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Items: 1 to 20 of 4028

1.

Collective oscillatory signaling acts as a developmental timer initiated by weak coupling of a noisy pulsatile signal

(Submitter supplied) Oscillatory phenomena are ubiquitous across different biological scales, from individual cells to tissues and whole organisms. In physical systems, oscillatory behaviour can emerge from weak coupling of independent stochastic elements. Once established, oscillations can drive coordinated group behaviour and encode robust information through oscillation frequency or amplitude. Here we use experimentation and modelling to understand the emergence and information coding properties of oscillatory cyclic adenosine monophosphate (cAMP) signaling in D. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26000
30 Samples
Download data: TXT
Series
Accession:
GSE272520
ID:
200272520

2.

Evolutionary dynamics of polyadenylation signals and their recognition strategies in protist

(Submitter supplied) Cleavage and polyadenylation are the final steps of eukaryotic mRNA 3' end formation. The most critical element in humans and other model organisms is the poly(A) signal, an AAUAAA hexamer. We recently discovered that the deeply branching eukaryote – Giardia lamblia uses a different but well-defined poly(A) signal, AGURAA. To better characterize when this evolutionary shift in the poly(A) signal occurred, we performed direct RNA sequencing of four protists within the Metamonada supergroup and two outgroup protists. more...
Organism:
Giardia muris; Entamoeba histolytica; Naegleria gruberi; Giardia intestinalis; Trichomonas vaginalis; Tritrichomonas foetus
Type:
Expression profiling by high throughput sequencing
6 related Platforms
20 Samples
Download data: TSV
Series
Accession:
GSE260731
ID:
200260731

PubMed Similar studies

3.

The results of RNA-seq for EhracM gene silencing strain and EhracJ gene silencing strain

(Submitter supplied) To know the role of Rho small GTPases of enteric protozoan parasite Entamoeba histolytica, ten Rho small GTPases were specifically silenced and examined the effect on virulence-related phenotypes. Among them, EhRacM gene silence caused an enhancement in macropinocytosis. To clarify transcriptomic difference in EhRacM gene silenceing strain, RNA-seq analysis was conducted.
Organism:
Entamoeba histolytica
Type:
Expression profiling by high throughput sequencing
Platform:
GPL33319
9 Samples
Download data: TXT
Series
Accession:
GSE229171
ID:
200229171

4.

Multi-omics analysis of aggregative multicellularity

(Submitter supplied) The extent to which mRNA and protein levels correlate is still not fully known, especially during development, when cells undergo a major transition in gene expression. One organism with particular development is Dictyostelium discoideum, during which it transitions from free-living unicellular to multicellular. Previously the transcriptome has been thoroughly studied during multicellular development, however the proteome and its correlation to the transcriptome during this transition is not fully understood. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26668
24 Samples
Download data: TXT
Series
Accession:
GSE249880
ID:
200249880

5.

Pol II pausing is a milestone on the road to complex animals

(Submitter supplied) PRO-seq experiments in multiple organisms. Also, PRO-seq experiment of Nelfb and Nelfe degron mESC in serum/LIF with or without dTAG-13. 
Organism:
Haloferax mediterranei; Dryas iulia; Nematostella vectensis; Daphnia pulex; Strongylocentrotus purpuratus; Sphaeroforma arctica; Escherichia coli; Mus musculus; Perkinsus marinus; Dictyostelium discoideum; Capsaspora owczarzaki; Creolimax fragrantissima
Type:
Other
12 related Platforms
46 Samples
Download data
Series
Accession:
GSE223913
ID:
200223913

6.

Collective signalling drives rapid jumping between cell states

(Submitter supplied) A continuous single cell transcriptomic time course of Dictyostelium discoideum early development.
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26360
2 Samples
Download data: CSV
Series
Accession:
GSE220242
ID:
200220242

PubMed Full text in PMC Similar studies

7.

Digestive exophagy of bacterial biofilms by parasitic intestinal amoeba and its impact on stress tolerance, antibiotic resistance and cytotoxicity

(Submitter supplied) The human protozoan parasiteEntamoeba histolyticais responsible for amebiasis, a disease endemic to developing countries.E. histolyticatrophozoites colonize the large intestine, primarily feeding on bacteria. However, in the GI, as well as in aquatic and soil microenvironments, bacterial cells form aggregates or structured communities, called biofilm, too large for phagocytosis. However, trophozoites are still able to invade and degrade bacteria under biofilm form by a mechanism mimicking digestive exophagy. more...
Organism:
Entamoeba histolytica
Type:
Expression profiling by high throughput sequencing
Platform:
GPL33438
9 Samples
Download data: CSV, TXT, XLSX
Series
Accession:
GSE233645
ID:
200233645

PubMed Full text in PMC Similar studies

8.

RNA-seq analysis of Entamoeba histolytica glycerol 3-phosphate dehydrogenase (G3PDH) and glycerol kinase (EhGK) gene silencing strain

(Submitter supplied) Amebiasis is caused by the protozoan parasite Entamoeba histolytica. Treatment options other than metronidazole and its derivatives are few, and their low efficacy against asymptomatic cyst carriers, and experimental evidence of resistance in vitro justify the discovery/repurposing campaign for new drugs against amebiasis. To better understand the role of glycerol metabolism in this parasite, we focused on characterizing two important enzymes, glycerol kinase (GK) and glycerol 3-phosphate dehydrogenase (G3PDH). more...
Organism:
Entamoeba histolytica
Type:
Expression profiling by high throughput sequencing
Platform:
GPL33319
9 Samples
Download data: TXT, XLSX
Series
Accession:
GSE240436
ID:
200240436

PubMed Full text in PMC Similar studies

9.

