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Vol. 114, No. 2, 2006
Issue release date: July 2006
Cytogenet Genome Res 114:96–125 (2006)

Chromosome organization and chromatin modification: influence on genome function and evolution

Holmquist G.P. · Ashley T.
aBiology Department, City of Hope Medical Center, Duarte, CA (USA) bDepartment of Radiobiology, Hospital Fleurimont, Sherbrooke, Quebec (Canada) cDepartment of Genetics, Yale University School of Medicine, New Haven, CT (USA)

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Histone modifications of nucleosomes distinguish euchromatic from heterochromatic chromatin states, distinguish gene regulation in eukaryotes from that of prokaryotes, and appear to allow eukaryotes to focus recombination events on regions of highest gene concentrations. Four additional epigenetic mechanisms that regulate commitment of cell lineages to their differentiated states are involved in the inheritance of differentiated states, e.g., DNA methylation, RNA interference, gene repositioning between interphase compartments, and gene replication time. The number of additional mechanisms used increases with the taxon’s somatic complexity. The ability of siRNA transcribed from one locus to target, in trans, RNAi-associated nucleation of heterochromatin in distal, but complementary, loci seems central to orchestration of chromatin states along chromosomes. Most genes are inactive when heterochromatic. However, genes within β-heterochromatin actually require the heterochromatic state for their activity, a property that uniquely positions such genes as sources of siRNA to target heterochromatinization of both the source locus and distal loci. Vertebrate chromosomes are organized into permanent structures that, during S-phase, regulate simultaneous firing of replicon clusters. The late replicating clusters, seen as G-bands during metaphase and as meiotic chromomeres during meiosis, epitomize an ontological utilization of all five self-reinforcing epigenetic mechanisms to regulate the reversible chromatin state called facultative (conditional) heterochromatin. Alternating euchromatin/heterochromatin domains separated by band boundaries, and interphase repositioning of G-band genes during ontological commitment can impose constraints on both meiotic interactions and mammalian karyotype evolution.

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  1. Aapola U, Kawasaki K, Scott HS, Ollila J, Vihinen M, Heoino M, Shintani A, Kawasaki K, Minoshima S, Krohn K, Antonarakis SE, Shimizu N, Kudoh J, Peterson P: Isolation and characterization of a novel zinc finger gene, DNMT3L, on 21q22.3 related to the cytosine-5-methyltransferase 3 gene family. Genomics 65:293–298 (2000).
  2. Abdurashidova G, Deganuto M, Klima R, Riva S, Biamonti G, Giacca M, Falaschi A: Start sites of bidirectional DNA synthesis at the human lamin B2 origin. Science 287:2023–2026 (2000).
  3. Aguilera A: Double-strand break repair: are Rad51/RecA–DNA joints barriers to DNA replication? Trends Genet 17:318–321 (2001).
  4. Aladjem MI, Groudine M, Brody LL, Dieken ES, Fournier RE, Wahl GM, Epner EM: Participation of the human beta-globin locus control region in initiation of DNA replication. Science 270:815–819 (1995).
  5. Aladjem MI, Rodewald LW, Kolman JL, Wahl GM: Genetic dissection of a mammalian replicator in the human beta-globin locus. Science 281:1005–1009 (1998).
  6. Alami R, Greally JM, Tanimoto K, Hwang S, Feng YQ, Engel JD, Fiering S, Bouhassira EE: Beta-globin YAC transgenes exhibit uniform expression levels but position effect variegation in mice. Hum Mol Genet 9:631–636 (2000).
  7. Altman AL, Fanning E: The Chinese hamster dihydrofolate reductase replication origin beta is active at multiple ectopic chromosomal locations and requires specific DNA sequence elements for activity. Mol Cell Biol 21:1098–1110 (2001).
  8. Ananiev Ev, Gvozdev VA: Changed pattern of transcription and replication in polytene chromosomes of Drosophila melanogaster resulting from eu-heterochromatin rearrangement. Chromosoma 45:173–191 (2003).

    External Resources

  9. Aramayo R, Metzenberg RL: Meiotic inactivation in fungi. Cell 86:103–113 (2001).
  10. Aravin AA, Lagos-Quintana M, Yalcin A, Zavolan M, Marks D, Snyder B, Gaasterland T, Meyer J, Tuschl T: The small RNA profile during Drosophila melanogaster development. Dev Cell 5:337–350 (2003).
  11. Arcos-Teran L: DNA-Replikation und die Natur der spät replizierenden Orte im X-Chromosom von Drosophila melanogaster. Chromosoma 33:233–296 (1972).

    External Resources

  12. Ashburner M: Gene activity dependent on chromosome synapsis in the polytene chromosomes of Drosophila melanogaster. Nature 214:1159–1160 (1967).
  13. Ashley T: G-band position effects on meiotic synapsis and crossing over. Genetics 118:307–317 (1988).
  14. Ashley T: G-bands and chromosomal meiotic behaviour, in Bennett MD (ed): Chromosomes Today, pp 311–320 (Unwin Hyman, London 1990a).
  15. Ashley T: Prediction of mammalian meiotic synaptic and recombination behavior of inversion heterozygotes based on mitotic breakpoint data and the possible evolutionary consequences. Genetics 83:1–7 (1990b).
  16. Ashley T, Walpita D, de Rooij DG: Localization of two mammalian cyclin dependent kinases during mammalian meiosis. J Cell Sci 114:685–693 (2001).
  17. Ashley T, Gaeth AP, Creemers LB, Hack A, de Rooij DG: Correlation of meiotic events in testis sections and microspreads of mouse spermatocytes relative to the mid-pachytene checkpoint. Chromosoma 113:126–136 (2004).
  18. Azuara V, Brown KE, Williams RR, Webb N, Dillon N, Festenstein R, Buckle V, Merkenschlager M, Fisher AG: Heritable gene silencing in lymphocytes delays chromatid resolution without affecting the timing of DNA replication. Nat Cell Biol 5:668–674 (2003).
  19. Baarends WM, Wassenaar E, van der Laan R, Hoogerbrugge J, Sleddens-Linkels E, Hoeijmaker JHJ, de Boer P, Grootegoed JA: Silencing of unpaired chromatin and histone H2A ubiquitination in mammalian meiosis. Mol Cell Biol 25:1041–1053 (2005).
  20. Baker WK: V-type position effects of a gene in Drosophila virilis normally located in heterochromatin. Genetics 38:328–344 (1953).

    External Resources

  21. Bantignies F, Grimaud C, Lavrov S, Gabut M, Cavalli G: Inheritance of Polycomb-dependent chromosomal interactions in Drosophila. Genes Dev 17:2406–2420 (2003).
  22. Barr ML, Bertram EG: A morphological distinction between neurons of the male and female, and the behavior of the nucleolar satellite during accelerated nucleoprotein synthesis. Nature 163:676–677 (1949).

    External Resources

  23. Bartel DP: MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116:281–297 (2004).
  24. Bartolomei MS, Tilghman SM: Genomic imprinting in mammals. Annu Rev Genet 31:493–525 (1997).
  25. Bell AC, Felsenfeld G: Methylation of a CTCF-dependent boundary controls imprinted expression of the Igf2 gene. Nature 405:482–485 (2000).
  26. Bell AC, West AG, Felsenfeld G: Insulators and boundaries: versatile regulatory elements in the eukaryotic genome. Science 291:447–450 (2001).
  27. Bell SP, Stillman B: ATP-dependent recognition of eukaryotic origins of DNA replication by a multiprotein complex. Nature 357:128–134 (1992).
  28. Berezney R, Dubey DD, Huberman JA: Heterogeneity of eukaryotic replicons, replicon clusters, and replication foci. Chromosoma 108:471–484 (2000).
  29. Bergoglio V, Bavoux C, Verbiest V, Hoffmann JS, Cazaux C: Localisation of human DNA polymerase kappa to replication foci. J Cell Sci 115:4413–4418 (2002).
  30. Bernardi G: Misunderstandings about isochores. Part 1. Gene 276:3–13 (2001).
  31. Bernstein E, Caudy AA, Hammond SM, Hannon GJ: Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature 409:363–366 (2001).
  32. Bi X, Broach JR: Chromosomal boundaries in S. cerevisiae. Curr Opin Genet Dev 11:199–204 (2001).
  33. Bilyeu K, Chinault AC: Replication timing properties across the pseudoautosomal region boundary and cytogenetic band boundaries on human distal Xp. Chromosoma 107:105–112 (1998).
  34. Bishop DK, Park D, Xu L, Kleckner N: DMC1: a meiotic specific yeast homolog of E. coli recA required for recombination, synaptonemal complex formation and cell cycle progression. Cell 69:439–456 (1992).
  35. Blasquez VC, Sperry AO, Cockerill PN, Garrard WT: Protein:DNA interactions at chromosomal loop attachment sites. Genome 31:503–509 (1989).
  36. Bode J, Goetze S, Heng HH, Krawetz SA, Benham C: From DNA structure to gene expression: mediators of nuclear compartmentalization and dynamics. Chromosome Res 11:435–445 (2003).
  37. Borde V, Duguet M: The mapping of DNA topoisomerase sites in vivo: a toll to enlight the functions of topoisomerases. Biochimie 80:223–233 (1998).
  38. Boudreau N, Myers C, Bissell MJ: From laminin to lamin: regulation of tissue-specific gene expression by the ECM. Trends Cell Biol 5:1–4 (1995).
  39. Boulikas T: Chromatin domains and prediced MAR sequences. Int Rev Cytol 162A:279–388 (1995).
  40. Bourc’his D, Bestor TH: Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3L. Nature 431:96–99 (2004).
  41. Bourc’his D, Xu GL, Lin CS, Bollman B, Bestor TH: Dnmt3L and the establishment of maternal genomic imprints. Science 294:2536–2539 (2001).
  42. Brylawski BP, Cohen SM, Horne H, Irani N, Cordeiro-Stone M, Kaufman DG: Transitions in replication timing in a 340 kb region of human chromosomal R-Band 1p36.1. J Cell Biochem 92:755–769 (2004).
  43. Bulger M, Groudine M: Looping versus linking: toward a model for long-distance gene activation. Genes Dev 13:2465–2477 (1999).
  44. Bulger M, Sawado T, Schubeler D, Groudine M: ChIPs of the beta-globin locus: unraveling gene regulation within an active domain. Curr Opin Genet Dev 12:170–7 (2002).
  45. Camacho JPM (ed): B Chromosomes in the Eukaryote Genome. Cytogenet Genome Res vol 106 no. 2–4 (2004).
  46. Carlson WR: Crossover effects of B chromosomes may be selfish. Heredity 72:636–638 (1994).

