Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing.
MicroRNAs (miRNAs) have been shown to play crucial roles in the regulation of plant development. In this study, high-throughput RNA-sequencing technology was used to identify novel miRNAs, and to reveal miRNAs expression patterns at different developmental stages during rice (Oryza sativa L.) grain...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2013-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC3585941?pdf=render |
| _version_ | 1818010718777114624 |
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| author | Rong Yi Zhixuan Zhu Jihong Hu Qian Qian Jincheng Dai Yi Ding |
| author_facet | Rong Yi Zhixuan Zhu Jihong Hu Qian Qian Jincheng Dai Yi Ding |
| author_sort | Rong Yi |
| collection | DOAJ |
| description | MicroRNAs (miRNAs) have been shown to play crucial roles in the regulation of plant development. In this study, high-throughput RNA-sequencing technology was used to identify novel miRNAs, and to reveal miRNAs expression patterns at different developmental stages during rice (Oryza sativa L.) grain filling. A total of 434 known miRNAs (380, 402, 390 and 392 at 5, 7, 12 and 17 days after fertilization, respectively.) were obtained from rice grain. The expression profiles of these identified miRNAs were analyzed and the results showed that 161 known miRNAs were differentially expressed during grain development, a high proportion of which were up-regulated from 5 to 7 days after fertilization. In addition, sixty novel miRNAs were identified, and five of these were further validated experimentally. Additional analysis showed that the predicted targets of the differentially expressed miRNAs may participate in signal transduction, carbohydrate and nitrogen metabolism, the response to stimuli and epigenetic regulation. In this study, differences were revealed in the composition and expression profiles of miRNAs among individual developmental stages during the rice grain filling process, and miRNA editing events were also observed, analyzed and validated during this process. The results provide novel insight into the dynamic profiles of miRNAs in developing rice grain and contribute to the understanding of the regulatory roles of miRNAs in grain filling. |
| first_indexed | 2024-04-14T05:58:57Z |
| format | Article |
| id | doaj.art-87beb27cadce4cdcaf12bfcd381c6498 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-04-14T05:58:57Z |
| publishDate | 2013-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-87beb27cadce4cdcaf12bfcd381c64982022-12-22T02:08:51ZengPublic Library of Science (PLoS)PLoS ONE1932-62032013-01-0183e5786310.1371/journal.pone.0057863Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing.Rong YiZhixuan ZhuJihong HuQian QianJincheng DaiYi DingMicroRNAs (miRNAs) have been shown to play crucial roles in the regulation of plant development. In this study, high-throughput RNA-sequencing technology was used to identify novel miRNAs, and to reveal miRNAs expression patterns at different developmental stages during rice (Oryza sativa L.) grain filling. A total of 434 known miRNAs (380, 402, 390 and 392 at 5, 7, 12 and 17 days after fertilization, respectively.) were obtained from rice grain. The expression profiles of these identified miRNAs were analyzed and the results showed that 161 known miRNAs were differentially expressed during grain development, a high proportion of which were up-regulated from 5 to 7 days after fertilization. In addition, sixty novel miRNAs were identified, and five of these were further validated experimentally. Additional analysis showed that the predicted targets of the differentially expressed miRNAs may participate in signal transduction, carbohydrate and nitrogen metabolism, the response to stimuli and epigenetic regulation. In this study, differences were revealed in the composition and expression profiles of miRNAs among individual developmental stages during the rice grain filling process, and miRNA editing events were also observed, analyzed and validated during this process. The results provide novel insight into the dynamic profiles of miRNAs in developing rice grain and contribute to the understanding of the regulatory roles of miRNAs in grain filling.http://europepmc.org/articles/PMC3585941?pdf=render |
| spellingShingle | Rong Yi Zhixuan Zhu Jihong Hu Qian Qian Jincheng Dai Yi Ding Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing. PLoS ONE |
| title | Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing. |
| title_full | Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing. |
| title_fullStr | Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing. |
| title_full_unstemmed | Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing. |
| title_short | Identification and expression analysis of microRNAs at the grain filling stage in rice(Oryza sativa L.)via deep sequencing. |
| title_sort | identification and expression analysis of micrornas at the grain filling stage in rice oryza sativa l via deep sequencing |
| url | http://europepmc.org/articles/PMC3585941?pdf=render |
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