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| Status |
Public on Dec 03, 2021 |
| Title |
Canine DUXC isoforms and functional similarity to human DUX4 [ChIP-seq] |
| Organism |
Canis lupus familiaris |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Human DUX4 and mouse Dux transcription factors are normally expressed in the germ line and early embryonic cells where they activate the cleavage stage genes. The misexpression of DUX4 in skeletal muscles causes Facioscapulohumeral dystrophy (FSHD). In primates and rodents, DUX4 and Dux arose from retrotransposition of the mRNA from the ancestral intron-containing DUXC, which is not found in these species, and whether it has similar roles in the cleavage stage and FSHD as DUX4 and Dux are unknown. Here, we identified two isoforms of DUXC in canine testis tissues: One encodes the canonical double homeodomain (DUXC) similar to DUX4/Dux, and one contains an extra exon that disrupts the conserved amino-acid sequence of the first homeodomain (DUXC-ALT). We expressed DUXC and DUXC-ALT in canine skeletal muscle and found that the expression of DUXC induced retrotransposons and pluripotent programs similar to DUX4 and Dux, whereas DUXC-ALT did not robustly activate genes in these assays.
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| Overall design |
We genereated ChIP-seq datasets of DUX4, DUXC, and DUXC-ALT expressed in cultured canine skeletal muscle and compared to negative control of Luciferase to identify the binding sites of these three transcription factors. The DUX4 and DUXC datasets were generated from monoclonal cell lines; the DUXC-ALT from polycolnal and luceferase from both monoclonal and polyclonal cell liens.
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| Contributor(s) |
Whiddon JL, Wong C, Langford AT, Belleville AE, Tapscott S |
| Citation(s) |
34888646 |
| |
| Submission date |
Nov 16, 2021 |
| Last update date |
Mar 04, 2022 |
| Contact name |
Stephen Tapscott |
| E-mail(s) |
stapscot@fredhutch.org
|
| Organization name |
Fred Hutch Cancer Research Center
|
| Department |
Human Biology
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| Lab |
Tapscott
|
| Street address |
1100 Fairview N. Ave
|
| City |
Seattle |
| State/province |
WASHINGTON |
| ZIP/Postal code |
98103 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL20988 |
Illumina HiSeq 2500 (Canis lupus familiaris) |
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| Samples (5)
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| This SubSeries is part of SuperSeries: |
| GSE188928 |
Canine DUXC isoforms and functional similarity to human DUX4 |
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| Relations |
| BioProject |
PRJNA780790 |
| SRA |
SRP346332 |
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