    External Resources

  47. Carr AM: Control of cell cycle arrest by the Mec1sc/Rad3sp DNA structure checkpoint pathway. Curr Opin Genet Dev 7:93–98 (1997).
  48. Case RB, Chang YP, Smith SB, Gore J, Cozzarelli NR, Bustamante C: The bacterial condensin MukBEF compacts DNA into a repetitive, stable structure. Science 305:222–227 (2004).
  49. Cha RS, Kleckner N: ATR homolog Mec1 promotes fork progression, thus averting breaks in replication slow zones. Science 297:602–606 (2002).
  50. Chadwick BP, Willard HF: Multiple spatially distinct types of facultative heterochromatin on the human inactive X chromosome. Proc Natl Acad Sci USA 101:17450–17455 (2004).
  51. Chandley AC, McBeath S: DNase I hypersensitive sites along the XY bivalent at meiosis in man include the XpYp pairing region. Cytogenet Cell Genet 44:22–31 (1987).
  52. Chandra HS, Brown SW: Chromosome imprinting and the mammalian X chromosome. Nature 253:165–168 (1975).
  53. Chatterjee TK, Fisher RA: RGS12TS-S localizes at nuclear matrix-associated subnuclear structures and represses transcription: structural requirements for subnuclear targeting and transcriptional repression. Mol Cell Biol 22:4334–4345 (2002).
  54. Cimbora DM, Schubeler D, Reik A, Hamilton J, Francastel C, Epner EM, Groudine M: Long-distance control of origin choice and replication timing in the human beta-globin locus are independent of the locus control region. Mol Cell Biol 20:5581–5591 (2000).
  55. Cobb JA, Bjergbaek L, Shimada K, Frei C, Gasser SM: DNA polymerase stabilization at stalled replication forks requires Mec1 and the RecQ helicase Sgs1. EMBO J 22:4325–4336 (2003).
  56. Cockell M, Gasser SM: Nuclear compartments and gene regulation. Curr Opin Genet Dev 9:199–205 (1999).
  57. Coghlan A, Wolfe KH: Fourfold faster rate of genome rearrangement in nematodes than in Drosophila. Genome Res 12:857–867 (2002).
  58. Comings DE: Mechanisms of chromosome banding and implications for chromosome structure. Annu Rev Genet 12:25–46 (1978).
  59. Comings DE, Okada TA: DNA replication and the nuclear membrane. J Mol Biol 75:609–618 (1973).
  60. Cooper JP: Telomere transitions in yeast: the end of the chromosome as we know it. Curr Opin Genet Dev 10:169–177 (2000).
  61. Cox LS, Laskey RA: DNA replication occurs at discrete sites in pseudonuclei assembled from purified DNA in vitro. Cell 66:271–275 (1991).
  62. Craig JM, Bickmore WA: The distribution of CpG islands in mammalian chromosomes. Nat Genet 7:376–382 (1994).
  63. Cremer T, Kreth G, Koester H, Fink RH, Heintzmann R, Cremer M, Solovei I, Zink D, Cremer C: Chromosome territories, interchromatin domain compartment, and nuclear matrix: an integrated view of the functional nuclear architecture. Crit Rev Eukaryot Gene Expr 10:179–212 (2000).
  64. Csink AK, Henikoff S: Genetic modification of heterochromatic association and nuclear organization in Drosophila. Nature 381:529–531 (1996).
  65. Csink AK, Henikoff S: Large-scale chromosomal movements during interphase progression in Drosophila. J Cell Biol 143:13–22 (1998).
  66. Czermin B, Schotta G, Hulsmann BB, Brehm A, Becker PB, Reuter G, Imhof A: Physical and functional association of SU(VAR)3–9 and HDAC1 in Drosophila. EMBO Rep 2:915–919 (2001).
  67. Davisson MT, Akeson EC: Recombination suppression by heterozygous Robertsonian chromosomes in the mouse. Genetics 133:649–667 (1993).
  68. de Boer P: Chromosomal causes for fertility reduction in mammals; in de Serres FJ (ed): Chemical Mutagens, pp 427–467 (Plenum, New York, London 1986).
  69. de Boer P, de Jong JH: Chromosome pairing and fertility in mice, in Gillies CB (ed): Fertility and Chromosome Pairing: Recent Studies in Plants and Animals, pp 37–76 (CRC Press, Boca Raton, FL 1989).
  70. de Vries SS, Baart EB, Dekker M, Siezen A, de Rooij DG, de Boer P, Riele H: Mouse MutS-like protein MSH5 is required for proper chromosome synapsis in male and female meiosis. Genes Dev 13:523–531 (1999).
  71. Delany ME, Bloom SE: Replication banding patterns in the chromosomes of the rainbow trout. J Hered 75:431–434 (1984).
  72. DePamphilis ML: Origins of DNA replication that function in eukaryotic cells. Curr Opin Cell Biol 5:434–41 (1993).
  73. DePamphilis ML: Replication origins in metazoan chromosomes, in Blow JJ (ed): Eukaryotic DNA Replication, pp 96–123 (Oxford University Press, Oxford 1996).
  74. Dernburg AF, Broman KW, Fung JC, Marshall WF, Philips J, Agard DA, Sedat JW: Perturbation of nuclear architecture by long-distance chromosome interactions. Cell 85:745–759 (1996).
  75. Devlin RH, Holm DG, Morin KR, Honda BM: Identifying a single-copy DNA sequence associated with the expression of a heterochromatic gene, the light locus of Drosophila melanogaster. Genome 33:405–415 (1990).
  76. Dhillon N, Kamakaka RT: Breaking through to the other side: silencers and barriers. Curr Opin Genet Dev 12:188–192 (2002).
  77. Diffley JF, Cocker JH, Dowell SJ, Rowley A: Two steps in the assembly of complexes at yeast replication origins in vivo. Cell 78:303–316 (1994).
  78. Dobbs DL, Shaiu WL, Benbow RM: Modular sequence elements associated with origin regions in eukaryotic chromosomal DNA. Nucleic Acids Res 22:2479–89 (1994).
  79. Drouin R, Lemieux N, Richer C-L: Analysis of DNA replication during S-phase by means of dynamic chromosome bandings at high resolution. Chromosoma 99:273–280 (1990).
  80. Drouin R, Lemieux N, Richer C-L: High-resolution R-banding at the 1250-band level. III. Comparative analysis of morphologic and dynamic R-band patterns (RHG and RBG). Hereditas 114:65–77 (1991).
  81. Drouin R, Holmquist GP, Richer C-L: High-resolution replication bands compared with morphologic G- and R-bands, in Harris H, Hirschhorn K (eds): Advances in Human Genetics, vol. 22, pp 47–115 (Plenum Press, New York 1994).
  82. Dumas D, Britton-Davidian J: Chromosomal rearrangements and evolution of recombination: comparison of chiasma distribution patterns in standard and Robertsonian populations of the house mouse. Genetics 162:1355–1366 (2002).
  83. Duthie SM, Nesterova TB, Formstone EJ, Keohane AM, Turner BM, Zakian SM, Brockdorff N: Xist RNA exhibits a banded localization on the inactive X chromosome and is excluded from autosomal material in cis. Hum Mol Genet 8:195–204 (1999).
  84. Dutrillaux B, Couturier J, Richer C-L, Viegas-Pequignot E: Sequence of DNA replication in 277 R- and Q-bands of human chromosomes using BrdU treatment. Chromosoma 58:51–61 (1976).
  85. Edelmann W, Cohen PE, Kneitz B, Winand N, Lia M, Heyer J, Kolodner R, Pollard JW, Kucherlapati R: Mammalian MutS homologue 5 is required for chromosome pairing in meiosis. Nat Genet 21:123–127 (1999).
  86. Edelmann P, Bornfleth H, Zink D, Cremer T, Cremer C: Morphology and dynamics of chromosome territories in living cells. Biochim Biophys Acta 1551:29–39 (2001).
  87. Eichler EE, Sankoff D: Structural dynamics of eukaryotic chromosome evolution. Science 301:793–797 (2003).
  88. Eisenbarth I, Vogel G, Krone W, Vogel W, Assum G: An isochore transition in the NF1 gene region coincides with a switch in the extent of linkage disequilibrium. Am J Hum Genet 67:873–880 (2000).
  89. Eisenbarth I, Striebel AM, Moschgath E, Vogel W, Assum G: Long-range sequence composition mirrors linkage disequilibrium pattern in a 1.13 Mb region of human chromosome 22. Hum Mol Genet 10:2833–2839 (2001).
  90. Eissenberg JC: Position effect variegation in Drosophila: towards a genetics of chromatin assembly. BioEssays 11:14–17 (1989).
  91. Ellis NA, Ye TZ, Patton S, German J, Goodfellow PN, Weller P: Cloning of PBDX, an MIC2-related gene that spans the pseudoautosomal boundary on chromosome Xp. Nat Genet 6:394–400 (1994).
  92. Ellison JR, Howard GC: Non-random position of the A-T rich DNA sequences in early embryos of Drosophila virilis. Chromosoma 83:555–561 (1981).
  93. Ermakova OV, Nguyen LH, Little RD, Chevillard C, Riblet R, Ashouian N, Birshtein BK, Schildkraut CL: Evidence that a single replication fork proceeds from early to late replicating domains in the IgH locus in a non-B cell line. Mol Cell 3:321–330 (1999).
  94. Fan QQ, Petes TD: Relationship between nuclease-hypersensitive sites and meiotic recombination hotspot activity at the HIS4 locus of Saccharomyces cerevisiae. Mol Cell Biol 16:2037–2043 (1996).
  95. Fang JS, Jagiello G: A pachytene map of the mouse spermatocyte. Chromosoma 82:437–445 (1981).
  96. Fang J-S, Jagiello G: An analysis of the chromomere map and chiasmata characteristics of human diplotene spermatocytes. Cytogenet Cell Genet 47:52–57 (1988).
  97. Fangman WL, Brewer BJ: Activation of replication origins within yeast chromosomes. Annu Rev Cell Biol 7:375–402 (1992).

