Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury
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 l...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2023-10-01
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| Series: | BMC Pulmonary Medicine |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12890-023-02717-9 |
| _version_ | 1797647426672132096 |
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| author | Qianying Lu Junfeng Li Yanmei Zhao Jianfeng Zhang Mingyu Shi Sifan Yu Yangfan Liang Haojun Fan Xiangyan Meng |
| author_facet | Qianying Lu Junfeng Li Yanmei Zhao Jianfeng Zhang Mingyu Shi Sifan Yu Yangfan Liang Haojun Fan Xiangyan Meng |
| author_sort | Qianying Lu |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-03-11T15:17:11Z |
| format | Article |
| id | doaj.art-c848f67d10c44a57984a39f837a20531 |
| institution | Directory Open Access Journal |
| issn | 1471-2466 |
| language | English |
| last_indexed | 2024-03-11T15:17:11Z |
| publishDate | 2023-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Pulmonary Medicine |
| spelling | doaj.art-c848f67d10c44a57984a39f837a205312023-10-29T12:13:07ZengBMCBMC Pulmonary Medicine1471-24662023-10-0123111310.1186/s12890-023-02717-9Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injuryQianying Lu0Junfeng Li1Yanmei Zhao2Jianfeng Zhang3Mingyu Shi4Sifan Yu5Yangfan Liang6Haojun Fan7Xiangyan Meng8Institute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityInstitute of Disaster and Emergency Medicine, Tianjin UniversityAbstract 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.https://doi.org/10.1186/s12890-023-02717-9BlastLungcircRNAscircRNA-miRNA-hub gene networkTherapy |
| spellingShingle | Qianying Lu Junfeng Li Yanmei Zhao Jianfeng Zhang Mingyu Shi Sifan Yu Yangfan Liang Haojun Fan Xiangyan Meng Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury BMC Pulmonary Medicine Blast Lung circRNAs circRNA-miRNA-hub gene network Therapy |
| title | Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury |
| title_full | Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury |
| title_fullStr | Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury |
| title_full_unstemmed | Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury |
| title_short | Identification of potentially functional circRNAs and prediction of the circRNA-miRNA-hub gene network in mice with primary blast lung injury |
| title_sort | identification of potentially functional circrnas and prediction of the circrna mirna hub gene network in mice with primary blast lung injury |
| topic | Blast Lung circRNAs circRNA-miRNA-hub gene network Therapy |
| url | https://doi.org/10.1186/s12890-023-02717-9 |
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