Prdm9, a major determinant of meiotic recombination hotspots, is not functional in dogs and their wild relatives, wolves and coyotes

PLoS ONE

Volumn 6, Issue 11, 2011, Pages

  Muñoz Fuentes, Violeta ^a,b   Rienzo, Anna ^c   Vilà, Carles ^a  

^a DEPARTMENT OF CONSERVATION BIOLOGY   (Spain)

^b UPPSALA UNIVERSITY   (Sweden)

^c UNIVERSITY OF CHICAGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ZINC FINGER PROTEIN; HISTONE LYSINE METHYLTRANSFERASE; PRDM9 PROTEIN, HUMAN;

ARTICLE; ARTIFICIAL SELECTION; COYOTE; DOG; DOMESTICATION; EXON; GENE DISRUPTION; GENE MUTATION; GENE SEQUENCE; GENETIC RECOMBINATION; GENOME ANALYSIS; MEIOTIC RECOMBINATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRDM9 GENE; PROTEIN DOMAIN; PSEUDOGENE; SEQUENCE ALIGNMENT; WILD ANIMAL; WOLF; AMINO ACID SEQUENCE; ANIMAL; COMPARATIVE STUDY; GENETICS; GENOME; HUMAN; MEIOSIS; MOLECULAR GENETICS; MOUSE; MUTATION; SEQUENCE HOMOLOGY;

AMPHIBIA; ANIMALIA; AVES; CANIDAE; CANIS FAMILIARIS; CANIS LATRANS; DIPTERA; MUS; REPTILIA;

AMINO ACID SEQUENCE; ANIMALS; BASE SEQUENCE; COYOTES; DOGS; GENOME; HISTONE-LYSINE N-METHYLTRANSFERASE; HUMANS; MEIOSIS; MICE; MOLECULAR SEQUENCE DATA; MUTATION; RECOMBINATION, GENETIC; SEQUENCE HOMOLOGY, AMINO ACID; SEQUENCE HOMOLOGY, NUCLEIC ACID; WOLVES;

EID: 84860629947     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0025498     Document Type: Article

References (61)