    External Resources

  98. Farrell CM, West AG, Felsenfeld G: Conserved CTCF insulator elements flank the mouse and human beta-globin loci. Mol Cell Biol 22:3820–3831 (2002).
  99. Federico C, Saccone S, Bernardi G: The gene-richest bands of human chromosomes replicate at the onset of the S-phase. Cytogenet Cell Genet 80:83–88 (1998).
  100. Ferguson BM, Fangman WL: A position effect on the time of replication origin activation in yeast. Cell 68:333–339 (1992).
  101. Ferguson BM, Brewer BJ, Reynolds AE, Fangman WL: A yeast origin of replication is activated late in S-phase. Cell 65:507–515 (1991).
  102. Fernandez MA, Baron B, Prigent M, Toledo F, Buttin G, Debatisse M: Martix attachment regions and transcription units in a polygenetic mammalian locus overlapping two isochores. J Cell Biochem 15:541–551 (1997).

    External Resources

  103. Ferreira J, Paolella G, Ramos C, Lamond AI: Spatial organization of large-scale chromatin domains in the nucleus: a magnified view of single chromosome territories. J Cell Biol 139:1597–1610 (1997).
  104. Feuerbach F, Galy V, Trelles-Sticken E, Fromont-Racine M, Jacquier A, Gilson E, Olivo-Marin JC, Scherthan H, Nehrbass U: Nuclear architecture and spatial positioning help establish transcriptional states of telomeres in yeast. Nat Cell Biol 4:214–221 (2002).
  105. Flickinger RA: Replication-dependent transcription in eukaryotes. Int J Biochem 7:85–93 (1976).
  106. Forrester WC, Epner E, Driscoll MC, Enver T, Brice M, Papayannopoulou T, Groudine M: A deletion of the human beta-globin locus activation region causes a major alteration in chromatin structure and replication across the entire beta-globin locus. Genes Dev 4:1637–1649 (1990).
  107. Forsberg EC, Bresnick EH: Histone acetylation beyond promoters: long-range acetylation patterns in the chromatin world. BioEssays 23:820–830 (2001).
  108. Fox MH, Arndt-Jovin DJ, Jovin TM, Baumann PH, Robert-Nicoud M: Spatial and temporal distribution of DNA replication sites localized by immunofluorescence and confocal microscopy in mouse fibroblasts. J Cell Sci 99:247–253 (1992).

    External Resources

  109. Francastel C, Walters MC, Groudine M, Martin DI: A functional enhancer suppresses silencing of a transgene and prevents its localization close to centromeric heterochromatin. Cell 99:259–269 (1999).
  110. Francastel C, Magis W, Groudine M: Nuclear relocation of a transactivator subunit precedes target gene activation. Proc Natl Acad Sci USA 98:12120–12125 (2001).
  111. Francke U: Digitized and differentially shaded human chromosome ideograms for genomic applications. Cytogenet Cell Genet 65:206–218 (1994).
  112. Fraser P, Grosveld F: Locus control regions, chromatin activation and transcription. Curr Opin Cell Biol 10:361–365 (1998).
  113. Fujita M, Ishimi Y, Nakamura H, Kiyono T, Tsurumi T: Nuclear organization of DNA replication initiation proteins in mammalian cells. J Biol Chem 277:10354–10361 (2002).
  114. Fukagawa T, Sugaya K, Matsumoto K, Okumura K, Ando A, Inoko H, Ikemura T: A boundary of long-range G + C% mosaic domains in the human MHC locus: pseudoautosomal boundary-like sequence exists near the boundary. Genomics 25:184–191 (1995).
  115. Fukagawa T, Nakamura Y, Okumura K, Nogami M, Ando A, Inoko H, Saitou N, Ikemura T: Human pseudoautosomal boundary-like sequences: Expression and involvement in evolutionary formation of the present-day pseudoautosomal boundary of human sex chromosomes. Hum Mol Genet 5:23–32 (1996).
  116. Fukagawa T, Nogami M, Yoshikawa M, Ikeno M, Okazaki T, Takami Y, Nakayama T, Oshimura M: Dicer is essential for formation of the heterochromatin structure in vertebrate cells. Nat Cell Biol 6:784–791 (2004).
  117. Furey TS, Haussler D: Integration of the cytogenetic map with the draft human genome sequence. Hum Mol Genet 12:1037–1044 (2003).
  118. Fuss J, Linn S: Human DNA polymerase epsilon colocalizes with proliferating cell nuclear antigen and DNA replication late, but not early, in S phase. J Biol Chem 277:8658–8666 (2002).
  119. Gabriel-Robez O, Rumpler Y: The meiotic pairing behavior in human spermatocyte carriers of chromosome anomalies and their repercussions on reproductive fitness. I. Inversions and insertions. A European Study. Ann Genet 37:3–10 (1994).
  120. Gabriel-Robez O, Rumpler Y: The meiotic pairing behaviour in human spermatocyte carriers of chromosome anomalies and their repercussion on reproductive fitness. II. Robertsonian and reciprocal translocations. A European collaborative study. Ann Genet 39:17–25 (1996).
  121. Garagna S, Zuccotti M, Thornhill A, Ferandez-Donoso R, Berrios S, Capanna E, Redi CA: Alteration of nuclear architecture in male germ cells of chromosomally dervied subfertile mice. J Cell Sci 114:4429–4434 (2001).
  122. Gardiner K, Aissani B, Bernardi G: A compositional map of human chromosome 21. EMBO J 9:1853–1858 (1990).
  123. Gartler SM, Goldstein L, Tyler-Freer SE, Hansen RS: The timing of XIST replication: dominance of the domain. Hum Mol Genet 8:1085–1089 (1999).
  124. Gasser SM, Laroche T, Falquet J, Boy de la Tour E, Laemmli UK: Metaphase chromosome structure. Involvement of topoisomerase II. J Mol Biol 188:613–629 (1986).
  125. Gatti M, Pimpinelli S: Functional elements in Drosophila melanogaster heterochromatin. Annu Rev Genet 26:239–275 (1992).
  126. Gerasimova TI, Corces VG: Chromatin insulators and boundaries: effects on transcription and nuclear organization. Annu Rev Genet 35:193–208 (2001).
  127. Gerasimova TI, Byrd K, Corces VG: A chromatin insulator determines the nuclear localization of DNA. Mol Cell 6:1025–1035 (2000).
  128. Getzenberg RH, Pienta KJ, Ward WS, Coffey DS: Nuclear structure and the three-dimensional organization of DNA. J Cell Biochem 47:289–299 (1991).
  129. Gilbert DM: Temporal order of replication of Xenopus laevis ribosomal RNA genes in somatic cells. Proc Natl Acad Sci USA 83:2924–2928 (1992).

