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Article

Unravelling the MicroRNA-Mediated Gene Regulation in Developing Pongamia Seeds by High-Throughput Small RNA Profiling

1
Guangdong Key Laboratory of Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518060, China
2
TerViva, Oakland, CA 94612, USA
*
Author to whom correspondence should be addressed.
Int. J. Mol. Sci. 2019, 20(14), 3509; https://doi.org/10.3390/ijms20143509
Received: 29 June 2019 / Revised: 12 July 2019 / Accepted: 15 July 2019 / Published: 17 July 2019
Pongamia (Millettia pinnata syn. Pongamia pinnata) is a multipurpose biofuel tree which can withstand a variety of abiotic stresses. Commercial applications of Pongamia trees may substantially benefit from improvements in their oil-seed productivity, which is governed by complex regulatory mechanisms underlying seed development. MicroRNAs (miRNAs) are important molecular regulators of plant development, while relatively little is known about their roles in seed development, especially for woody plants. In this study, we identified 236 conserved miRNAs within 49 families and 143 novel miRNAs via deep sequencing of Pongamia seeds sampled at three developmental phases. For these miRNAs, 1327 target genes were computationally predicted. Furthermore, 115 differentially expressed miRNAs (DEmiRs) between successive developmental phases were sorted out. The DEmiR-targeted genes were preferentially enriched in the functional categories associated with DNA damage repair and photosynthesis. The combined analyses of expression profiles for DEmiRs and functional annotations for their target genes revealed the involvements of both conserved and novel miRNA-target modules in Pongamia seed development. Quantitative Real-Time PCR validated the expression changes of 15 DEmiRs as well as the opposite expression changes of six targets. These results provide valuable miRNA candidates for further functional characterization and breeding practice in Pongamia and other oilseed plants. View Full-Text
Keywords: Millettia pinnata; woody oilseed plants; seed development; miRNA Millettia pinnata; woody oilseed plants; seed development; miRNA
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MDPI and ACS Style

Jin, Y.; Liu, L.; Hao, X.; Harry, D.E.; Zheng, Y.; Huang, T.; Huang, J. Unravelling the MicroRNA-Mediated Gene Regulation in Developing Pongamia Seeds by High-Throughput Small RNA Profiling. Int. J. Mol. Sci. 2019, 20, 3509. https://doi.org/10.3390/ijms20143509

AMA Style

Jin Y, Liu L, Hao X, Harry DE, Zheng Y, Huang T, Huang J. Unravelling the MicroRNA-Mediated Gene Regulation in Developing Pongamia Seeds by High-Throughput Small RNA Profiling. International Journal of Molecular Sciences. 2019; 20(14):3509. https://doi.org/10.3390/ijms20143509

Chicago/Turabian Style

Jin, Ye, Lin Liu, Xuehong Hao, David E. Harry, Yizhi Zheng, Tengbo Huang, and Jianzi Huang. 2019. "Unravelling the MicroRNA-Mediated Gene Regulation in Developing Pongamia Seeds by High-Throughput Small RNA Profiling" International Journal of Molecular Sciences 20, no. 14: 3509. https://doi.org/10.3390/ijms20143509

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