Functional Characterisation of the Core Autophagy Protein ATG5 in Dictyostelium discoideum

(Submitter supplied) Purpose: Global survey of the transcriptome in autophagy-deficient strains of D. discoideum Results: Our RNAseq analysis of ATG5‾, ATG5‾/12‾ and ATG5‾/12‾/16‾ cells revealed major transcriptional changes in a large number of genes in comparison to AX2 Conclusions: Our study presents a first detailed analysis of the transcriptome in autophagy-deficient strains of D. discoideum. The data were generated by RNA-seq technology. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26000
24 Samples
Download data: TSV
Series
Accession:
GSE142251
ID:
200142251

PubMed Full text in PMC Similar studies SRA Run Selector

10.

Effects of knocking down RNP1A on gene expression in Dictyostelium discoideum

(Submitter supplied) To investigate the function of RNP1A, an RNA-binding protein in Dictyostelium discoideum
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26668
8 Samples
Download data: TXT
Series
Accession:
GSE207131
ID:
200207131

11.

Spatial transcriptomic and single-nucleus analysis reveals heterogeneity in a gigantic single-celled syncytium

(Submitter supplied) In multicellular organisms, the specification, coordination, and compartmentalization of cell types enable the formation of complex body plans. However, some eukaryotic protists such as slime molds generate diverse and complex structures while remaining in a multinucleated syncytial state. It is unknown if different regions of these giant syncytial cells have distinct transcriptional responses to environmental encounters, and if nuclei within the cell diversify into heterogeneous states. more...
Organism:
Physarum polycephalum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30072
949 Samples
Download data: MTX, RDS, TSV
Series
Accession:
GSE173809
ID:
200173809

PubMed Full text in PMC Similar studies SRA Run Selector

12.

The 2´-O-methylation landscape of ribosomal RNA in Dictyostelium discoideum 

(Submitter supplied) A sequencing-based profiling method (RiboMeth-seq) for ribose methylations was applied to study methylation patterns in Dictyostelium discoideum
Organism:
Dictyostelium discoideum
Type:
Other
Platform:
GPL30893
2 Samples
Download data: XLSX
Series
Accession:
GSE186560
ID:
200186560

PubMed Full text in PMC Similar studies SRA Run Selector

13.

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

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL26668 GPL26000
83 Samples
Download data
Series
Accession:
GSE156813
ID:
200156813

PubMed Full text in PMC Similar studies

14.

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

(Submitter supplied) 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. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26668
24 Samples
Download data: TXT
Series
Accession:
GSE156812
ID:
200156812

PubMed Full text in PMC Similar studies SRA Run Selector

15.

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

(Submitter supplied) 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. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26000
35 Samples
Download data: TXT
Series
Accession:
GSE156811
ID:
200156811

PubMed Full text in PMC Similar studies SRA Run Selector

16.

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

(Submitter supplied) 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. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26668
8 Samples
Download data: TXT
Series
Accession:
GSE156810
ID:
200156810

PubMed Full text in PMC Similar studies SRA Run Selector

17.

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

(Submitter supplied) 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. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26668
16 Samples
Download data: TXT
Series
Accession:
GSE156809
ID:
200156809

PubMed Full text in PMC Similar studies SRA Run Selector

18.

Characterization of Entamoeba histolytica adapted to auranofin by combined transcriptomics and redox proteomics

(Submitter supplied) Purpose: Transcriptome characterization of Entamoeba histolytica trophozoites adapted to Auranofin Total RNA was extracted from control trophozoites (WT) and AFAT using the TRI reagent kit, according to the manufacturer instructions (Sigma-Aldrich USA). 6 RNAseq libraries were produced according to manufacturer protocol (NEBNext UltraII Directional RNA Library Prep Kit for Illumina, cat no. E7760) using 800ng total RNA. more...
Organism:
Entamoeba histolytica
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30297
6 Samples
Download data: XLSX
Series
Accession:
GSE178520
ID:
200178520

PubMed Full text in PMC Similar studies SRA Run Selector

19.

Transcriptional milestones in Dictyostelium development

(Submitter supplied) Dictyostelium development begins with single-cell starvation and ends with multicellular fruiting bodies. Developmental morphogenesis is accompanied by sweeping transcriptional changes, encompassing nearly half of the 13,000 genes in the genome. We performed time-series RNA-sequencing analyses of the wild type and 20 mutants to explore the relationships between transcription and morphogenesis,. These strains exhibit developmental arrest at different stages, accelerated development, or atypical morphologies. more...
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing; Third-party reanalysis
Platforms:
GPL22784 GPL9379 GPL26668
486 Samples
Download data: TAB, XLSX
Series
Accession:
GSE152851
ID:
200152851

PubMed Full text in PMC Similar studies SRA Run Selector

20.

RNAseq and quantitative proteomic analysis of Dictyostelium knock-out cells lacking the core autophagy proteins ATG9 and/or ATG16

(Submitter supplied) Purpose: Global survey of the transcriptome and comparison to the proteome in autophagy-deficient strains of D. discoideum. Results: Our RNAseq analysis of ATG9‾, ATG16‾ and ATG9‾/16‾ cells revealed major transcriptional changes in a large number of genes in comparison to AX2. Conclusions: Our study provides the first combined transcriptome and proteome analysis of ATG9‾, ATG16‾ and ATG9‾/16‾ cells and adds to our knowledge of functions of these proteins in Dictyostelium discoideum.
Organism:
Dictyostelium discoideum
Type:
Expression profiling by high throughput sequencing
Platform:
GPL15643
36 Samples
Download data: XLS
Series
Accession:
GSE162070
ID:
200162070

PubMed Full text in PMC Similar studies SRA Run Selector

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