Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis
Sun, Lirong1; Xu, Yuxing2; Bai, Shenglong1; Bai, Xue1; Zhu, Huijie1; Dong, Huan1; Wang, Wei1; Zhu, Xiaohong1; Hao, Fushun1; Song, Chun-Peng1
通讯作者Song, Chun-Peng(songcp@henu.edu.cn)
2019-10-01
发表期刊JOURNAL OF EXPERIMENTAL BOTANY
ISSN0022-0957
卷号70期号:19页码:5089-5100
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.
关键词Arabidopsis thaliana proteome Psi-sequence pseudouridine pseudouridine synthases (PUSs) suppressor of variegation 1 (SVR1) transcriptome
DOI10.1093/jxb/erz273
收录类别SCI ; SCI
语种英语
WOS记录号WOS:000491240900006
引用统计
文献类型期刊论文
条目标识符http://ir.kib.ac.cn/handle/151853/69971
专题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.Henan Univ, Sch Life Sci, Key Lab Plant Stress Biol, State Key Lab Cotton Biol, 85 Minglun St, Kaifeng 475001, Peoples R China
2.Chinese Acad Sci, Kunming Inst Bot, Dept Econ Plants & Biotechnol, Yunnan Key Lab Wild Plant Resources, Kunming 650201, Yunnan, Peoples R China
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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.
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