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RNA-seq of IPEC-J2 cells samples from different miRNA treatment groups

ABSTRACT: RNA-seq of IPEC-J2 cells samples from different miRNA treatment groups

PROVIDER: PRJNA575838 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10230879_1.fastq.gz	Fastqsanger.gz
	SRR10230879_2.fastq.gz	Fastqsanger.gz
	SRR10230880_1.fastq.gz	Fastqsanger.gz
	SRR10230880_2.fastq.gz	Fastqsanger.gz
	SRR10230881_1.fastq.gz	Fastqsanger.gz

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RNA-seq of IPEC-J2 cells samples from different miRNA treatment groups

Project description:RNA-seq of IPEC-J2 cells samples from different groups to search for miRNA effect on gene expression. Lentivirus of miRNA 133, and miRNA 143 were used to knock down (KD), or overexpress (OV) the two miRNAs. LV3NC is the control for knock down, Lv20NC is control for overexpression. LV133 is the miRNA 133 knockdown, LV143 is the miRNA 133 knock down. OV143 is the miRNA 143 overexpression. miRNA 133 is no overexpression.

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RNA-seq of IPEC-J2 cells samples from different miRNA treatment groups

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Transcriptome-wide m6A methylome of intestinal porcine epithelial cells (IPEC-J2) induced by deoxynivalenol

Project description:Deoxynivalenol (DON) frequently detected in a wide range of foods and feeds, inducing cytotoxicity to animals and humans. N6-methyladenosine (m6A) is an important epitranscriptomic marker with high abundance in eukaryotic mammals mRNAs. However, the role of the m6A methylomes in DON damage is still poorly understood. Here, we investigated the m6A transcriptome-wide profile in intestinal porcine epithelial cells (IPEC-J2) with and without 1000 ng/mL DON treatment via m6A sequencing and RNA sequencing. In total, 5406 new m6A peaks appeared with the disappearance of 2615 peaks in DON-induced IPEC-J2. The unique m6A-modified genes in DON-induced IPEC-J2 were associated with TNF signaling pathway. We identified 733 differentially expressed mRNA transcripts with hyper-methylated or hypo-methylated m6A peaks between DON-induced IPEC-J2 and normal IPEC-J2. Protein interaction network analysis and qPCR validation suggested that CSF2 probably acts as a promising new target for combating DON damage in IPEC-J2. Our first report of m6A transcriptome-wide map of IPEC-J2 cells presented here provides a starting roadmap for uncovering m6A functions that may affect DON infection.

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Project description:To understand the immunomodulatory effects of deoxyshikonin (a natural derivative of well-known Chinese medicine shikonin) on porcine intestinal epithelium cells, the transcriptome analysis was performed to explore the transcriptional profile of porcine IPEC-J2 cells after deoxyshikonin treatment.

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Effect of antimicrobial peptide PR-39 on the gene expression of porcine intestinal epithelial cell line (IPEC-J2)

Project description:To gain a more complete understanding of how porcine cathelicidin PR-39 influence the porcine intestinal epithelial cells, we profiled gene expression patterns in IPEC-J2 cell line in the presence or the absence of PR-39. two groups(control and PR-39),each group has three replicates

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Project description:The objective of this study is to investigate to what extent gene expression data of dietary interventions generated in IPEC-J2 in vitro model overlap with in vivo data. Gene expression was recorded in IPEC-J2 cells upon exposure to three different dietary interventions commonly used in livestock. In a further step, we compared the results with mucosal gene expression responses, as measured in animals exposed to the same compounds via the diet. As compounds we used zinc oxide, rye and the antibiotic amoxicillin. The GEO accession numbers of the in vivo datasets are provided in the paper "Enrichment of in vivo determined transcription data from dietary intervention studies with in vitro data provides improved insight into gene regulation mechanisms" (submitted to "Genes and Nutrition").

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