ONE-seq: epitranscriptome and gene-specific profiling of NAD-capped RNA. Issue 2 (7th December 2022)

• Record Type: Journal Article
• Authors: Niu, Kongyan; Zhang, Jinyang; Ge, Shuwen; Li, Dean; Sun, Kunfeng; You, Yingnan; Qiu, Jiaqian; Wang, Kun; Wang, Xueting; Liu, Rui; Liu, Yandong; Li, Bing; Zhu, Zheng-Jiang; Qu, Lefeng; Jiang, Hong; Liu, Nan
• Is Part Of: Nucleic acids research. Volume 51:Issue 2(2023)
• Page Start: e12
• Page End: e12
• Publication Date: 2022-12-07
• Subjects: Nucleic acids -- Periodicals; Molecular biology -- Periodicals; 572.805
• DOI: 10.1093/nar/gkac1136
• Languages: English
• ISSNs: 0305-1048

Abstract

Abstract: The hub metabolite, nicotinamide adenine dinucleotide (NAD), can be used as an initiating nucleotide in RNA synthesis to result in NAD-capped RNAs (NAD-RNA). Since NAD has been heightened as one of the most essential modulators in aging and various age-related diseases, its attachment to RNA might indicate a yet-to-be discovered mechanism that impacts adult life-course. However, the unknown identity of NAD-linked RNAs in adult and aging tissues has hindered functional studies. Here, we introduce ONE-seq method to identify the RNA transcripts that contain NAD cap. ONE-seq has been optimized to use only one-step chemo-enzymatic biotinylation, followed by streptavidin capture and the nudix phosphohydrolase NudC-catalyzed elution, to specifically recover NAD-capped RNAs for epitranscriptome and gene-specific analyses. Using ONE-seq, we discover more than a thousand of previously unknown NAD-RNAs in the mouse liver and reveal epitranscriptome-wide dynamics of NAD-RNAs with age. ONE-seq empowers the identification of NAD-capped RNAs that are responsive to distinct physiological states, facilitating functional investigation into this modification.