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Literature DB >> 22692961

State-selective metabolic labeling of cellular proteins.

John T Ngo¹, Brett M Babin, Julie A Champion, Erin M Schuman, David A Tirrell.

Abstract

Transcriptional activity from a specified promoter can provide a useful marker for the physiological state of a cell. Here we introduce a method for selective tagging of proteins made in cells in which specified promoters are active. Tagged proteins can be modified with affinity reagents for enrichment or with fluorescent dyes for visualization. The method allows state-selective analysis of the proteome, whereby proteins synthesized in predetermined physiological states can be identified. The approach is demonstrated by proteome-wide labeling of bacterial proteins upon activation of the P(BAD) promoter and the SoxRS regulon and provides a basis for analysis of more complex systems including spatially heterogeneous microbial cultures and biofilms.

Entities: Chemical Disease Mutation Species

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Year: 2012 PMID： 22692961 PMCID： PMC3423470 DOI： 10.1021/cb300238w

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

18 in total

Review 1. Redox-operated genetic switches: the SoxR and OxyR transcription factors.

Authors: P J Pomposiello; B Demple
Journal: Trends Biotechnol Date: 2001-03 Impact factor: 19.536

2. Selective identification of newly synthesized proteins in mammalian cells using bioorthogonal noncanonical amino acid tagging (BONCAT).

Authors: Daniela C Dieterich; A James Link; Johannes Graumann; David A Tirrell; Erin M Schuman
Journal: Proc Natl Acad Sci U S A Date: 2006-06-12 Impact factor: 11.205

3. The redox state of the [2Fe-2S] clusters in SoxR protein regulates its activity as a transcription factor.

Authors: H Ding; E Hidalgo; B Demple
Journal: J Biol Chem Date: 1996-12-27 Impact factor: 5.157

4. Cell-selective metabolic labeling of proteins.

Authors: John T Ngo; Julie A Champion; Alborz Mahdavi; I Caglar Tanrikulu; Kimberly E Beatty; Rebecca E Connor; Tae Hyeon Yoo; Daniela C Dieterich; Erin M Schuman; David A Tirrell
Journal: Nat Chem Biol Date: 2009-08-09 Impact factor: 15.040

5. Analysis and optimization of copper-catalyzed azide-alkyne cycloaddition for bioconjugation.

Authors: Vu Hong; Stanislav I Presolski; Celia Ma; M G Finn
Journal: Angew Chem Int Ed Engl Date: 2009 Impact factor: 15.336

6. Discovery of Escherichia coli methionyl-tRNA synthetase mutants for efficient labeling of proteins with azidonorleucine in vivo.

Authors: I Caglar Tanrikulu; Emmanuelle Schmitt; Yves Mechulam; William A Goddard; David A Tirrell
Journal: Proc Natl Acad Sci U S A Date: 2009-08-17 Impact factor: 11.205

7. A single genomic copy of an engineered methionyl-tRNA synthetase enables robust incorporation of azidonorleucine into recombinant proteins in E. coli.

Authors: Diya M Abdeljabbar; Thomas J Klein; Siyan Zhang; A James Link
Journal: J Am Chem Soc Date: 2009-12-02 Impact factor: 15.419

8. Preparation of the functionalizable methionine surrogate azidohomoalanine via copper-catalyzed diazo transfer.

Authors: A James Link; Mandy K S Vink; David A Tirrell
Journal: Nat Protoc Date: 2007 Impact factor: 13.491

Review 9. Salmonella takes control: effector-driven manipulation of the host.

Authors: Emma J McGhie; Lyndsey C Brawn; Peter J Hume; Daniel Humphreys; Vassilis Koronakis
Journal: Curr Opin Microbiol Date: 2009-01-20 Impact factor: 7.934

10. Rapid changes in gene expression dynamics in response to superoxide reveal SoxRS-dependent and independent transcriptional networks.

Authors: Jeffrey L Blanchard; Wei-Yun Wholey; Erin M Conlon; Pablo J Pomposiello
Journal: PLoS One Date: 2007-11-14 Impact factor: 3.240

10 in total

Review 1. Options and Limitations in Clinical Investigation of Bacterial Biofilms.

Authors: Maria Magana; Christina Sereti; Anastasios Ioannidis; Courtney A Mitchell; Anthony R Ball; Emmanouil Magiorkinis; Stylianos Chatzipanagiotou; Michael R Hamblin; Maria Hadjifrangiskou; George P Tegos
Journal: Clin Microbiol Rev Date: 2018-04-04 Impact factor: 26.132

2. Programming Post-Translational Control over the Metabolic Labeling of Cellular Proteins with a Noncanonical Amino Acid.

Authors: Emily E Thomas; Naresh Pandey; Sarah Knudsen; Zachary T Ball; Jonathan J Silberg
Journal: ACS Synth Biol Date: 2017-05-17 Impact factor: 5.110

3. Mutant methionyl-tRNA synthetase from bacteria enables site-selective N-terminal labeling of proteins expressed in mammalian cells.

Authors: John T Ngo; Erin M Schuman; David A Tirrell
Journal: Proc Natl Acad Sci U S A Date: 2013-03-11 Impact factor: 11.205

State-selective metabolic labeling of cellular proteins.

Review 1. Redox-operated genetic switches: the SoxR and OxyR transcription factors.

2. Selective identification of newly synthesized proteins in mammalian cells using bioorthogonal noncanonical amino acid tagging (BONCAT).

3. The redox state of the [2Fe-2S] clusters in SoxR protein regulates its activity as a transcription factor.

4. Cell-selective metabolic labeling of proteins.

5. Analysis and optimization of copper-catalyzed azide-alkyne cycloaddition for bioconjugation.

6. Discovery of Escherichia coli methionyl-tRNA synthetase mutants for efficient labeling of proteins with azidonorleucine in vivo.

7. A single genomic copy of an engineered methionyl-tRNA synthetase enables robust incorporation of azidonorleucine into recombinant proteins in E. coli.

8. Preparation of the functionalizable methionine surrogate azidohomoalanine via copper-catalyzed diazo transfer.

Review 9. Salmonella takes control: effector-driven manipulation of the host.

10. Rapid changes in gene expression dynamics in response to superoxide reveal SoxRS-dependent and independent transcriptional networks.

Review 1. Options and Limitations in Clinical Investigation of Bacterial Biofilms.

2. Programming Post-Translational Control over the Metabolic Labeling of Cellular Proteins with a Noncanonical Amino Acid.

3. Mutant methionyl-tRNA synthetase from bacteria enables site-selective N-terminal labeling of proteins expressed in mammalian cells.

4. A genetically encoded and gate for cell-targeted metabolic labeling of proteins.

5. Identification of secreted bacterial proteins by noncanonical amino acid tagging.

Review 6. Chemical tools for temporally and spatially resolved mass spectrometry-based proteomics.

Review 7. Teaching old NCATs new tricks: using non-canonical amino acid tagging to study neuronal plasticity.

8. Cell labeling and tracking method without distorted signals by phagocytosis of macrophages.

Review 9. The central dogma decentralized: new perspectives on RNA function and local translation in neurons.

10. Selective Proteomic Analysis of Antibiotic-Tolerant Cellular Subpopulations in Pseudomonas aeruginosa Biofilms.