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Recombination in the Human Pseudoautosomal Region PAR1


Recombination is a fundamental biological process, which shuffles genes between pairs of chromosomes during the production of eggs and sperm. After shuffling, the chromosomes consist of alternating sequences of genes from each parent, where the switches are the result of ‘crossovers’. Recombination is essential for eggs and sperm to receive the correct number of chromosomes, failure in which is an important cause of miscarriage, birth defects and mental retardation. Males have the particular challenge of recombining between the X and Y chromosomes. Unlike the other 22 chromosome pairs, the X and Y chromosomes do not match up, except for a small special region called PAR1, which must host a crossover. We investigate recombination in PAR1 by building a ‘map’ of where it occurs in African-American families. We use a variety of approaches, both analytical and experimental, to demonstrate the role of a protein called PRDM9 in marking crossovers in this region. PRDM9 has previously been shown to position crossovers on the other chromosomes, but a role in PAR1 was unexpected based on research in mice. We also show that the recombination map has changed in the evolutionary history of PAR1, both among human populations, and between human and chimpanzee.


Vyšlo v časopise: Recombination in the Human Pseudoautosomal Region PAR1. PLoS Genet 10(7): e32767. doi:10.1371/journal.pgen.1004503
Kategorie: Research Article
prolekare.web.journal.doi_sk: https://doi.org/10.1371/journal.pgen.1004503

Souhrn

Recombination is a fundamental biological process, which shuffles genes between pairs of chromosomes during the production of eggs and sperm. After shuffling, the chromosomes consist of alternating sequences of genes from each parent, where the switches are the result of ‘crossovers’. Recombination is essential for eggs and sperm to receive the correct number of chromosomes, failure in which is an important cause of miscarriage, birth defects and mental retardation. Males have the particular challenge of recombining between the X and Y chromosomes. Unlike the other 22 chromosome pairs, the X and Y chromosomes do not match up, except for a small special region called PAR1, which must host a crossover. We investigate recombination in PAR1 by building a ‘map’ of where it occurs in African-American families. We use a variety of approaches, both analytical and experimental, to demonstrate the role of a protein called PRDM9 in marking crossovers in this region. PRDM9 has previously been shown to position crossovers on the other chromosomes, but a role in PAR1 was unexpected based on research in mice. We also show that the recombination map has changed in the evolutionary history of PAR1, both among human populations, and between human and chimpanzee.


Zdroje

1. MosesMJ, CounceSJ, PaulsonDF (1975) Synaptonemal complex complement of man in spreads of spermatocytes, with details of the sex chromosome pair. Science 187: 363–365.

2. RouyerF, SimmlerMC, JohnssonC, VergnaudG, CookeHJ, et al. (1986) A gradient of sex linkage in the pseudoautosomal region of the human sex chromosomes. Nature 319: 291–295.

3. SorianoP, KeitgesEA, SchorderetDF, HarbersK, GartlerSM, et al. (1987) High rate of recombination and double crossovers in the mouse pseudoautosomal region during male meiosis. Proc Natl Acad Sci U S A 84: 7218–7220.

4. BurgoynePS, MahadevaiahSK, SutcliffeMJ, PalmerSJ (1992) Fertility in mice requires X-Y pairing and a Y-chromosomal “spermiogenesis” gene mapping to the long arm. Cell 71: 391–398.

5. MohandasTK, SpeedRM, PassageMB, YenPH, ChandleyAC, et al. (1992) Role of the pseudoautosomal region in sex-chromosome pairing during male meiosis: meiotic studies in a man with a deletion of distal Xp. Am J Hum Genet 51: 526–533.

6. GravesJ (1998) The origin and evolution of the pseudoautosomal regions of human sex chromosomes. Hum Mol Genet 7: 1991–1996.

7. ShiQ, SpriggsE, FieldLL, KoE, BarclayL, et al. (2001) Single sperm typing demonstrates that reduced recombination is associated with the production of aneuploid 24,XY human sperm. Am J Med Genet 99: 34–38.

