Genome-Wide Identification of lncRNAs During Rice Seed Development.

Juan Zhao,Abolore Adijat Ajadi,Xiaohong Tong,Liqun Tang,Wanning Liu,Yifeng Wang,Jian Zhang,Yazhou Shu,Shuang Wang,Shufan Li,Huimei Wang,Zhiyong Li,Xixi Liu

doi:10.3390/genes11030243

Abstract

Rice seed is a pivotal reproductive organ that directly determines yield and quality. Long non-coding RNAs (lncRNAs) have been recognized as key regulators in plant development, but the roles of lncRNAs in rice seed development remain unclear. In this study, we performed a paired-end RNA sequencing in samples of rice pistils and seeds at three and seven days after pollination (DAP) respectively. A total of 540 lncRNAs were obtained, among which 482 lncRNAs had significantly different expression patterns during seed development. Results from semi-qPCR conducted on 15 randomly selected differentially expressed lncRNAs suggested high reliability of the transcriptomic data. RNA interference of TCONS_00023703, which is predominantly transcribed in developing seeds, significantly reduced grain length and thousand-grain weight. These results expanded the dataset of lncRNA in rice and enhanced our understanding of the biological functions of lncRNAs in rice seed development

Highlights

Long non-coding RNA refers to transcripts longer than 200 nucleotides and are functionalRNA molecules which have no discernable coding potential [1,2]
Rice seed development starts from the pistils before pollination, further undergoes double fertilization, rapid proliferation and differentiation of the embryo, the endosperm cells gradually differentiate into aleuronic cells and starch storage cells and to mature seeds
These results processes, metabolic processes, catalytic activities, organelles and cell parts in these three groups. Suggested that these differentially expressed Long non-coding RNAs (lncRNAs) may participate in seed development by affecting. These results suggested that these differentially expressed lncRNAs may participate in seed various pathways

Summary

Introduction

Long non-coding RNA (lncRNA) refers to transcripts longer than 200 nucleotides and are functionalRNA molecules which have no discernable coding potential [1,2]. Long non-coding RNA (lncRNA) refers to transcripts longer than 200 nucleotides and are functional. LncRNAs have been classified into three categories based on their genomic locations and in relation with the protein-coding genes. LncRNA could be transcribed from either genic or intergenic regions of the genome by RNA polymerase II and III and shares many common features with messenger RNAs (mRNAs), including 50 capping, splicing and polyadenylation [3]. These include lincRNAs (long intergenic non-coding RNAs), intronic non-coding RNAs and lncNATs (long nature antisense transcripts) [4]. HOTAIR encoding an intergenic lncRNA was a well-documented example which was implicated in breast cancer development [6]

Methods

Results

Conclusion