MicroRNA expression profile of porcine alveolar macrophages infected with Toxoplasma gondii
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA489847 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR7803990.fastq.gz | Fastqsanger.gz | |||
| SRR7803991.fastq.gz | Fastqsanger.gz | |||
| SRR7803992.fastq.gz | Fastqsanger.gz | |||
| SRR7803987.fastq.gz | Fastqsanger.gz | |||
| SRR7803988.fastq.gz | Fastqsanger.gz |
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Project description:Purpose: Porcine alveolar macrophage was infected by T. gondii including Rh strain and Me49 strain. We want to explore the change of miRNAs after infected with T. gondii in porcine alveolar macrophages. Results: Our study generated six mi RNA expression profiles from macrophages which infect with Rh strain and Me49 and control group in different time. Compare with T. gondii-infected and uninfected with T. gondii, 81 differentially expressed mi RNAs were identified, including 36 novel mi RNAs and 45 mature mi RNAs.
2019-02-07 | GSE119643 | GEO
Project description:Toxoplasma gondii (T. gondii) is an obligate intracellular parasite that can infect almost all warm-blooded animals, causing serious public health problems. Lysine crotonylation (Kcr) is a newly discovered posttranslational modification (PTM), which has been proved that is relevant to procreation regulation, active transcription and cell signaling pathway. However, the biological functions of crotonylation have not yet been reported in macrophages infected with T. gondii. In our study, we performed a ChIP-seq analysis of porcine alveolar macrophages infected with T. gondii RH to explore the relationship of histone Kcr with T. gondii infection.
2021-12-31 | GSE167340 | GEO
Project description:Toxoplasma gondii is an apicomplexan parasite infecting human and animals, causing huge health concerns and economic losses. However, it is unclear about the exact mechanism of T.gondii tachyzoite infected macrophage and macrophage resisted T.gondii, especially for local isolates such as TgHB1 isolated in China. Our study focused on the transcriptional difference of pig alveolar macrophages (3D4/21) infected with china isolated TgHB1 compared to TgRH and TgME49 toxoplasma gondii standard strains.
2020-09-12 | GSE153330 | GEO
Project description:Expression profile microarray of human foreskin fibroblast cell comparing control untreated HFF cell with HFF cell infected with ME49 strain.Study on Toxoplasma gondii infection of HFF cell LncRNAs expression, for further studies on the differential exprssion of LncRNAs in HFF cell against the infection of Toxoplasma gondii research provide the basic function.
2017-01-01 | GSE92603 | GEO
Project description:Purpose:This study was aimed to profile the transcriptome changes during Toxoplasma infection with porcine alveolar macrophages. for this purpose, Porcine alveolar macrophages (PAMs,3D4/21) were infected by Toxoplasma Me49 strain in vitro. The transcriptome changes were captured by dual RNA-seq analyses. Methods: Transcriptomic profiles of infection samples (Me49 infected PAMs) and controls (Me49 and PAMs, respectively) were generated by deep sequencing, in triplicate, using Illumina HiseqPE150. The sequence reads that passed quality filters were analyzed at the transcript level with TopHat (v2.0.12) followed by HTSeq (v0.6.1). The Cufflinks (v2.1.1) was used to construct and identify novel transcripts. qRT–PCR validation was performed using SYBR Green assays. Results: Using an optimized data analysis workflow, More than 30 million paired-end reads were generated for the Me49 controls and 93% of the clean reads were mapped to the Me49 reference genome. Nearly 2~3 times more reads were produced in the PAMs alone or infected PAMs samples. Among these, 60% to 80% of clean reads were mapped to the Sus Scrofa genome. In the infection groups, approximately 16% of total clean reads were aligned to the Me49 reference genome. RNA-seq data indicated the remarkable transcripts changes of both sides during infection process. More than 800 and 1800 genes (fold change ≥2 and adjusted p value <0.05) were significantly regulated in PAMS and Me49, respectively. Altered expression of 15 genes was confirmed with qRT–PCR, demonstrating the high degree of sensitivity of the RNA-seq method. The differentially expressed genes in Toxoplasma were mainly related to metabolic process and macromolecule synthesis as reflected by enhanced activity of FASII pathway. Further analyses of differentially expressed genes in PAMs uncovered unique responses of porcine macrophages to Toxoplasma infection. These analyses provide novel insights into Toxoplasma interaction with it’s hosts. Conclusions: Our study represents the first detailed dual analyses of porcine alveolar macrophages and Me49 with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here provide the overall transcripts changes both PAMs and Me49. The results showed the unexpected responses of PAMs to Toxoplasma infection. These widen our understanding of interactions between Toxoplasma and it’s hosts.
