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Reference Detail
| Reference | ||
|---|---|---|
| Author | Waziri A., Singh D.K., Sharma T., Chatterjee S., Purty R.S. | |
| Title | Genome-wide analysis of PHD finger gene family and identification of potential miRNA and their PHD finger gene specific targets in <i>Oryza sativa</i> indica. | |
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Abstract: Rice (<i>Oryza sativa</i> L.) is one of the most important cereal crops for one third of the world population. However, the grain quality as well as yield of rice is severely affected by various abiotic stresses. Environmental stresses affect the expression of various microRNAs (miRNAs) which in turn negatively regulate gene expression at the post-transcriptional level either by degrading the target mRNA genes or suppressing translation in plants. Plant homeo-domain (PHD) finger proteins are known to be involved in the plant response to salinity stress. In the present study, we identified 44 putative <i>OsPHD</i> finger genes in <i>Oryza sativa</i> Indica, using Ensembl Plants Database. Using computational approach, potential miRNAs that target <i>OsPHD</i> finger genes were identified. Out of the 44 <i>OsPHD</i> finger genes only three <i>OsPHD</i> finger genes i.e., <i>OsPHD2, OsPHD35</i> and <i>OsPHD11</i>, were found to be targeted by five newly identified putative miRNAs i.e., ath-miRf10010-akr, ath-miRf10110-akr, osa-miR1857-3p, osa-miRf10863-akr, and osa-miRf11806-akr. This is the first report of these five identified miRNAs on targeting PHD finger in <i>Oryza sativa</i> Indica. Further, expression analysis of 44 PHD finger genes under salinity was also performed using quantitative Real-Time PCR. The expression profile of 8 genes were found to be differentially regulated, among them two genes were significantly up regulated i.e., <i>OsPHD6</i> and <i>OsPHD12</i>. <i>In silico</i> protein-protein interaction analysis using STRING database showed interaction of the OsPHD finger proteins with other protein partners that are directly or indirectly involved in development and abiotic stress tolerance. |
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| Journal | Noncoding RNA Res | |
| Country | India | |
| Volume | 5(4) | |
| Pages | 191-200 | |
| Year | 2020 | |
| PubMed ID | 33163736 | |
| PubMed Central ID | 7610035 | |
| DOI | 10.1016/j.ncrna.2020.10.002 | |
| URL | - | |
| Relation | ||
| Gene | DLN198 DLN258 DLN3 DLN83 EBL1 EBL2 EHD3 HAZ1 HIRP1 PHD1 PHD10 PHD11 PHD13 PHD16 PHD18 PHD19 PHD20 PHD21 PHD22 PHD24 PHD25 PHD26 PHD27 PHD29 PHD3 PHD31 PHD33 PHD35 PHD39 PHD40 PHD41 PHD42 PHD43 PHD5 PHD6 PHD9 RFS SET6 SET7 SHL1 SHL2 SIZ1 TIP3 ZBED | |
| INSD | - | |
| Strain | Wild Core Collection | - |
| Induced Mutation Lines(NIG Collection) | - | |
| Sterile Seed Strain | - | |
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Lethal Embryo Mutantion Strain |
- | |
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Stages in Each Organ - Muant Lines (Gene) |
- | |
| Cultivated Varieties(NIG Collection) | - | |
| Stages in Each Organ | - | |
