Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput Sequencing
MicroRNAs (miRNAs) participate in hepatic stellate cell (HSC) activation, which drives liver fibrosis initiation and progression. We aimed to identify novel hepatic fibrosis targets using miRNA sequencing (miRNA-seq) of human primary HSCs. Surgically resected liver tissues were used to extract HSCs....
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MDPI AG
2022-11-01
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| Online Access: | https://www.mdpi.com/2073-4425/13/12/2201 |
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| author | Xu Liu Heming Ma Ruihong Wu Huan Wang Hongqin Xu Shuxuan Li Guangyi Wang Guoyue Lv Junqi Niu |
| author_facet | Xu Liu Heming Ma Ruihong Wu Huan Wang Hongqin Xu Shuxuan Li Guangyi Wang Guoyue Lv Junqi Niu |
| author_sort | Xu Liu |
| collection | DOAJ |
| description | MicroRNAs (miRNAs) participate in hepatic stellate cell (HSC) activation, which drives liver fibrosis initiation and progression. We aimed to identify novel hepatic fibrosis targets using miRNA sequencing (miRNA-seq) of human primary HSCs. Surgically resected liver tissues were used to extract HSCs. Based on next-generation sequencing, miRNA-seq was performed on four pairs of HSCs before and after in vitro culture. Additionally, we compared our data with open access miRNA-seq data derived from fourteen cirrhotic and nine healthy liver tissues. Selected miRNAs associated with fibrosis were verified by quantitative real-time PCR. Target mRNAs of differentially expressed (DE) miRNAs were predicted to construct co-expression networks. We identified 230 DEmiRNAs (118 upregulated and 112 downregulated) upon HSC activation. Of the 17 miRNAs with the most significant differences in expression, liver disease-related miRNAs included <i>miR-758-3p</i>, <i>miR-493-5p</i>, <i>miR-409-3p</i>, <i>miR-31-5p</i>, <i>miR-1268a</i>, and <i>miR-381-3p</i>, which might play roles in hepatic fibrosis. Moreover, <i>let-7g-5p</i>, <i>miR-107</i>, <i>miR-122-5p</i>, <i>miR-127-3p</i>, <i>miR-139-5p</i>, <i>miR-148a-3p</i>, <i>miR-194-5p</i>, <i>miR-215-5p</i>, <i>miR-26a-5p</i>, <i>miR-340-5p</i>, <i>miR-451a</i>, and <i>miR-99a-5p</i> were common between our data and the publicly available sequencing data. A co-expression network comprising 1891 matched miRNA–mRNA pairs representing 138 DEmiRNAs and 1414 DEmRNAs was constructed. <i>MiR-1268a</i> and <i>miR-665</i>, possessing the richest target DEmRNAs, may be vital in HSC activation. The targeted genes were involved in collagen metabolism, extracellular matrix structural constituent, cytoskeletal protein binding, and cell adhesion. The miRNAs we identified may provide a basis and reference for the selection of diagnostic and therapeutic targets for hepatic fibrosis. |
| first_indexed | 2024-03-09T16:30:24Z |
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| institution | Directory Open Access Journal |
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| language | English |
| last_indexed | 2024-03-09T16:30:24Z |
| publishDate | 2022-11-01 |
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| spelling | doaj.art-5fb454a71f1c4b33a5e1333ae1c2f2792023-11-24T15:02:41ZengMDPI AGGenes2073-44252022-11-011312220110.3390/genes13122201Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput SequencingXu Liu0Heming Ma1Ruihong Wu2Huan Wang3Hongqin Xu4Shuxuan Li5Guangyi Wang6Guoyue Lv7Junqi Niu8Department of Hepatology, First Hospital of Jilin University, Changchun 130021, ChinaDepartment of Hepatology, First Hospital of Jilin University, Changchun 130021, ChinaDepartment of Hepatology, First Hospital of Jilin University, Changchun 130021, ChinaDepartment of Infectious Diseases, Union Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430022, ChinaDepartment of Hepatology, First Hospital of Jilin University, Changchun 130021, ChinaDepartment of Hepatobiliary and Pancreatic Surgery, First Hospital of Jilin University, Changchun 130021, ChinaDepartment of Hepatobiliary and Pancreatic Surgery, First Hospital of Jilin University, Changchun 130021, ChinaDepartment of Hepatobiliary and Pancreatic Surgery, First Hospital of Jilin University, Changchun 130021, ChinaDepartment of Hepatology, First Hospital of Jilin University, Changchun 130021, ChinaMicroRNAs (miRNAs) participate in hepatic stellate cell (HSC) activation, which drives liver fibrosis initiation and progression. We aimed to identify novel hepatic fibrosis targets using miRNA sequencing (miRNA-seq) of human primary HSCs. Surgically resected liver tissues were used to extract HSCs. Based on next-generation sequencing, miRNA-seq was performed on four pairs of HSCs before and after in vitro culture. Additionally, we compared our data with open access miRNA-seq data derived from fourteen cirrhotic and nine healthy liver tissues. Selected miRNAs associated with fibrosis were verified by quantitative real-time PCR. Target mRNAs of differentially expressed (DE) miRNAs were predicted to construct co-expression networks. We identified 230 DEmiRNAs (118 upregulated and 112 downregulated) upon HSC activation. Of the 17 miRNAs with the most significant differences in expression, liver disease-related miRNAs included <i>miR-758-3p</i>, <i>miR-493-5p</i>, <i>miR-409-3p</i>, <i>miR-31-5p</i>, <i>miR-1268a</i>, and <i>miR-381-3p</i>, which might play roles in hepatic fibrosis. Moreover, <i>let-7g-5p</i>, <i>miR-107</i>, <i>miR-122-5p</i>, <i>miR-127-3p</i>, <i>miR-139-5p</i>, <i>miR-148a-3p</i>, <i>miR-194-5p</i>, <i>miR-215-5p</i>, <i>miR-26a-5p</i>, <i>miR-340-5p</i>, <i>miR-451a</i>, and <i>miR-99a-5p</i> were common between our data and the publicly available sequencing data. A co-expression network comprising 1891 matched miRNA–mRNA pairs representing 138 DEmiRNAs and 1414 DEmRNAs was constructed. <i>MiR-1268a</i> and <i>miR-665</i>, possessing the richest target DEmRNAs, may be vital in HSC activation. The targeted genes were involved in collagen metabolism, extracellular matrix structural constituent, cytoskeletal protein binding, and cell adhesion. The miRNAs we identified may provide a basis and reference for the selection of diagnostic and therapeutic targets for hepatic fibrosis.https://www.mdpi.com/2073-4425/13/12/2201human primary hepatic stellate cellliver fibrosismicroRNAnext-generation sequencingtarget |
| spellingShingle | Xu Liu Heming Ma Ruihong Wu Huan Wang Hongqin Xu Shuxuan Li Guangyi Wang Guoyue Lv Junqi Niu Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput Sequencing Genes human primary hepatic stellate cell liver fibrosis microRNA next-generation sequencing target |
| title | Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput Sequencing |
| title_full | Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput Sequencing |
| title_fullStr | Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput Sequencing |
| title_full_unstemmed | Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput Sequencing |
| title_short | Identification of Liver Fibrosis-Related MicroRNAs in Human Primary Hepatic Stellate Cells Using High-Throughput Sequencing |
| title_sort | identification of liver fibrosis related micrornas in human primary hepatic stellate cells using high throughput sequencing |
| topic | human primary hepatic stellate cell liver fibrosis microRNA next-generation sequencing target |
| url | https://www.mdpi.com/2073-4425/13/12/2201 |
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