Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis

doi:10.1093/jxb/erz273

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	Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis
	Sun, Lirong 2; Xu, Yuxing 1; Bai, Shenglong 2; Bai, Xue 2; Zhu, Huijie 2; Dong, Huan 2; Wang, Wei2 ; Zhu, Xiaohong 2; Hao, Fushun 2; Song, Chun-Peng 2
刊名	JOURNAL OF EXPERIMENTAL BOTANY
	2019-10-01
卷号	70 期号:19 页码:5089-5100
关键词	Arabidopsis thaliana proteome Psi-sequence pseudouridine pseudouridine synthases (PUSs) suppressor of variegation 1 (SVR1) transcriptome
ISSN号	0022-0957
DOI	10.1093/jxb/erz273
通讯作者	Song, Chun-Peng(songcp@henu.edu.cn)
英文摘要	Pseudouridine (Psi) is widely distributed in mRNA and various non-coding RNAs in yeast and mammals, and the specificity of its distribution has been determined. However, knowledge about Psi s in the RNAs of plants, particularly in mRNA, is lacking. In this study, we performed genome-wide pseudouridine-sequencing in Arabidopsis and for the first time identified hundreds of Psi sites in mRNA and multiple Psi sites in non-coding RNAs. Many predicted and novel Psi sites in rRNA and tRNA were detected. mRNA was extensively pseudouridylated, but with Psi s being under-represented in 3-untranslated regions and enriched at position 1 of triple codons. The phenylalanine codon UUC was the most frequently pseudouridylated site. Some Psi s present in chloroplast 23S, 16S, and 4.5S rRNAs in wild-type Col-0 were absent in plants with a mutation of SVR1 (Suppressor of variegation 1), a chloroplast pseudouridine synthase gene. Many plastid ribosomal proteins and photosynthesis-related proteins were significantly reduced in svr1 relative to the wild-type, indicating the roles of SVR1 in chloroplast protein biosynthesis in Arabidopsis. Our results provide new insights into the occurrence of pseudouridine in Arabidopsis RNAs and the biological functions of SVR1, and will pave the way for further exploiting the mechanisms underlying Psi modifications in controlling gene expression and protein biosynthesis in plants.
WOS研究方向	Plant Sciences
语种	英语
WOS记录号	WOS:000491240900006
内容类型	期刊论文
源URL	[http://ir.kib.ac.cn/handle/151853/69970]
专题	昆明植物研究所_资源植物与生物技术所级重点实验室
通讯作者	Song, Chun-Peng
作者单位	1.Chinese Acad Sci, Kunming Inst Bot, Dept Econ Plants & Biotechnol, Yunnan Key Lab Wild Plant Resources, Kunming 650201, Yunnan, Peoples R China 2.Henan Univ, Sch Life Sci, Key Lab Plant Stress Biol, State Key Lab Cotton Biol, 85 Minglun St, Kaifeng 475001, Peoples R China
推荐引用方式 GB/T 7714	Sun, Lirong,Xu, Yuxing,Bai, Shenglong,et al. Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis[J]. JOURNAL OF EXPERIMENTAL BOTANY,2019,70(19):5089-5100.
APA	Sun, Lirong.,Xu, Yuxing.,Bai, Shenglong.,Bai, Xue.,Zhu, Huijie.,...&Song, Chun-Peng.(2019).Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis.JOURNAL OF EXPERIMENTAL BOTANY,70(19),5089-5100.
MLA	Sun, Lirong,et al."Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis".JOURNAL OF EXPERIMENTAL BOTANY 70.19(2019):5089-5100.