IB-CAS  > 系统与进化植物学国家重点实验室
Systematic comparison of lncRNAs with protein coding mRNAs in population expression and their response to environmental change
Xu, Qin1; Song, Zhihong1,3; Zhu, Caiyun2,3; Tao, Chengcheng1,3; Kang, Lifang1; Liu, Wei2; He, Fei4; Yan, Juan5; Sang, Tao1,2
2017
Source PublicationBMC PLANT BIOLOGY
ISSN1471-2229
Volume17
AbstractBackground: Long non-coding RNA (lncRNA) is a class of non-coding RNA with important regulatory roles in biological process of organisms. The systematic comparison of lncRNAs with protein coding mRNAs in population expression and their response to environmental change are still poorly understood. Here we identified 17,610 lncRNAs and calculated their expression levels based on RNA-seq of 80 individuals of Miscanthus lutarioriparius from two environments, the nearly native habitats and transplanted field, respectively. Results: LncRNAs had significantly higher expression diversity and lower expression frequency in population than protein coding mRNAs in both environments, which suggested that lncRNAs may experience more relaxed selection or divergent evolution in population compared with protein coding RNAs. In addition, the increase of expression diversity for lncRNAs was always significantly higher and the magnitude of fold change of expression in new stress environment was significantly larger than protein-coding mRNAs. These results suggested that lncRNAs may be more sensitive to environmental change than protein-coding mRNAs. Analysis of environment-robust and environment-specific lncRNA-mRNA co-expression network between two environments revealed the characterization of lncRNAs in response to environmental change. Furthermore, candidate lncRNAs contributing to water use efficiency (WUE) identified based on the WUE-lncRNA-mRNA co-expression network suggested the roles of lncRNAs in response to environmental change. Conclusion: Our study provided a comprehensive understanding of expression characterization of lncRNAs in population for M. lutarioriparius under field condition, which would be useful to explore the roles of lncRNAs and could accelerate the process of adaptation in new environment for many plants.
KeywordPopulation transcriptome lncRNAs Miscanthus lutarioriparius Co expression Environmental response Expression diversity
Subject AreaBiochemistry & Molecular Biology ; Plant Sciences
DOI10.1016/j.molp.2017.04.007
Indexed BySCI
Language英语
WOS KeywordLONG NONCODING RNAS ; MISCANTHUS ENERGY CROPS ; WATER-USE EFFICIENCY ; GENE-EXPRESSION ; LOESS PLATEAU ; REVEALS ; TRANSCRIPTOME ; STRESS ; SEQUENCE ; IDENTIFICATION
WOS IDWOS:000402400000004
PublisherBMC
SubtypeArticle
Publication PlaceLONDON
Funding OrganizationNational Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31500186] ; Key Program of the National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [91131902]
Corresponding Author Emailsang@ibcas.ac.cn
OABronze
Citation statistics
Cited Times:10[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ibcas.ac.cn/handle/2S10CLM1/22301
Collection系统与进化植物学国家重点实验室
Affiliation1.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China
2.Chinese Acad Sci, Inst Bot, Beijing Bot Garden, Beijing 100093, Peoples R China
3.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China
4.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
5.Brookhaven Natl Lab, Dept Biol, Upton, NY 11973 USA
6.Chinese Acad Sci, Key Lab Plant Germplasm Enhancement & Special Agr, Wuhan Bot Garden, Wuhan 430074, Hubei, Peoples R China
Recommended Citation
GB/T 7714
Xu, Qin,Song, Zhihong,Zhu, Caiyun,et al. Systematic comparison of lncRNAs with protein coding mRNAs in population expression and their response to environmental change[J]. BMC PLANT BIOLOGY,2017,17.
APA Xu, Qin.,Song, Zhihong.,Zhu, Caiyun.,Tao, Chengcheng.,Kang, Lifang.,...&Sang, Tao.(2017).Systematic comparison of lncRNAs with protein coding mRNAs in population expression and their response to environmental change.BMC PLANT BIOLOGY,17.
MLA Xu, Qin,et al."Systematic comparison of lncRNAs with protein coding mRNAs in population expression and their response to environmental change".BMC PLANT BIOLOGY 17(2017).
Files in This Item:
File Name/Size DocType Version Access License
PIIS1674205217301090(191KB)期刊论文出版稿开放获取CC BY-NC-SAView Application Full Text
Related Services
Recommend this item
Bookmark
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Xu, Qin]'s Articles
[Song, Zhihong]'s Articles
[Zhu, Caiyun]'s Articles
Baidu academic
Similar articles in Baidu academic
[Xu, Qin]'s Articles
[Song, Zhihong]'s Articles
[Zhu, Caiyun]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Xu, Qin]'s Articles
[Song, Zhihong]'s Articles
[Zhu, Caiyun]'s Articles
Terms of Use
No data!
Social Bookmark/Share
File name: PIIS1674205217301090.pdf
Format: Adobe PDF
This file does not support browsing at this time
All comments (0)
No comment.
 

Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.