Clustered transcripts that escape X inactivation at mouse XqD

Mammalian Genome

Volumn 22, Issue 9-10, 2011, Pages 572-582

  Lopes, Alexandra M ^a   Arnold Croop, Sarah E ^b   Amorim, António ^a   Carrel, Laura ^b  

^a UNIVERSITY OF PORTO   (Portugal)

^b PENN STATE COLLEGE OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL EXPERIMENT; ANIMAL GENETICS; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; CPG ISLAND; CXORF26 GENE; DDX3X GENE; EIF2S3X GENE; EXON; FEMALE; GENE; GENE CLUSTER; GENE EXPRESSION; GENE MAPPING; GENETIC ANALYSIS; GENETIC CODE; GENETIC TRANSCRIPTION; KDM5C GENE; MOUSE; NONHUMAN; X CHROMOSOME INACTIVATION;

ALLELES; ANIMALS; CELL LINE; CHROMATIN; DNA METHYLATION; FEMALE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; MICE; POLYMORPHISM, SINGLE NUCLEOTIDE; PROMOTER REGIONS, GENETIC; RNA, UNTRANSLATED; SEQUENCE ANALYSIS, DNA; TRANSCRIPTION, GENETIC; X CHROMOSOME; X CHROMOSOME INACTIVATION;

MAMMALIA;

EID: 80054758182     PISSN: 09388990     EISSN: 14321777     Source Type: Journal    
DOI: 10.1007/s00335-011-9350-6     Document Type: Article

References (47)

