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| Status |
Public on Oct 14, 2020 |
| Title |
Single-cell RNA sequencing and total RNA sequencing data, respectively, evaluating the expression of selective genes from C57BL/6 mouse-derived small intestinal organoids and whole ileal tissue from naïve Il22Ra1fl/fl;Defa6-cre+/- mice |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
All intestinal epithelial lineages express the IL-22 receptor; however, it is not known whether IL-22-dependent regulation of small intestinal host defense is dependent on ISCs or a specific epithelial lineages. To examine differences in gene expression among small intestinal enterocytes, single cell RNA sequencing was performed on primary small intestinal organoids derived from naïve C57BL/6 mice. Our scRNA-seq results demonstrate that Paneth cells express the highest level of Il22ra1 when compared to ISCs as well as enterocyte, goblet, tuft, and endocrine lineages. Additionally, total RNA sequencing (RNA-seq) of the terminal ileum of naïve Il22Ra1fl/fl;Defa6-cre+ (Paneth cell-specific IL22Ra1 knockout) and littermate cre- mice was performed. Our sequencing data revealed reduced expression of Paneth cell-specific Lyz1, Mmp7, and select alpha-defensin antimicrobial peptides but increased expression of IL-22 inducible Reg3g and serum amyloid genes (Saa1 and Saa3) in the terminal ileum of naïve Il22Ra1fl/fl;Defa6-cre+ mice
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| Overall design |
N = 1 C57BL/6 mouse (4 replicates of organoids were pooled). N = 3 Il22Ra1fl/fl;Defa6-cre+ mice. N = 3 Il22Ra1fl/fl;Defa6-cre- mice
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| Contributor(s) |
Kumar P, Gaudino S, Beyaz S, Eskiocak O, Yueh B |
| Citation(s) |
33060802 |
| Submission date |
Oct 13, 2020 |
| Last update date |
Jan 16, 2021 |
| Contact name |
Pawan Kumar |
| E-mail(s) |
pawan.kumar@stonybrook.edu
|
| Organization name |
Stony Brook University
|
| Street address |
100 Nicolls Road
|
| City |
Stony Brook |
| ZIP/Postal code |
11794 |
| Country |
USA |
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| Platforms (2) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL21626 |
NextSeq 550 (Mus musculus) |
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| Samples (7)
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| Relations |
| BioProject |
PRJNA668902 |
| SRA |
SRP287216 |
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