CPA-seq reveals small ncRNAs with methylated nucleosides and diverse termini

doi:10.1038/s41421-021-00265-2

	CPA-seq reveals small ncRNAs with methylated nucleosides and diverse termini
	Wang, Heming1,2,3 ; Huang, Rong1,2,3 ; Li, Ling1 ; Zhu, Junjin1,3 ; Li, Zhihong 4; Peng, Chao 4; Zhuang, Xuran1 ; Lin, Haifan 5,6; Shi, Shuo7 ; Huang, Pengyu1,3,8
	2021-04-19
发表期刊	CELL DISCOVERY (IF:13.0[JCR-2023],14.8[5-Year])
EISSN	2056-5968
卷号	7 期号:1
DOI	10.1038/s41421-021-00265-2
摘要	High-throughput sequencing reveals the complex landscape of small noncoding RNAs (sRNAs). However, it is limited by requiring 5 '-monophosphate and 3 '-hydroxyl in RNAs for adapter ligation and hindered by methylated nucleosides that interfere with reverse transcription. Here we develop Cap-Clip acid pyrophosphatase (Cap-Clip), T4 polynucleotide kinase (PNK) and AlkB/AlkB(D135S)-facilitated small ncRNA sequencing (CPA-seq) to detect and quantify sRNAs with terminus multiplicities and nucleoside methylations. CPA-seq identified a large number of previously undetected sRNAs. Comparison of sRNAs with or without AlkB/AlkB(D135S) treatment reveals nucleoside methylations on sRNAs. Using CPA-seq, we profiled the sRNA transcriptomes (sRNomes) of nine mouse tissues and reported the extensive tissue-specific differences of sRNAs. We also observed the transition of sRNomes during hepatic reprogramming. Knockdown of mesenchymal stem cell-enriched U1-5 ' snsRNA promoted hepatic reprogramming. CPA-seq is a powerful tool with high sensitivity and specificity for profiling sRNAs with methylated nucleosides and diverse termini.
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收录类别	SCIE
语种	英语
WOS研究方向	Cell Biology
WOS类目	Cell Biology
WOS记录号	WOS:000640930800001
出版者	SPRINGERNATURE
原始文献类型	Article
引用统计	正在获取...
文献类型	期刊论文
条目标识符	https://kms.shanghaitech.edu.cn/handle/2MSLDSTB/127879
专题	生命科学与技术学院_博士生生命科学与技术学院_PI研究组_黄鹏羽组免疫化学研究所_特聘教授组_干细胞生物学实验室生命科学与技术学院_硕士生生命科学与技术学院_PI研究组_向阳飞组
通讯作者	Shi, Shuo; Huang, Pengyu
作者单位	1.ShanghaiTech Univ, Sch Life Sci & Technol, Shanghai 201210, Peoples R China; 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China; 3.Chinese Acad Sci, CAS Ctr Excellence Mol Cell Sci, Shanghai 200031, Peoples R China; 4.Chinese Acad Sci, Shanghai Adv Res Inst, Zhangjiang Lab, Natl Facil Prot Sci Shanghai, Shanghai 201210, Peoples R China; 5.Yale Univ, Sch Med, Yale Stem Cell Ctr, New Haven, CT USA; 6.Yale Univ, Sch Med, Dept Cell Biol, New Haven, CT 06510 USA; 7.ShanghaiTech Univ, Shanghai Inst Adv Immunochem Studies SIAIS, Shanghai 201210, Peoples R China; 8.Chinese Acad Med Sci & Peking Union Med Coll, Inst Biomed Engn, Tianjin 300192, Peoples R China
第一作者单位	生命科学与技术学院
通讯作者单位	免疫化学研究所; 生命科学与技术学院
第一作者的第一单位	生命科学与技术学院
推荐引用方式 GB/T 7714	Wang, Heming,Huang, Rong,Li, Ling,et al. CPA-seq reveals small ncRNAs with methylated nucleosides and diverse termini[J]. CELL DISCOVERY,2021,7(1).
APA	Wang, Heming.,Huang, Rong.,Li, Ling.,Zhu, Junjin.,Li, Zhihong.,...&Huang, Pengyu.(2021).CPA-seq reveals small ncRNAs with methylated nucleosides and diverse termini.CELL DISCOVERY,7(1).
MLA	Wang, Heming,et al."CPA-seq reveals small ncRNAs with methylated nucleosides and diverse termini".CELL DISCOVERY 7.1(2021).