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Paneth cell gene expression with and wihout zinc in different microbiome contexts (antibiotics, germ-free, normal)

ABSTRACT: Paneth cell gene expression with and wihout zinc in different microbiome contexts (antibiotics, germ-free, normal)

PROVIDER: PRJNA1185219 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR31316214.fastq.gz	Fastqsanger.gz
	SRR31316215.fastq.gz	Fastqsanger.gz
	SRR31316216.fastq.gz	Fastqsanger.gz
	SRR31316217.fastq.gz	Fastqsanger.gz
	SRR31316218.fastq.gz	Fastqsanger.gz

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Paneth cell gene expression with and wihout zinc in different microbiome contexts (antibiotics, germ-free, normal)

Project description:We investigated the differences in paneth cell gene expression in different intestinal microbiome contexts and with and without zinc supplementation. We used mice housed in an SPF animal house that wre untreated, mice housed in ans SPF animal house that were treated with antobiotics for 3 weeks and germ-free mice to investigated the effect of the microbiome on paneth cell gene expression. Zinc is an essential element for paneth cell fuction. Mice of each group were further divide in zinc supplemented and non-zinc supplemented drinking water subgroups. This allowed us to check if zinc would enhance the differences between SPF, atibioicts and germ-free mice or reduce them.

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Project description:We investigated the effect of zinc depletion on the mouse intestine, and specifically on paneth cells. Mice were placed on a zinc depleted diet for 7 weeks after which they were given TNF for 3 hours and the the effects of dietary zinc shortage on paneth cells in TNF context were investigated. A zinc is an essential element for correct paneth cell function and zinc defficiency is a human and animal health problem investigating the PC transcriptom my provide valuable insights into the exact mechanism.

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Project description:The single cell level Paneth cell transcriptome under gnotobiotic condition has not been resolved. How gut microbiome modulates Paneth cell transcriptome at single cell level in germ-free mice was not known. We used a flow cytometry method to isolate highly pure ileal Paneth cells from germ free (GF) Paneth cell reporter mice (Lyz1-3'UTR-IRES-CreER) and from exGF Paneth cell reporter mice that were transplanted with wild type C57B/l6 mouse gut microbiota (exGF+B6M). These isolated Paneth cells were subjected to single cell RNA sequencing by 10xGenomics.

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