1. Coop G, Przeworski M, (2007) An evolutionary view of human recombination. Nature Reviews Genetics 8: 23-34.
2. Paigen K, Petkov P, (2010) Mammalian recombination hot spots: properties, control and evolution. Nature Reviews Genetics 11: 221-233.
3. 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.
4. Wall JD, Frisse LA, Hudson RR, Di Rienzo A, (2003) Comparative linkage-disequilibrium analysis of the beta-globin hotspot in primates. American Journal of Human Genetics 73: 1330-1340.
5. Ptak SE, Roeder AD, Stephens M, Gilad Y, Pääbo S, et al. (2004) Absence of the TAP2 human recombination hotspot in chimpanzees. PLoS Biology 2: e155.
6. Winckler W, Myers SR, Richter DJ, Onofrio RC, McDonald GJ, et al. (2005) Comparison of fine-scale recombination rates in humans and chimpanzees. Science 308: 107-111.
7. Hayashi K, Yoshida K, Matsui Y, (2005) A histone H3 methyltransferase controls epigenetic events required for meiotic prophase. Nature 438: 374-378.
8. Oliver PL, Goodstadt L, Bayes JJ, Birtle Z, Roach KC, et al. (2009) Accelerated Evolution of the Prdm9 Speciation Gene across Diverse Metazoan Taxa. PLoS Genetics 5: e1000753.
9. Baudat F, Buard J, Grey C, Fledel-Alon A, Ober C, et al. (2010) PRDM9 is a major determinant of meiotic recombination hostspots in humans and mice. Science 327: 836-840.
10. Cheung VG, Sherman SL, Feingold E, (2010) Genetic control of hotspots. Science 327: 791-792.
11. 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.
12. Parvanov ED, Petkov PM, Paigen K, (2010) Prdm9 controls activation of mammalian recombination hotspots. Science 327: 835.
13. Bellefroid EJ, Poncelet DA, Lecocq PJ, Revelant O, Martial JA, (1991) The evolutionarily conserved Kruppel-associated box domain defines a subfamily of eukaryotic multifingered proteins. Proceeding of the National Academy of Sciences USA 88: 3608-3612.
14. Peng H, Begg GE, Harper SL, Friedman JR, Speicher DW, et al. (2000) Biochemical analysis of the Kruppel-associated Box (KRAB) transcriptional repression domain. Journal of Biological Chemistry 275: 18000-18010.
15. Hayashi K, Matsui Y, (2006) Meisetz, a novel histone tri-methyltransferase, regulates meiosis-specific epigenesis. Cell Cycle 5: 615-620.
16. Birtle Z, Ponting CP, (2006) Meisetz and the birth of the KRAB motif. Bioinformatics 22: 2841-2845.
17. Thomas JH, Emerson RO, Shendure J, (2009) Extraordinary molecular evolution in the PRDM9 fertility gene. Plos One 4: e805.
18. Forejt J, Iványi P, (1974) Genetic studies on male sterility of hybrids between laboratory and wild mice (Mus musculus L.). Genetic Research 24: 189-206.
19. Mihola O, Trachtulec Z, Vlcek C, Schimenti JC, Forejt J, (2009) A mouse speciation gene encodes a meiotic histone H3 methyltransferase. Science 323: 373-375.
20. Berg IL, Neumann R, Lam K-WG, Sarbajna S, Odenthal-Hesse L, et al. (2010) PRDM9 variation strongly influences recombination hot-spot activity and meiotic instability in humans. Nature Genetics 42: 859-863.
21. Kong A, Thorleifsson G, Gudbjartsson DF, Masson G, Sigurdsson A, et al. (2010) Fine-scale recombination rate differences between sexes, populations and individuals. Nature 467: 1099-1103.
22. Vilà C, Savolainen P, Maldonado JE, Amorim IR, Rice JE, et al. (1997) Multiple and ancient origins of the domestic dog. Science 276: 1687-1689.
23. Saetre P, Lindberg J, Leonard JA, Olsson K, Petersson U, et al. (2004) From wild wolf to domestic dog: gene expression changes in the brain. Molecular Brain Research 126: 198-206.
24. Lindblad-Toh K, Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, et al. (2005) Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature 438: 803-819.
25. Germonpré M, Sablin MV, Stevens RE, Hedges REM, Hofreiter M, et al. (2009) Fossil dogs and wolves from Palaeolithic sites in Belgium, the Ukraine and Russia: osteometry, ancient DNA and stable isotopes. Journal of Archaeological Science 36: 473-490.
26. Wayne RK, (1986) Cranial morphology of domestic and wild canids- the influence of development on morphological change. Evolution 40: 243-261.
27. Wayne RK, (1986) Limb morphology of domestic and wild canids- the influence of development on morphological change. Journal of Morphology 187: 301-319.
28. Coppinger R, Coppinger L, (2001) Dogs: The University of Chicago Press. pp. 305-322.
29. Björnerfeldt S, Webster MT, Vilà C, (2006) Relaxation of selective constraint on dog mitochondrial DNA following domestication. Genome Research 16: 990-994.
30. Cruz F, Vilà C, Webster MT, (2008) The legacy of domestication: accumulation of deleterious mutations in the dog genome. Molecular Biology and Evolution 25: 2331-2336.
31. Karlsson EK, Baranowska I, Wade CM, Salmon Hillbertz NH, Zody MC, et al. (2007) Efficient mapping of mendelian traits in dogs through genome-wide association. Nature Genetics 39: 1321-1328.
