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Wang H, Gao JH, Fan XL, Lu Q, Li L, Ma N, Wang Q, Zhang YH. Identification of overlay differentially expressed genes in both rats and goats with blast lung injury through comparative transcriptomics. Chin J Traumatol 2024; 27:34-41. [PMID: 38071167 PMCID: PMC10859281 DOI: 10.1016/j.cjtee.2023.11.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Revised: 10/30/2023] [Accepted: 11/28/2023] [Indexed: 02/05/2024] Open
Abstract
PURPOSE To identify the potential target genes of blast lung injury (BLI) for the diagnosis and treatment. METHODS This is an experimental study. The BLI models in rats and goats were established by conducting a fuel-air explosive power test in an unobstructed environment, which was subsequently validated through hematoxylin-eosin staining. Transcriptome sequencing was performed on lung tissues from both goats and rats. Differentially expressed genes were identified using the criteria of q ≤ 0.05 and |log2 fold change| ≥ 1. Following that, enrichment analyses were conducted for gene ontology and the Kyoto Encyclopedia of Genes and Genomes pathways. The potential target genes were further confirmed through quantitative real-time polymerase chain reaction and enzyme linked immunosorbent assay. RESULTS Observations through microscopy unveiled the presence of reddish edema fluid, erythrocytes, and instances of focal or patchy bleeding within the alveolar cavity. Transcriptome sequencing analysis identified a total of 83 differentially expressed genes in both rats and goats. Notably, 49 genes exhibited a consistent expression pattern, with 38 genes displaying up-regulation and 11 genes demonstrating down-regulation. Enrichment analysis highlighted the potential involvement of the interleukin-17 signaling pathway and vascular smooth muscle contraction pathway in the underlying mechanism of BLI. Furthermore, the experimental findings in both goats and rats demonstrated a strong association between BLI and several key genes, including anterior gradient 2, ankyrin repeat domain 65, bactericidal/permeability-increasing fold containing family A member 1, bactericidal/permeability-increasing fold containing family B member 1, and keratin 4, which exhibited up-regulation. CONCLUSIONS Anterior gradient 2, ankyrin repeat domain 65, bactericidal/permeability-increasing fold containing family A member 1, bactericidal/permeability-increasing fold containing family B member 1, and keratin 4 hold potential as target genes for the prognosis, diagnosis, and treatment of BLI.
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Affiliation(s)
- Hong Wang
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China.
| | - Jun-Hong Gao
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China
| | - Xiao-Lin Fan
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China
| | - Qing Lu
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China
| | - Liang Li
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China
| | - Ning Ma
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China
| | - Qi Wang
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China
| | - Yu-Hao Zhang
- Xi'an Key Laboratory of Toxicology and Biological Effects, Research Center for Toxicological and Biological Effects, Institute for Hygiene of Ordnance Industry, Xi'an, 710065, China
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Lu Q, Li J, Zhao Y, Zhang J, Shi M, Yu S, Liang Y, Fan H, Meng X. Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury. BMC Pulm Med 2023; 23:410. [PMID: 37891516 PMCID: PMC10612283 DOI: 10.1186/s12890-023-02717-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 10/17/2023] [Indexed: 10/29/2023] Open
Abstract
OBJECTIVES Primary blast lung injury (PBLI) is the main cause of death in blast injury patients, and is often ignored due to the absence of a specific diagnosis. Circular RNAs (circRNAs) are becoming recognized as new regulators of various diseases, but the role of circRNAs in PBLI remain largely unknown. This study aimed to investigate PBLI-related circRNAs and their probable roles as new regulators in PBLI in order to provide new ideas for PBLI diagnosis and treatment. METHODS The differentially expressed (DE) circRNA and mRNA profiles were screened by transcriptome high-throughput sequencing and validated by quantitative real-time PCR (qRT-PCR). The GO and KEGG pathway enrichment was used to investigate the potential function of DE mRNAs. The interactions between proteins were analyzed using the STRING database and hub genes were identified using the MCODE plugin. Then, Cytoscape software was used to illustrate the circRNA-miRNA-hub gene network. RESULTS A total of 117 circRNAs and 681 mRNAs were aberrantly expressed in PBLI, including 64 up-regulated and 53 down-regulated circRNAs, and 315 up-regulated and 366 down-regulated mRNAs. GO and KEGG analysis revealed that the DE mRNAs might be involved in the TNF signaling pathway and Fanconi anemia pathway. Hub genes, including Cenpf, Ndc80, Cdk1, Aurkb, Ttk, Aspm, Ccnb1, Kif11, Bub1 and Top2a, were obtained using the MCODE plugin. The network consist of 6 circRNAs (chr18:21008725-21020999 + , chr4:44893533-44895989 + , chr4:56899026-56910247-, chr5:123709382-123719528-, chr9:108528589-108544977 + and chr15:93452117-93465245 +), 7 miRNAs (mmu-miR-3058-5p, mmu-miR-3063-5p, mmu-miR-668-5p, mmu-miR-7038-3p, mmu-miR-761, mmu-miR-7673-5p and mmu-miR-9-5p) and 6 mRNAs (Aspm, Aurkb, Bub1, Cdk1, Cenpf and Top2a). CONCLUSIONS This study examined a circRNA-miRNA-hub gene regulatory network associated with PBLI and explored the potential functions of circRNAs in the network for the first time. Six circRNAs in the circRNA-miRNA-hub gene regulatory network, including chr18:21008725-21020999 + , chr4:44893533-44895989 + , chr4:56899026-56910247-, chr5:123709382-123719528-, chr9:108528589-108544977 + and chr15:93452117-93465245 + may play an essential role in PBLI.
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Affiliation(s)
- Qianying Lu
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
| | - Junfeng Li
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
| | - Yanmei Zhao
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
| | - Jianfeng Zhang
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
| | - Mingyu Shi
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
| | - Sifan Yu
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
| | - Yangfan Liang
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
| | - Haojun Fan
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China
- Wenzhou Safety (Emergency) Institute, Tianjin University, Wenzhou, 325000, China
| | - Xiangyan Meng
- Institute of Disaster and Emergency Medicine, Tianjin University, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China.
- Tianjin Key Laboratory of Disaster Medicine Technology, No. 92, Weijin Road, Nankai District, Tianjin, 300072, China.
- Wenzhou Safety (Emergency) Institute, Tianjin University, Wenzhou, 325000, China.
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