    External Resources

  130. Gilbert DM: Replication timing and transcriptional control: beyond cause and effect. Curr Opin Cell Biol 14:377–383 (2002).
  131. Goldman MA: The chromatin domain as a unit of gene regulation. BioEssays 9:50–55 (1988).
  132. Goldman MA, Holmquist GP, Gray MC, Caston LA, Nag A: Replication timing of mammalian genes and middle repetitive sequences. Science 224:686–692 (1984).
  133. Grewal SI, Elgin SC: Heterochromatin: new possibilities for the inheritance of structure. Curr Opin Genet Dev 12:178–187 (2002).
  134. Grewal SI, Moazed D: Heterochromatin and epigenetic control of gene expression. Science 301:798–802 (2003).
  135. Grewal SI, Rice JC: Regulation of heterochromatin by histone methylation and small RNAs. Curr Opin Cell Biol 16:230–238 (2004).
  136. Grushcow JM, Holzen TM, Park KJ, Weinert T, Lichten M, Bishop DK: Saccharomyces cerevisiae checkpoint genes Mec1, RAD17, and RAD24 are required for normal meiotic recombination partner choice. Genetics 153:607–620 (1999).
  137. Hall IM, Shankaranarayana GD, Noma K, Ayoub N, Cohen A, Grewal SI: Establishment and maintenance of a heterochromatin domain. Science 297:2232–2237 (2002).
  138. Hall IM, Noma K, Grewal SI: RNA interference machinery regulates chromosome dynamics during mitosis and meiosis in fission yeast. Proc Natl Acad Sci USA 100:193–198 (2003).
  139. Hannah-Alava A: Localization and function of heterochromatin in Drosophila melanogaster. Adv Genet 4:87–125 (1951).
  140. Hansen RS, Canfield TK, Fjeld AD, Mumm S, Laird CD, Gartler SM: A variable domain of delayed replication in FRAXA fragile X chromosomes: X inactivation-like spread of late replication. Proc Natl Acad Sci USA 94:4587–4592 (1997).
  141. Hayakawa T, Haraguchi T, Masumoto H, Hiraoka Y: Cell cycle behavior of human HP1 subtypes: distinct molecular domains of HP1 are required for their centromeric localization during interphase and metaphase. J Cell Sci 116:3327–3338 (2003).
  142. Heitz E: İber α- und β-Heterochromatin sowie Konstanz und Bau der Chromomeren bei Drosophila. Biol Zbl 54:588–699 (1934).
  143. Helt CE, Cliby WA, Keng PC, Bambara RA, O’Reilly MA: Ataxia Telangiectasia Mutated (ATM) and ATM and Rad3-related protein exhibit selective target specificities in response to different forms of DNA damage. J Biol Chem 280:1186–1192 (2005).
  144. Hendrich B, Bird A: Identification and characterization of a family of mammalian methyl-CpG binding proteins. Mol Cell Biol 18:6538–6547 (1998).
  145. Henikoff S: Position-effect variegation and chromosome structure of a heat shock puff in Drosophila. Chromosoma 83:381–393 (1981).
  146. Heun P, Laroche T, Raghuraman MK, Gasser SM: The positioning and dynamics of origins of replication in the budding yeast nucleus. J Cell Biol 152:385–400 (2001).
  147. Hiratani I, Leskovar A, Gilbert DM: Differentiation-induced replication-timing changes are restricted to AT-rich/long interspersed nuclear element (LINE)-rich isochores. Proc Natl Acad Sci USA 101:16861–16866 (2004).
  148. Hollingsworth REJ, Sclafani RA: Yeast pre-meiotic DNA replication utilizes ARS1 independently of CDC7 function. Chromosoma 102:415–420 (1993).
  149. Hollingsworth NM, Ponte L, Halsey C: MSH5, a novel MutS homolog, facilitates meiotic reciprocal recombination between homologs in Saccharomyces cerevisiae but not mismatch repair. Genes Dev 9:1728–1739 (1995).
  150. Holmquist GP: DNA sequences in G-bands and R-bands; in Adolph KW (ed): Chromosomes and Chromatin, pp 76–121 (CRC Press, Boca Raton 1988a).
  151. Holmquist GP: Mobile genetic elements in G-band and R-band DNA; in Daniel ARVVSP (ed): The Cytogenetics of Mammalian Autosomal Rearrangements, pp 803–834 (Alan R. Liss, New York 1988b).
  152. Holmquist GP: Evolution of chromosome bands: molecular ecology of noncoding DNA. J Mol Evol 28:469–486 (1989).
  153. Holmquist GP: Mutational bias, molecular ecology, and chromosome evolution; in Obe G (ed): Advances in Mutagenesis Research 2, pp 95–126 (Springer Verlag, Berlin 1990).
  154. Holmquist GP: Chromosome bands, their chromatin flavors, and their functional features. Am J Hum Genet 51:17–37 (1992).
  155. Holmquist GP: Chromatin self-organization by mutation bias. J Mol Evol 39:436–438 (1994).
  156. Holmquist GP, Caston LA: Replication time of interspersed repetitive sequences. Biochim Biophys Acta 868:164–177 (1986).
  157. Holmquist GP, Dancis B: Telomere replication, kinetochore organizers, and satellite DNA evolution. Proc Natl Acad Sci USA 76:4566–4570 (1979).
  158. Holmquist G, Gray M, Porter T, Jordan J: Characterization of Giemsa dark- and light-band DNA. Cell 31:121–129 (1982).
  159. Holmquist GP, Kapitonov VV, Jurka J: Mobile genetic elements, chiasmata, and the unique organization of beta-heterochromatin. Cytogenet Cell Genet 80:113–116 (1998).
  160. Hoskins RA, Smith CD, Carlson JW, et al: Heterochromatic sequences in a Drosophila whole-genome shotgun assembly. Genome Biol 3: RESEARCH0085 (2002).
  161. Hotta Y, Stern H: Analysis of DNA synthesis during meiotic prophase in Lilium. J Mol Biol 55:337–355 (1971).
  162. Hozak P, Hassan AB, Jackson DA, Cook PR: Visualization of replication factories attached to nucleoskeleton. Cell 73:361–373 (1993).
  163. Hsu TC: The karyotype of man. J Hered 43:172 (1952).
  164. Hsu TC, Cooper JEK, Mace ML, Brinkley BR: Arrangement of centromeres in mouse cells. Chromosoma 34:73–87 (1971).
  165. Ikebe C, Kuro-o M, Yamamoto K, Kohno S: Cytogenetic studies of Hynobiidae (Urodela). Cytogenet Cell Genet 54:169–171 (1990).
  166. Ivarie RD, Schacter BS, O’Farrell PH: The level of expression of the rat growth hormone gene in liver tumor cells is at least eight orders of magnitude less than that in anterior pituitary cells. Mol Cell Biol 3:1460–1467 (1983).
  167. Jabbari K, Rayko E, Bernardi G: The major shifts of human duplicated genes. Gene 317:203–208 (2003).
  168. Jackson DA, Pombo A: Replicon clusters are stable units of chromosome structure: evidence that nuclear organization contributes to the efficient activation and propagation of S phase in human cells. J Cell Biol 140:1285–1295 (1998).
  169. Jallepalli PV, Kelly TJ: Cyclin-dependent kinase and initiation at eukaryotic origins: a replication switch? Curr Opin Cell Biol 9:358–363 (1997).
  170. Jeffreys AJ, May CA: Intense and highly localized gene conversion activity in human meiotic crossover hot spots. Nat Genet 36:151–156 (2004).
  171. Jeppesen P, Turner BM: The inactive X chromosome in female mammals is distinguished by a lack of histone H4 acetylation, a cytogenetic marker for gene expression. Cell 74:281–289 (1993).
  172. Jones IM, Burkhart-Schultz K, Crippen TL: Cloned mouse lymphocytes permit analysis of somatic mutations that occur in vivo. Somat Cell Mol Genet 13:325–333 (1987).
  173. Jones RN, Rees H: B Chromosomes (Academic Press, London 1982).
  174. Kahana A, Gottschling DE: DOT4 links silencing and cell growth in Saccharomyces cerevisiae. Mol Cell Biol 19:6608–6620 (1999).
  175. Kannouche P, Fernandez de Henestrosa AR, Coull B, Vidal AE, Gray C, Zicha D, Woodgate R, Lehmann AR: Localization of DNA polymerases eta and iota to the replication machinery is tightly co-ordinated in human cells. EMBO J 21:6246–6256 (2002).
  176. Karpova OI, Penkina MV, Dadashev SI, Mil’shina NV, Hernandes J, Radchenko IV, Bogdanov IF: [Features of the primary structure of DNA from the synaptonemal complex of the golden hamster]. Russian Mol Biol (Mosk) 29:512–521 (1995).
  177. Katz DJ, Beer MA, Levorse JM, Tilghman SM: Functional characterization of a novel Ku70/80 pause site at the H19/Igf2 imprinting control region. Mol Cell Biol 25:3855–3863 (2005).
  178. Kauppi L, Jeffreys AJ, Keeney S: Where the crossovers are: recombination distributions in mammals. Nat Rev Genet 5:413–424 (2004).
  179. Kawasaki H, Taira K: Induction of DNA methylation and gene silencing by short interfering RNAs in human cells. Nature 431:211–217 (2004).
  180. Keeney S, Giroux C, Kleckner N: Meiosis-specific DNA double-strand breaks are catalyzed by Spo11, a member of a widely conserved protein family. Cell 88:375–384 (1997).
  181. Keeney S, Baudat F, Angeles M, Zhou Z-H, Copeland NG, Jenkins NA, Manova K, Jasin M: A mouse homolog of the Saccharomyces cerevisiae meiotic recombination DNA transesterase Spo11p. Genomics 61:170–182 (1999).
  182. Keller C, Hyrien O, Knippers R, Krude T: Site-specific and temporally controlled initiation of DNA replication in a human cell-free system. Nucleic Acids Res 30:2114–2123 (2002).
  183. Kenny PA, Bissell MJ: Tumor reversion: correction of malignant behavior by microenvironmental cues. Int J Cancer 107:688–695 (2003).
  184. Kerem B, Goitein R, Diamond G, Cedar H, Marcus M: Mapping of Dnase I sensitive regions on mitotic chromsomes. Cell 38:493–499 (1984).
  185. Kim J, Sif S, Jones B, Jackson A, Koipally J, Heller E, Winandy S, Viel A, Sawyer A, Ikeda T, Kingston R, Georgopoulos K: Ikaros DNA-binding proteins direct formation of chromatin remodeling complexes in lymphocytes. Immunity 10:345–355 (1999).
  186. Kleckner N, Padmore R, Bishop DK: Meiotic chromosome metabolism: one view. Cold Spring Harbor Symp Quant Biol 56:729–743 (1991).
  187. Kleinjan DA, van Heyningen V: Long-range control of gene expression: emerging mechanisms and disruption in disease. Am J Hum Genet 76:8–32 (2005).
  188. Klevecz RR: Temporal structure of S-phase. Cell 5:195–203 (1975).
  189. Klevecz RR, Kapp LN: Intermittent DNA synthesis and periodic expression of enzyme activity in the cell cycle of WI-38. J Cell Biol 58:564–573 (1973).
  190. Klevecz RR, Stubblefield E: RNA synthesis in relation to DNA replication in synchronized Chinese hamster cell cultures. J Exp Zool 165:259–268 (1967).
  191. Kneitz B, Cohen PE, Avdievich E, Zhu L, Kane MF, Hou H, Kolodner R, Pollard JW, Edelmann W: MutS homolog 4 localizes to meiotic chromosomes and is required for chromosome pairing during meiosis in male and female mice. Genes Dev 14:1085–1097 (2000).
  192. Kolodner R: Biochemistry and genetics of eukaryotic mismatch repair. Genes Dev 10:1433–1442 (1996).
  193. Korenberg JR, Rykowski MC: Human genome organization: Alu, Lines, and the molecular structure of metaphase chromosome bands. Cell 53:391–400 (1988).
  194. Kowalczykowski SC: Initiation of genetic recombination and recombination-dependent replication. Trends Biochem Sci 25:156–165 (2000).
  195. Kuff EL, Fewell JE, Lueders KK, DiPaolo JA, Amsbaugh SC, Popescu NC: Chromosome distribution of intracisternal A-particle sequences in the Syrian hamster and mouse. Chromosoma 93:213–219 (1986).
  196. Kunkel TA, Bebenek K: DNA replication fidelity. Annu Rev Biochem 69:497–529 (2000).
  197. Kunkel TA, Pavlov YI, Bebenek K: Functions of human DNA polymerases eta, kappa and iota, suggested by their properties, including fidelity with undamaged DNA templates. DNA Repair 2:135–149 (2003).
  198. Kurnit DM, Brown RL, Maio JJ: Mammalian repetitive DNA sequences in a stable Robertsonian system. Cytogenet Cell Genet 20:145–167 (1978).