8. YuQ, TongE, SkeltonRL, BowersJE, JonesMR, et al. (2009) A physical map of the papaya genome with integrated genetic map and genome sequence. BMC Genomics 10: 371.

9. CriscioneCD, ValentimCLL, HiraiH, LoVerdePT, AndersonTJC (2009) Genomic linkage map of the human blood fluke Schistosoma mansoni. Genome Biol 10: R71.

10. SciuranoRB, RahnMI, RossiL, LuacesJP, MeraniMS, et al. (2012) Synapsis, recombination, and chromatin remodeling in the XY body of armadillos. Chromosome Res 20: 293–302.

11. MurphyWJ, DavisB, DavidVA, AgarwalaR, SchäfferAA, et al. (2007) A 1.5-Mb-resolution radiation hybrid map of the cat genome and comparative analysis with the canine and human genomes. Genomics 89: 189–196.

12. RaudseppT, ChowdharyBP (2008) The horse pseudoautosomal region (PAR): characterization and comparison with the human, chimp and mouse PARs. Cytogenet Genome Res 121: 102–109.

13. Van LaereAS, CoppietersW, GeorgesM (2008) Characterization of the bovine pseudoautosomal boundary: Documenting the evolutionary history of mammalian sex chromosomes. Genome Res 18: 1884–1895.

14. DasPJ, MishraDK, GhoshS, AvilaF, JohnsonGA, et al. (2013) Comparative Organization and Gene Expression Profiles of the Porcine Pseudoautosomal Region. Cytogenet Genome Res 141: 26–36.

15. Gabriel-RobezO, RumplerY, RatomponirinaC, PetitC, LevilliersJ, et al. (1990) Deletion of the pseudoautosomal region and lack of sex-chromosome pairing at pachytene in two infertile men carrying an X;Y translocation. Cytogenet Genome Res 54: 38–42.

16. HassoldTJ, ShermanSL, PettayD, PageDC, JacobsPA (1991) XY chromosome nondisjunction in man is associated with diminished recombination in the pseudoautosomal region. Am J Hum Genet 49: 253–260.

17. RossMT, GrafhamDV, CoffeyAJ, SchererS, McLayK, et al. (2005) The DNA sequence of the human X chromosome. Nature 434: 325–337.

18. BlaschkeRJ, RappoldG (2006) The pseudoautosomal regions, SHOX and disease. Curr Opin Genet Dev 16: 233–239.

19. LenczT, MorganTV, AthanasiouM, DainB, ReedCR, et al. (2007) Converging evidence for a pseudoautosomal cytokine receptor gene locus in schizophrenia. Mol Psychiatry 12: 572–580.

20. FlaquerA, JamraRA, EttererK, DíazGO, RivasF, et al. (2010) A new susceptibility locus for bipolar affective disorder in PAR1 on Xp22.3/Yp11.3. Am J Med Genet 153B: 1110–4.

21. SchmittK, LazzeroniLC, FooteS, VollrathD, FisherEM, et al. (1994) Multipoint linkage map of the human pseudoautosomal region, based on single-sperm typing: do double crossovers occur during male meiosis? Am J Hum Genet 55: 423–430.

22. PageDC, BiekerK, BrownLG, HintonS, LeppertM, et al. (1987) Linkage, physical mapping, and DNA sequence analysis of pseudoautosomal loci on the human X and Y chromosomes. Genomics 1: 243–256.

23. HenkeA, FischerC, RappoldGA (1993) Genetic map of the human pseudoautosomal region reveals a high rate of recombination in female meiosis at the Xp telomere. Genomics 18: 478–485.

24. FlaquerA, FischerC, WienkerTF (2009) A new sex-specific genetic map of the human pseudoautosomal regions (PAR1 and PAR2). Hum Hered 68: 192–200.

25. RaudseppT, DasPJ, AvilaF, ChowdharyBP (2012) The Pseudoautosomal Region and Sex Chromosome Aneuploidies in Domestic Species. Sex Dev 6: 72–83.

