Techniques to analyze sRNA protein cofactor self-assembly in vitro

David Partouche; Antoine Malabirade; Thomas Bizien; Marisela Velez; Sylvain Trépout; Sergio Marco; Valeria Militello; Christophe Sandt; Frank Wien; Véronique Arluison

doi:10.1007/978-1-4939-7634-8_18

Techniques to analyze sRNA protein cofactor self-assembly in vitro

David Partouche, Antoine Malabirade, Thomas Bizien, Marisela Velez, Sylvain Trépout, Sergio Marco, Valeria Militello, Christophe Sandt, Frank Wien, Véronique Arluison

Research output: Chapter in Book/Report/Conference proceeding › Chapter (Book) › Other › peer-review

4 Citations (Scopus)

Abstract

Post-transcriptional control of gene expression by small regulatory noncoding RNA (sRNA) needs protein accomplices to occur. Past research mainly focused on the RNA chaperone Hfq as cofactor. Nevertheless, recent studies indicated that other proteins might be involved in sRNA-based regulations. As some of these proteins have been shown to self-assemble, we describe in this chapter protocols to analyze the nano-assemblies formed. Precisely, we focus our analysis on Escherichia coli Hfq as a model, but the protocols presented here can be applied to analyze any polymer of proteins. This chapter thus provides a guideline to develop commonly used approaches to detect prokaryotic protein self-assembly, with a special focus on the detection of amyloidogenic polymers.

Original language	English
Title of host publication	Bacterial Regulatory RNA
Subtitle of host publication	Methods and Protocols
Editors	Véronique Arluison, Claudio Valverde
Place of Publication	New York NY USA
Publisher	Humana Press
Chapter	18
Pages	321-340
Number of pages	20
ISBN (Electronic)	9781493976348
ISBN (Print)	9781493976331
DOIs	https://doi.org/10.1007/978-1-4939-7634-8_18
Publication status	Published - 27 Feb 2018
Externally published	Yes

Publication series

Name	Methods in Molecular Biology
Publisher	Springer
Volume	1737
ISSN (Print)	1064-3745
ISSN (Electronic)	1940-6029

Keywords

Functional amyloid
Noncoding RNA cofactor
Protein self-assembly

Access to Document

10.1007/978-1-4939-7634-8_18

Cite this

Partouche, D., Malabirade, A., Bizien, T., Velez, M., Trépout, S., Marco, S., Militello, V., Sandt, C., Wien, F., & Arluison, V. (2018). Techniques to analyze sRNA protein cofactor self-assembly in vitro. In V. Arluison, & C. Valverde (Eds.), Bacterial Regulatory RNA: Methods and Protocols (pp. 321-340). (Methods in Molecular Biology; Vol. 1737). Humana Press. https://doi.org/10.1007/978-1-4939-7634-8_18

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title = "Techniques to analyze sRNA protein cofactor self-assembly in vitro",

abstract = "Post-transcriptional control of gene expression by small regulatory noncoding RNA (sRNA) needs protein accomplices to occur. Past research mainly focused on the RNA chaperone Hfq as cofactor. Nevertheless, recent studies indicated that other proteins might be involved in sRNA-based regulations. As some of these proteins have been shown to self-assemble, we describe in this chapter protocols to analyze the nano-assemblies formed. Precisely, we focus our analysis on Escherichia coli Hfq as a model, but the protocols presented here can be applied to analyze any polymer of proteins. This chapter thus provides a guideline to develop commonly used approaches to detect prokaryotic protein self-assembly, with a special focus on the detection of amyloidogenic polymers.",

keywords = "Functional amyloid, Noncoding RNA cofactor, Protein self-assembly",

author = "David Partouche and Antoine Malabirade and Thomas Bizien and Marisela Velez and Sylvain Tr{\'e}pout and Sergio Marco and Valeria Militello and Christophe Sandt and Frank Wien and V{\'e}ronique Arluison",

note = "Funding Information: This work was supported by Universit{\'e} Paris Diderot, CNRS, CEA, and Synchrotron SOLEIL. We gratefully acknowledge help to MV from the French Embassy for their program for scientific and university cooperation. We are indebted to F. Gobeaux (CEA Saclay, Gif-sur-Yvette, France) and A. Deniset-Besseau (LCP, Universit{\'e} Paris-Sud, France) for many fruitful discussions. We thank Kimberly Stanek (University of Virginia) for her careful and critical reading of our manuscript. Publisher Copyright: {\textcopyright} 2018, Springer Science+Business Media, LLC.",

