Genome-Wide Identification of lncRNAs During Rice Seed Development

Genome-Wide Identification of lncRNAs During Rice Seed Development

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...

Full description

Bibliographic Details
Main Authors: Juan Zhao, Abolore Adijat Ajadi, Yifeng Wang, Xiaohong Tong, Huimei Wang, Liqun Tang, Zhiyong Li, Yazhou Shu, Xixi Liu, Shufan Li, Shuang Wang, Wanning Liu, Jian Zhang
Format: Article
Language:English
Published: MDPI AG 2020-02-01
Series:Genes
Subjects:
rice (<i>oryza sativa</i> l.)
lncrnas
seed development
grain size
Online Access:https://www.mdpi.com/2073-4425/11/3/243
id doaj-6b80b9632fb44566ba8d9e5f454b6935
record_format Article
spelling doaj-6b80b9632fb44566ba8d9e5f454b69352020-11-25T01:55:07ZengMDPI AGGenes2073-44252020-02-0111324310.3390/genes11030243genes11030243Genome-Wide Identification of lncRNAs During Rice Seed DevelopmentJuan Zhao0Abolore Adijat Ajadi1Yifeng Wang2Xiaohong Tong3Huimei Wang4Liqun Tang5Zhiyong Li6Yazhou Shu7Xixi Liu8Shufan Li9Shuang Wang10Wanning Liu11Jian Zhang12State Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Lab of Rice Biology, China National Rice Research Institute, Hangzhou 311400, ChinaRice 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 <i>TCONS_00023703</i>, 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 developmenthttps://www.mdpi.com/2073-4425/11/3/243rice (<i>oryza sativa</i> l.)lncrnasseed developmentgrain size
collection DOAJ
language English
format Article
sources DOAJ
author Juan Zhao
Abolore Adijat Ajadi
Yifeng Wang
Xiaohong Tong
Huimei Wang
Liqun Tang
Zhiyong Li
Yazhou Shu
Xixi Liu
Shufan Li
Shuang Wang
Wanning Liu
Jian Zhang
spellingShingle Juan Zhao
Abolore Adijat Ajadi
Yifeng Wang
Xiaohong Tong
Huimei Wang
Liqun Tang
Zhiyong Li
Yazhou Shu
Xixi Liu
Shufan Li
Shuang Wang
Wanning Liu
Jian Zhang
Genome-Wide Identification of lncRNAs During Rice Seed Development
Genes
rice (<i>oryza sativa</i> l.)
lncrnas
seed development
grain size
author_facet Juan Zhao
Abolore Adijat Ajadi
Yifeng Wang
Xiaohong Tong
Huimei Wang
Liqun Tang
Zhiyong Li
Yazhou Shu
Xixi Liu
Shufan Li
Shuang Wang
Wanning Liu
Jian Zhang
author_sort Juan Zhao
title Genome-Wide Identification of lncRNAs During Rice Seed Development
title_short Genome-Wide Identification of lncRNAs During Rice Seed Development
title_full Genome-Wide Identification of lncRNAs During Rice Seed Development
title_fullStr Genome-Wide Identification of lncRNAs During Rice Seed Development
title_full_unstemmed Genome-Wide Identification of lncRNAs During Rice Seed Development
title_sort genome-wide identification of lncrnas during rice seed development
publisher MDPI AG
series Genes
issn 2073-4425
publishDate 2020-02-01
description 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 <i>TCONS_00023703</i>, 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
topic rice (<i>oryza sativa</i> l.)
lncrnas
seed development
grain size
url https://www.mdpi.com/2073-4425/11/3/243
work_keys_str_mv AT juanzhao genomewideidentificationoflncrnasduringriceseeddevelopment
AT aboloreadijatajadi genomewideidentificationoflncrnasduringriceseeddevelopment
AT yifengwang genomewideidentificationoflncrnasduringriceseeddevelopment
AT xiaohongtong genomewideidentificationoflncrnasduringriceseeddevelopment
AT huimeiwang genomewideidentificationoflncrnasduringriceseeddevelopment
AT liquntang genomewideidentificationoflncrnasduringriceseeddevelopment
AT zhiyongli genomewideidentificationoflncrnasduringriceseeddevelopment
AT yazhoushu genomewideidentificationoflncrnasduringriceseeddevelopment
AT xixiliu genomewideidentificationoflncrnasduringriceseeddevelopment
AT shufanli genomewideidentificationoflncrnasduringriceseeddevelopment
AT shuangwang genomewideidentificationoflncrnasduringriceseeddevelopment
AT wanningliu genomewideidentificationoflncrnasduringriceseeddevelopment
AT jianzhang genomewideidentificationoflncrnasduringriceseeddevelopment
_version_ 1724984975664611328

Similar Items