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Selective Knockdowns in Maize by Sequence-Specific Protein Aggregation

Camilla Betti, Joost Schymkowitz, Frederic Rousseau and Eugenia Russinova UGent (2018) Maize: Methods and Protocols. In Methods in Molecular Biology 1676. p.109-127
abstract
Protein aggregation is determined by 5-15 amino acids peptides of the target protein sequence, so-called aggregation-prone regions (APRs) that specifically self-associate to form β-structured inclusions. The presence of APRs in a target protein can be predicted by a dedicated algorithm, such as TANGO. Synthetic aggregation-prone proteins are designed by expressing specific APRs fused to a fluorescent carrier for stability and visualization. Previously, the stable expression of these proteins in Zea mays (maize) has been demonstrated to induce aggregation of target proteins with specific localization, such as the starch-degrading enzyme α-glucan water dikinase, giving rise to plants displaying knockdown phenotypes. Here, we describe how to design synthetic aggregation-prone proteins to harness the sequence specificity of APRs to generate aggregation-associated phenotypes in a targeted manner and in different subcellular compartments. This method points toward the application of induced targeted aggregation as a useful tool to knock down protein functions in maize and to generate crops with improved traits.
Please use this url to cite or link to this publication:
author
organization
year
type
bookChapter
publication status
published
subject
keyword
APR, Protein interference, Protein knockdown technology, Sequence-specific aggregation, β-sheet inclusions
book title
Maize: Methods and Protocols
series title
Methods in Molecular Biology
volume
1676
pages
109 - 127
publisher
Springer New York
ISSN
1064-3745
1940-6029
ISBN
9781493973149
9781493973156
DOI
10.1007/978-1-4939-7315-6_6
UGent publication?
yes
classification
U
id
8561882
handle
http://hdl.handle.net/1854/LU-8561882
date created
2018-05-15 12:07:58
date last changed
2018-05-15 12:07:58
@incollection{8561882,
  abstract     = {Protein aggregation is determined by 5-15 amino acids peptides of the target protein sequence, so-called aggregation-prone regions (APRs) that specifically self-associate to form \ensuremath{\beta}-structured inclusions. The presence of APRs in a target protein can be predicted by a dedicated algorithm, such as TANGO. Synthetic aggregation-prone proteins are designed by expressing specific APRs fused to a fluorescent carrier for stability and visualization. Previously, the stable expression of these proteins in Zea mays (maize) has been demonstrated to induce aggregation of target proteins with specific localization, such as the starch-degrading enzyme \ensuremath{\alpha}-glucan water dikinase, giving rise to plants displaying knockdown phenotypes. Here, we describe how to design synthetic aggregation-prone proteins to harness the sequence specificity of APRs to generate aggregation-associated phenotypes in a targeted manner and in different subcellular compartments. This method points toward the application of induced targeted aggregation as a useful tool to knock down protein functions in maize and to generate crops with improved traits.},
  author       = {Betti, Camilla and Schymkowitz, Joost and Rousseau, Frederic and Russinova, Eugenia},
  booktitle    = {Maize: Methods and Protocols},
  isbn         = {9781493973149},
  issn         = {1064-3745},
  keyword      = {APR,Protein interference,Protein knockdown technology,Sequence-specific aggregation,\ensuremath{\beta}-sheet inclusions},
  pages        = {109--127},
  publisher    = {Springer New York},
  series       = {Methods in Molecular Biology},
  title        = {Selective Knockdowns in Maize by Sequence-Specific Protein Aggregation},
  url          = {http://dx.doi.org/10.1007/978-1-4939-7315-6\_6},
  volume       = {1676},
  year         = {2018},
}

Chicago
Betti, Camilla, Joost Schymkowitz, Frederic Rousseau, and Eugenia Russinova. 2018. “Selective Knockdowns in Maize by Sequence-Specific Protein Aggregation.” In Maize: Methods and Protocols, 1676:109–127. Springer New York.
APA
Betti, C., Schymkowitz, J., Rousseau, F., & Russinova, E. (2018). Selective Knockdowns in Maize by Sequence-Specific Protein Aggregation. Maize: Methods and Protocols (Vol. 1676, pp. 109–127). Springer New York.
Vancouver
1.
Betti C, Schymkowitz J, Rousseau F, Russinova E. Selective Knockdowns in Maize by Sequence-Specific Protein Aggregation. Maize: Methods and Protocols. Springer New York; 2018. p. 109–27.
MLA
Betti, Camilla, Joost Schymkowitz, Frederic Rousseau, et al. “Selective Knockdowns in Maize by Sequence-Specific Protein Aggregation.” Maize: Methods and Protocols. Vol. 1676. Springer New York, 2018. 109–127. Print.