    External Resources

  199. Kuznetsova IS, Prusov AN, Enukashvily NI, Podgornaya OI: New types of mouse centromeric satellite DNAs. Chromosome Res 13:9–25 (2005).
  200. Lachner M, O’Sullivan RJ, Jenuwein T: An epigenetic road map for histone lysine methylation. J Cell Sci 116:2117–2124 (2003).
  201. Lafuse WP, David CS: Recombination hot spots within the I region of the mouse H-2 complex map to the E beta and E alpha genes. Immunogenetics 24:352–360 (1986).
  202. Laird C, Hansen RS, Canfield TK, Lamb MM, Gartler SM: Chromosomal fragile sites: molecular test of the delayed-replication model. Cold Spring Harb Symp Quant Biol 58:633–635 (1993).
  203. Lammers JHM, Offenberg HH, van Drunen CM, Snoek M, van Vugt H, Teunissen HAS, van Aalderen M, Heyting C: Identification of an SC-associated region in the Hsp70-Bat5 gene cluster of the mouse MHC III locus which colocalizes with a MAR/SAR; in Lammers JHM (ed): The Mr 30,000–33,000 Major Protein Components of the Lateral Elements of the Synaptonemal Complexes of the Rat (Thesis pp 65–90, Wageningen 1999).
  204. Latos-Bielenska A, Vogel W: Frequency and distribution of chiasmata in Syrian hamster spermatocytes studied by the BrdU antibody technique. Chromosoma 99:267–272 (1990).
  205. Lee DW, Pratt RJ, McLaughin M, Aramayo R: An Argonaut-like protein is required for meiotic silencing. Genetics 164:821–828 (2003).
  206. Lee DW, Seong KY, Pratt RJ, Baker K, Aramayo R: Properties of unpaired DNA required for efficient silencing in Neurospora crassa. Genetics 167:131–150 (2004).
  207. Lercher MJ, Urrutia AO, Pavlicek A, Hurst LD: A unification of mosaic structures in the human genome. Hum Mol Genet 12:2411–2415 (2003).
  208. Levings PP, Bungert J: The human beta-globin locus control region. Eur J Biochem 269:1589–1599 (2002).
  209. Lewis EB: The phenomenon of position effect. Adv Genet 3:73–115 (1950).
  210. Lewis EB: The theory and application of a new method of detecting chromosomal rearrangements in Drosophila melanogaster. Am Nat 88:225—239 (1954).
  211. Li E: Chromatin modification and epigenetic reprogramming in mammalian development. Nat Rev Genet 3:662–673 (2002).
  212. Li F, Goto DB, Zaratiegui M, Tang X, Martienssen R, Cande WZ: Two novel proteins, dos1 and dos2, interact with rik1 to regulate heterochromatic RNA interference and histone modification. Curr Biol 15:1448–1457 (2005).
  213. Li W-H, Graur D: Fundamentals of Molecular Evolution (Sinauer Associates, Sunderland 1991).
  214. Lichten M, Goldman ASH: Meiotic recombination hotspots. Annu Rev Genet 29:423–444 (1995).
  215. Locke J, Kotarski MA, Tartof KD: Dosage-dependent modifiers of position effect variegation in Drosophila and a mass action model that explains their effect. Genetics 120:181–198 (1988).
  216. Longley MJ, Nguyen D, Kunkel TA, Copeland WC: The fidelity of human DNA polymerase gamma with and without exonucleolytic proofreading and the p55 accessory subunit. J Biol Chem 276:38555–38562 (2001).
  217. Lower R, Lower J, Kurth R: The viruses in all of us: characteristics and biological significance of human endogenous retrovirus sequences. Proc Natl Acad Sci USA 93:5177–5184 (1996).
  218. Lyon MF: X-chromosome inactivation: a repeat hypothesis. Cytogenet Cell Genet 80:133–137 (1998).
  219. Lyon MF: LINE-1 elements and X chromosome inactivation: a function for ‘junk’ DNA?. Proc Natl Acad Sci USA 97:6248–6249 (2000).
  220. Ma H, Samarabandu J, Devdhar RS, Acharya R, Cheng PC, Meng C, Berezney R: Spatial and temporal dynamics of DNA replication sites in mammalian cells. J Cell Biol 143:1415–1425 (1998).
  221. Ma H, Siegel AJ, Berezney R: Association of chromosome territories with the nuclear matrix. Disruption of human chromosome territories correlates with the release of a subset of nuclear matrix proteins. J Cell Biol 146:531–542 (1999).
  222. Madisen L, Krumm A, Hebbes TR, Groudine M: The immunoglobulin heavy chain locus control region increases histone acetylation along linked c-myc genes. Mol Cell Biol 18:6281–6292 (1998).
  223. Malott M, Leffak M: Activity of the c-myc replicator at an ectopic chromosomal location. Mol Cell Biol 19:5685–5695 (1999).
  224. Manuelidis L: Individual interphase chromosome domains revealed by in situ hybridization. Hum Genet 71:288–293 (1985).
  225. Manuelidis L, Ward DC: Chromosomal and nuclear distribution of the 1.9-kb human DNA repeat segment. Chromosoma 91:28–38 (1984).
  226. Marahrens Y: X-inactivation by chromosomal pairing events. Genes Dev 13:2624–2632 (1999).
  227. Marques-Bonet T, Caceres M, Bertranpetit J, Preuss TM, Thomas JW, Navarro A: Chromosomal rearrangements and the genomic distribution of gene-expression divergence in humans and chimpanzees. Trends Genet 20:524–529 (2004).
  228. Martienssen RA, Zaratiegui M, Goto DB: RNA interference and heterochromatin in the fission yeast Schizosaccharomyces pombe. Trends Genet 21:450–456 (2005).
  229. Mayfield JE, Ellison JR: The organization of interphase chromatin in Drosophilidae. The self adhesion of chromatin containing the same DNA sequences. Chromosoma 52:37–48 (1975).
  230. Mayr C, Jasencakova Z, Meister A, Schubert I, Zink D: Comparative analysis of the functional genome architecture of animal and plant cell nuclei. Chromosome Res 11:471–484 (2003).
  231. McCarrey JR, Riggs AD: Determinator-inhibitor pairs as a mechanism for threshold setting in development: a possible function for pseudogenes. Proc Natl Acad Sci USA 83:679–683 (1986).
  232. Misra S, Crosby MA, Mungall CJ, Matthews BB, Campbell KS, Hradecky P, Huang Y, Kaminker JS, et al: Annotation of the Drosophila melanogaster euchromatic genome: a systematic review. Genome Biol 3:RESEARCH0083 (2002).
  233. Moens PB, Chen DJ, Shen Z, Kolas N, Tarsounas M, Heng HHQ, Spyropoulos B: RAD51 immunocytology in rat and mouse spermatocytes and oocytes. Chromosoma 106:207–215 (1997).
  234. Moir RD, Montag-Lowy M, Goldman RD: Dynamic properties of nuclear lamins: lamin B is associated with sites of DNA replication. J Cell Biol 125:1201–1212 (1994).
  235. Montgomery E, Charlesworth B, Langley CH: A test for the role of natural selection in the stabilization of transposable element copy number in a population of Drosophila melanogaster. Genet Res 49:31–41 (1987).
  236. Morris KV, Chan SW, Jacobsen SE, Looney DJ: Small interfering RNA-induced transcriptional gene silencing in human cells. Science 305:1289–1292 (2004).
  237. Moscona AA: Tissues from dissociated cells. Sci Am 200:132–134 (1959).
  238. Moses MJ: Meiosis, synaptonemal complex, and cytogenetic analysis; in Vogel H (ed): Bioregulators of Reproduction, pp 187–206 (Academic Press, New York 1981).
  239. Moses MJ, Karatsis PA, Hamilton AE: Synaptonemal complex analysis of heteromorphic trivalents in Lemur hybrids. Chromosoma 70:141–160 (1979).