1. C Anderson C Brown 2005 Epigenetic predisposition to expression of TIMP1 from the human inactive X chromosome BMC Genet 6 48 16194278 10.1186/1471-2156-6-48 (Pubitemid 41554906)
2. JB Berletch F Yang CM Disteche 2010 Escape from X inactivation in mice and humans Genome Biol 11 213 20573260
3. N Brockdorff A Ashworth GF Kay VM McCabe DP Norris PJ Cooper S Swift S Rastan 1992 The product of the mouse Xist gene is a 15 kb inactive X-specific transcript containing no conserved ORF and located in the nucleus Cell 71 515 526 1423610 10.1016/0092-8674(92)90519-I 1:CAS:528:DyaK3sXisVyrs7k%3D
4. CJ Brown BD Hendrich JL Rupert RG Lafreniere Y Xing J Lawrence HF Willard 1992 The human XIST gene: analysis of a 17 kb inactive X-specific RNA that contains conserved repeats and is highly localized within the nucleus Cell 71 527 542 1423611 10.1016/0092-8674(92)90520-M 1:CAS:528:DyaK3sXisVyrs7Y%3D
5. L Carrel H Willard 2005 X-inactivation profile reveals extensive variability in X-linked gene expression in females Nature 434 400 404 15772666 10.1038/nature03479 1:CAS:528:DC%2BD2MXit1yqsrY%3D (Pubitemid 40469185)
6. L Carrel P Hunt H Willard 1996 Tissue and lineage-specific variation in inactive X chromosome expression of the murine Smcx gene Hum Mol Genet 5 1361 1366 8872478 10.1093/hmg/5.9.1361 1:CAS:528:DyaK28XlsFyit7o%3D (Pubitemid 26335856)
7. L Carrel C Park S Tyekucheva J Dunn F Chiaromonte K Makova 2006 Genomic environment predicts expression patterns on the human inactive X chromosome PLoS Genet 2 e151 17009873 10.1371/journal.pgen.0020151 (Pubitemid 44504798)
8. J Chaumeil P Le Baccon A Wutz E Heard 2006 A novel role for Xist RNA in the formation of a repressive nuclear compartment into which genes are recruited when silenced Genes Dev 20 2223 2237 16912274 10.1101/gad.380906 1:CAS:528:DC%2BD28XoslWqu7g%3D
9. JC Chow C Ciaudo MJ Fazzari N Mise N Servant JL Glass M Attreed P Avner A Wutz E Barillot JM Greally O Voinnet E Heard 2010 LINE-1 activity in facultative heterochromatin formation during X chromosome inactivation Cell 141 956 969 20550932 10.1016/j.cell.2010.04.042 1:CAS:528:DC%2BC3cXnvValt7g%3D
10. C Chureau S Chantalat A Romito A Galvani L Duret P Avner C Rougeulle 2011 Ftx is a non-coding RNA which affects Xist expression and chromatin structure within the X-inactivation center region Hum Mol Genet 20 705 718 21118898 10.1093/hmg/ddq516 1:CAS:528:DC%2BC3MXpsFygtQ%3D%3D
11. D Ciavatta S Kalantry T Magnuson O Smithies 2006 A DNA insulator prevents repression of a targeted X-linked transgene but not its random or imprinted X inactivation Proc Natl Acad Sci USA 103 9958 9963 16777957 10.1073/pnas. 0603754103 1:CAS:528:DC%2BD28XmvVajtbg%3D (Pubitemid 43993605)
12. CM Clemson JA McNeil HF Willard JB Lawrence 1996 XIST RNA paints the inactive X chromosome at interphase: evidence for a novel RNA involved in nuclear/chromosome structure J Cell Biol 132 259 275 8636206 10.1083/jcb.132.3.259 1:CAS:528:DyaK28XpsVaqsQ%3D%3D (Pubitemid 26052564)
13. R Cordaux MA Batzer 2009 The impact of retrotransposons on human genome evolution Nat Rev Genet 10 691 703 19763152 10.1038/nrg2640 1:CAS:528: DC%2BD1MXhtFCqurjM
14. C Disteche 1995 Escape from X inactivation in human and mouse Trends Genet 11 17 22 7900190 10.1016/S0168-9525(00)88981-7 1:CAS:528: DyaK2MXjtFGjtbs%3D
15. C Disteche 1999 Escapees on the X chromosome Proc Natl Acad Sci USA 96 14180 14182 10588671 10.1073/pnas.96.25.14180 1:CAS:528:DyaK1MXnvFKltrY%3D (Pubitemid 30000616)
16. C Disteche G Filippova K Tsuchiya 2002 Escape from X inactivation Cytogenet Genome Res 99 36 43 12900543 10.1159/000071572 1:STN:280: DC%2BD3szms1Smug%3D%3D (Pubitemid 37467822)