26. GianfrancescoF (2001) Differential Divergence of Three Human Pseudoautosomal Genes and Their Mouse Homologs: Implications for Sex Chromosome Evolution. Genome Res 11: 2095–2100.

27. EllisonJW, LiX, FranckeU, ShapiroLJ (1996) Rapid evolution of human pseudoautosomal genes and their mouse homologs. Mamm Genome 7: 25–30.

28. KvaløyK, GalvagniF, BrownWR (1994) The sequence organization of the long arm pseudoautosomal region of the human sex chromosomes. Hum Mol Genet 3: 771–778.

29. International HapMapConsortium (2007) A second generation human haplotype map of over 3.1 million SNPs. Nature 449: 851–861.

30. DasPJ, ChowdharyBP, RaudseppT (2009) Characterization of the Bovine Pseudoautosomal Region and Comparison with Sheep, Goat, and Other Mammalian Pseudoautosomal Regions. Cytogenet Genome Res 126: 139–147.

31. JeffreysA, KauppiL, NeumannR (2001) Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex. Nat Genet 29: 217–222.

32. MyersS, BottoloL, FreemanC, McVeanG, DonnellyP (2005) A fine-scale map of recombination rates and hotspots across the human genome. Science 310: 321–324.

33. SteinerWW, SmithGR (2005) Natural meiotic recombination hot spots in the Schizosaccharomyces pombe genome successfully predicted from the simple sequence motif M26. Mol Cell Biol 25: 9054–9062.

34. PaigenK, PetkovP (2010) Mammalian recombination hot spots: properties, control and evolution. Nat Rev Genet 11: 221–233.

35. PanJ, SasakiM, KniewelR, MurakamiH, BlitzblauHG, et al. (2011) A hierarchical combination of factors shapes the genome-wide topography of yeast meiotic recombination initiation. Cell 144: 719–731.

36. MayCA, ShoneAC, KalaydjievaL, SajantilaA, JeffreysAJ (2002) Crossover clustering and rapid decay of linkage disequilibrium in the Xp/Yp pseudoautosomal gene SHOX. Nat Genet 31: 272–275.

37. FlaquerA, RappoldGA, WienkerTF, FischerC (2008) The human pseudoautosomal regions: a review for genetic epidemiologists. Eur J Hum Genet 16: 771–779.

38. LienS, SzydaJ, SchechingerB, RappoldG, ArnheimN (2000) Evidence for heterogeneity in recombination in the human pseudoautosomal region: high resolution analysis by sperm typing and radiation-hybrid mapping. Am J Hum Genet 66: 557–566.

39. MatiseTC, ChenF, ChenW, De La VegaFM, HansenM, et al. (2007) A second-generation combined linkage physical map of the human genome. Genome Res 17: 1783–1786.

40. KongA, ThorleifssonG, GudbjartssonDF, MassonG, SigurdssonA, et al. (2010) Fine-scale recombination rate differences between sexes, populations and individuals. Nature 467: 1099–1103.

41. AutonA, Fledel-AlonA, PfeiferS, VennO, SégurelL, et al. (2012) A fine-scale chimpanzee genetic map from population sequencing. Science 336: 193–198.

42. KauppiL, BarchiM, BaudatF, RomanienkoPJ, KeeneyS, et al. (2011) Distinct properties of the XY pseudoautosomal region crucial for male meiosis. Science 331: 916–920.

43. BaudatF, BuardJ, GreyC, Fledel-AlonA, OberC, et al. (2010) PRDM9 is a major determinant of meiotic recombination hotspots in humans and mice. Science 327: 836–840.

44. MyersS, BowdenR, TumianA, BontropRE, FreemanC, et al. (2010) Drive against hotspot motifs in primates implicates the PRDM9 gene in meiotic recombination. Science 327: 876–879.

45. ParvanovED, PetkovPM, PaigenK (2010) Prdm9 controls activation of mammalian recombination hotspots. Science 327: 835.

46. BrickK, SmagulovaF, KhilP, Camerini-OteroRD, PetukhovaGV (2012) Genetic recombination is directed away from functional genomic elements in mice. Nature 485: 642–645.

