Characterization of genome-nucleoporin interactions in Drosophila links chromatin insulators to the nuclear pore complex

Cell Cycle

Volumn 9, Issue 24, 2010, Pages 4812-4817

  Kalverda, Bernike ^a   Fornerod, Maarten ^a  

^a ERASMUS MEDICAL CENTER   (Netherlands)

Author keywords

Genome organization; Insulator; Nuclear pore complex; Nucleoporin; Su(Hw)

Indexed keywords

NUCLEOPORIN;

ARTICLE; CHROMATIN; CHROMATIN IMMUNOPRECIPITATION; DROSOPHILA; GENE INTERACTION; NONHUMAN; NUCLEAR PORE COMPLEX; PROTEIN INTERACTION;

EID: 78650350837     PISSN: 15384101     EISSN: 15514005     Source Type: Journal    
DOI: 10.4161/cc.9.24.14328     Document Type: Article

References (27)

1. Ahmed S, Brickner JH. Regulation and epigenetic control of transcription at the nuclear periphery. Trends Genet 2007; 23:396-402. (Pubitemid 47088012)
2. Akhtar A, Gasser SM. The nuclear envelope and transcriptional control. Nat Rev Genet 2007; 8:507-17.
3. Guelen L, Pagie L, Brasset E, Meuleman W, Faza MB, Talhout W, et al. Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions. Nature 2008; 453:948-51.
4. Pickersgill H, Kalverda B, de Wit E, Talhout W, Fornerod M, van Steensel B. Characterization of the Drosophila melanogaster genome at the nuclear lamina. Nat Genet 2006; 38:1005-14.
5. Rabut G, Doye V, Ellenberg J. Mapping the dynamic organization of the nuclear pore complex inside single living cells. Nat Cell Biol 2004; 6:1114-21. (Pubitemid 39468013)
6. Kalverda B, Pickersgill H, Shloma VV, Fornerod M. Nucleoporins directly stimulate expression of developmental and cell cycle genes inside the nucleoplasm. Cell 2010; 140; In press.
7. Capelson M, Liang Y, Schulte R, Mair W, Wagner U, Hetzer MW. Chromatin-bound nuclear pore components regulate gene expression in higher eukaryotes. Cell 2010; 140:372-83.
8. Taddei A. Active genes at the nuclear pore complex. Current Opinion in Cell Biology 2007; 19:305-10; http://www.ncbi.nlm.nih.gov/pubmed/17467257.
9. Blobel G. Gene gating: a hypothesis. Proc Natl Acad Sci USA 1985; 82:8527-9.
10. Brickner JH, Walter P. Gene recruitment of the activated INO1 locus to the nuclear membrane. PLoS Biol 2004; 2:342. (Pubitemid 40280482)
11. Casolari JM, Brown CR, Komili S, West J, Hieronymus H, Silver PA. Genome-wide localization of the nuclear transport machinery couples transcriptional status and nuclear organization. Cell 2004; 117:427-39. (Pubitemid 38610229)
12. Berger AB, Cabal GG, Fabre E, Duong T, Buc H, Nehrbass U, et al. High-resolution statistical mapping reveals gene territories in live yeast. Nat Methods 2008; 5:1031-7.
13. Kalverda B, Roling MD, Fornerod M. Chromatin organization in relation to the nuclear periphery. FEBS Lett 2008; 582:2017-22.
14. Brown CR, Kennedy CJ, Delmar VA, Forbes DJ, Silver PA. Global histone acetylation induces functional genomic reorganization at mammalian nuclear pore complexes. Genes Dev 2008; 22:627-39.
15. Cai HN, Shen P. Effects of cis arrangement of chromatin insulators on enhancer-blocking activity. Science 2001; 291:493-5. (Pubitemid 32097075)
16. Muravyova E, Golovnin A, Gracheva E, Parshikov A, Belenkaya T, Pirrotta V, et al. Loss of insulator activity by paired Su(Hw) chromatin insulators. Science 2001; 291:495-8. (Pubitemid 32097076)
17. Byrd K, Corces VG. Visualization of chromatin domains created by the gypsy insulator of Drosophila. J Cell Biol 2003; 162:565-74. (Pubitemid 37022935)
18. Bell AC, West AG, Felsenfeld G. Insulators and boundaries: versatile regulatory elements in the eukaryotic. Science 2001; 291:447-50. (Pubitemid 32097061)
19. Maeda RK, Karch F. Making connections: boundaries and insulators in Drosophila. Curr Opin Genet Dev 2007; 17:394-9. (Pubitemid 350016895)
20. Ishii K, Arib G, Lin C, Van Houwe G, Laemmli UK. Chromatin boundaries in budding yeast: the nuclear pore connection. Cell 2002; 109:551-62. (Pubitemid 34628719)
21. Gerasimova TI, Byrd K, Corces VG. A chromatin insulator determines the nuclear localization of DNA. Mol Cell 2000; 6:1025-35.
22. Kurshakova MM, Krasnov AN, Kopytova DV, Shidlovskii YV, Nikolenko JV, Nabirochkina EN, et al. SAGA and a novel Drosophila export complex anchor efficient transcription and mRNA export to NPC. EMBO J 2007; 26:4956-65.
23. Kurshakova M, Maksimenko O, Golovnin A, Pulina M, Georgieva S, Georgiev P, et al. Evolutionarily conserved E(y)2/Sus1 protein is essential for the barrier activity of Su(Hw)-dependent insulators in Drosophila. Mol Cell 2007; 27:332-8. (Pubitemid 47058301)
24. Bushey AM, Ramos E, Corces VG. Three subclasses of a Drosophila insulator show distinct and cell type-specific genomic distributions. Genes Dev 2009; 23:1338-50.
25. Jiang N, Emberly E, Cuvier O, Hart CM. Genome-wide mapping of boundary element-associated factor (BEAF) binding sites in Drosophila melanogaster links BEAF to transcription. Mol Cell Biol 2009; 29:3556-68.
26. Adryan B, Woerfel G, Birch-Machin I, Gao S, Quick M, Meadows L, et al. Genomic mapping of Suppressor of Hairy-wing binding sites in Drosophila. Genome Biol 2007; 8:167.
27. Bailey TL, Elkan C. Fitting a mixture model by expectation maximization to discover motifs in biopolymers. Proc Int Conf Intell Syst Mol Biol 1994; 2:28-36.