    External Resources

  240. Moses MJ, Poorman PA, Roderick TH, Davisson MT: Synaptonemal complex analysis of mouse chromosome rearrangements. IV. Synapsis and synaptic adjustment in two paracentric inversions. Chromosoma 84:457–474 (1982).
  241. Motamedi MR, Verdel A, Colmenares SU, Gerber SA, Gygi SP, Moazed D: Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell 119:789–802 (2004).
  242. Moyzis RK, Bonnet J, Li DW, Ts’O POP: An alternative view of mammalian DNA sequence organization II. J Mol Biol 153:871–896 (1981).
  243. Muller S, Stanyon R, O’Brien PC, Ferguson-Smith MA, Plesker R, Wienberg J: Defining the ancestral karyotype of all primates by multidirectional chromosome painting between tree shrews, lemurs and humans. Chromosoma 108:393–400 (1999).
  244. Musio A, Mariani T, Vezzoni P, Frattini A: Heterogeneous gene distribution reflects human genome complexity as detected at the cytogenetic level. Cancer Genet Cytogenet 134:168–171 (2002).
  245. Nadeau JH, Taylor BA: Lengths of chromosomal segments conserved since divergence of man and mouse. Proc Natl Acad Sci USA 81:814–818 (1984).
  246. Nakamura H, Morita T, Sato C: Structural organizations of replicon domains during DNA synthetic phase in the mammalian nucleus. Exp Cell Res 165:291–297 (1986).
  247. Nakayama J, Rice JC, Strahl BD, Allis CD, Grewal SI: Role of histone H3 lysine 9 methylation in epigenetic control of heterochromatin assembly. Science 292:110–113 (2001).
  248. Nanney DL: Epigenetic factors affecting mating type expression in certain ciliates. Cold Spring Harb Symp Quant Biol 23:327–335 (1958).
  249. Neitzel H, Kalscheuer V, Henschel S, Digweed M, Sperling K: Beta-heterochromatin in mammals: evidence from studies in Microtus agrestis based on the extensive accumulation of L1 and non-L1 retroposons in the heterochromatin. Cytogenet Cell Genet 80:165–172 (1998).
  250. Neitzel H, Kalscheuer V, Singh AP, Henschel S, Sperling K: Copy and paste: the impact of a new non-L1 retroposon on the gonosomal heterochromatin of Microtus agrestis. Cytogenet Genome Res 96:179–85 (2002).
  251. Ner SS, Harrington MJ, Grigliatti TA: A role for the Drosophila SU(VAR)3-9 protein in chromatin organization at the histone gene cluster and in suppression of position-effect variegation. Genetics 162:1763–1774 (2002).
  252. Newlon CS, Theis JF: The structure and function of yeast ARS elements. Curr Opin Genet Dev 3:752–758 (1993).
  253. Newport J, Yan H: Organization of DNA into foci during replication. Curr Opin Cell Biol 8:365–368 (1996).
  254. Nogami M, Nogami O, Kagotani K, Okumura M, Taguchi H, Ikemura T, Okumura K: Intranuclear arrangement of human chromosome 12 correlates to large-scale replication domains. Chromosoma 108:514–522 (2000).
  255. Noma K, Allis CD, Grewal SI: Transitions in distinct histone H3 methylation patterns at the heterochromatin domain boundaries. Science 293:1150–1155 (2001).
  256. Noma K, Sugiyama T, Cam H, Verdel A, Zofall M, Jia S, Moazed D, Grewal SI: RITS acts in cis to promote RNA interference-mediated transcriptional and post-transcriptional silencing. Nat Genet 36:1174–1180 (2004).
  257. O’Brien SJ, Menotti-Raymond M, Murphy WJ, Nash WG, Wienberg J, Stanyon R, Copeland NG, Jenkins NA, Womack JE, Marshall Graves JA: The promise of comparative genomics in mammals. Science 286:458–481 (1999).
  258. O’Carroll D, Scherthan H, Peters AH, Opravil S, Haynes AR, Laible G, Rea S, Schmid M, Lebersorger A, Jerratsch M, Sattler L, Mattei MG, Denny P, Brown SD, Schweizer D, Jenuwein T: Isolation and characterization of Suv39h2, a second histone H3 methyltransferase gene that displays testis-specific expression. Mol Cell Biol 20:9423–9433 (2000).
  259. O’Keefe RT, Henderson SC, Spector DL: Dynamic organization of DNA replication in mammalian cell nuclei: spatially and temporally defined replication of chromosome-specific alpha-satellite DNA sequences. J Cell Biol 116:1095–1110 (1992).
  260. O’Neill RJ, O’Neill MJ, Graves JA: Undermethylation associated with retroelement activation and chromosome remodeling in an interspecific mammalian hybrid. Nature 393:68–72 (1998).
  261. O’Neill RJ, Eldredge MD, Graves JA: Chromosome heterozygosity and de novo chromosome rearrangements in mammalian interspecific hybrids. Mamm Genome 12:256–259 (2001).
  262. Oakberg EF: Duration of spermatogenesis in the mouse and timing of stages of the cycle in the seminiferous epithelium. Amer J Anat 99:507–516 (1956).
  263. Ohashi E, Bebenek K, Matsuda T, Feaver WJ, Gerlach VL, Friedberg EC, Ohmori H, Kunkel TA: Fidelity and processivity of DNA synthesis by DNA polymerase kappa, the product of the human DINB1 gene. J Biol Chem 275:39678–39684 (2000).
  264. Ohta K, Shibata T, Nicolas N: Changes in chromatin structure at recombination initiation sites during yeast meiosis. EMBO J 13:5754–5763 (1994).
  265. Ohta K, Wu TC, Lichten M, Shibata T: Competitive inactivation of a double-strand DNA break site involves parallel suppression of meiotic-induced changes in chromatin configuration. Nucleic Acids Res 27:2175–2180 (1999).
  266. Okada TA, Comings DE: Mechanisms of chromosome banding III. Similarity between G-bands of mitotic chromosomes and chromomeres of meiotic chromosomes. Chromosoma 48:65–71 (1974).
  267. Okada TA, Comings DE: Higher order structure of chromosomes. Chromosoma 72:1–14 (1979).
  268. Okamoto I, Otte AP, Allis CD, Reinberg D, Heard E: Epigenetic dynamics of imprinted X inactivation during early mouse development. Science 303:644–649 (2004).
  269. Olofsson B, Bernardi G: Organization of nucleotide sequences in the chicken genome. Eur J Biochem 130:241–245 (1983).
  270. Osheroff WP, Jung HK, Beard WA, Wilson SH, Kunkel TA: The fidelity of DNA polymerase beta during distributive and processive DNA synthesis. J Biol Chem 274:3642–3650 (1999).
  271. Padgett KA, Shreffler DC, Saha BK: Molecular mapping of murine I region recombinants. III. Crossing over at two discrete sites within the beta 1-beta 2 intron of the E beta gene. J Immunol 147:2764–2770 (1991).
  272. Painter RB: Radioresistant DNA synthesis: an intrinsic feature of ataxia telangiectasia. Mutat Res 84:183–190 (1981).
  273. Pal-Bhadra M, Leibovitch BA, Gandhi SG, Rao M, Bhadra U, Birchler JA, Elgin SC: Heterochromatic silencing and HP1 localization in Drosophila are dependent on the RNAi machinery. Science 303:669–672 (2004).
  274. Paldi A, Gyapay G, Jami J: Imprinted chromosome regions of the human genome display sex-specific meiotic recombination frequencies. Curr Biol 5:1030–1035 (1995).
  275. Pasero P, Braguglia D, Gasser SM: ORC-dependent and origin-specific initiation of DNA replication at defined foci in isolated yeast nuclei. Genes Dev 11:1504–1518 (1997).
  276. Perrin P, Bernardi G: Directional fixation of mutations in vertebrate evolution. J Mol Evol 26:301–310 (1987).
  277. Peters AHFM, Plug AW, de Boer P: Meiosis in carriers of heteromorphic bivalents: sex differences and implications for male fertility. Chromosome Res 5:313–324 (1997).
  278. Peters AHFM, O’Carroll D, Scherthan H, Mechtler K, Sauer S, Schofer C, Weipoltshammer K, Pagani M, et al: Loss of the Suv39h histone methyltransferases impairs mammalian heterochromatin and genomic stability. Cell 107:323–337 (2001).
  279. Peters AH, Kubicek S, Mechtler K, O’Sullivan RJ, Derijck AA, Perez-Burgos L, Kohlmaier A, Opravil S, et al: Partitioning and plasticity of repressive histone methylation states in mammalian chromatin. Mol Cell 12:1577–1589 (2003).
  280. Pevzner P, Tesler G: Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution. Proc Natl Acad Sci USA 100:7672–7677 (2003).
  281. Pfarr W, Webersinke G, Paar C, Wechselberger C: Immunodetection of 5′-methylcytosine on Giemsa-stained chromosomes. BioTechniques 38:527–528, 530 (2005).
  282. Pfeifer D, Kist R, Dewar K, Devon K, Lander ES, Birren B, Korniszewski L, Back E, Scherer G: Campomelic dysplasia translocation breakpoints are scattered over 1 Mb proximal to SOX9: evidence for an extended control region. Am J Hum Genet 65:111–124 (1999).
  283. Pfeiffer SE, Tolmach LJ: RNA synthesis in synchronously growing populations of HeLa S3 cells. J Cell Physiol 71:77–94 (1968).
  284. Pi W, Yang Z, Wang J, Ruan L, Yu X, Ling J, Krantz S, Isales C, Conway SJ, Lin S, Tuan D: The LTR enhancer of ERV-9 human endogenous retrovirus is active in oocytes and progenitor cells in transgenic zebrafish and humans. Proc Natl Acad Sci USA 101:805–810 (2004).
  285. Pienta KJ, Partin AW, Coffey DS: Cancer as a disease of DNA organization and dynamic cell structure. Cancer Res 49:2525–2532 (1989).
  286. Pimpinelli S, Berloco M, Fanti L, Dimitri P, Bonaccorsi S, Marchetti E, Caizzi R, Caggese C, Gatti M: Transposable elements are stable structural components of Drosophila melanogaster heterochromatin. Proc Natl Acad Sci USA 92:3804–3808 (1995).
  287. Pirrotta V: Transvection and chromosomal trans-interaction effects. Biochim Biophys Acta 1424:M1-M8 (1999).
  288. Pittman DL, Cobb J, Schimenti KJ, Wilson LA, Cooper DM, Brignull E, Handel MA, Schimenti JC: Meiotic prophase arrest with failure of chromosome synapsis in mice deficient for Dmc1, a germline-specific RecA homolog. Mol Cell 1:697–705 (1998).
  289. Plug AW, Xu J, Reedy G, Golub EI, Ashley T: Presynaptic association of RAD51 protein with selected sites in meiotic chromatin. Proc Natl Acad Sci USA 93:5920–5924 (1996).
  290. Plug AW, Peters AH, Keegan KS, Hoekstra MF, de Boer P, Ashley T: Changes in protein composition of meiotic nodules during mammalian meiosis. J Cell Sci 111:413–423 (1998).
  291. Popescu NC, DiPaolo JA: Heterogeneity of constitutive heterochromatin in somatic Syrian hamster chromosomes. Cytogenet Cell Genet 24:53–60 (1979).
  292. Popescu NC, DiPaolo JA: Chromosomal interrelationship of hamster species of the genus Mesocricetus. Cytogenet Cell Genet 28:10–23 (1980).