32. Drögemüller C, Karlsson EK, Hytönen MK, Perloski M, Dolf G, et al. (2008) A mutation in hairless dogs Implicates FOXI3 in ectodermal development. Science 321: 1462.
33. Kerns JA, Cargill EJ, Clark LA, Candille SI, Berryere TG, et al. (2007) Linkage and segregation analysis of black and brindle coat color in domestic dogs. Genetics 176: 1679-1689.
34. Sutter NB, Bustamante CD, Chase K, Gray MM, Zhao K, et al. (2007) A single IGF1 allele is a major determinant of small size in dogs. Science 316: 112-115.
35. Cadieu E, Neff MW, Quignon P, Walsh K, Chase K, et al. (2009) Coat variation in the domestic dog is governed by variants in three genes. Science 326: 150-153.
36. Parker HG, Chase K, Cadieu E, Lark KG, Ostrander EA, (2010) An insertion in the RSPO2 gene correlates with improper coat in the Portuguese water dog. Journal of Heredity 101: 612-617.
37. Fondon JW, Garner HR, (2004) Molecular origins of rapid and continuous morphological evolution. Proceedings of the National Academy of Sciences of the United States of America 101: 18058-18063.
38. Wang W, Kirkness EF, (2005) Short interspersed elements (SINEs) are a major source of canine genomic diversity. Genome Research 15: 1798-1808.
39. Burt A, Bell G, (1987) Mammalian chiasma frequencies as a test of two theories of recombination. Nature 326: 803-805.
40. Farnir F, Coppieters W, Arranz JJ, Berzi P, Cambisano N, et al. (2000) Extensive genome-wide linkage disequilibrium in cattle. Genome Research 10: 220-227.
41. Rambaut A, (1996) Se-Al: Sequence Alignment Editor: Department of Zoology University of Oxford, UK.
42. Munoz-Pomer A, Futami R, Covelli L, Dominguez-Escriba L, Bernet GP, et al. (2011) TIME: a sequence editor for the molecular analysis of large DNA and protein sequence samples. Biotechvana bioinformatics 2011: soft2.
43. Stephens M, Smith NJ, Donnelly P, (2001) A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics 68: 978-989.
44. Stephens M, Donnelly P, (2003) A comparison of bayesian methods for haplotype reconstruction. American Journal of Human Genetics 73: 1162-1169.
45. Murphy WJ, Pringle TH, Crider TA, Springer MS, Miller W, (2007) Using genomic data to unravel the root of the placental mammal phylogeny. Genome Research 17: 413-421.
46. Fumasoni I, Meani N, Rambaldi D, Scafetta G, Alcalay M, et al. (2007) Family expansion and gene rearrangements contributed to the functional specialization of PRDM genes in vertebrates. BMC Evolutionary Biology 7: 187.
47. Ponting CP, (2011) What are the genomic drivers of the rapid evolution of PRDM9? Trends in Genetics 27: 165-171.
48. Gerton JL, Hawley RS, (2005) Homologous chromosome interactions in meiosis: diversity amidst conservation. Nature Reviews Genetics 6: 477-487.
49. Jeffreys AJ, Kauppi L, Neumann R, (2001) Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex. Nature Genetics 29: 217-222.
50. Paigen K, Szatkiewicz JP, Sawyer K, Leahy N, Parvanov ED, et al. (2008) The recombinational anatomy of a mouse chromosome. PLoS Genetics 4: e1000119.
51. Myers S, Freeman C, Auton A, Donnelly P, McVean G, (2008) A common sequence motif associated with recombination hot spots and genome instability in humans. Nature Genetics 40: 1124-1129.
52. Webb AJ, Berg IL, Jeffreys A, (2008) Sperm cross-over activity in regions of the human genome showing extreme breakdown of marker association. Proceedings of the National Academy of Sciences USA 105: 10471-10476.
53. Nishant KT, Rao MR, (2006) Molecular features of meiotic recombination hot spots. Bioessays 28: 45-46.
54. Buard J, Barthès P, Grey C, de Massy B, (2009) Distinct histone modifications define initiation and repair of meiotic recombination in the mouse. EMBO Journal 28: 2616-2624.
55. Baudat F, de Massy B, (2007) Cis- and trans-acting elements regulate the mouse Psmb9 meiotic recombination hotspot. PLoS Genetics 3: e100.
56. Sandovici I, Sapienza C, (2010) PRDM9 sticks its zinc fingers into recombination hotspots and between species. F1000 Biology Reports 2: pii37.
57. Kong A, Thorleifsson G, Stefansson H, Masson G, Helgason A, et al. (2008) Sequence variants in the RNF212 gene associate with genome-wide recombination rate. Science 319: 1398-1401.
58. Chowdhury R, Bois PRJ, Feingold E, Sherman SL, Cheung VG, (2009) Genetic Analysis of Variation in Human Meiotic Recombination. PLoS Genet 5: e1000648.
59. Grey C, Baudat F, de Massy B, (2009) Genome-wide control of the distribution of meiotic recombination. PLoS Biology 7: e35.
60. Parvanov ED, Ng SH, Petkov PM, Paigen K, (2009) Trans-regulation of mouse meiotic recombination hotspots by Rcr1. PLoS Biology 7: e36.
61. McVean G, Myers S, (2010) PRDM9 marks the spot. Nature Genetics 42: 821-822.