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| Status |
Public on Nov 24, 2021 |
| Title |
RNA-Seq analysis of wild-type and ttpA-D450trx mutant D. discoideum amebae |
| Organism |
Dictyostelium discoideum |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
In many eukaryotes, mRNAs containing specific AU-rich motifs are regulated by proteins of the tristetraprolin (TTP) family, which bind to these motifs through a tandem zinc finger (TZF) domain. This binding leads to promotion of subsequent deadenylation and decay, partly through a conserved carboxyl-terminal CNOT1 binding domain. We explored the physiological role of the single TTP family member (TtpA) expressed in Dictyostelium discoideum. This study shows the effect of a carboxyl-terminal truncation (ttpA-D450trx), which removed the predicted CNOT1 binding domain, evaluated in amebae in growth medium during surface culture. The cells exhibited external and gene expression phenotypes that were very similar to those of two distinct null mutants, raising the possibility that this domain is necessary for TtpA-promoted mRNA decay in this species.
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| Overall design |
Dictyostelium discoideum amebae (strain AX3) were grown in normal growth medium under axenic conditions in plastic flasks until they were approximately 80% confluent. Four cultures of wild-type cells and four cultures of ttpA-D450trx cells were then frozen and used for RNA extraction and RNA-Seq analysis.
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| Contributor(s) |
Bai W, Wells ML, Burkholder AB, Perera L, Kimmel AR, Blackshear PJ |
| Citation(s) |
34718768 |
| |
| Submission date |
Aug 24, 2020 |
| Last update date |
Nov 24, 2021 |
| Contact name |
Melissa Wells |
| E-mail(s) |
wellsme@niehs.nih.gov
|
| Phone |
919-541-7867
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| Organization name |
NIEHS
|
| Department |
LST
|
| Street address |
111 TW Alexander Drive
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27103 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL26668 |
Illumina NovaSeq 6000 (Dictyostelium discoideum) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE156813 |
RNA-Seq analysis of wild-type and mutant D. discoideum amebae |
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| Relations |
| BioProject |
PRJNA659063 |
| SRA |
SRP278684 |
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