  293. Pradhan S, Bacolla A, Wells RD, Roberts RJ: Recombinant human DNA (cytosine-5) methyltransferase. I. Expression, purification, and comparison of de novo and maintenance methylation. J Biol Chem 274:33002–33010 (1999).
  294. Radding CM: Helical interactions in homologous pairing and strand exchange driven by RecA protein. J Biol Chem 266:5355–5358 (1991).
  295. Raghuraman MK, Winzeler EA, Collingwood D, Hunt S, Wodicka L, Conway A, Lockhart DJ, Davis RW, Brewer BJ, Fangman WL: Replication dynamics of the yeast genome. Science 294:115–121 (2001).
  296. Raju NB: Meiosis and ascospore genesis in Neurospora. Eur J Cell Biol 23:208–223 (1980).
  297. Raman R, Nanda I: Mammalian sex chromosomes. I. Cytological changes in the chiasmatic sex chromosomes of the male musk shrew Suncus murinus. Chromosoma 93:367–374 (1986).
  298. Ranz JM, Casals F, Ruiz A: How malleable is the eukaryotic genome? Extreme rate of chromosomal rearrangement in the genus Drosophila. Genome Res 11:230–239 (2001).
  299. Rao PN: The phenomenon of premature chromosome condensation; in Sperling K (ed): Premature Chromosome Condensation: Application in Basic, Clinical, and Mutational Research, pp 2–41 (Academic Press, New York 1982).
  300. Rein T, Kobayashi T, Malott M, Leffak M, DePamphilis ML: DNA methylation at mammalian replication origins. J Biol Chem 274:25792–25800 (1999).
  301. Remington JA, Flickinger RA: The time of DNA replication in the cell cycle in relation to RNA synthesis in frog embryos. J Cell Physiol 77:411–422 (1971).
  302. Rice JC, Briggs SD, Ueberheide B, Barber CM, Shabanowitz J, Hunt DF, Shinkai Y, Allis CD: Histone methyltransferases direct different degrees of methylation to define distinct chromatin domains. Mol Cell 12:1591–1598 (2003).
  303. Riggs AD, Porter TN: Overview of Epigenetic Mechanisms: Epigenetic Mechanisms of Gene Regulation, pp 29–45 (Cold Spring Harbor Press, Cold Spring Harbor 1996).
  304. Ross-Macdonald P, Roeder SG: Mutation of meiosis-specific MutS homolog decreases crossing over but not mismatch correction. Cell 79:1069–1080 (1994).
  305. Roth TF, Ito M: DNA-dependent formation of the synaptonemal complex at meiotic prophase. J Cell Biol 35:247–255 (1967).
  306. Rothstein R, Michel B, Gangloff S: Replication fork pausing and recombination or ‘gimme a break’. Genes Dev 14:1–10 (2000).
  307. Saccone S, De Sario A, Wiegant J, Raap AK, Della VG, Bernardi G: Correlations between isochores and chromosomal bands in the human genome. Proc Natl Acad Sci USA 90:11929–11933 (1993).
  308. Saccone S, Federico C, Solovei I, Croquette MF, Della VG, Bernardi G: Identification of the gene-richest bands in human prometaphase chromosomes. Chromosome Res 7:379–386 (1999).
  309. Sadoni N, Langer S, Fauth C, Bernardi G, Cremer T, Turner BM, Zink D: Nuclear organization of mammalian genomes. Polar chromosome territories build up functionally distinct higher order compartments. J Cell Biol 146:1211–1226 (1999).
  310. Salinas J, Zerial M, Filipski J, Crepin M, Bernardi G: Nonrandom distribution of MMTV proviral sequences in the mouse genome. Nucleic Acids Res 15:3009–3022 (1987).
  311. Santocanale C, Diffley JF: A Mec1- and Rad53-dependent checkpoint controls late-firing origins of DNA replication. Nature 395:615–618 (1998).
  312. Santucci-Darmanin S, Walpita D, Lespinasse F, Desnuelle C, Ashley T, Pasquis-Flucklinger V: MSH4 acts in conjunction with MLH1 during prophase I of meiosis. FASEB J 14:1539–1547 (2000).
  313. Savage JRK: Assignment of aberration breakpoints in banded chromosomes. Nature 270:513–514 (1977).
  314. Schempp W, Schmid M: Chromosome banding in Amphibia VI. BrdU-replication patterns in Anura and demonstration of XX/XY sex chromosomes in Rana esculenta. Chromosoma 83:711–720 (1981).
  315. Schmegner C, Berger A, Vogel W, Hameister H, Assum G: An isochore transition zone in the NF1 gene region is a conserved landmark of chromosome structure and function. Genomics 86:439–445 (2005).
  316. Schmid M, Ziegler CG, Steinlein C, Nanda I, Haaf T: Chromosome banding in Amphibia. XXIV. The B chromosomes of Gastrotheca espeletia (Anura, Hylidae). Cytogenet Genome Res 97:205–218 (2002).
  317. Schramke V, Allshire R: Hairpin RNAs and retrotransposon LTRs effect RNAi and chromatin-based gene silencing. Science 301:1069–1074 (2003).
  318. Schubeler D, Francastel C, Cimbora DM, Reik A, Martin DI, Groudine M: Nuclear localization and histone acetylation: a pathway for chromatin opening and transcriptional activation of the human beta-globin locus. Genes Dev 14:940–950 (2000).
  319. Schubeler D, Scalzo D, Kooperberg C, van Steensel B, Delrow J, Groudine M: Genome-wide DNA replication profile for Drosophila melanogaster: a link between transcription and replication timing. Nat Genet 32:438–442 (2002).
  320. Schweizer D, Loidl J: A model for heterochromatin dispersion and the evolution of C- band patterns. Chromosomes Today 9:61–74 (1987).
  321. Selig S, Okumura K, Ward DC, Cedar H: Delineation of DNA replication time zones by fluorescence in situ hybridization. EMBO J 11:1217–1225 (1992).
  322. Sharakhov IV, Serazin AC, Grushko OG, Dana A, Lobo N, Hillenmeyer ME, Westerman R, Romero-Severson J, et al: Inversions and gene order shuffling in Anopheles gambiae and A. funestus. Science 298:182–185 (2002).
  323. Shenkar R, Shen M, Arnheim N: DNase I-hypersensitive sites and transcription factor-binding motifs within the mouse EB meiotic recombination hot spot. Mol Cell Biol 11:1813–1819 (1991).
  324. Shepherd GW, Flickinger RA: The accumulation of repetitive and evolutionary conservative RNA during frog embryonic development. Wilhelm Roux’s Archives 191:1–4 (1982).
  325. Shiu PK, Raju NB, Zickler D, Metzenberg RL: Meiotic silencing by unpaired DNA. Cell 107:905–916 (2001).
  326. Simon I, Tenzen T, Mostoslavsky R, Fibach E, Lande L, Milot E, Gribnau J, Grosveld F, Fraser P, Cedar H: Developmental regulation of DNA replication timing at the human beta globin locus. EMBO J 20:6150–6157 (2001).
  327. Smith KN, Penkner A, Ohta K, Klein F, Nicolas A: B-type cyclins CLB5 and CLB6 control the initiation of recombination and synaptonemal complex formation in yeast meiosis. Curr Biol 11:88–97 (2001).
  328. Smith ZE, Higgs DR: The pattern of replication at a human telomeric region (16p13.3): its relationship to chromosome structure and gene expression. Hum Mol Genet 8:1373–1386 (1999).
  329. Sperling K: Cell cycle and chromosome cycle: morphological and functional aspects; in Sperling K (ed): Premature Chromosome Condensation: Application in Basic, Clinical, and Mutational Research, pp 42–78 (Academic Press, New York 1982).
  330. Sperling K, Kalscheuer V, Kottusch-Geiseler V, Neitzel H: Genetic activity of constitutive heterochromatin in mammals; in Fredga K, Kihlman BA, Bennett MD (eds): Chromosomes Today, vol 10, pp 83–89 (Unwin Hyman Ltd., London 1990).
  331. Stack SM, Brown DB, Dewey WC: Visualization of interphase chromosomes. J Cell Sci 26:281–299 (1977).
  332. Stanyon R, Yang F, Cavagna P, O’Brien PC, Bagga MF-S, Ferguson-Smith MA, Wienberg J: Reciprocal chromosome painting shows that genomic rearrangement between rat and mouse proceeds ten times faster than between humans and cats. Cytogenet Cell Genet 84:150–155 (1999).
  333. Stern H, Hotta Y: Chromosome organization in the regulation of meiotic prophase; in Evans CW, Dickenson HG (eds): Controlling Events in Meiosis, pp 161–174 (Society for Experimental Biology, London 1984).
  334. Stern H, Hotta Y: Molecular biology of meiosis: synapsis-associated phenomena; in Dellarco V, Voytek PE, Hollaender A (eds): Aneuploidy: Etiology and Mechanisms, pp 305–316 (Plenum Press, New York 1985).
  335. Stevenson JB, Gottschling DE: Telomeric chromatin modulates replication timing near chromosome ends. Genes Dev 13:146–151 (1999).
  336. Stillman B: Cell cycle control of DNA replication. Science 274:1659–1664 (1996).
  337. Strehl S, LaSalle JM, Lalande M: High-resolution analysis of DNA replication domain organization across an R/G-band boundary. Mol Cell Biol 17:6157–66 (1997).
  338. Struhl K: Histone acetylation and transcriptional regulatory mechanisms. Genes Dev 12:599–606 (1998).
  339. Stubblefield E: Analysis of the replication pattern of Chinese hamster chromosomes using 5-bromodeoxyuridine suppression of 33258 Hoechst fluorescence. Chromosoma 53:209–221 (1975).
  340. Subramanian PS, Chinault AC: Replication timing properties of the human HPRT locus on active, inactive and reactivated X chromosomes. Somat Cell Mol Genet 23:97–109 (1997).
  341. Sumner AT: Chromosome Banding (Unwin Hyman, London 1990).
  342. Sun FL, Cuaycong MH, Elgin SC: Long-range nucleosome ordering is associated with gene silencing in Drosophila melanogaster pericentric heterochromatin. Mol Cell Biol 21:2867–2879 (2001).
  343. Szostak JW, Orr-Weaver TL, Rothstein RJ: The double-strand-break repair model for recombination. Cell 33:25–35 (1983).
  344. Tanabe H, Habermann FA, Solovei I, Cremer M, Cremer T: Non-random radial arrangements of interphase chromosome territories: evolutionary considerations and functional implications. Mutat Res 504:37–45 (2002).
  345. Tanimoto K, Shimotsuma M, Matsuzaki H, Omori A, Bungert J, Engel JD, Fukamizu A: Genomic imprinting recapitulated in the human beta-globin locus. Proc Natl Acad Sci USA 102:10250–10255 (2005).
  346. Tartof KD, Hobbs C, Jones M: A structural basis for variegating position effects. Cell 37:869–878 (1984).
  347. Taruscio D, Manuelidis L: Integration site preferences of endogenous retroviruses. Chromosoma 101:141–156 (1991).
  348. Tenzen T, Yamagata T, Fukagawa T, Sugaya K, Ando A, Inoko H, Gojobori T, Fujiyama A, Okumura K, Ikemura T: Precise switching of DNA replication timing in the GC content transition area in the human major histocompatibility complex. Mol Cell Biol 17:4043–4050 (1997).
  349. Thoma F: Nucleosome positioning. Biochim Biophys Acta 1130:1–19 (1992).
  350. Todorovic V, Falaschi A, Giacca M: Replication origins of mammalian chromosomes: the happy few. Front Biosci 4:859–868 (1999).

