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ABSTRACT: Transcriptome sequencing between E. coli F18-induced IPEC-J2 and normal IPEC-J2 cells

PROVIDER: PRJNA826808 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18752449_1.fastq.gz	Fastqsanger.gz
	SRR18752449_2.fastq.gz	Fastqsanger.gz
	SRR18752450_1.fastq.gz	Fastqsanger.gz
	SRR18752450_2.fastq.gz	Fastqsanger.gz
	SRR18752451_1.fastq.gz	Fastqsanger.gz

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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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Comparing two intestinal porcine epithelial cell lines (IPECs): global expression patterns to characterise a in vitro model of intestinal physiology

Project description:The intestinal epithelial cell lines 1 and J2 (IPEC-1, IPEC-J2) - spontaneously immortalised cell lines from the porcine intestine - are important tools for studying intestinal function. Microarrays (GeneChip Porcine Genome Array) were used to compare the expression pattern at basal in vitro conditions. Expression analyses complemented by morphological, functional and biochemical analyses revealed that IPEC-J2 is a morphologically and functionally more differentiated cell line in comparison to IPEC-1. In addition, IPEC-2 cells are a preferential tool for in vitro studies with the focus on metabolism.

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Project description:NLRC5 Knockdown IPEC-J2 cell and NLRC5 normal IPEC-J2 cell Transcriptome

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Project description:Transcriptome sequencing of IPEC-J2 cells between shWTAP and shCtrl group

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Transcriptome Profile of Natural Product Deoxyshikonin Induced Gene Expression in IPEC-J2

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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Evaluation of the potential of non-starch soluble polysaccharides from 3 algae to modulate the immune response and metabolic state in the intestine

Project description:Non-starch soluble polysaccharides (NSPs) produced by yeasts are used in animal nutrition to improve health and performance. However, the magnitude of the effect may be dependent upon the quantity and the composition of the polysaccharides. As seaweeds are attractive sources of NSPs, this study was set up to evaluate their potential to improve intestinal health. The effect of NSP extracts prepared from Saccharomyces cerevisiae containing β-glucan and mannan (PSY1, positive control) or a mixture of mannanoligosaccharides (PSY2, positive control), micro algae containing β-glucan (PSA1), brown macro algae containing fucoidan and laminarin (PSA2), and green macro algae containing ulvan (PSA3) on intestinal porcine epithelial cells J2 (IPEC-J2) was studied in the presence and absence of the enterotoxigenic bacterium Escherichia coli k99 strain (ETEC) as an in vitro challenge. The E.coli-k99 strain with adhesion factor F41 (41/32) was isolated from a mastitis-infected udder. In addition, a mixed extract prepared from vegatal orgin supplemented with phenolic compounds from vegetal origin, zinc and selenium (9631), and ZnO were tested to compare responses to NSP extracts. Gene expression was measured in IPEC-J2 cells after 2 and 6 hours of incubation using “whole genome” porcine microarrays (submission as a conference paper at the SEAGRICULTURE 2017 6th International Seaweed Conference).

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Project description:Transcriptome sequencing of IPEC-J2 cells infected with PEDV

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