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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Aug 04, 2023 |
| Title |
Genome-wide maps of GFPyTBP (ChIP-seq) in yeast kap114-KO SC1005 strains |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Multiple nuclear transport receptors, collectively termed karyopherins in yeast, deliver TATA-binding protein (TBP) to the nucleus, facilitating promoter recognition and transcriptional preinitiation complex formation. Among these karyopherins, Kap114p exhibits a sub-nanomolar affinity for yeast TBP (yTBP), four orders of magnitude greater than its counterparts. We hypothesize that the strong binding affinity of Kap114p toward yTBP going beyond what is required for nuclear import facilitates additional functions. Here we employ ChIP-seq assays to profile genome-wide maps of yTBP (through an GFP tag) in yeast kap114-knockout SC1005 strains rescued without or with kap114 wildtype or Δ(899–956) mutant. Our results showed that Kap114p serves as a yTBP suppressor in the transcriptional regulatory network. Importantly, the Kap114p-dependent sequestration prevents a collapse of yTBP dynamics, required for yeast respondding to environmental stresses (e.g. salt stress).
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| Overall design |
Genome-wide binding/occupancy profiling of GFPyTBP by ChIP-seq in yeast kap114-KO SC1005 strains (rescued without or with Kap114 wildtype or Δ(899–956) mutant)
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| Contributor(s) |
Chen W |
| Citation(s) |
37684250 |
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| Submission date |
Nov 02, 2022 |
| Last update date |
Sep 21, 2023 |
| Contact name |
Wei-Yi Chen |
| E-mail(s) |
chenwy@nycu.edu.tw
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| Phone |
+886-2-2826-7328
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| Organization name |
National Yang Ming Chiao Tung University
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| Department |
Institute of Biochemistry and Molecular Biology
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| Street address |
No. 155, Sec 2, Linong St.
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| City |
Taipei |
| ZIP/Postal code |
112 |
| Country |
Taiwan |
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| Platforms (1) |
| GPL19756 |
Illumina NextSeq 500 (Saccharomyces cerevisiae) |
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| Samples (15)
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| GSM6705737 |
kap114-KO, SC1005, Input DNA, Exp1 |
| GSM6705738 |
kap114-KO, SC1005, reKap114WT, Input DNA, Exp1 |
| GSM6705739 |
kap114-KO, SC1005, GFPyTBP, TBPChIP, Exp1 |
| GSM6705740 |
kap114-KO, SC1005, GFPyTBP, TBPChIP, Salt, Exp1 |
| GSM6705741 |
kap114-KO, SC1005, reKap114WT, GFPyTBP, TBPChIP, Exp1 |
| GSM6705742 |
kap114-KO, SC1005, reKap114WT, GFPyTBP, TBPChIP, Salt, Exp1 |
| GSM6705743 |
kap114-KO, SC1005, reKap114delta, GFPyTBP, TBPChIP, Exp1 |
| GSM6705744 |
kap114-KO, SC1005, reKap114delta, GFPyTBP, TBPChIP, Salt, Exp1 |
| GSM7210742 |
ka114-KO_SC1005_Input_DNA_Exp2 |
| GSM7210743 |
ka114-KO_SC1005_GFPyTBP_TBPChIP_Exp2 |
| GSM7210744 |
ka114-KO_SC1005_GFPyTBP_TBPChIP_Salt_Exp2 |
| GSM7210745 |
ka114-KO_SC1005_reKap114WT_GFPyTBP_TBPChIP_Exp2 |
| GSM7210746 |
ka114-KO_SC1005_reKap114WT_GFPyTBP_TBPChIP_Salt_Exp2 |
| GSM7210747 |
ka114-KO_SC1005_reKap114delta_GFPyTBP_TBPChIP_Exp2 |
| GSM7210748 |
ka114-KO_SC1005_reKap114delta_GFPyTBP_TBPChIP_Salt_Exp2 |
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| Relations |
| BioProject |
PRJNA897019 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE217150_RAW.tar |
396.0 Mb |
(http)(custom) |
TAR (of BEDGRAPH) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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