Literature DB >> 22722869

Robustness analysis of cellular systems using the genetic tug-of-war method.

Hisao Moriya1, Koji Makanae, Kenji Watanabe, Ayako Chino, Yuki Shimizu-Yoshida.   

Abstract

Robustness is one of the principles of design inherent to biological systems. Cellular robustness can be measured as limits of intracellular parameters such as gene expression levels. We have recently developed an experimental approach coined as genetic Tug-Of-War (gTOW), which we used to perform robustness analysis in yeast. Using gTOW, we were able to measure the upper limit of expression of gene targets. In this review, we first elaborate on how the gTOW method compares to current mathematical simulation models prevalently used in the determination of robustness. We then explain the experimental principles underlying gTOW and its associated tools, and we provide concrete examples of robustness analysis using gTOW, i.e. cell cycle and HOG pathway gene expression analysis. Finally, we list a series of Q&As related to the experimental utilization of gTOW and we describe the potential impact of gTOW and its relevance to the understanding of biological systems.

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Year:  2012        PMID: 22722869     DOI: 10.1039/c2mb25100k

Source DB:  PubMed          Journal:  Mol Biosyst        ISSN: 1742-2051


  16 in total

Review 1.  Short- and long-term effects of chromosome mis-segregation and aneuploidy.

Authors:  Stefano Santaguida; Angelika Amon
Journal:  Nat Rev Mol Cell Biol       Date:  2015-08       Impact factor: 94.444

2.  Genetic profiling of protein burden and nuclear export overload.

Authors:  Reiko Kintaka; Koji Makanae; Shotaro Namba; Hisaaki Kato; Keiji Kito; Shinsuke Ohnuki; Yoshikazu Ohya; Brenda J Andrews; Charles Boone; Hisao Moriya
Journal:  Elife       Date:  2020-11-04       Impact factor: 8.140

3.  Identification of dosage-sensitive genes in Saccharomyces cerevisiae using the genetic tug-of-war method.

Authors:  Koji Makanae; Reiko Kintaka; Takashi Makino; Hiroaki Kitano; Hisao Moriya
Journal:  Genome Res       Date:  2012-12-28       Impact factor: 9.043

4.  Small toxic protein encoded on chromosome VII of Saccharomyces cerevisiae.

Authors:  Koji Makanae; Reiko Kintaka; Koji Ishikawa; Hisao Moriya
Journal:  PLoS One       Date:  2015-03-17       Impact factor: 3.240

5.  Aneuploid proliferation defects in yeast are not driven by copy number changes of a few dosage-sensitive genes.

Authors:  Megan E Bonney; Hisao Moriya; Angelika Amon
Journal:  Genes Dev       Date:  2015-05-01       Impact factor: 11.361

6.  Relationships between cell cycle regulator gene copy numbers and protein expression levels in Schizosaccharomyces pombe.

Authors:  Ayako Chino; Koji Makanae; Hisao Moriya
Journal:  PLoS One       Date:  2013-09-03       Impact factor: 3.240

7.  Evaluation of the lower protein limit in the budding yeast Saccharomyces cerevisiae using TIPI-gTOW.

Authors:  Masataka Sasabe; Sayumi Shintani; Reiko Kintaka; Kazunari Kaizu; Koji Makanae; Hisao Moriya
Journal:  BMC Syst Biol       Date:  2014-01-07

8.  Principles of self-organization in biological pathways: a hypothesis on the autogenous association of alpha-synuclein.

Authors:  Andreas Zanzoni; Domenica Marchese; Federico Agostini; Benedetta Bolognesi; Davide Cirillo; Maria Botta-Orfila; Carmen Maria Livi; Silvia Rodriguez-Mulero; Gian Gaetano Tartaglia
Journal:  Nucleic Acids Res       Date:  2013-09-03       Impact factor: 16.971

9.  Cellular growth defects triggered by an overload of protein localization processes.

Authors:  Reiko Kintaka; Koji Makanae; Hisao Moriya
Journal:  Sci Rep       Date:  2016-08-19       Impact factor: 4.379

10.  Quantitative nature of overexpression experiments.

Authors:  Hisao Moriya
Journal:  Mol Biol Cell       Date:  2015-11-05       Impact factor: 4.138

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