Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i>
Poplar is an important shelterbelt, timber stand, and city tree species that has been the focus of forestry research. The regulatory role of the long non-coding RNA molecule (lncRNA; length > 200 nt) has been a research hotspot in plants. In this study, seedlings of <i>741</i> poplar...
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| Format: | Article |
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MDPI AG
2023-09-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/12/17/3157 |
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| author | Hongyan Li Yiwen Zhang Jinping Lan Shijie Wang Hongyu Cai Xin Meng Yachao Ren Minsheng Yang |
| author_facet | Hongyan Li Yiwen Zhang Jinping Lan Shijie Wang Hongyu Cai Xin Meng Yachao Ren Minsheng Yang |
| author_sort | Hongyan Li |
| collection | DOAJ |
| description | Poplar is an important shelterbelt, timber stand, and city tree species that has been the focus of forestry research. The regulatory role of the long non-coding RNA molecule (lncRNA; length > 200 nt) has been a research hotspot in plants. In this study, seedlings of <i>741</i> poplar were irradiated with LED blue and white light, and the Illumina HiSeq 2000 sequencing platform was used to identify lncRNAs. |logFC| > 1 and <i>p</i> < 0.05 were considered to indicate differentially expressed lncRNAs, and nine differentially expressed lncRNAs were screened, the target genes of which were predicted, and three functionally annotated target genes were obtained. The differentially expressed lncRNAs were identified as miRNA targets. Six lncRNAs were determined to be target sites for twelve mRNAs in six miRNA families. LncRNAs and their target genes, including lncRNA <i>MSTRG.20413.1-ptc-miR396e-5p-GRF9</i>, were verified using quantitative real-time polymerase chain reaction analysis, and the expression patterns were analyzed. The analysis showed that the <i>ptc-miR396e-5p</i> expression was downregulated, while lncRNA <i>MSTRG.20413.1</i> and <i>GRF9</i> expression was upregulated, after blue light exposure. These results indicate that lncRNAs interact with miRNAs to regulate gene expression and affect plant growth and development. |
| first_indexed | 2024-03-10T23:15:55Z |
| format | Article |
| id | doaj.art-f6aa169dce864fc385b7226bdfc803ac |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-10T23:15:55Z |
| publishDate | 2023-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj.art-f6aa169dce864fc385b7226bdfc803ac2023-11-19T08:42:08ZengMDPI AGPlants2223-77472023-09-011217315710.3390/plants12173157Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i>Hongyan Li0Yiwen Zhang1Jinping Lan2Shijie Wang3Hongyu Cai4Xin Meng5Yachao Ren6Minsheng Yang7Forest Department, Forestry College, Hebei Agricultural University, Baoding 071000, ChinaForest Department, Forestry College, Hebei Agricultural University, Baoding 071000, ChinaLife Science Research Center, Hebei North University, Zhangjiakou 075000, ChinaForest Department, Forestry College, Hebei Agricultural University, Baoding 071000, ChinaForest Department, Forestry College, Hebei Agricultural University, Baoding 071000, ChinaForest Department, Forestry College, Hebei Agricultural University, Baoding 071000, ChinaForest Department, Forestry College, Hebei Agricultural University, Baoding 071000, ChinaForest Department, Forestry College, Hebei Agricultural University, Baoding 071000, ChinaPoplar is an important shelterbelt, timber stand, and city tree species that has been the focus of forestry research. The regulatory role of the long non-coding RNA molecule (lncRNA; length > 200 nt) has been a research hotspot in plants. In this study, seedlings of <i>741</i> poplar were irradiated with LED blue and white light, and the Illumina HiSeq 2000 sequencing platform was used to identify lncRNAs. |logFC| > 1 and <i>p</i> < 0.05 were considered to indicate differentially expressed lncRNAs, and nine differentially expressed lncRNAs were screened, the target genes of which were predicted, and three functionally annotated target genes were obtained. The differentially expressed lncRNAs were identified as miRNA targets. Six lncRNAs were determined to be target sites for twelve mRNAs in six miRNA families. LncRNAs and their target genes, including lncRNA <i>MSTRG.20413.1-ptc-miR396e-5p-GRF9</i>, were verified using quantitative real-time polymerase chain reaction analysis, and the expression patterns were analyzed. The analysis showed that the <i>ptc-miR396e-5p</i> expression was downregulated, while lncRNA <i>MSTRG.20413.1</i> and <i>GRF9</i> expression was upregulated, after blue light exposure. These results indicate that lncRNAs interact with miRNAs to regulate gene expression and affect plant growth and development.https://www.mdpi.com/2223-7747/12/17/3157light response<i>Populus 741</i>lncRNAsceRNAsgrowth and development |
| spellingShingle | Hongyan Li Yiwen Zhang Jinping Lan Shijie Wang Hongyu Cai Xin Meng Yachao Ren Minsheng Yang Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i> Plants light response <i>Populus 741</i> lncRNAs ceRNAs growth and development |
| title | Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i> |
| title_full | Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i> |
| title_fullStr | Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i> |
| title_full_unstemmed | Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i> |
| title_short | Identification of Differentially Expressed lncRNAs in Response to Blue Light and Expression Pattern Analysis of <i>Populus tomentosa</i> Hybrid Poplar <i>741</i> |
| title_sort | identification of differentially expressed lncrnas in response to blue light and expression pattern analysis of i populus tomentosa i hybrid poplar i 741 i |
| topic | light response <i>Populus 741</i> lncRNAs ceRNAs growth and development |
| url | https://www.mdpi.com/2223-7747/12/17/3157 |
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