17. L Duret C Chureau S Samain J Weissenbach P Avner 2006 The Xist RNA gene evolved in eutherians by pseudogenization of a protein-coding gene Science 312 1653 1655 16778056 10.1126/science.1126316 1:CAS:528:DC%2BD28XlsFeqtLs%3D (Pubitemid 43902664)
18. I Ehrmann P Ellis S Mazeyrat S Duthie N Brockdorff M Mattei M Gavin N Affara G Brown E Simpson M Mitchell D Scott 1998 Characterization of genes encoding translation initiation factor eIF-2gamma in mouse and human: sex chromosome localization, escape from X-inactivation and evolution Hum Mol Genet 7 1725 1737 9736774 10.1093/hmg/7.11.1725 1:CAS:528:DyaK1cXmsVOgsLw%3D (Pubitemid 28464147)
19. EA Elisaphenko NN Kolesnikov AI Shevchenko IB Rogozin TB Nesterova N Brockdorff SM Zakian 2008 A dual origin of the Xist gene from a protein-coding gene and a set of transposable elements PLoS One 3 e2521 18575625 10.1371/journal.pone.0002521
20. GJ Faulkner Y Kimura CO Daub S Wani C Plessy KM Irvine K Schroder N Cloonan AL Steptoe T Lassmann K Waki N Hornig T Arakawa H Takahashi J Kawai ARR Forrest H Suzuki Y Hayashizaki DA Hume V Orlando SM Grimmond P Carninci 2009 The regulated retrotransposon transcriptome of mammalian cells Nat Genet 41 563 571 19377475 10.1038/ng.368 1:CAS:528:DC%2BD1MXks12ktb4%3D
21. G Filippova M Cheng J Moore J Truong Y Hu D Nguyen K Tsuchiya C Disteche 2005 Boundaries between chromosomal domains of X inactivation and escape bind CTCF and lack CpG methylation during early development Dev Cell 8 31 42 15669143 10.1016/j.devcel.2004.10.018 1:CAS:528:DC%2BD2MXot1Cntg%3D%3D (Pubitemid 40058003)
22. SM Gartler AD Riggs 1983 Mammalian X-chromosome inactivation Annu Rev Genet 17 155 190 6364959 10.1146/annurev.ge.17.120183.001103 1:CAS:528:DyaL2cXhtFyitr4%3D
23. Y Goto H Kimura 2009 Inactive X chromosome-specific histone H3 modifications and CpG hypomethylation flank a chromatin boundary between an X-inactivated and an escape gene Nucleic Acids Res 37 7416 7428 19843608 10.1093/nar/gkp860 1:CAS:528:DC%2BD1MXhsFyktrrK
24. A Greenfield L Carrel D Pennisi C Philippe N Quaderi P Siggers K Steiner P Tam A Monaco H Willard P Koopman 1998 The UTX gene escapes X inactivation in mice and humans Hum Mol Genet 7 737 742 9499428 10.1093/hmg/7.4.737 1:CAS:528:DyaK1cXisVCisbc%3D (Pubitemid 28152273)
25. K Jegalian DC Page 1998 A proposed path by which genes common to mammalian X and Y chromosomes evolve to become X inactivated Nature 394 776 780 9723615 10.1038/29522 1:CAS:528:DyaK1cXlslegs74%3D (Pubitemid 28391640)
26. P Kalitsis R Saffery 2009 Inherent promoter bidirectionality facilitates maintenance of sequence integrity and transcription of parasitic DNA in mammalian genomes BMC Genomics 10 498 19860919 10.1186/1471-2164-10-498
27. MV Koerner FM Pauler R Huang DP Barlow 2009 The function of non-coding RNAs in genomic imprinting Development 136 1771 1783 19429783 10.1242/dev.030403 1:CAS:528:DC%2BD1MXot1aktLs%3D
28. J Lee LS Davidow D Warshawsky 1999 Tsix, a gene antisense to Xist at the X-inactivation centre Nat Genet 21 400 404 10192391 10.1038/7734 1:CAS:528:DyaK1MXitFKrs7c%3D (Pubitemid 29159577)
29. N Li L Carrel 2008 Escape from X chromosome inactivation is an intrinsic property of the Jarid1c locus Proc Natl Acad Sci USA 105 17055 17060 18971342 10.1073/pnas.0807765105 1:CAS:528:DC%2BD1cXhtlKlsr7N
30. A Lopes P Burgoyne A Ojarikre J Bauer C Sargent A Amorim N Affara 2010 Transcriptional changes in response to X chromosome dosage in the mouse: implications for X inactivation and the molecular basis of Turner Syndrome BMC Genomics 11 82 20122165 10.1186/1471-2164-11-82
31. M Lyon 1998 X-chromosome inactivation: a repeat hypothesis Cytogenet Cell Genet 80 133 137 9678347 10.1159/000014969 1:STN:280:DyaK1czktFCrtQ%3D%3D (Pubitemid 28330373)
