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| Status |
Public on Jul 10, 2017 |
| Title |
PAR-TERRA RNA directs homologous sex chromosome pairing |
| Organism |
Mus musculus |
| Experiment type |
Other
Expression profiling by high throughput sequencing
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| Summary |
In mammals, homologous chromosomes rarely pair outside meiosis. One exception is the X chromosome, which transiently pairs during X-chromosome inactivation (XCI). How two chromosomes find each other in 3D space is not known. Here, we reveal a required interaction between the X-inactivation center (Xic) and the telomere in mouse embryonic stem (ES) cells. The subtelomeric, pseudoautosomal regions (PARs) of the two sex chromosomes (X and Y) also undergo pairing in both female and male cells. PARs transcribe a class of telomeric RNA, dubbed PAR-TERRA, which accounts for a vast majority of all TERRA transcripts. PAR-TERRA binds throughout the genome, including to the PAR and Xic. During X-chromosome pairing, PAR-TERRA anchors the Xic to the PAR, creating a ‘tetrad’ of pairwise homologous interactions (Xic–Xic, PAR–PAR, and Xic–PAR). Xic pairing occurs within the tetrad. Depleting PAR-TERRA abrogates pairing and blocks initiation of XCI, whereas autosomal PAR-TERRA induces ectopic pairing. We propose a ‘constrained diffusion model’ in which PAR-TERRA creates an interaction hub to guide Xic homology searching during XCI.
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| Overall design |
Identify genome-wide binding sites for TERRA RNA by CHIRT-seq in ES cells and MEFs. TERRA capture RNA-seq to discover TERRA sequence.
Investigation of PAR-interacting domains using 4C-Seq.
Please note that GSM2429690-93 are duplicated sample records of GSM1711915-18, respectively, for the convenient retrieval of the complete raw data from SRA.
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| Contributor(s) |
Chu HP, Froberg JE, Kesner B, Oh HJ, Pinter SF, Ji F, Sadreyev R, Lee JT |
| Citation(s) |
28692038 |
| Submission date |
Jun 15, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Hsueh-Ping Chu |
| Organization name |
MGH, Harvard Medical School
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| Department |
molecular biology
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| Lab |
Jeannie T. Lee
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| Street address |
185 Cambridge St
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| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02114 |
| Country |
USA |
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| Platforms (2) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL16417 |
Illumina MiSeq (Mus musculus) |
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| Samples (25)
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| Relations |
| BioProject |
PRJNA287027 |
| SRA |
SRP059505 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE69887_RAW.tar |
5.9 Gb |
(http)(custom) |
TAR (of BW, WIG) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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