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| Status |
Public on Nov 17, 2024 |
| Title |
The amniote-conserved DNA-binding domain of CGGBP1 restricts cytosine methylation of transcription factor binding sites in proximal promoters to regulate gene expression (HTS) |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
Truncated forms of CGGBP1 with (N-term) or without (C-term) the DNA-binding domain (DBD) have been used to to assay global cytosine methylation. HEK293T cells with endogenous CGGBP1 knocked down were used to over-express truncated forms of CGGBP1 followed by MeDIP-Seq analysis. Genome-wide analyses of cytosine methylation and binding of CGGBP1 DBD show that CGGBP1 restricts cytosine methylation in a manner that depends on its DBD and its DNA-binding. Our findings suggest that CGGBP1 protects transcription factor binding sites (TFBS) from cytosine methylation-associated loss. A superimposition of our results and evolution of CGGBP1 suggests that mitigation of cytosine methylation is majorly achieved by its N-terminal DBD. Our results position CGGBP1 DNA-binding as a major evolutionarily acquired mechanism through which it keeps cytosine methylation under check and regulates TFBS retention.
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| Overall design |
MeDIP-seq was performed on genomic DNA from HEK293T cells over-expressing Full-length CGGBP1 and N-term & C-term truncated forms of CGGBP1. ChIP-seq was performed on genomic DNA from HEK293T cells over-expressing N-term truncated form of CGGBP1.
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| Contributor(s) |
Morbia I, Kumar P, Satish A, Datta S, Mudgal A, Singh U |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jun 13, 2024 |
| Last update date |
Nov 18, 2024 |
| Contact name |
Umashankar Singh |
| Organization name |
IIT Gandhinagar
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| Department |
Biological Sciences and Engineering
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| Lab |
HoMeCell Lab
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| Street address |
Acad Block 4 Room 317 IIT Gandhinagar Palaj
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| City |
Gandhinagar |
| State/province |
Gujarat |
| ZIP/Postal code |
382055 |
| Country |
India |
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| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA1123700 |
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