GSM3579884: RMM102; Mus musculus; RNA-Seq - SRA

SRX5292113: GSM3579884: RMM102; Mus musculus; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2000) run: 12.2M spots, 1.2G bases, 513.1Mb downloads

Submitted by: NCBI (GEO)

Study: Two distinct interstitial macrophage populations coexist across tissues in unique subtissular niches [FACs sorted]

PRJNA517143 • SRP182065 • All experiments • All runs

show Abstracthide Abstract

Macrophages are a heterogeneous cell population involved in tissue homeostasis, inflammation and in multiple pathologies. Although the major tissue-resident macrophage populations have been extensively studied, interstitial macrophages (IMs) residing within tissue parenchyma remain poorly defined. Here, we studied IMs from murine lung, fat, heart and dermis. We identified two independent IM subpopulations that are conserved across tissues: Lyve1loMHCIIhiCX3CR1hi (Lyve1loMHCIIhi) and Lyve1hiMHCIIloCX3CR1lo (Lyve1hiMHCIIlo) monocyte-derived IMs, with distinct gene expression profiles, phenotypes, functions, and localisation. Using a mouse model of inducible macrophage depletion (SLCO2B1-DTR), we found that the absence of Lyve1hiMHCIIlo IMs exacerbated experimental lung fibrosis. Thus, we demonstrate that two independent populations of IMs exist across tissues and exhibit conserved niche-dependent functional programming. Overall design: FACS sorted cells from several animals

Sample: RMM102

SAMN10820196 • SRS4291426 • All experiments • All runs

Organism: Mus musculus

Library:

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: PAIRED

Construction protocol: Total RNA was extracted using Arcturus PicoPure RNA Isolation kit (Thermofisher, KIT0204) according to manufacturer's protocol. cDNA libraries were prepared using 2ng of total RNA and 1ul of a 1:50,000 dilution of Ambion ERCC RNA Spike-in Controls (Thermofisher, 4456740) using the SMARTSeq v2 protocol described in Nature Protocols volume 9, pages 171-181 (Picelli et al., 2014) with the following modifications: 1. Use of 20mM TSO, 2. Use of 250pg of cDNA with 1/5 reaction of Nextera XT kit (Illumina, FC-131). 31 samples were subjected to an indexed PE sequencing run of 2x51 cycles on an Illumina HiSeq 2000 (20-24 samples/lane)

Experiment attributes:

GEO Accession: GSM3579884

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 12.2M spots, 1.2G bases, 513.1Mb

Run	# of Spots	# of Bases	Size	Published
SRR8487526	12,152,021	1.2G	513.1Mb	2019-01-28

ID:: 7166007

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