Deep sequencing identifies novel and conserved microRNAs in peanuts (L.)
Zhao, Chuan-Zhi; Xia, Han; Frazier, Taylor Price; Yao, Ying-Yin; Bi, Yu-Ping; Li, Ai-Qin; Li, Meng-Jun; Li, Chang-Sheng; Zhang, Bao-Hong; Wang, Xing-Jun
Background MicroRNAs (miRNAs) are a new class of small, endogenous RNAs that play a regulatory role in the cell by negatively affecting gene expression at the post-transcriptional level. miRNAs have been shown to control numerous genes involved in various biological and metabolic processes. There have been extensive studies on discovering miRNAs and analyzing their functions in model species, such as Arabidopsis and rice. Increasing investigations have been performed on important agricultural crops including soybean, conifers, and Phaselous vulgaris but no studies have been reported on discovering peanut miRNAs using a cloning strategy. Results In this study, we employed the next generation high through-put Solexa sequencing technology to clone and identify both conserved and species-specific miRNAs in peanuts. Next generation high through-put Solexa sequencing showed that peanuts have a complex small RNA population and the length of small RNAs varied, 24-nt being the predominant length for a majority of the small RNAs. Combining the deep sequencing and bioinformatics, we discovered 14 novel miRNA families as well as 75 conserved miRNAs in peanuts. All 14 novel peanut miRNAs are considered to be species-specific because no homologs have been found in other plant species except ahy-miRn1, which has a homolog in soybean. qRT-PCR analysis demonstrated that both conserved and peanut-specific miRNAs are expressed in peanuts. Conclusions This study led to the discovery of 14 novel and 22 conserved miRNA families from peanut. These results show that regulatory miRNAs exist in agronomically important peanuts and may play an important role in peanut growth, development, and response to environmental stress.
Zhao, Chuan-Zhi, & Xia, Han, & Frazier, Taylor Price, & Yao, Ying-Yin, & Bi, Yu-Ping, & Li, Ai-Qin, & Li, Meng-Jun, & Li, Chang-Sheng, & Zhang, Bao-Hong, & Wang, Xing-Jun. (January 2010). Deep sequencing identifies novel and conserved microRNAs in peanuts (L.). BMC Plant Biology, 10(), 3- 3. Retrieved from http://hdl.handle.net/10342/5478
Zhao, Chuan-Zhi, and Xia, Han, and Frazier, Taylor Price, and Yao, Ying-Yin, and Bi, Yu-Ping, and Li, Ai-Qin, and Li, Meng-Jun, and Li, Chang-Sheng, and Zhang, Bao-Hong, and Wang, Xing-Jun. "Deep sequencing identifies novel and conserved microRNAs in peanuts (L.)". BMC Plant Biology. 10:. (3-3), January 2010. June 23, 2018. http://hdl.handle.net/10342/5478.
Zhao, Chuan-Zhi and Xia, Han and Frazier, Taylor Price and Yao, Ying-Yin and Bi, Yu-Ping and Li, Ai-Qin and Li, Meng-Jun and Li, Chang-Sheng and Zhang, Bao-Hong and Wang, Xing-Jun, "Deep sequencing identifies novel and conserved microRNAs in peanuts (L.)," BMC Plant Biology 10, no. (January 2010), http://hdl.handle.net/10342/5478 (accessed June 23, 2018).
Zhao, Chuan-Zhi, Xia, Han, Frazier, Taylor Price, Yao, Ying-Yin, Bi, Yu-Ping, Li, Ai-Qin, Li, Meng-Jun, Li, Chang-Sheng, Zhang, Bao-Hong, Wang, Xing-Jun. Deep sequencing identifies novel and conserved microRNAs in peanuts (L.). BMC Plant Biology. January 2010; 10(): 3-3. http://hdl.handle.net/10342/5478. Accessed June 23, 2018.