Literature DB >> 27667171

Filling the Void: Proximity-Based Labeling of Proteins in Living Cells.

Dae In Kim1, Kyle J Roux2.   

Abstract

There are inherent limitations with traditional methods to study protein behavior or to determine the constituency of proteins in discrete subcellular compartments. In response to these limitations, several methods have recently been developed that use proximity-dependent labeling. By fusing proteins to enzymes that generate reactive molecules, most commonly biotin, proximate proteins are covalently labeled to enable their isolation and identification. In this review we describe current methods for proximity-dependent labeling in living cells and discuss their applications and future use in the study of protein behavior.
Copyright © 2016 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  APEX; BioID; protein–protein interactions; proteomics; proximity-dependent labeling; subcellular proteome

Mesh:

Substances:

Year:  2016        PMID: 27667171      PMCID: PMC5077660          DOI: 10.1016/j.tcb.2016.09.004

Source DB:  PubMed          Journal:  Trends Cell Biol        ISSN: 0962-8924            Impact factor:   20.808


  91 in total

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2.  An improved bimolecular fluorescence complementation assay with a high signal-to-noise ratio.

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Journal:  Biotechniques       Date:  2010-11       Impact factor: 1.993

3.  Protein-protein interaction detection in vitro and in cells by proximity biotinylation.

Authors:  Marta Fernández-Suárez; T Scott Chen; Alice Y Ting
Journal:  J Am Chem Soc       Date:  2008-06-27       Impact factor: 15.419

4.  An EF-hand-containing Protein in Trypanosoma brucei Regulates Cytokinesis Initiation by Maintaining the Stability of the Cytokinesis Initiation Factor CIF1.

Authors:  Qing Zhou; Huiqing Hu; Ziyin Li
Journal:  J Biol Chem       Date:  2016-05-13       Impact factor: 5.157

5.  Biotin ligase tagging identifies proteins proximal to E-cadherin, including lipoma preferred partner, a regulator of epithelial cell-cell and cell-substrate adhesion.

Authors:  Christina M Van Itallie; Amber Jean Tietgens; Angel Aponte; Karin Fredriksson; Alan S Fanning; Marjan Gucek; James M Anderson
Journal:  J Cell Sci       Date:  2013-12-11       Impact factor: 5.285

6.  Fibroblast growth factor receptor 3 (FGFR3) associated with the CD20 antigen regulates the rituximab-induced proliferation inhibition in B-cell lymphoma cells.

Authors:  Norihiro Kotani; Yoshihito Ishiura; Ryusuke Yamashita; Tomoko Ohnishi; Koichi Honke
Journal:  J Biol Chem       Date:  2012-08-29       Impact factor: 5.157

7.  TBC1D14 regulates autophagy via the TRAPP complex and ATG9 traffic.

Authors:  Christopher A Lamb; Stefanie Nühlen; Delphine Judith; David Frith; Ambrosius P Snijders; Christian Behrends; Sharon A Tooze
Journal:  EMBO J       Date:  2015-12-28       Impact factor: 11.598

8.  Proximity biotinylation and affinity purification are complementary approaches for the interactome mapping of chromatin-associated protein complexes.

Authors:  Jean-Philippe Lambert; Monika Tucholska; Christopher Go; James D R Knight; Anne-Claude Gingras
Journal:  J Proteomics       Date:  2014-10-02       Impact factor: 4.044

9.  PUB-NChIP--"in vivo biotinylation" approach to study chromatin in proximity to a protein of interest.

Authors:  Muhammad Shoaib; Arman Kulyyassov; Chloé Robin; Kinga Winczura; Pavel Tarlykov; Emmanuelle Despas; Patricia Kannouche; Erlan Ramanculov; Marc Lipinski; Vasily Ogryzko
Journal:  Genome Res       Date:  2012-10-04       Impact factor: 9.043

10.  Exclusive expression of the Rab11 effector SH3TC2 in Schwann cells links integrin-α6 and myelin maintenance to Charcot-Marie-Tooth disease type 4C.

Authors:  Sauparnika Vijay; Meagan Chiu; Joel B Dacks; Rhys C Roberts
Journal:  Biochim Biophys Acta       Date:  2016-04-09
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  82 in total

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Journal:  J Biol Chem       Date:  2020-06-17       Impact factor: 5.157

2.  BioID as a Tool for Protein-Proximity Labeling in Living Cells.

Authors:  Rhiannon M Sears; Danielle G May; Kyle J Roux
Journal:  Methods Mol Biol       Date:  2019

3.  Proximity labeling reveals novel interactomes in live Drosophila tissue.

Authors:  Katelynn M Mannix; Rebecca M Starble; Ronit S Kaufman; Lynn Cooley
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4.  A Versatile Lentiviral Delivery Toolkit for Proximity-dependent Biotinylation in Diverse Cell Types.

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Journal:  Mol Cell Proteomics       Date:  2018-07-10       Impact factor: 5.911

Review 5.  Spatial proteomics: a powerful discovery tool for cell biology.

Authors:  Emma Lundberg; Georg H H Borner
Journal:  Nat Rev Mol Cell Biol       Date:  2019-05       Impact factor: 94.444

Review 6.  lncRedibly versatile: biochemical and biological functions of long noncoding RNAs.

Authors:  Emily J Shields; Ana F Petracovici; Roberto Bonasio
Journal:  Biochem J       Date:  2019-04-10       Impact factor: 3.857

7.  A Proximity Labeling Strategy Provides Insights into the Composition and Dynamics of Lipid Droplet Proteomes.

Authors:  Kirill Bersuker; Clark W H Peterson; Milton To; Steffen J Sahl; Victoria Savikhin; Elizabeth A Grossman; Daniel K Nomura; James A Olzmann
Journal:  Dev Cell       Date:  2017-12-21       Impact factor: 12.270

Review 8.  Mechanism and Regulation of Centriole and Cilium Biogenesis.

Authors:  David K Breslow; Andrew J Holland
Journal:  Annu Rev Biochem       Date:  2019-01-11       Impact factor: 23.643

Review 9.  Plasmodium Parasites Viewed through Proteomics.

Authors:  Kristian E Swearingen; Scott E Lindner
Journal:  Trends Parasitol       Date:  2018-08-23

10.  Proximity Labeling for the Identification of Coronavirus-Host Protein Interactions.

Authors:  Philip V'kovski; Silvio Steiner; Volker Thiel
Journal:  Methods Mol Biol       Date:  2020
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