47. HinchAG, TandonA, PattersonN, SongY, RohlandN, et al. (2011) The landscape of recombination in African Americans. Nature 476: 170–175.

48. BromanKW, RoweLB, ChurchillGA, PaigenK (2002) Crossover interference in the mouse. Genetics 160: 1123–1131.

49. KongA, GudbjartssonDF, SainzJ, JonsdottirGM, GudjonssonSA, et al. (2002) A high-resolution recombination map of the human genome. Nat Genet 31: 241–247.

50. MayC, SlingsbyM, JeffreysA (2007) Human Recombination Hotspots: Before and After the HapMap Project. Genome Dyn Stab: Recombination and Meiosis 2: 195–244.

51. WegmannD, KessnerDE, VeeramahKR, MathiasRA, NicolaeDL, et al. (2011) Recombination rates in admixed individuals identified by ancestry-based inference. Nat Genet 43: 847–853.

52. OliverPL, GoodstadtL, BayesJJ, BirtleZ, RoachKC, et al. (2009) Accelerated evolution of the Prdm9 speciation gene across diverse metazoan taxa. PLoS Genet 5: e1000753.

53. BergIL, NeumannR, SarbajnaS, Odenthal-HesseL, ButlerNJ, et al. (2011) Variants of the protein PRDM9 differentially regulate a set of human meiotic recombination hotspots highly active in African populations. Proc Natl Acad Sci U S A 108: 12378–12383.

54. MyersS, FreemanC, AutonA, DonnellyP, McVeanG (2008) A common sequence motif associated with recombination hot spots and genome instability in humans. Nat Genet 40: 1124–1129.

55. BergIL, NeumannR, LamKWG, SarbajnaS, Odenthal-HesseL, et al. (2010) PRDM9 variation strongly influences recombination hot-spot activity and meiotic instability in humans. Nat Genet 42: 859–863.

56. RamirezCL, FoleyJE, WrightDA, Müller-LerchF, RahmanSH, et al. (2008) Unexpected failure rates for modular assembly of engineered zinc fingers. Nat Methods 5: 374–375.

57. Noor N (2013) Molecular mechanisms of recombination hotspots in humans. Ph.D. thesis, Oxford University Research Archive.

58. BuardJ, BourdetA, YardleyJ, DubrovaY, JeffreysAJ (1998) Influences of array size and homogeneity on minisatellite mutation. EMBO J 17: 3495–3502.

59. TamakiK, MayCA, DubrovaYE, JeffreysAJ (1999) Extremely complex repeat shuffling during germline mutation at human minisatellite B6.7. Hum Mol Genet 8: 879–888.

60. BergI, NeumannR, CederbergH, RannugU, JeffreysAJ (2003) Two modes of germline instability at human minisatellite MS1 (locus D1S7): complex rearrangements and paradoxical hyperdeletion. Am J Hum Genet 72: 1436–1447.

61. HussinJ, SinnettD, CasalsF, IdaghdourY, BruatV, et al. (2013) Rare allelic forms of PRDM9 associated with childhood leukemogenesis. Genome Res 23: 419–430.

62. Petes TD, Malone R, Symington LS (1991) Recombination in Yeast. The Molecular and Cellular Biology of the Yeast Saccharomyces: Genome Dynamics, Protein Synthesis, and Energetics: 407–521.

63. ChenJM, CooperDN, ChuzhanovaN, FérecC, PatrinosGP (2007) Gene conversion: mechanisms, evolution and human disease. Nat Rev Genet 8: 762–775.

64. LambBC (1984) The properties of meiotic gene conversion important in its effects on evolution. Heredity 53 (Pt 1): 113–138.

65. JeffreysAJ, NeumannR (2002) Reciprocal crossover asymmetry and meiotic drive in a human recombination hot spot. Nat Genet 31: 267–271.

66. ManceraE, BourgonR, BrozziA, HuberW, SteinmetzLM (2008) High-resolution mapping of meiotic crossovers and non-crossovers in yeast. Nature 454: 479–485.