32. H Marks J Chow S Denissov K Françoijs N Brockdorff E Heard H Stunnenberg 2009 High-resolution analysis of epigenetic changes associated with X inactivation Genome Res 19 1361 1373 19581487 10.1101/gr.092643.109 1:CAS:528:DC%2BD1MXpvFOntLo%3D
33. TR Mercer ME Dinger JS Mattick 2009 Long non-coding RNAs: insights into functions Nat Rev Genet 10 155 159 19188922 10.1038/nrg2521 1:CAS:528: DC%2BD1MXhvFGlu7k%3D
34. B Payer J Lee 2008 X chromosome dosage compensation: how mammals keep the balance Annu Rev Genet 42 733 772 18729722 10.1146/annurev.genet.42.110807. 091711 1:CAS:528:DC%2BD1cXhsFemtbvE
35. GD Penny GF Kay SA Sheardown S Rastan N Brockdorff 1996 Requirement for Xist in X chromosome inactivation Nature 379 131 137 8538762 10.1038/379131a0 1:CAS:528:DyaK28Xktl2lsg%3D%3D (Pubitemid 26020194)
36. P Polak E Domany 2006 Alu elements contain many binding sites for transcription factors and may play a role in regulation of developmental processes BMC Genomics 7 133 16740159 10.1186/1471-2164-7-133 (Pubitemid 44110475)
37. B Reinius C Shi L Hengshuo K Sandhu K Radomska G Rosen L Lu K Kullander R Williams E Jazin 2010 Female-biased expression of long non-coding RNAs in domains that escape X-inactivation in mouse BMC Genomics 11 614 21047393 10.1186/1471-2164-11-614
38. S Sheardown D Norris A Fisher N Brockdorff 1996 The mouse Smcx gene exhibits developmental and tissue specific variation in degree of escape from X inactivation Hum Mol Genet 5 1355 1360 8872477 10.1093/hmg/5.9.1355 1:CAS:528:DyaK28XlsFyit7w%3D (Pubitemid 26335855)
39. M Speek 2001 Antisense promoter of human L1 retrotransposon drives transcription of adjacent cellular genes Mol Cell Biol 21 1973 1985 11238933 10.1128/MCB.21.6.1973-1985.2001 1:CAS:528:DC%2BD3MXjslWht7o%3D (Pubitemid 32479621)
40. Z Talebizadeh S Simon M Butler 2006 X chromosome gene expression in human tissues: male and female comparisons Genomics 88 675 681 16949791 10.1016/j.ygeno.2006.07.016 1:CAS:528:DC%2BD28Xht1Wnu7bE (Pubitemid 44739205)
41. N Trinklein S Aldred S Hartman D Schroeder R Otillar R Myers 2004 An abundance of bidirectional promoters in the human genome Genome Res 14 62 66 14707170 10.1101/gr.1982804 1:CAS:528:DC%2BD2cXlvVGmsw%3D%3D (Pubitemid 38088526)
42. K Tsuchiya J Greally Y Yi K Noel J Truong C Disteche 2004 Comparative sequence and X-inactivation analyses of a domain of escape in human xp11.2 and the conserved segment in mouse Genome Res 14 1275 1284 15197169 10.1101/gr.2575904 1:CAS:528:DC%2BD2cXlvFWjtrw%3D (Pubitemid 39029224)
43. Z Wang H Willard S Mukherjee T Furey 2006 Evidence of influence of genomic DNA sequence on human X chromosome inactivation PLoS Comput Biol 2 e113 16948528 10.1371/journal.pcbi.0020113 (Pubitemid 44495714)
44. PD Waters G Dobigny PJ Waddell TJ Robinson 2007 Evolutionary history of LINE-1 in the major clades of placental mammals PLoS One 2 e158 17225861 10.1371/journal.pone.0000158
45. Y Yamada H Watanabe F Miura H Soejima M Uchiyama T Iwasaka T Mukai Y Sakaki T Ito 2004 A comprehensive analysis of allelic methylation status of CpG islands on human chromosome 21q Genome Res 14 247 266 14762061 10.1101/gr.1351604 1:CAS:528:DC%2BD2cXhsFKhs78%3D (Pubitemid 38219838)
46. F Yang T Babak J Shendure CM Disteche 2010 Global survey of escape from X inactivation by RNA-sequencing in mouse Genome Res 20 614 622 20363980 10.1101/gr.103200.109 1:CAS:528:DC%2BC3cXlslyis7s%3D
47. ZC Yen IM Meyer S Karalic CJ Brown 2007 A cross-species comparison of X-chromosome inactivation in Eutheria Genomics 90 453 463 17728098 10.1016/j.ygeno.2007.07.002 1:CAS:528:DC%2BD2sXhtVKrur%2FO (Pubitemid 47404802)