Genome-wide analysis of long non-coding RNAs responsive to multiple nutrient stresses in Arabidopsis thaliana

被引:15
|
作者
Wang, Jingjing [1 ,2 ,3 ]
Chen, Qi [4 ,5 ]
Wu, Wenyi [4 ,5 ]
Chen, Yujie [4 ,5 ,6 ]
Zhou, Yincong [4 ,5 ]
Guo, Guoji [1 ,2 ,3 ]
Chen, Ming [1 ,4 ,5 ,7 ]
机构
[1] Zhejiang Univ, Affiliated Hosp 1, Ctr Stem Cell & Regenerat Med, Sch Med, Hangzhou, Peoples R China
[2] Dr Li Dak Sum & Yip Yio Chin Ctr Stem Cell & Rege, Zhejiang Prov Key Lab Tissue Engn & Reenerat Med, Hangzhou, Peoples R China
[3] Zhejiang Univ, Zhejiang Lab Syst Precis Med, Med Ctr, Hangzhou, Peoples R China
[4] Zhejiang Univ, Dept Bioinformat, Coll Life Sci, Hangzhou, Peoples R China
[5] Zhejiang Univ, State Key Lab Plant Physiol & Biochem, Coll Life Sci, Hangzhou, Peoples R China
[6] Inner Mongolia Univ Nationalities, Coll Life Sci, Tongliao, Peoples R China
[7] Zhejiang Univ, James D Watson Inst Genome Sci, Hangzhou, Peoples R China
关键词
Long non-coding RNAs; Nutrient stress; Competing endogenous RNA; Co-expression network; FUNCTIONAL PREDICTION; IDENTIFICATION; EXPRESSION; DATABASE; LNCRNAS; DEMETHYLATION; TRANSCRIPTS; MICRORNAS; CYTOKININ; CYTOSCAPE;
D O I
10.1007/s10142-020-00758-5
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Nutrient stress is the most important environmental stress that limits plant growth and development. Although recent evidence highlights the vital functions of long non-coding RNAs (lncRNA) in response to single nutrient stress in some model plants, a comprehensive investigation of the effect of lncRNAs in response to nutrient stress has not been performed in Arabidopsis thaliana. Here, we presented the identification and characterization of lncRNAs under seven nutrient stress conditions. The expression pattern analysis revealed that aberrant expression of lncRNAs is a stress-specific manner under nutrient stress conditions and that lncRNAs are more sensitive to nutrient stress than protein-coding genes (PCGs). Moreover, competing endogenous RNA (ceRNA) network and lncRNA-mRNA co-expression network (CEN) were constructed to explore the potential function of these lncRNAs under nutrient stress conditions. We further combined different expressed lncRNAs with ceRNA network and CEN to select key lncRNAs in response to nutrient stress. Together, our study provides important information for further insights into the role of lncRNAs in response to stress in plants.
引用
收藏
页码:17 / 30
页数:14
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