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Partouche, D, Malabirade, A, Bizien, T, Velez, M, Trépout, S, Marco, S, Militello, V, Sandt, C, Wien, F & Arluison, V 2018, Techniques to analyze sRNA protein cofactor self-assembly in vitro. in V Arluison & C Valverde (eds), Bacterial Regulatory RNA: Methods and Protocols. Methods in Molecular Biology, vol. 1737, Humana Press, New York NY USA, pp. 321-340. https://doi.org/10.1007/978-1-4939-7634-8_18

Techniques to analyze sRNA protein cofactor self-assembly in vitro. / Partouche, David; Malabirade, Antoine; Bizien, Thomas et al.
Bacterial Regulatory RNA: Methods and Protocols. ed. / Véronique Arluison; Claudio Valverde. New York NY USA: Humana Press, 2018. p. 321-340 (Methods in Molecular Biology; Vol. 1737).

Research output: Chapter in Book/Report/Conference proceeding › Chapter (Book) › Other › peer-review

TY - CHAP

T1 - Techniques to analyze sRNA protein cofactor self-assembly in vitro

AU - Partouche, David

AU - Malabirade, Antoine

AU - Bizien, Thomas

AU - Velez, Marisela

AU - Trépout, Sylvain

AU - Marco, Sergio

AU - Militello, Valeria

AU - Sandt, Christophe

AU - Wien, Frank

AU - Arluison, Véronique

N1 - Funding Information: This work was supported by Université Paris Diderot, CNRS, CEA, and Synchrotron SOLEIL. We gratefully acknowledge help to MV from the French Embassy for their program for scientific and university cooperation. We are indebted to F. Gobeaux (CEA Saclay, Gif-sur-Yvette, France) and A. Deniset-Besseau (LCP, Université Paris-Sud, France) for many fruitful discussions. We thank Kimberly Stanek (University of Virginia) for her careful and critical reading of our manuscript. Publisher Copyright: © 2018, Springer Science+Business Media, LLC.

PY - 2018/2/27

Y1 - 2018/2/27

N2 - Post-transcriptional control of gene expression by small regulatory noncoding RNA (sRNA) needs protein accomplices to occur. Past research mainly focused on the RNA chaperone Hfq as cofactor. Nevertheless, recent studies indicated that other proteins might be involved in sRNA-based regulations. As some of these proteins have been shown to self-assemble, we describe in this chapter protocols to analyze the nano-assemblies formed. Precisely, we focus our analysis on Escherichia coli Hfq as a model, but the protocols presented here can be applied to analyze any polymer of proteins. This chapter thus provides a guideline to develop commonly used approaches to detect prokaryotic protein self-assembly, with a special focus on the detection of amyloidogenic polymers.

AB - Post-transcriptional control of gene expression by small regulatory noncoding RNA (sRNA) needs protein accomplices to occur. Past research mainly focused on the RNA chaperone Hfq as cofactor. Nevertheless, recent studies indicated that other proteins might be involved in sRNA-based regulations. As some of these proteins have been shown to self-assemble, we describe in this chapter protocols to analyze the nano-assemblies formed. Precisely, we focus our analysis on Escherichia coli Hfq as a model, but the protocols presented here can be applied to analyze any polymer of proteins. This chapter thus provides a guideline to develop commonly used approaches to detect prokaryotic protein self-assembly, with a special focus on the detection of amyloidogenic polymers.

KW - Functional amyloid

KW - Noncoding RNA cofactor

KW - Protein self-assembly

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U2 - 10.1007/978-1-4939-7634-8_18

DO - 10.1007/978-1-4939-7634-8_18

M3 - Chapter (Book)

C2 - 29484601

AN - SCOPUS:85042711731

SN - 9781493976331

T3 - Methods in Molecular Biology

SP - 321

EP - 340

BT - Bacterial Regulatory RNA

A2 - Arluison, Véronique

A2 - Valverde, Claudio

PB - Humana Press

CY - New York NY USA

ER -

Techniques to analyze sRNA protein cofactor self-assembly in vitro

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