    External Resources

  351. Tulin A, Stewart D, Spradling AC: The Drosophila heterochromatic gene encoding poly(ADP-ribose) polymerase (PARP) is required to modulate chromatin structure during development. Genes Dev 16:2108–2119 (2002).
  352. Turner BM, Birley AJ, Lavender J: Histone H4 isoforms acetylated at specific lysine residues define individual chromosomes and chromatin domains in Drosophila polytene nuclei. Cell 69:375–384 (1992).
  353. Turner JM, Mahadevaiah SK, Fernandez-Capetillo O, Nussenzweig A, Xu X, Deng CX, Burgoyne PS: Silencing of unsynapsed meiotic chromosomes in the mouse. Nat Genet 37:41–47 (2005).
  354. van Dierendonck JH, Keyzer R, van de Velde CJ, Cornelisse CJ: Subdivision of S-phase by analysis of nuclear 5-bromodeoxyuridine staining patterns. Cytometry 10:143–150 (1989).
  355. Vastenhouw NL, Plasterk RH: RNAi protects the Caenorhabditis elegans germline against transposition. Trends Genet 20:314–319 (2004).
  356. Vaury C, Bucheton A, Pelisson A: The beta heterochromatic sequences flanking the I elements are themselves defective transposable elements. Chromosoma 98:215–224 (1989).
  357. Verdel A, Jia S, Gerber S, Sugiyama T, Gygi S, Grewal SI, Moazed D: RNAi-mediated targeting of heterochromatin by the RITS complex. Science 303:672–676 (2004).
  358. Volpe TA, Kidner C, Hall IM, Teng G, Grewal SI, Martienssen RA: Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Science 297:1833–1837 (2002).
  359. Vujcic M, Miller CA, Kowalski D: Activation of silent replication origins at autonomously replicating sequence elements near the HML locus in budding yeast. Mol Cell Biol 19:6098–6109 (1999).
  360. Wakimoto BT, Hearn MG: The effects of chromosome rearrangements on the expression of heterochromatic genes in chromosome 2L of Drosophila melanogaster. Genetics 125:141–154 (1990).
  361. Walter J, Sun L, Newport J: Regulated chromosomal DNA replication in the absence of a nucleus. Mol Cell 1:519–529 (1998).
  362. Wargent JM, Hartmann-Goldstein IJ: Replication behaviour and morphology of a rearranged chromosome region in Drosophila. Chromosomes Today 5:109–116 (1976).
  363. Waring M, Britten RJ: Nucleotide sequences repetition: a rapidly reassociating fraction of mouse DNA. Science 154:791–794 (1966).
  364. Watanabe Y, Tenzen T, Nagasaka Y, Inoko H, Ikemura T: Replication timing of the human X-inactivation center (XIC) region: correlation with chromosome bands. Gene 252:163–172 (2000).
  365. Watanabe Y, Fujiyama A, Ichiba Y, Hattori M, Yada T, Sakaki Y, Ikemura T: Chromosome-wide assessment of replication timing for human chromosomes 11q and 21q: disease-related genes in timing-switch regions. Hum Mol Genet 11:13–21 (2002).
  366. Waterston RH, Lindblad-Toh K, Birney E, Rogers J, et al: Initial sequencing and comparative analysis of the mouse genome. Nature 420:520–562 (2002).
  367. Wei X, Samarabandu J, Devdhar RS, Siegel AJ, Acharya R, Berezney R: Segregation of transcription and replication sites into higher order domains. Science 281:1502–1506 (1998).
  368. Weiler KS, Wakimoto BT: Heterochromatin and gene expression in Drosophila. Annu Rev Genet 29:577–605 (1995).
  369. Weiner BM, Kleckner N: Chromosome pairing via multiple interstitial interactions before and during meiosis in yeast. Cell 77:977–991 (1994).
  370. Weintraub H: Assembly and propagation of repressed and depressed chromosomal states. Cell 42:705–711 (1985).
  371. West AG, Fraser P: Remote control of gene transcription. Hum Mol Genet 14 Spec No 1:R101–R111 (2005).
  372. Wienberg J, Stanyon R: Comparative painting of mammalian chromosomes. Curr Opin Genet Dev 7:784–791 (1997).
  373. Wong LH, Choo KH: Evolutionary dynamics of transposable elements at the centromere. Trends Genet 20:611–616 (2004).
  374. Woodfine K, Fiegler H, Beare DM, Collins JE, McCann OT, Young BD, Debernardi S, Mott R, Dunham I, Carter NP: Replication timing of the human genome. Hum Mol Genet 13:191–202 (2004).
  375. Wu T-C, Lichten M: Meiosis-induced double-strand break sites determined by yeast chromatin structure. Science 263:515–518 (1994).
  376. Wu T-C, Lichten M: Factors that affect the location and frequency of meiosis-induced double-strand breaks in Saccharomyces cerevisiae. Genetics 140:55–66 (1995).
  377. Xiong Z, Tsark W, Singer-Sam J, Riggs AD: Differential replication timing of X-linked genes measured by a novel method using single-nucleotide primer extension. Nucleic Acids Res 26:684–686 (1998).
  378. Xu L, Kleckner N: Sequence non-specific double strand breaks and interhomolog interactions prior to double strand break formation at a meiotic recombination hotspot in yeast. EMBO J 14:5115–5128 (1995).
  379. Yan H, Chen CY, Kobayashi R, Newport J: Replication focus-forming activity 1 and the Werner syndrome gene product. Nat Genet 19:375–378 (1998).
  380. Yang F, Alkalaeva EZ, Perelman PL, Pardini AT, Harrison WR, O’Brien PC, Fu B, Graphodatsky AS, Ferguson-Smith MA, Robinson TJ: Reciprocal chromosome painting among human, aardvark, and elephant (superorder Afrotheria) reveals the likely eutherian ancestral karyotype. Proc Natl Acad Sci USA 100:1062–1066 (2003).
  381. Yoda K, Ando S, Morishita S, Houmura K, Hashimoto K, Takeyasu K, Okazaki T: Human centromere protein A (CENP-A) can replace histone H3 in nucleosome reconstitution in vitro. Proc Natl Acad Sci USA 97:7266–7271 (2000).
  382. Yoshida K, Kondoh G, Matsuda Y, Habu T, Nishimune Y, Marita T: The mouse RecA-like gene Dmc1 is required for homologous chromosome synapsis during meiosis. Molec Cell 1:707–718 (1998).
  383. Zhimulev IF, Belyaeva ES, Bolshakov VN, Mal’ceva NI: position-effect variegation and intercalary heterochromatin: a comparitive study. Chromosoma 98:378–387 (1989).
  384. Ziegler CG, Lamatsch DK, Steinlein C, Engel W, Schartl M, Schmid M: The giant B chromosome of the cyprinid fish Alburnus alburnus harbours a retrotransposon-derived repetitive DNA sequence. Chromosome Res 11:23–35 (2003).
  385. Zink D, Cremer T, Saffrich R, Fischer R, Trendelenburg MF, Ansorge W, Stelzer EH: Structure and dynamics of human interphase chromosome territories in vivo. Hum Genet 102:241–251 (1998).
  386. Zink D, Bornfleth H, Visser A, Cremer C, Cremer T: Organization of early and late replicating DNA in human chromosome territories. Exp Cell Res 247:176–88 (1999).
  387. Zuckerkandl E, Pauling L: Molecules as documents of evolutionary history. J Theoret Biol 8:357–366 (1965).

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