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Deconvolution of RNA-seq analysis of hyperbaric oxygen-treated mice lungs reveals mesenchymal cell subtype changes

Deconvolution of RNA-seq analysis of hyperbaric oxygen-treated mice lungs reveals mesenchymal cell subtype changes
Deconvolution of RNA-seq analysis of hyperbaric oxygen-treated mice lungs reveals mesenchymal cell subtype changes
Hyperbaric oxygen (HBO) is widely applied to treat several hypoxia-related diseases. Previous studies have focused on the immediate effect of HBO-exposure induced oxidative stress on the lungs, but knowledge regarding the chronic effects from repetitive HBO exposure is limited, especially at the gene expression level. We found that repetitive HBO exposure did not alter the morphology of murine lungs. However, by deconvolution of RNA-seq from those mice lungs using CIBERSORTx and the expression profile matrices of 8 mesenchymal cell subtypes obtained from bleomycin-treated mouse lungs, we identify several mesenchymal cell subtype changes. These include increases in Col13a1 matrix fibroblasts, mesenchymal progenitors and mesothelial cell populations and decreases in lipofibroblasts, endothelial and Pdgfrb high cell populations. Our data suggest that repetitive HBO exposure may affect biological processes in the lungs such as response to wounding, extracellular matrix, vasculature development and immune response.
CIBERSORTx, Hyperbaric oxygen, Lung, RNA-seq
1422-0067
1-19
Yuan, Yuan
6e1cf6ff-c02d-472f-8b57-4c73801d457b
Zhou, Yilu
1878565d-39e6-467d-a027-7320bf4cdaf2
Li, Yali
066318a6-bd8e-4427-b6f0-24230ffc3986
Hill, Charlotte
6d1cfed3-11b1-48af-b171-b8726ab673eb
Ewing, Robert
022c5b04-da20-4e55-8088-44d0dc9935ae
Jones, Mark
a6fd492e-058e-4e84-a486-34c6035429c1
Davies, Donna
7de8fdc7-3640-4e3a-aa91-d0e03f990c38
Jiang, Zhenglin
714cb3dc-8457-4b3b-8e71-21b254d6adb4
Wang, Yihua
f5044a95-60a7-42d2-87d6-5f1f789e3a7e
Yuan, Yuan
6e1cf6ff-c02d-472f-8b57-4c73801d457b
Zhou, Yilu
1878565d-39e6-467d-a027-7320bf4cdaf2
Li, Yali
066318a6-bd8e-4427-b6f0-24230ffc3986
Hill, Charlotte
6d1cfed3-11b1-48af-b171-b8726ab673eb
Ewing, Robert
022c5b04-da20-4e55-8088-44d0dc9935ae
Jones, Mark
a6fd492e-058e-4e84-a486-34c6035429c1
Davies, Donna
7de8fdc7-3640-4e3a-aa91-d0e03f990c38
Jiang, Zhenglin
714cb3dc-8457-4b3b-8e71-21b254d6adb4
Wang, Yihua
f5044a95-60a7-42d2-87d6-5f1f789e3a7e

Yuan, Yuan, Zhou, Yilu, Li, Yali, Hill, Charlotte, Ewing, Robert, Jones, Mark, Davies, Donna, Jiang, Zhenglin and Wang, Yihua (2020) Deconvolution of RNA-seq analysis of hyperbaric oxygen-treated mice lungs reveals mesenchymal cell subtype changes. International Journal of Molecular Sciences, 21 (4), 1-19, [1371]. (doi:10.3390/ijms21041371).

Record type: Article

Abstract

Hyperbaric oxygen (HBO) is widely applied to treat several hypoxia-related diseases. Previous studies have focused on the immediate effect of HBO-exposure induced oxidative stress on the lungs, but knowledge regarding the chronic effects from repetitive HBO exposure is limited, especially at the gene expression level. We found that repetitive HBO exposure did not alter the morphology of murine lungs. However, by deconvolution of RNA-seq from those mice lungs using CIBERSORTx and the expression profile matrices of 8 mesenchymal cell subtypes obtained from bleomycin-treated mouse lungs, we identify several mesenchymal cell subtype changes. These include increases in Col13a1 matrix fibroblasts, mesenchymal progenitors and mesothelial cell populations and decreases in lipofibroblasts, endothelial and Pdgfrb high cell populations. Our data suggest that repetitive HBO exposure may affect biological processes in the lungs such as response to wounding, extracellular matrix, vasculature development and immune response.

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Accepted/In Press date: 16 February 2020
e-pub ahead of print date: 18 February 2020
Published date: February 2020
Keywords: CIBERSORTx, Hyperbaric oxygen, Lung, RNA-seq

Identifiers

Local EPrints ID: 438154
URI: http://eprints.soton.ac.uk/id/eprint/438154
ISSN: 1422-0067
PURE UUID: 1d024cbc-4f5b-44cd-9cb8-6dd109c2cd21
ORCID for Robert Ewing: ORCID iD orcid.org/0000-0001-6510-4001
ORCID for Mark Jones: ORCID iD orcid.org/0000-0001-6308-6014
ORCID for Donna Davies: ORCID iD orcid.org/0000-0002-5117-2991
ORCID for Yihua Wang: ORCID iD orcid.org/0000-0001-5561-0648

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Date deposited: 03 Mar 2020 17:43
Last modified: 18 Feb 2021 17:25

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