Capturing the interactome of newly transcribed RNA.,Nature Methods

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Capturing the interactome of newly transcribed RNA.
Nature Methods ( IF 48.0 ) Pub Date : 2018-02-12 , DOI: 10.1038/nmeth.4595
Xichen Bao _{1,

2} , Xiangpeng Guo _{1,

2} , Menghui Yin ₃ , Muqddas Tariq _{1,

2,

4} , Yiwei Lai _{1,

2,

4} , Shahzina Kanwal _{1,

2} , Jiajian Zhou ₅ , Na Li _{1,

2,

6} , Yuan Lv _{1,

2,

4} , Carlos Pulido-Quetglas ₇ , Xiwei Wang _{1,

2} , Lu Ji ₅ , Muhammad J Khan _{1,

2,

8} , Xihua Zhu _{1,

2} , Zhiwei Luo _{1,

2,

4} , Changwei Shao ₉ , Do-Hwan Lim ₉ , Xiao Liu ₁₀ , Nan Li ₁₁ , Wei Wang ₁₂ , Minghui He ₁₃ , Yu-Lin Liu ₁₄ , Carl Ward _{1,

2} , Tong Wang ₁₅ , Gong Zhang ₁₅ , Dongye Wang _{1,

2,

16} , Jianhua Yang ₁₇ , Yiwen Chen ₁₈ , Chaolin Zhang ₁₉ , Ralf Jauch ₁₆ , Yun-Gui Yang ₂₀ , Yangming Wang ₂₁ , Baoming Qin ₁ , Minna-Liisa Anko ₂₂ , Andrew P Hutchins ₂₃ , Hao Sun ₅ , Huating Wang ₅ , Xiang-Dong Fu ₉ , Biliang Zhang ₃ , Miguel A Esteban _{1,

2}

Affiliation

Key Laboratory of Regenerative Biology, Joint School of Life Sciences, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou, and Guangzhou Medical University, Guangzhou, China.
Laboratory of RNA, Chromatin, and Human Disease, Key Laboratory of Regenerative Biology and Guangdong Provincial Key Laboratory of Stem Cells and Regenerative Medicine, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou, China.
Laboratory of RNA Chemical Biology, State Key Laboratory of Respiratory Diseases, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou, China.
University of Chinese Academy of Sciences, Beijing, China.
Department of Orthopaedics and Traumatology, Li Ka Shing Institute of Health Sciences, Prince of Wales Hospital, The Chinese University of Hong Kong, Hong Kong, China.
Institute of Health Science, Anhui University, Hefei, China.
Department of Clinical Research, University of Bern, Bern, Switzerland.
Department of Biosciences, COMSATS Institute of Information Technology, Park Road, Tarlai Kalan, Islamabad, Pakistan.
Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, California, USA.
Department of Bioinformatics, GFK Biotech Inc., Shanghai, China.
Center for Synthetic Biology Engineering Research, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong, China.
Guangzhou RiboBio Co., Ltd., Guangzhou, China.
Forevergen Biosciences Center, Guangzhou, China.
FitGene BioTechnology Co., Ltd., Guangzhou, China.
Institute of Life and Health Engineering, Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes, Jinan University, Guangzhou, China.
Drug Discovery Pipeline Group, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou, China.
Key Laboratory of Gene Engineering of the Ministry of Education, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou, China.
Department of Bioinformatics & Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, USA.
Department of Systems Biology, Department of Biochemistry and Molecular Biophysics, Center for Motor Neuron Biology and Disease, Columbia University, New York, New York, USA.
Key Laboratory of Genomic and Precision Medicine, Collaborative Innovation Center of Genetics and Development, Center for Excellence in Molecular Cell Science, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China.
Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, Peking University, Beijing, China.
Department of Anatomy and Developmental Biology and Biomedicine Discovery Institute, Monash University, Melbourne, VIC, Australia.
Department of Biology, Southern University of Science and Technology of China, Shenzhen, China.

We combine the labeling of newly transcribed RNAs with 5-ethynyluridine with the characterization of bound proteins. This approach, named capture of the newly transcribed RNA interactome using click chemistry (RICK), systematically captures proteins bound to a wide range of RNAs, including nascent RNAs and traditionally neglected nonpolyadenylated RNAs. RICK has identified mitotic regulators amongst other novel RNA-binding proteins with preferential affinity for nonpolyadenylated RNAs, revealed a link between metabolic enzymes/factors and nascent RNAs, and expanded the known RNA-bound proteome of mouse embryonic stem cells. RICK will facilitate an in-depth interrogation of the total RNA-bound proteome in different cells and systems.

中文翻译：

捕获新转录的RNA的相互作用组。

我们结合与5-乙炔基尿苷与结合蛋白的表征新转录的RNA的标签。这种方法被称为使用点击化学（RICK）捕获新转录的RNA相互作用组，可系统地捕获与各种RNA结合的蛋白质，包括新生的RNA和传统上被忽视的非聚腺苷酸RNA。RICK已经鉴定出了其他新颖的RNA结合蛋白中的有丝分裂调节剂，这些蛋白对非聚腺苷酸化的RNA具有优先亲和力，揭示了代谢酶/因子与新生RNA之间的联系，并扩展了小鼠胚胎干细胞的RNA结合蛋白质组。RICK将促进深入研究不同细胞和系统中与RNA结合的总蛋白质组。

更新日期：2018-02-13

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