Making Invisible RNA Visible: Discriminative Sequencing Methods for RNA Molecules with Specific Terminal Formations.
Making Invisible RNA Visible: Discriminative Sequencing Methods for RNA Molecules with Specific Terminal Formations.
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使不可见的RNA可见：具有特定末端形式的RNA分子的鉴别测序方法。
DOI：
10.3390/biom12050611
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发表时间：
2022-04-20
期刊：
影响因子：
5.5
通讯作者：
中科院分区：
文献类型：
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作者：
下一代RNA分子测序（RNA-seq）已成为表征RNA表达谱及其在正常生理过程和疾病中的调控的常用工具。尽管越来越多的RNA-seq数据可以通过公共网站广泛获得，但大多数短的非编码RNA（sncRNA）的数据已经通过标准RNA-seq获得用于microRNA（miRNA）分析，其仅捕获具有5′-磷酸（5′-P）和3′-羟基（3′-OH）末端的sncRNA。具有其他末端形式的sncRNA，例如具有5′-羟基末端（5′-OH）、3′-磷酸（3′-P）末端或2′，3 ′-环磷酸末端（2′，3 ′-cP）的sncRNA不能通过标准RNA-seq有效地扩增和测序。由于在标准RNA-seq数据中的不可见性，这些非-miRNA-sncRNA一直是转录组中的隐藏组分。然而，随着这些sncRNA的功能意义变得越来越明显，已经开发出与sncRNA的各种末端形成相容的特异性RNA-seq方法，并开始揭示以前未识别的缺少5′-P/3′-OH末端的sncRNA。在这篇综述中，我们总结了不断扩大的世界sncRNA与各种终端的形成和特定的RNA-seq方法的战略方法，以独特地表征其表达谱。
Next generation sequencing of RNA molecules (RNA-seq) has become a common tool to characterize the expression profiles of RNAs and their regulations in normal physiological processes and diseases. Although increasingly accumulating RNA-seq data are widely available through publicly accessible sites, most of the data for short non-coding RNAs (sncRNAs) have been obtained for microRNA (miRNA) analyses by standard RNA-seq, which only capture the sncRNAs with 5′-phosphate (5′-P) and 3′-hydroxyl (3′-OH) ends. The sncRNAs with other terminal formations such as those with a 5′-hydroxyl end (5′-OH), a 3′-phosphate (3′-P) end, or a 2′,3′-cyclic phosphate end (2′,3′-cP) cannot be efficiently amplified and sequenced by standard RNA-seq. Due to the invisibility in standard RNA-seq data, these non-miRNA-sncRNAs have been a hidden component in the transcriptome. However, as the functional significances of these sncRNAs have become increasingly apparent, specific RNA-seq methods compatible with various terminal formations of sncRNAs have been developed and started shedding light on the previously unrecognized sncRNAs that lack 5′-P/3′-OH ends. In this review, we summarize the expanding world of sncRNAs with various terminal formations and the strategic approaches of specific RNA-seq methods to distinctively characterize their expression profiles.
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影响因子：
7.3
作者：
Gao J;Aksoy BA;Dogrusoz U;Dresdner G;Gross B;Sumer SO;Sun Y;Jacobsen A;Sinha R;Larsson E;Cerami E;Sander C;Schultz N
通讯作者：
Schultz N
影响因子：
14.8
作者：
Honda S;Morichika K;Kirino Y
通讯作者：
Kirino Y
影响因子：
16.6
作者：
Fricker, Roger;Brogli, Rebecca;Polacek, Norbert
通讯作者：
Polacek, Norbert
DOI：
10.1038/nrm4085
发表时间：
2015-12
期刊：
Nature reviews. Molecular cell biology
影响因子：
--
作者：
Borges F;Martienssen RA
通讯作者：
Martienssen RA
影响因子：
9.2
作者：
Horwich, Michael D.;Li, Chengjian;Zamore, Phillip D.
通讯作者：
Zamore, Phillip D.