Determination of the chromatin domain structure in arrayed repeat regions: Organization of the somatic 5S RNA domain during embryogenesis in Xenopus laevis

Journal of Cellular Biochemistry

Volumn 102, Issue 5, 2007, Pages 1140-1148

  Hair, Alan ^a,b   Vassetzky, Yegor ^a,c  

^a UMR 8126   (France)

^b UNIVERSITY OF GLASGOW   (United Kingdom)

^c NONE   (France)

Author keywords

5S DNA; Nuclear matrix; Transcription; Xenopus

Indexed keywords

REPETITIVE DNA; RNA 5S;

ANIMAL CELL; ANIMAL TISSUE; ARTICLE; BLASTULA; CELL NUCLEUS MATRIX; CHROMATIN STRUCTURE; CORRELATION ANALYSIS; EMBRYO; EMBRYO DEVELOPMENT; GENE CLUSTER; GENETIC TRANSCRIPTION; NONHUMAN; PRIORITY JOURNAL; XENOPUS LAEVIS;

ANIMALS; CHROMATIN; DNA, RIBOSOMAL; EMBRYO, NONMAMMALIAN; EMBRYONIC DEVELOPMENT; FEMALE; NUCLEAR MATRIX; NUCLEIC ACID CONFORMATION; PREGNANCY; PROTEIN STRUCTURE, TERTIARY; RNA, RIBOSOMAL, 5S; SENSITIVITY AND SPECIFICITY; TRANSCRIPTION, GENETIC; XENOPUS;

XENOPUS LAEVIS;

EID: 36849048348     PISSN: 07302312     EISSN: 10974644     Source Type: Journal    
DOI: 10.1002/jcb.21413     Document Type: Article

References (29)

1. Buongiorno-Nardelli M, Micheli G, Carri MT, Marilley M. 1982. A relationship between replicon size and supercoiled loop domains in the eukaryotic genome. Nature 298:100-102.
2. Ciejek EM, Tsai MJ, O'Malley BW. 1983. Actively transcribed genes are associated with the nuclear matrix. Nature 306:607-609.
3. Cockerill PN, Garrard WT. 1986. Chromosomal loop anchorage of the kappa immunoglobulin gene occurs next to the enhancer in a region containing topoisomerase II sites. Cell 44:273-282.
4. Cook PR, Brazell IA. 1980. Mapping sequences in loops of nuclear DNA by their progressive detachment from the nuclear cage. Nucleic Acids Res 8:2895-2906.
5. Gasser SM, Laemmli UK. 1986. The organization of chromatin loops: Characterization of a scaffold attachment site. EMBO J 5:511-518.
6. Gasser SM, Vassetzky YS. 1998. Analysis of nuclear scaffold attachment regions. In: Gould H, editor. Chromatin: A practical approach. Oxford: Oxford University Press. pp 111-124.
7. Girard-Reydet C, Gregoire D, Vassetzky Y, Mechali M. 2004. DNA replication initiates at domains overlapping with nuclear matrix attachment regions in the xenopus and mouse c-myc promoter. Gene 332:129-138.
8. Gorski K, Carneiro M, Schibler U. 1986. Tissue-specific in vitro transcription from the mouse albumin promoter. Cell 47:767-776.
9. Harper ME, Price J, Korn LJ. 1983. Chromosomal mapping of Xenopus 5S genes: Somatic-type versus oocyte-type. Nucleic Acids Res 11:2313-2323.
10. Hyrien O, Marie C, Mechali M. 1995. Transition in specification of embryonic metazoan DNA replication origins. Science gi:994-997.
11. Jackson DA. 1997. Chromatin domains and nuclear compartments: Establishing sites of gene expression in eukaryotic nuclei. Mol Biol Rep 24:209-220.
12. Jackson DA, Dickinson P, Cook PR. 1990. The size of chromatin loops in HeLa cells. EMBO J 9:567-571.
13. Jenke AC, Stehle IM, Herrmann F, Eisenberger T, Baiker A, Bode J, Fackelmayer FO, Lipps HJ. 2004. Nuclear scaffold/matrix attached region modules linked to a transcription unit are sufficient for replication and maintenance of a mammalian episome. Proc Natl Acad Sci USA 101:11322-11327.
14. Jerzmanowski A, Cole RD. 1990. Flanking sequences of Xenopus 5 S RNA genes determine differential inhibition of transcription by H1 histone in vitro. Mitotic phosphorylation of H1 decreases its inhibitory power. J Biol Chem 265:10726-10732.
15. Jun S, Herrick J, Bensimon A, Bechhoefer J. 2004. Persistence length of chromatin determines origin spacing in Xenopus early-embryo DNA replication: Quantitative comparisons between theory and experiment. Cell Cycle 3:223-229.
16. Klaus AV, McCarrey JR, Farkas A, Ward WS. 2001. Changes in DNA loop domain structure during spermatogenesis and embryogenesis in the Syrian golden hamster. Biol Reprod 64:1297-1306.
17. Lemaitre JM, Geraud G, Mechali M. 1998. Dynamics of the genome during early Xenopus laevis development: Karyomeres as independent units of replication. J Cell Biol 142:1159-1166.
18. Lemaitre JM, Danis E, Pasero P, Vassetzky Y, Mechali M. 2005. Mitotic remodeling of the replicon. Cell 123:787-801.
19. Marilley M, Gassend-Bonnet G. 1989. Supercoiled loop organization of genomic DNA: A close relationship between loop domains, expression units, and replicon organization in rDNA from Xenopus laevis. Exp Cell Res 180:475-489.
20. Mirkovitch J, Mirault ME, Laemmli UK. 1984. Organization of the higher-order chromatin loop: Specific DNA attachment sites on nuclear scaffold. Cell 39:223-232.
21. Nadel B, de Lara J, Finkernagel SW, Ward WS. 1995. Cell-specific organization of the 5S ribosomal RNA gene cluster DNA loop domains in spermatozoa and somatic cells. Biol Reprod 53:1222-1228.
22. Peterson RC, Doering JL, Brown DD. 1980. Characterization of two xenopus somatic 5S DNAs and one minor oocyte-specific 5S DNA. Cell 20:131-141.
23. Razin SV, Kekelidze MG, Lukanidin EM, Scherrer K, Georgiev GP. 1986. Replication origins are attached to the nuclear skeleton. Nucleic Acids Res 14:8189-8207.
24. Roberge M, Dahmus ME, Bradbury EM. 1988. Chromosomal loops/nuclear matrix organization of transcriptionally active and inactive RNA polymerases in HeLa nuclei. J Mol Biol 201:545-555.
25. Stein GS, van Wijnen AJ, Stein JL, Lian JB. 1999. Interrelationships of transcriptional machinery with nuclear architecture. Crit Rev Eukaryot Gene Expr 9:183-190.
26. van der Velden HM, van Willigen G, Wetzeis RH, Wanka F. 1984. Attachment of origins of replication to the nuclear matrix and the chromosomal scaffold. FEBS Lett 171:13-16.
27. Vassetzky Y, Hair A, Mechali M. 2000a. Rearrangement of chromatin domains during development in Xenopus. Genes Dev 14:1541-1552.
28. Vassetzky Y, Lemaitre JM, Mechali M. 2000b. Specification of chromatin domains and regulation of replication and transcription during development. Crit Rev Eukaryot Gene Expr 10:31-38.
29. Verheggen C, Le Panse S, Almouzni G, Hernandez-Verdun D. 1998. Presence of pre-rRNAs before activation of polymerase I transcription in the building process of nucleoli during early development of Xenopus laevis. J Cell Biol 142:1167-1180.