Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Plasmodium falciparum intraerythrocytic stage transcription time course for NF54 and isogenic mutant line with altered K13 expression I.

ABSTRACT: Plasmodium falciparum intraerythrocytic stage transcription time course for NF54 and isogenic mutant line with altered K13 expression I.

PROVIDER: PRJNA489977 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Plasmodium falciparum intraerythrocytic stage transcription time course for NF54 and isogenic mutant line with altered K13 expression I.

Project description:Plasmodium falciparum intraerythrocytic stage transcription four hour time course for NF54 and PB58 (an isogenic line with a piggyBac transposon in the 5’ UTR of K13 of K13 that alters K13 expression).

2018-10-28 | GSE119514 | GEO

Plasmodium falciparum intraerythrocytic stage transcription time course for NF54 and isogenic mutant line with altered K13 expression II.

2023-06-01 | GSE119516 | GEO

Altered expression of K13 disrupts DNA replication and repair in Plasmodium falciparum

Project description:Background: Plasmodium falciparum has evolved resistance to the artemisinin component of the frontline antimalarial treatment Artemisinin-based Combination Therapy in South East Asia. Millions of lives will be at risk if resistance spreads to Africa. Single non-synonymous mutations in the propeller region of PF3D7_1343700, “K13”are implicated in resistance. In this work, we use transcriptional profiling to characterize a laboratory-generated k13 insertional mutant previously demonstrated to have increased sensitivity to artemisinins to explore the functional role of k13. Results: A set of RNA-seq and microarray experiments confirmed that the expression profile of k13 is specifically altered during the early ring and early trophozoite stages of the mutant intraerythrocytic development cycle. The down-regulation of k13 in this mutant during the early ring stage is associated with a transcriptome shift towards a more trophozoite-like state. To discover the specific downstream effect of k13 dysregulation, we developed a new computational method to search for differential gene expression while accounting for the temporal sequence of transcription. We found that the strongest biological signature of the transcriptome shift is an up-regulation of DNA replication and repair genes during the early ring developmental stage and a down-regulation of DNA replication and repair genes during the early trophozoite stage; by contrast, the expressions of housekeeping genes are unchanged. This effect, due to k13 dysregulation, is antagonistic, such that k13 levels are negatively correlated with DNA replication and repair gene expression. Conclusion: Because a hypothesized mode of action of artemisinins is oxidative stress our results support a role for k13 as a stress response regulator, consistent with the role of its human homolog Keap1, that regulates DNA replication and repair genes in response to oxidative stress.

2018-10-25 | GSE119231 | GEO

Global protein quantification of changes in K13 mutant and isogenic wild-type P. falciparum parasites during the intra-erythrocytic developmental cycle

Project description:K13 mutations are causal for artemisinin resistance in Plasmodium falciparum human malaria. We characterized changes in protein abundance associated with K13 mutations during the parasite's 48h intra-erythrocytic developmental cycle by comparing protein expression profiles of K13 mutant (C580Y, R539T) and isogenic wild-type lines that were generated by zinc finger nuclease (ZFN) based editing in a laboratory-adapted clinical isolate (Cam3.II). For each parasite line, we harvested tightly synchronized ring and trophozoite parasites on two independent occasions, except for the C580Y line which was harvested only once at trophozoite stage.

2020-11-23 | PXD019612 | Pride

Global RNA expression profiling of k13-edited mutant and isogenic wild-type Plasmodium falciparum malaria parasites during the parasite's intra-erythrocytic developmental cycle and the parasite's response to dihydroartemisinin (DHA).

Project description:K13 mutations are causal for artemisinin resistance in Plasmodium falciparum human malaria. The objective of our study is to characterize gene expression signatures associated with K13 mutations by comparing transcriptional profiles and response to DHA of K13 mutant (C580Y, R539T) and isogenic wild-type lines that were generated by zinc finger nuclease (ZFN) based editing in a long-term adapted (Dd2) and a contemporary laboratory-adapted clinical isolate (Cam3.II).

2020-11-01 | GSE151189 | GEO

Transcription profiling of human HUVEC ells ectotopically expressing K13

Project description:Integrated microarray and multiplex cytokine analyses of Kaposi's Sarcoma Asssociated Herpesvirus viral FLICE Inhibitory Protein K13 affected genes and cytokines in human blood vascular endothelial cells. The KSHV-encoded K13 protein is one of the few proteins to be expressed in latently-infected spindle cells and the ectopic expression of K13 in human vascular endothelial cells is sufficient to transform them into spindle cells. Experiment Overall Design: We have examined the effect of ectopic K13 expression on global gene expression in human umbilical vein endothelial cells (HUVEC).

2009-09-06 | E-GEOD-16051 | biostudies-arrayexpress

Effect of ectotopic expression of K13 on global gene expression in HUVEC

2009-08-06 | GSE16051 | GEO

Transcription profiling of Plasmodium 3D7AH1S2 and 3D7S8.4 at three different stages of intraerythrocytic cycle: ring, trophozite and schizont stage

Project description:Comparison of expression profile of two 3D7 isogenic clones : 3D7AH1S2 and 3D7S8.4 at three different stages of intraerythrocytic cycle: ring, trophozite and schizont stage

2004-06-15 | E-MEXP-128 | biostudies-arrayexpress

Gene expression in Plasmodium falciparum NF54 and P. falciparum HOX

Project description:P. falciparum NF54 proliferates under micro-aerophilic conditions in an environment of 3% O2, 4% CO2, 93% N2. This strain was gradually adapted to proliferate under standard tissue culture conditions of 5% CO2/95% air (~19% O2) to generate P. falciparum HOX. We compared global gene expression profiles of the two strains to identify differences, if any. Asynchronous cultures of P. falciparum NF54 and HOX propagated in O+ RBCs were processed and gene expression analyzed on Affymetrix microarrays. All cultures consised of 80% rings + trophozoites.

2012-03-01 | E-GEOD-33826 | biostudies-arrayexpress

Plasmodium falciparum NF54

Project description:Plasmodium falciparum NF54 Epigenomics

| PRJNA344838 | ENA