Transcriptomics analysis of host immune response to P. falciparum malaria [Year 2]
Ontology highlight
ABSTRACT:
ORGANISM(S): Homo sapiens
PROVIDER: GSE180757 | GEO | 2026/06/11
REPOSITORIES: GEO
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Project description:We performed a genome-wide profiling of miRNAs and mRNA, DNA sequencing of human whole blood sample to identify miRNAs responsive to P.falciparum (P.f) infection and/or associated with parasite load. We identified a set of 72 miRNAs that are positively or negatively associated with parasitemia. We also performed expression quantitative trait loci of miRNAs(miR-eQTL) of P.f infected individuals. The miR-eQTL dataset allowed us to determine relevant genetic variant responsible for miRNAs expression differences between P.f infected individuals and find novel malaria-associated miRNAs
2020-09-05 | GSE144413 | GEO
Project description:We performed a genome-wide profiling of miRNAs and mRNA, DNA sequencing of human whole blood sample to identify miRNAs responsive to P.falciparum (P.f) infection and/or associated with parasite load. We identified a set of 72 miRNAs that are positively or negatively associated with parasitemia. We also performed expression quantitative trait loci of miRNAs(miR-eQTL) of P.f infected individuals. The miR-eQTL dataset allowed us to determine relevant genetic variant responsible for miRNAs expression differences between P.f infected individuals and find novel malaria-associated miRNAs
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Project description:Comaprision of P.falciparum clinical isolates showing Uncomplicated disease with that shwoing complicated disease(Cerebral malaria) The experiment was designed to try and identify differences if any, at the genome level between P.falciparum isolates from patients with uncomplicated malaria vs. patients with complicated malaria (Cerebral malaria). The emphasis was to highlight possible amplifications/deletions in different regions of the parasite genome.
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Project description:Africa’s environmental, cultural and genetic diversity can significantlygreatly influences how the populations’ respondse to infectious diseases, including malaria, caused by Plasmodium falciparum. Differences in susceptibility to malaria between populations are documented but the underlying mechanisms are poorly understood. The Fulani ethnic group in Africa was reported to be less susceptible to malaria compared to other sympatric groups, such as the Mossi., They exhibit with lower disease rates and parasite load, as well as higher levels of serological protection. Unraveling the underlying genetic, molecular and cellularimmunological basis of this protection remains challenging, in part due to a lack of in-depth immunological characterization at the cellular level. Therefore, to address this question, we performed single cell transcriptomic RNA sequencing analysis ofon peripheral blood mononuclear cells from 126 infected and non-infected Fulani and Mossi children in rural Burkina Faso., This analysis generateding > 70,000 single-cell RNA-Seq profiles and identifiedying 30 cell subtypes. By performing cell subtype proportion analysis, we report an increased abundance of γδ T cells in infected Fulani samples compared to the Mossi counterpart. Moreover, cell-type specific differential expression analysis revealed ethnic-specific immune signatures in both infection states, and highlighted lower pro-inflammatory responses in the monocytes and T cell subtypes of the Fulani in both infection states, with a stronger activation and inflammatory profile in their B cell subtypes. Single-cell expression quantitative trait loci (eQTL) analysis in monocytes of infected samples revealed several significant regulatory variants with ethnic-specific effects. Overall, the results demonstrate the power of single cell transcriptomics in identifying ethnic, cell-type specific and genetic regulatory effects in the host immune response to malaria and provide valuable single-cell eQTL and transcriptomic data from populations underrepresented in genomic studies.
2025-01-15 | GSE273781 | GEO
Project description:Africa’s environmental, cultural and genetic diversity can significantlygreatly influences how the populations’ respondse to infectious diseases, including malaria, caused by Plasmodium falciparum. Differences in susceptibility to malaria between populations are documented but the underlying mechanisms are poorly understood. The Fulani ethnic group in Africa was reported to be less susceptible to malaria compared to other sympatric groups, such as the Mossi., They exhibit with lower disease rates and parasite load, as well as higher levels of serological protection. Unraveling the underlying genetic, molecular and cellularimmunological basis of this protection remains challenging, in part due to a lack of in-depth immunological characterization at the cellular level. Therefore, to address this question, we performed single cell transcriptomic RNA sequencing analysis ofon peripheral blood mononuclear cells from 126 infected and non-infected Fulani and Mossi children in rural Burkina Faso., This analysis generateding > 70,000 single-cell RNA-Seq profiles and identifiedying 30 cell subtypes. By performing cell subtype proportion analysis, we report an increased abundance of γδ T cells in infected Fulani samples compared to the Mossi counterpart. Moreover, cell-type specific differential expression analysis revealed ethnic-specific immune signatures in both infection states, and highlighted lower pro-inflammatory responses in the monocytes and T cell subtypes of the Fulani in both infection states, with a stronger activation and inflammatory profile in their B cell subtypes. Single-cell expression quantitative trait loci (eQTL) analysis in monocytes of infected samples revealed several significant regulatory variants with ethnic-specific effects. Overall, the results demonstrate the power of single cell transcriptomics in identifying ethnic, cell-type specific and genetic regulatory effects in the host immune response to malaria and provide valuable single-cell eQTL and transcriptomic data from populations underrepresented in genomic studies.
