Two large-scale analyses of Ty1 LTR-retrotransposon de novo insertion events indicate that Ty1 targets nucleosomal DNA near the H2A/H2B interface

Mobile DNA

Volumn 3, Issue 1, 2012, Pages

  Bridier Nahmias, Antoine ^a,b,c   Lesage, Pascale ^a,b,c  

^a CNRS   (France)

^b Institut Universitaire d'Hématologie   (France)

^c UNIVERSITÉ PARIS DESCARTES   (France)

Author keywords

Large scale analysis; LTR retrotransposon; Selective integration; Ty1

Indexed keywords

DNA; HISTONE H2A; HISTONE H2B; TRANSFER RNA;

CENTROMERE; CHROMATIN STRUCTURE; GENE; GENE INSERTION; GENETIC TRANSCRIPTION; HIGH THROUGHPUT SEQUENCING; HUMAN IMMUNODEFICIENCY VIRUS 1; NONHUMAN; NUCLEOSOME; PRIORITY JOURNAL; PUBLICATION; RETROPOSON; RETROVIRUS; REVIEW; RNA GENE; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES POMBE; TELOMERE; TY1 GENE; VIRUS DNA CELL DNA INTERACTION;

EID: 84872420879     PISSN: None     EISSN: 17598753     Source Type: Journal    
DOI: 10.1186/1759-8753-3-22     Document Type: Review

References (17)

1. Chromosomal tethering and proviral integration. Delelis O, Zamborlini A, Thierry S, Saib A, Biochim Biophys Acta 2010 1799 207 216 10.1016/j.bbagrm.2009. 08.005 19683084
2. The Brf and TATA-binding protein subunits of the RNA polymerase III transcription factor IIIB mediate position-specific integration of the gypsy-like element, Ty3. Yieh L, Kassavetis G, Geiduschek EP, Sandmeyer SB, J Biol Chem 2000 275 29800 29807 10.1074/jbc.M003149200 10882723 (Pubitemid 32043865)
3. Targeting of the yeast Ty5 retrotransposon to silent chromatin is mediated by interactions between integrase and Sir4p. Xie W, Gai X, Zhu Y, Zappulla DC, Sternglanz R, et al. Mol Cell Biol 2001 21 6606 6614 10.1128/MCB.21.19.6606-6614.2001 11533248 (Pubitemid 32927427)
4. Retrotransposon Tf1 is targeted to Pol II promoters by transcription activators. Leem YE, Ripmaster TL, Kelly FD, Ebina H, Heincelman ME, et al. Mol Cell 2008 30 98 107 10.1016/j.molcel.2008.02.016 18406330 (Pubitemid 351470148)
5. The lentiviral integrase binding protein LEDGF/p75 and HIV-1 replication. Engelman A, Cherepanov P, PLoS Pathog 2008 4 1000046 10.1371/journal.ppat. 1000046 18369482 (Pubitemid 351631084)
6. Evidence for transposition of dispersed repetitive DNA families in yeast. Cameron JR, Loh EY, Davis RW, Cell 1979 16 739 751 10.1016/0092-8674(79)90090-4 378399 (Pubitemid 9161325)
7. Ty1 and delta elements occur adjacent to several tRNA genes in yeast. Eigel A, Feldmann H, EMBO J 1982 1 1245 1250 6327259
8. Integration of the Yeast Retrotransposon Ty1 Is Targeted to Regions Upstream of Genes Transcribed by RNA-Polymerase-III. Devine SE, Boeke JD, Genes Dev 1996 10 620 633 10.1101/gad.10.5.620 8598291 (Pubitemid 26091772)
9. Local definition of Ty1 target preference by long terminal repeats and clustered tRNA genes. Bachman N, Eby Y, Boeke JD, Genome Res 2004 14 1232 1247 10.1101/gr.2052904 15197163 (Pubitemid 39029220)
10. TFIIIB subunit Bdp1p is required for periodic integration of the Ty1 retrotransposon and targeting of Isw2p to S. cerevisiae tDNAs. Bachman N, Gelbart ME, Tsukiyama T, Boeke JD, Genes Dev 2005 19 955 964 10.1101/gad.1299105 15833918 (Pubitemid 40548063)
11. Retrotransposon Ty1 integration targets specifically positioned asymmetric nucleosomal DNA segments in tRNA hotspots. Mularoni L, Zhou Y, Bowen T, Gangadharan S, Wheelan SJ, et al. Genome Res 2012 22 693 703 10.1101/gr.129460.111 22219510
12. A nucleosomal surface defines an integration hotspot for the Saccharomyces cerevisiae Ty1 retrotransposon. Baller JA, Gao J, Stamenova R, Curcio MJ, Voytas DF, Genome Res 2012 22 704 713 10.1101/gr.129585.111 22219511
13. High-throughput sequencing of retrotransposon integration provides a saturated profile of target activity in Schizosaccharomyces pombe. Guo Y, Levin HL, Genome Res 2010 20 239 248 10.1101/gr.099648.109 20040583
14. Retrotransposon profiling of RNA polymerase III initiation sites. Qi X, Daily K, Nguyen K, Wang H, Mayhew D, et al. Genome Res 2012 22 681 692 10.1101/gr.131219.111 22287102
15. Retroviral integration site selection. Desfarges S, Ciuffi A, Viruses 2010 2 111 130 10.3390/v2010111 21994603
16. Access to DNA establishes a secondary target site bias for the yeast retrotransposon Ty5. Baller JA, Gao J, Voytas DF, Proc Natl Acad Sci U S A 2011 108 20351 20356 10.1073/pnas.1103665108 21788500
17. DNA transposon Hermes inserts into DNA in nucleosome-free regions in vivo. Gangadharan S, Mularoni L, Fain-Thornton J, Wheelan SJ, Craig NL, Proc Natl Acad Sci U S A 2010 107 21966 21972 10.1073/pnas.1016382107 21131571