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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
Corresponding AuthorSong, Chun-Peng(songcp@henu.edu.cn)
2019-10-01
Source PublicationJOURNAL OF EXPERIMENTAL BOTANY
ISSN0022-0957
Volume70Issue:19Pages:5089-5100
AbstractPseudouridine (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.
KeywordArabidopsis thaliana proteome Psi-sequence pseudouridine pseudouridine synthases (PUSs) suppressor of variegation 1 (SVR1) transcriptome
DOI10.1093/jxb/erz273
Indexed BySCI ; SCI
Language英语
WOS Research AreaPlant Sciences
WOS SubjectPlant Sciences
WOS IDWOS:000491240900006
Citation statistics
Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/69971
Collection资源植物与生物技术所级重点实验室
Corresponding AuthorSong, Chun-Peng
Affiliation1.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
Recommended Citation
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.
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