Alon A, Ober C, et al. (2010) PRDM9 is a major determinant of meiotic recombination hotspots in humans and mice. Science 327: 836-840.
30. Myers S, Bowden R, Tumian A, Bontrop RE, Freeman C, et al. (2010) Drive against hotspot motifs in primates implicates the PRDM9 gene in meiotic recombination. Science 327: 876-879.
31. Borde V, Robine N, Lin W, Bonfils S, Geli V, et al. (2009) Histone H3 lysine 4 trimethylation marks meiotic recombination initiation sites. EMBO J 28: 99-111.
32. Kellis M, Patterson N, Endrizzi M, Birren B, Lander ES (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423: 241-254.
33. Sueoka N (1962) On the genetic basis of variation and heterogeneity of DNA base composition. Proc Natl Acad Sci U S A 48: 582-592.
34. R Development Core Team (2009) R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org. ISBN 3-900051-07-0.