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RNA-Seq analysis of wild-type and ttpA-D450trx mutant D. discoideum amebae

ABSTRACT: RNA-Seq analysis of wild-type and ttpA-D450trx mutant D. discoideum amebae

PROVIDER: PRJNA659063 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12511504_1.fastq.gz	Fastqsanger.gz
	SRR12511504_2.fastq.gz	Fastqsanger.gz
	SRR12511505_1.fastq.gz	Fastqsanger.gz
	SRR12511505_2.fastq.gz	Fastqsanger.gz
	SRR12511506_1.fastq.gz	Fastqsanger.gz

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RNA-Seq analysis of wild-type and ttpA-D450trx mutant D. discoideum amebae

Project description: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.

2021-11-24 | GSE156810 | GEO

RNA-Seq analysis of wild-type and ttpA-C231S, ttpA-E236fsx, and ttpA-Y242fsx mutant D. discoideum amebae

Project description: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 three distinct putative null mutations in the ttpA gene on transcript expression in amebae in growth medium during surface culture under axenic conditions. The cells exhibited similar external and gene expression phenotypes, suggesting that they are all null mutants, despite two different types of mutations (two frame shifts and one amino acid substitution).

2021-11-24 | GSE156809 | GEO

RNA-Seq analysis of wild-type and ttpA-C240ins mutant D. discoideum amebae in surface and liquid growth

Project description: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 an insertional mutation within the TZF domain (ttpA-C240ins), which creates a null genotype, evaluated in amebae in growth medium during surface culture and liquid culture under axenic conditions. The mutant cells exhibited severe growth defects and a multinucleate phenotype during liquid culture, but not in surface culture.

2021-11-24 | GSE156812 | GEO

RNA-Seq analysis of wild-type and ttpA-C240ins mutant D. discoideum amebae during short-term nutrient deprivation

Project description: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 an insertional mutation in the TZF domain (ttpA-C240ins), which disrupted the TZF RNA binding domain, evaluated in amebae in axenic conditions in growth medium during surface culture, and during short term (2 and 6 hours) nutrient deprivation. RNA-Seq analysis was performed on WT and mutant cells in parallel during this short time course.

2021-11-24 | GSE156811 | GEO

RNA-Seq analysis of wild-type and ttpA-C231S, ttpA-E236fsx, and ttpA-Y242fsx mutant D. discoideum amebae

Project description:RNA-Seq analysis of wild-type and ttpA-C231S, ttpA-E236fsx, and ttpA-Y242fsx mutant D. discoideum amebae

| PRJNA659062 | ENA

RNA-Seq analysis of wild-type and ttpA-C240ins mutant D. discoideum amebae in surface and liquid growth

Project description:RNA-Seq analysis of wild-type and ttpA-C240ins mutant D. discoideum amebae in surface and liquid growth

| PRJNA659064 | ENA

RNA-Seq analysis of wild-type and ttpA-C240ins mutant D. discoideum amebae during short-term nutrient deprivation

Project description:RNA-Seq analysis of wild-type and ttpA-C240ins mutant D. discoideum amebae during short-term nutrient deprivation

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RNA-Seq analysis of wild-type and mutant D. discoideum amebae

Project description:RNA-Seq analysis of wild-type and mutant D. discoideum amebae

| PRJNA659060 | ENA

RNA-Seq analysis of wild-type and mutant D. discoideum amebae

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-11-24 | GSE156813 | GEO

Developmental expression profile of Dictyostelium discoideum: wild type (AX2) and polyketide synthase knock-out mutants

Project description:Knockout mutants of polyketide synthase genes were generated (pks1, pks2, pks3, pks14, pks18, pks37) and compared to wild-type AX2 strain of Dictyostelium discoideum using Agilent custom microarrays. The Dictyostelium cells were harvested at eight developmental stages (Amoeboid, Intiation of starvation, loose aggregate, Streaming, Mound, Slug, early culminant, Fruiting body) and subjected to microarray based expression profiling.

2015-07-18 | GSE71036 | GEO

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