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SRX20509395: GSM7426243: ECs, 77; Mus musculus; RNA-Seq
4 ILLUMINA (NextSeq 500) runs: 51.2M spots, 3.9G bases, 1.5Gb downloads

External Id: GSM7426243_r1
Submitted by: Center for Omics Sciences (COSR), IRCCS Ospedale San Raffaele
Study: Structured wound angiogenesis instructs mesenchymal barrier compartments in the regenerating nerve [bulkRNASeq]
show Abstracthide Abstract
Organ injury stimulates the formation of new capillaries to restore blood supply raising questions about the potential contribution of neoangiogenic vessel architecture to the healing process. With single-cell mapping we resolved the properties of endothelial cells that organize a polarized scaffold at the repair site of lesioned peripheral nerves. Transient reactivation of an embryonic guidance program is required to orient neovessels across the wound. Manipulation of this structured angiogenic response through genetic and pharmacological targeting of Plexin-D1/VEGF pathways within an early window of repair has long-term impact on configuration of the nerve stroma. Neovessels direct nerve-resident mesenchymal cells to mold a provisionary fibrotic scar by assembling an orderly system of stable barrier compartments that channel regenerating nerve fibers and shield them from the persistently leaky vasculature. Thus, guided and balanced repair angiogenesis enables the construction of a “bridge” microenvironment conducive for axon regrowth and homeostasis of the regenerated tissue. Overall design: Endothelial cells genetically labeled with R26-TomatoLSL (Jax stock# 007914) reporter under the control of Cdh5(PAC)-CreERT2 (PMID: 20445537) were FACS-isolated from pooled uninjured sciatic nerves of adult mice or from the lesion site ("bridge" region) of sciatic neves at 7 or 14 days post-injury (dpi), and profiled by bulk RNA-seq. In a separate experiment, endothelial cells expressing Kdr-Cherry reporter (Jax stock# 018542) were FACS-isolated from the bridge region of sciatic nerves from control or Chd5::CreER; Plxnd1fl/fl mice (endothelial-specific deletion of Plexin-D1) at 7dpi.
Sample: ECs, 77
SAMN35355034 • SRS17815506 • All experiments • All runs
Organism: Mus musculus
Library:
Name: GSM7426243
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Sciatic nerves were freshly harvested in F12medium, pooled, finely chopped and incubated in dissociation buffer (Trypsin 0.2mg/ml, Collegenase Type II 50ul/ml, Hyaluyronidase 1:50, PronaseE 1:10, DNAse 2.5μg/ml) in DMEM and incubated on rotor at 37 C with intermittent mixing for 30 min. Enzymes were inactivated with 5% FBS+ 2mM EDTA in PBS w/o Ca2+, Mg2+. Cell suspension was passed through cell strainer, stained (CD45-APC) and resuspended in 2% BSA PBS w/o Ca2+, Mg2+. Tdtomato+ or Cherry+ (negative for CD45+ myeloid population) were purified by FACS.
Runs: 4 runs, 51.2M spots, 3.9G bases, 1.5Gb
Run# of Spots# of BasesSizePublished
SRR2473161812,924,673982.3M385.9Mb2023-11-21
SRR2473161912,989,660987.2M393.8Mb2023-11-21
SRR2473162012,511,875950.9M392.3Mb2023-11-21
SRR2473162112,782,451971.5M399.3Mb2023-11-21

ID:
27932976

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