Literature DB >> 33222436

A Bump-Hole Strategy for Increased Stringency of Cell-Specific Metabolic Labeling of RNA.

Kim Nguyen1, Miles Kubota1, Jon Del Arco2, Chao Feng1, Monika Singha1, Samantha Beasley1, Jasmine Sakr1, Sunil P Gandhi3, Matthew Blurton-Jones3, Jesus Fernández Lucas2,4, Robert C Spitale1,5,6.   

Abstract

Profiling RNA expression in a cell-specific manner continues to be a grand challenge in biochemical research. Bioorthogonal nucleosides can be utilized to track RNA expression; however, these methods currently have limitations due to background and incorporation of analogs into undesired cells. Herein, we design and demonstrate that uracil phosphoribosyltransferase can be engineered to match 5-vinyluracil for cell-specific metabolic labeling of RNA with exceptional specificity and stringency.

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Year:  2020        PMID: 33222436      PMCID: PMC7814973          DOI: 10.1021/acschembio.0c00755

Source DB:  PubMed          Journal:  ACS Chem Biol        ISSN: 1554-8929            Impact factor:   5.100


  30 in total

Review 1.  Chemistry and biological applications of photo-labile organic molecules.

Authors:  Haitao Yu; Jinbo Li; Dongdong Wu; Zhenjun Qiu; Yan Zhang
Journal:  Chem Soc Rev       Date:  2009-09-15       Impact factor: 54.564

2.  Cell-Selective Bioorthogonal Metabolic Labeling of RNA.

Authors:  Kim Nguyen; Michael Fazio; Miles Kubota; Sarah Nainar; Chao Feng; Xiang Li; Scott X Atwood; Timothy W Bredy; Robert C Spitale
Journal:  J Am Chem Soc       Date:  2017-02-07       Impact factor: 15.419

3.  iPSC-Derived Human Microglia-like Cells to Study Neurological Diseases.

Authors:  Edsel M Abud; Ricardo N Ramirez; Eric S Martinez; Luke M Healy; Cecilia H H Nguyen; Sean A Newman; Andriy V Yeromin; Vanessa M Scarfone; Samuel E Marsh; Cristhian Fimbres; Chad A Caraway; Gianna M Fote; Abdullah M Madany; Anshu Agrawal; Rakez Kayed; Karen H Gylys; Michael D Cahalan; Brian J Cummings; Jack P Antel; Ali Mortazavi; Monica J Carson; Wayne W Poon; Mathew Blurton-Jones
Journal:  Neuron       Date:  2017-04-19       Impact factor: 17.173

4.  A Metabolic Engineering Approach to Incorporate Modified Pyrimidine Nucleosides into Cellular RNA.

Authors:  Yu Zhang; Ralph E Kleiner
Journal:  J Am Chem Soc       Date:  2019-02-13       Impact factor: 15.419

5.  In vivo metabolic labeling of sialoglycans in the mouse brain by using a liposome-assisted bioorthogonal reporter strategy.

Authors:  Ran Xie; Lu Dong; Yifei Du; Yuntao Zhu; Rui Hua; Chen Zhang; Xing Chen
Journal:  Proc Natl Acad Sci U S A       Date:  2016-04-28       Impact factor: 11.205

6.  Synthesis and evaluation of an alkyne-modified ATP analog for enzymatic incorporation into RNA.

Authors:  Yuxuan Zheng; Peter A Beal
Journal:  Bioorg Med Chem Lett       Date:  2016-02-18       Impact factor: 2.823

7.  Metabolic Incorporation of Azide Functionality into Cellular RNA.

Authors:  Sarah Nainar; Samantha Beasley; Michael Fazio; Miles Kubota; Nan Dai; Ivan R Corrêa; Robert C Spitale
Journal:  Chembiochem       Date:  2016-09-30       Impact factor: 3.164

8.  Genetic code expansion in the mouse brain.

Authors:  Russell J Ernst; Toke P Krogager; Elizabeth S Maywood; Roberto Zanchi; Václav Beránek; Thomas S Elliott; Nicholas P Barry; Michael H Hastings; Jason W Chin
Journal:  Nat Chem Biol       Date:  2016-08-29       Impact factor: 15.040

9.  Exploring RNA transcription and turnover in vivo by using click chemistry.

Authors:  Cindy Y Jao; Adrian Salic
Journal:  Proc Natl Acad Sci U S A       Date:  2008-10-07       Impact factor: 11.205

10.  Labeling and identifying cell-specific proteomes in the mouse brain.

Authors:  Toke P Krogager; Russell J Ernst; Thomas S Elliott; Laura Calo; Václav Beránek; Ernesto Ciabatti; Maria Grazia Spillantini; Marco Tripodi; Michael H Hastings; Jason W Chin
Journal:  Nat Biotechnol       Date:  2017-12-18       Impact factor: 54.908

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