SEED AGING-RELATED LONG NON-CODING RNA (LNCRNA) IN RICE (ORYZA SATIVA L.)
Fan, F.1,2, Zhang, Q.J.1, Liu, Q.J.1, Gao, J.D.1, Fu, H.3, Cheng G.H.2 and Liu J.1
1Agro-Biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
2College of Agronomy, Hunan Agricultural University, Changsha 410128, China
3Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
Contact: Jun Liu, firstname.lastname@example.org
Long non-coding RNA（lncRNA）modulate gene expression patterns at all levels from epigenetic, transcription to post-translation, and play important roles in a wide range of biological processes. However, how lncRNA regulate seed aging remains unknown. In this study, we performed a whole transcriptome strand specific RNA sequencing (ssRNA-seq) for rice seed and analyzed the differences of lncRNAs expression in rice seed embryo during accelerated aging. Most lncRNAs are down-regulated in aged seeds. According to the KEGG results of lncRNA’s co-localization and co-expressed genes, the functional pathways of up-regulated lncRNAs in aged seeds are different from those down-regulated lncRNAs. The major pathways of up-regulated lncRNA’s co-expression and co-localization genes are related to base excision repair, while the down-regulated genes related to plant pathogen interaction, plant hormone signal transduction, energy metabolism, etc.
The cDNA sequence of lncRNA XLOC-037529 was obtained by RACE cloning. XLOC_037529 showed significant differences before and after aging, but may not function synergistically with miRNAs. Compared to indica genome, XLOC-037529 showed that: (1) it has a total length of 1325 bp with different alternative splicings, (2) the 5' end was conserved, (3) the 3' end was not conserved and a polyA tail in the 3' end.