67. DuretL, GaltierN (2009) Biased Gene Conversion and the Evolution of Mammalian Genomic Landscapes. Annu Rev Genomics Hum Genet 10: 285–311.

68. WebsterMT, HurstLD (2012) Direct and indirect consequences of meiotic recombination: implications for genome evolution. Trends Genet 28: 101–109.

69. BirdsellJA (2002) Integrating genomics, bioinformatics, and classical genetics to study the effects of recombination on genome evolution. Mol Biol Evol 19: 1181–1197.

70. LesecqueY, MouchiroudD, DuretL (2013) GC-biased gene conversion in yeast is specifically associated with crossovers: molecular mechanisms and evolutionary significance. Mol Biol Evol 30: 1409–1419.

71. Eyre-WalkerA (1993) Recombination and mammalian genome evolution. Proc R Soc B 252: 237–243.

72. MaraisG (2003) Biased gene conversion: implications for genome and sex evolution. Trends Genet 19: 330–338.

73. MeunierJ, DuretL (2004) Recombination drives the evolution of GC-content in the human genome. Mol Biol Evol 21: 984–990.

74. SpencerCCA, DeloukasP, HuntS, MullikinJ, MyersS, et al. (2006) The Influence of Recombination on Human Genetic Diversity. PLoS Genet 2: e148.

75. DuretL, ArndtPF (2008) The Impact of Recombination on Nucleotide Substitutions in the Human Genome. PLoS Genet 4: e1000071.

76. KatzmanS, CapraJA, HausslerD, PollardKS (2011) Ongoing GC-biased evolution is widespread in the human genome and enriched near recombination hot spots. Genome Biol Evol 3: 614–626.

77. PerryJ, AshworthA (1999) Evolutionary rate of a gene affected by chromosomal position. Curr Biol 9: 987–S3.

78. ConsortiumTGP (2012) An integrated map of genetic variation from 1,092 human genomes. Nature 491: 56–65.

79. KongA, FriggeML, MassonG, BesenbacherS, SulemP, et al. (2012) Rate of de novo mutations and the importance of father's age to disease risk. Nature 488: 471–475.

80. JeffreysAJ, HollowayJK, KauppiL, MayCA, NeumannR, et al. (2004) Meiotic recombination hot spots and human DNA diversity. Phil Trans R Soc B 359: 141–152.

81. Lichten M (2008) Meiotic Chromatin: The Substrate for Recombination Initiation. In: Genome Dynamics and Stability (3). Springer Berlin Heidelberg.

82. ThurmanRE, RynesE, HumbertR, VierstraJ, MauranoM, et al. (2012) The accessible chromatin landscape of the human genome. Nature 489: 75–82.

83. McVickerG, GordonD, DavisC, GreenP (2009) Widespread genomic signatures of natural selection in hominid evolution. PLoS Genet 5: e1000471.

84. AutonA, McVeanG (2012) Estimating recombination rates from genetic variation in humans. Methods Mol Biol 856: 217–237.

85. ScallyA, DurbinR (2012) Revising the human mutation rate: implications for understanding human evolution. Nat Rev Genet 13: 745–753.

86. SmagulovaF, GregorettiIV, BrickK, KhilP, Camerini-OteroRD, et al. (2011) Genome-wide analysis reveals novel molecular features of mouse recombination hotspots. Nature 472: 375–378.

87. LanderES, GreenP (1987) Construction of multilocus genetic linkage maps in humans. Proc Natl Acad Sci U S A 84: 2363–2367.

88. HinrichsAS, KarolchikD, BaertschR, BarberGP, BejeranoG, et al. (2006) The UCSC Genome Browser Database: update 2006. Nucleic Acids Res 34: D590–8.

89. AricescuAR, LuW, JonesEY (2006) A time- and cost-efficient system for high-level protein production in mammalian cells. Acta Crystallogr D Biol Crystallogr 62: 1243–1250.

90. JohnsonDS, MortazaviA, MyersRM, WoldB (2007) Genome-wide mapping of in vivo protein-DNA interactions. Science 316: 1497–1502.

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