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Project description:The goal of our study is to characterize the global transcriptional resposne of P.falciparum to DNA damageing agents. Alongside, we stidied the epigenetic regulation of DNA damage resposne in parasite. Further, we studied the mecanism which underlined the ARMD (mutator) phenotype of P. falciparum.
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Project description:The goal of our study is to characterize the global transcriptional resposne of P.falciparum to DNA damageing agents. Alongside, we stidied the epigenetic regulation of DNA damage resposne in parasite. Further, we studied the mecanism which underlined the ARMD (mutator) phenotype of P. falciparum.
2016-06-01 | GSE72579 | GEO
Project description:The goal of our study is to characterize the global transcriptional resposne of P.falciparum to DNA damageing agents. Alongside, we stidied the epigenetic regulation of DNA damage resposne in parasite. Further, we studied the mecanism which underlined the ARMD (mutator) phenotype of P. falciparum. In order to elucidate the transcriptiona resposne to DNA damage, P. falciparum 3D7 parasites were treated with 4 perturbating agents for 6 hours. We mapped the global nucleosome occupancy for 3 most responsive histone modifications to DNA damage by chromatin immunoprecipitation coupled with DNA microarray (ChIP-on-chip). In order to identify the transcriptional similarities between artemesinin and MMS, we carried out 6 hours of artemesinin treatment in triplicates and compared with triplicate dataset of MMS.
2016-06-01 | E-GEOD-72578 | biostudies-arrayexpress
Project description:Malaria inflicts the highest rate of morbidity and mortality among the vector-borne diseases. The dramatic bottleneck of parasite numbers that occurs in the gut of the obligatory mosquito vector provides a promising target for novel control strategies. Using single-cell transcriptomics, we analyzed Plasmodium falciparum development in the mosquito gut, from unfertilized female gametes through the first 20 hours post blood feeding, including the zygote and ookinete stages. This study revealed the temporal gene expression of the ApiAP2 family of transcription factors, and of parasite stress genes in response to the harsh environment of the mosquito midgut. Further, employing structural protein prediction analyses we found several upregulated genes predicted to encode intrinsically disordered proteins (IDPs), a category of proteins known for their importance in regulation of transcription, translation and protein-protein interactions. IDPs are known for their antigenic properties and may serve as suitable targets for antibody or peptide-based transmission suppression strategies. In total, this study uncovers the P. falciparum transcriptome from early-to-late parasite development in the mosquito midgut, inside its natural vector, which provides an important resource for future malaria transmission-blocking initiatives. Single-cell data can be visualized interactively via https://mubasher-mohammed.shinyapps.io/shinyapp/ In-house bash, R code scripts and data that were implemented in this study are available on GitHub https://github.com/ANKARKLEVLAB/Single-cell-P.falciparum-midgut .
2023-02-16 | GSE222586 | GEO
Project description:The goal of our study is to characterize the global transcriptional resposne of P.falciparum to DNA damageing agents. Alongside, we stidied the epigenetic regulation of DNA damage resposne in parasite. Further, we studied the mecanism which underlined the ARMD (mutator) phenotype of P. falciparum. In order to elucidate the transcriptiona resposne to DNA damage, P. falciparum 3D7 parasites were treated with 4 perturbating agents for 6 hours. We mapped the global nucleosome occupancy for 3 most responsive histone modifications to DNA damage by chromatin immunoprecipitation coupled with DNA microarray (ChIP-on-chip). In order to identify the transcriptional similarities between artemesinin and MMS, we carried out 6 hours of artemesinin treatment in triplicates and compared with triplicate dataset of MMS.
2016-06-01 | E-GEOD-72579 | biostudies-arrayexpress