2020-03-11 | GSE146715 | GEO
Project description:This SuperSeries is composed of the following subset Series: GSE25468: Expression data from Human foreskin fibroblasts (HFFs) infected with Toxoplasma gondii. GSE25469: Expression data from WT or p65-/- mouse embryonic fibroblasts (MEFs) infected with Toxoplasma gondii. Refer to individual Series
2011-01-10 | E-GEOD-25476 | biostudies-arrayexpress
Project description:Toxoplasma gondii is an obligate intracellular protozoan of severe threat to humans and livestock. Macrophages are the cell type preferentially infected by T. gondii in vivo. Protein phosphorylation is an important post-translational modification involved in diverse cellular functions. ARAF is member of the RAF family of serine/threonine protein kinases that is necessary for MAPK activation. Limited information is available about the level of protein phosphorylation variations and the roles of ARAF in macrophages with T. gondii infection, although our previous research found that ARAF knockout could reduce the apoptosis of porcine alveolar macrophages (3D4/21 cells) caused by T. gondii infection. Here, we used IMAC in combination with LC-MS/MS to profile the changes of phosphorylation in 3D4/21 cells and 3D4/21-ΔAraf cells upon Toxoplasma infection, respectively. A total of 1647 differentially expressed phosphorylated proteins (DEPPs) with 3876 differentially phosphorylated sites (DPSs) were identified in 3D4/21 cells with Toxoplasma infection (p3T group) when comparing 3D4/21 cells without parasite infection (pho3 group), and 959 DEPPs with1540 DPSs when comparing 3D4/21-ΔAraf cells with parasite infection (p3KT group). In addition, 552 DPSs corresponding to 406 DEPPs with the same phosphorylated sites were screened in the comparison p3T/pho3 vs. p3T/p3KT, which was identified as the DPSs and DEPPs related with ARAF. Remarkable functional properties of the DEPPs were discovered by GO analysis, KEGG pathway analysis, and STRING analysis. Of 406 DEPPs related with ARAF, 40 DEPPs corresponding to 57 DPSs involved in the apoptosis of 3D4/21 cells during Toxoplasma infection. Further analysis showed that the phosphorylation levels of MED1at serine1418, JUN at serine 73, MYC at serine 154, MCL1 at serine 65, and BAD at serine115 were upregulated in p3T, but downregulated in p3KT, suggesting that ARAF regulate phosphorylation of these sites to modulate the apoptosis of macrophages induced by Toxoplasma infection. These results revealed distinct responses of macrophages to Toxoplasma infection and the potential roles of ARAF in fighting against infection via phosphorylation of crucial proteins.
2024-04-27 | PXD044725 | Pride
Project description:Recent advances in high throughput sequencing methodologies allow the opportunity to probe in depth the transcriptomes of organisms including N. caninum and Toxoplasma gondii. In this project, we are using Illumina sequencing technology to analyze the transcriptome (RNA-Seq) of experimentally accessible stages (e.g. tachyzoites at different times points) of T. gondii VEG strain. The aim is to make comparative transcriptional landscape maps of Neospora and Toxoplasma at different time points at different life cycle stages and compare levels of expression of orthologous genes in these two organisms.
2011-02-08 | E-MTAB-550 | biostudies-arrayexpress
Project description:This SuperSeries is composed of the following subset Series: GSE11437: Expression QTL mapping of Toxoplasma gondii genes, Bradyzoite array GSE11514: Expression QTL mapping of Toxoplasma gondii genes, Tachyzoite array Keywords: SuperSeries Refer to individual Series
2008-05-22 | E-GEOD-11515 | biostudies-arrayexpress