Pan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activity
Abstract Background Long interspersed nuclear element-1 (LINE-1 or L1) comprises 17% of the human genome. As the only autonomous and active retrotransposons, L1 may take part in cancer initiation and progression in some ways. The studies of L1 in cancer mainly focus on the impact of L1 insertion int...
| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2023-09-01
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| Series: | Mobile DNA |
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| Online Access: | https://doi.org/10.1186/s13100-023-00300-x |
| _version_ | 1797452380402352128 |
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| author | Baohong Xu Xueer Li Shaoqi Zhang Meina Lian Wenbin Huang Yin Zhang Yudong Wang Zhiquan Huang |
| author_facet | Baohong Xu Xueer Li Shaoqi Zhang Meina Lian Wenbin Huang Yin Zhang Yudong Wang Zhiquan Huang |
| author_sort | Baohong Xu |
| collection | DOAJ |
| description | Abstract Background Long interspersed nuclear element-1 (LINE-1 or L1) comprises 17% of the human genome. As the only autonomous and active retrotransposons, L1 may take part in cancer initiation and progression in some ways. The studies of L1 in cancer mainly focus on the impact of L1 insertion into the new genome locus. The L1 5´ untranslated region (UTR) also contains antisense promoter (ASP) activity, generating L1-gene chimeric transcripts to a neighbor exon. Some of these ASP-associated genes have been reported to be overexpressed in cancer and promote cancer cell growth. However, little is known about overall expression patterns and the roles of L1 ASP-associated genes in human cancers. Results L1 ASP-associated genes were frequently dysregulated in cancer and associated with the cell cycle, the PI3K/AKT pathway, and the GTPase signaling pathway. The expression of L1 ASP-associated genes was correlated with tumor patient prognosis. Hub L1 ASP-associated genes CENPU and MCM2 showed a correlation with immune infiltration, clinical T stage, and cancer stemness in pan-cancer. Knockdown of L1 ASP-associated gene LINC00491 resulted in a significant decrease in tumor growth and migration ability. Conclusions The expression of L1 ASP-associated genes is significantly dysregulated at the pan-cancer level, which is closely related to the tumor microenvironment, progression, and patient prognosis. Hub genes CENPU and MCM2 are expected to be new tumor diagnostic markers and therapeutic targets. |
| first_indexed | 2024-03-09T15:08:25Z |
| format | Article |
| id | doaj.art-fd631f32319e4ed99f3176a3f20ed121 |
| institution | Directory Open Access Journal |
| issn | 1759-8753 |
| language | English |
| last_indexed | 2024-03-09T15:08:25Z |
| publishDate | 2023-09-01 |
| publisher | BMC |
| record_format | Article |
| series | Mobile DNA |
| spelling | doaj.art-fd631f32319e4ed99f3176a3f20ed1212023-11-26T13:34:26ZengBMCMobile DNA1759-87532023-09-0114111710.1186/s13100-023-00300-xPan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activityBaohong Xu0Xueer Li1Shaoqi Zhang2Meina Lian3Wenbin Huang4Yin Zhang5Yudong Wang6Zhiquan Huang7First Affiliated Hospital of Guangdong Pharmaceutical UniversityFirst Affiliated Hospital of Guangdong Pharmaceutical UniversityFirst Affiliated Hospital of Guangdong Pharmaceutical UniversityFirst Affiliated Hospital of Guangdong Pharmaceutical UniversityFirst Affiliated Hospital of Guangdong Pharmaceutical UniversityGuangdong Provincial Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation, Sun Yat-Sen Memorial Hospital, Sun Yat-Sen UniversityFirst Affiliated Hospital of Guangdong Pharmaceutical UniversityFirst Affiliated Hospital of Guangdong Pharmaceutical UniversityAbstract Background Long interspersed nuclear element-1 (LINE-1 or L1) comprises 17% of the human genome. As the only autonomous and active retrotransposons, L1 may take part in cancer initiation and progression in some ways. The studies of L1 in cancer mainly focus on the impact of L1 insertion into the new genome locus. The L1 5´ untranslated region (UTR) also contains antisense promoter (ASP) activity, generating L1-gene chimeric transcripts to a neighbor exon. Some of these ASP-associated genes have been reported to be overexpressed in cancer and promote cancer cell growth. However, little is known about overall expression patterns and the roles of L1 ASP-associated genes in human cancers. Results L1 ASP-associated genes were frequently dysregulated in cancer and associated with the cell cycle, the PI3K/AKT pathway, and the GTPase signaling pathway. The expression of L1 ASP-associated genes was correlated with tumor patient prognosis. Hub L1 ASP-associated genes CENPU and MCM2 showed a correlation with immune infiltration, clinical T stage, and cancer stemness in pan-cancer. Knockdown of L1 ASP-associated gene LINC00491 resulted in a significant decrease in tumor growth and migration ability. Conclusions The expression of L1 ASP-associated genes is significantly dysregulated at the pan-cancer level, which is closely related to the tumor microenvironment, progression, and patient prognosis. Hub genes CENPU and MCM2 are expected to be new tumor diagnostic markers and therapeutic targets.https://doi.org/10.1186/s13100-023-00300-xLINE-1 transposonLINE-1 antisense promoter associated genePan-cancerPrognosisTumor microenvironment |
| spellingShingle | Baohong Xu Xueer Li Shaoqi Zhang Meina Lian Wenbin Huang Yin Zhang Yudong Wang Zhiquan Huang Pan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activity Mobile DNA LINE-1 transposon LINE-1 antisense promoter associated gene Pan-cancer Prognosis Tumor microenvironment |
| title | Pan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activity |
| title_full | Pan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activity |
| title_fullStr | Pan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activity |
| title_full_unstemmed | Pan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activity |
| title_short | Pan cancer characterization of genes whose expression has been associated with LINE-1 antisense promoter activity |
| title_sort | pan cancer characterization of genes whose expression has been associated with line 1 antisense promoter activity |
| topic | LINE-1 transposon LINE-1 antisense promoter associated gene Pan-cancer Prognosis Tumor microenvironment |
| url | https://doi.org/10.1186/s13100-023-00300-x |
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