METHODS OF SITE-SPECIFIC LABELING OF RNA WITH FLUORESCENT DYES

被引：43
|
作者：
Solomatin, Sergey [1 ]
Herschlag, Daniel [1 ,2 ]
机构：
[1] Stanford Univ, Dept Biochem, Stanford, CA 94305 USA
[2] Stanford Univ, Dept Chem, Stanford, CA 94305 USA
来源：
METHODS IN ENZYMOLOGY, VOL 469: BIOPHYSICAL, CHEMICAL, AND FUNCTIONAL PROBES OF RNA STRUCTURE, INTERACTIONS AND FOLDING, PT B | 2009年 / 469卷
关键词：
SINGLE-MOLECULE; TERTIARY INTERACTIONS; DNA; DYNAMICS; KINETICS; DOCKING; THERMODYNAMICS; COOPERATIVITY; HETEROGENEITY; TETRALOOP;
D O I：
10.1016/S0076-6879(09)69003-0
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
Single molecule fluorescence techniques offer unique insights into mechanisms of conformational changes of RNA. Knowing how to make fluorescently labeled RNA molecules and understanding potential limitations of different labeling strategies is essential for successful implementation of single molecule fluorescence techniques. This chapter offers a step by step overview of the process of obtaining RNA constructs ready for single molecule measurements. Several alternative methods are described for each step, and ways of troubleshooting the most common problems, in particular, splinted RNA ligation, are suggested.
引用
收藏
页码：47 / 68
页数：22
相关论文
共 50 条
  • [31] Site-Specific Dual Labeling of Proteins by Using Small Orthogonal Tags at Neutral pH
    Gruenewald, Jan
    Jones, David H.
    Brock, Ansgar
    Chiu, Hsien-Po
    Bursulaya, Badry
    Ng, Kenneth
    Vo, Todd
    Patterson, Paula
    Uno, Tetsuo
    Hunt, James
    Spraggon, Glen
    Geierstanger, Bernhard H.
    CHEMBIOCHEM, 2014, 15 (12) : 1787 - 1791
  • [32] Site-specific labeling of SBDS to monitor interactions with the 60S ribosomal subunit
    Biswas, Aparna
    Peng, Yu-Fong
    Kaushik, Vikas
    Origanti, Sofia
    METHODS, 2023, 211 : 68 - 72
  • [33] Structure-guided approach to site-specific fluorophore labeling of the lac repressor LacI
    Kipper, Kalle
    Eremina, Nadja
    Marklund, Emil
    Tubasum, Sumera
    Mao, Guanzhong
    Lehmann, Laura Christina
    Elf, Johan
    Deindl, Sebastian
    PLOS ONE, 2018, 13 (06):
  • [34] DNA molecules site-specific immobilization and their applications
    Zhang, Xiaoning
    Hu, Hongmei
    CENTRAL EUROPEAN JOURNAL OF CHEMISTRY, 2014, 12 (10): : 977 - 993
  • [35] Site-Specific Covalent Modification of RNA Guided by Functionality-Transfer Oligodeoxynucleotides
    Onizuka, Kazumitsu
    Taniguchi, Yosuke
    Sasaki, Shigeki
    BIOCONJUGATE CHEMISTRY, 2009, 20 (04) : 799 - 803
  • [36] RNA Docking and Local Translation Regulate Site-Specific Axon Remodeling In Vivo
    Wong, Hovy Ho-Wai
    Lin, Julie Qiaojin
    Strohl, Florian
    Roque, Claudio Gouveia
    Cioni, Jean-Michel
    Cagnetta, Roberta
    Turner-Bridger, Benita
    Laine, Romain F.
    Harris, William A.
    Kaminski, Clemens F.
    Holt, Christine E.
    NEURON, 2017, 95 (04) : 852 - +
  • [37] Site-specific prediction of liquefaction
    Davis, RO
    Berrill, JB
    GEOTECHNIQUE, 1998, 48 (02): : 289 - 293
  • [38] Site-specific protein labeling with amine-containing molecules using Lactobacillus plantarum sortase
    Matsumoto, Takuya
    Takase, Ryosuke
    Tanaka, Tsutomu
    Fukuda, Hideki
    Kondo, Akihiko
    BIOTECHNOLOGY JOURNAL, 2012, 7 (05) : 642 - 648
  • [39] Chemoselective labeling and site-specific mapping of 5-formylcytosine as a cellular nucleic acid modification
    Dietzsch, Julia
    Feineis, Doris
    Hoebartner, Claudia
    FEBS LETTERS, 2018, 592 (12): : 2032 - 2047
  • [40] Site-specific dual-color labeling of long RNAs for single-molecule spectroscopy
    Zhao, Meng
    Steffen, Fabio D.
    Borner, Richard
    Schaffer, Michelle F.
    Sigel, Roland K. O.
    Freisinger, Eva
    NUCLEIC ACIDS RESEARCH, 2018, 46 (03)
12345