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Single-cell RNA-seq in AT2 cell-ablated mouse lungs

ABSTRACT: We performed single-cell RNA-seq using the chemistry of 10x Genomic Chromium v3.1 in mouse lungs following AT2 cell ablation.

ORGANISM(S): Mus musculus

PROVIDER: GSE173878 | GEO | 2022/09/14

REPOSITORIES: GEO

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Single-cell RNA-seq in AT2 cell-ablated mouse lungs

Project description:Single-cell RNA-seq in AT2 cell-ablated mouse lungs

| PRJNA727357 | ENA

Single cell sequencing facilitates quantitative analysis of transcriptomes of proliferative alveolar epithelial type 2 (AT2) cells in adult mouse lungs

Project description:Purpose: The goals of this study are to generate transcriptome profiling at single cell level (scRNA-seq) of proliferative AT2 cells Methods: Lungs of 6- to 10-week-old SPC-EGFP, Ki67-creRT2, Rosa26-tdTomato mice before and 4 days after Streptococcus pneumoniae infection-induced lung injury were dissociated using dispase digesting method. Proliferative AT2 cells (GFP+/tdTomato+) and non-proliferative AT2 cells (GFP+/tdTomato-) were sorted using a BD influx LSRII. AT2 cell mRNA profiles were generated by scRNA-seq. Sequencing was performed on an Illumina Nextseq 500 system operated by the Next Generation Sequencing at GENEWIZ using the HiSeq 2x150 bp high output sequencing kit. The scRNAseq data was processed by Cell Ranger (v.3.0.2, 10X Genomics) followed by Seurat suite (version 4.0.1). Results: Our results show a distinctive transcriptome profile of proliferative AT2 cells in adult mouse lungs Conclusions: Our study represents the first detailed analysis of transcriptomes of proliferative and non-proliferative AT2 cells in adult mouse lungs generated by scRNA-seq technology.

2022-07-21 | GSE184405 | GEO

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The single cell RNA seq of pulmonary alveolar type II (AT2) cells

Project description:The pulmonary alveolar epithelium mainly composed of two types of epithelial cells: alveolar type I (AT1) and type II (AT2) cells. AT2 cells are the alveolar stem cells, and can differentiate into AT1 cells post-pneumonectomy (PNX). Here, we found that, compared with control mice (Sftpc-CreER; Cdc42flox/+; Rosa26-mTmG) at post-PNX day 21, Cdc42 AT2 null mice (Sftpc-CreER; Cdc42flox/-; Rosa26-mTmG) at post-PNX day 21 undergone fibrotic change. By using 10X genomics “Chromium Single Cell” technology, we performed single-cell RNA-seq analyses of AT2 cells of sham treated control mice (C0), AT2 cells of control mice at post PNX day 21 (C21) , AT2 cells of sham treated Cdc42 AT2 null mice (N0), and AT2 cells of Cdc42 AT2 null mice at post PNX day 21 (N21). The study identified a specific gene signature in AT2 cells of Cdc42 AT2 null mice at post PNX day 21 which is related to the fibrosis phenotype of Cdc42 AT2 null mice.

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Human distal lung maps and lineage hierarchies reveal a bipotent progenitor [human lung organoids]

Project description:We performed single-cell RNA-seq using 10x Genomic Chromium v3.1 on human lung organoid cultures.

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Project description:We performed single-cell RNA-seq using 10x Genomic Chromium v3.1 on micro-dissected human distal airways.

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Project description:We performed single-cell RNA-seq analysis using Drop-seq S3 method in mouse lungs following AT1 cell ablation

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ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics

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