Direct <i>in vivo</i> access to potential gene targets of the RPD3 histone deactylase using fitness‐based interferential genetics

Daniel, Jacques H.

doi:10.1002/yea.1495

Cited by 5 publications

(3 citation statements)

References 71 publications

(91 reference statements)

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“…To our knowledge, this is the first time that the FIG approach has been applied to plants, but the difference with respect to the control empty plasmid (i.e. 6.8 6 3.3) is within the range found in other FIG assays reported for yeast proteins (Daniel, 2007). Thus, beyond the physical interaction shown in the two-hybrid assay, this result unveils a functional interplay between AtDBP1 and AtDIP2 and suggests a role for AtDIP2 in modulating AtDBP1 biological activity.…”

Section: Fitness-based Interferential Genetics Reveals a Functional Isupporting

confidence: 65%

A Plant Small Polypeptide Is a Novel Component of DNA-Binding Protein Phosphatase 1-Mediated Resistance to Plum pox virus in Arabidopsis

Castelló

Carrasco²,

Navarrete-Gómez³

et al. 2011

Plant Physiology

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DNA-binding protein phosphatases (DBPs) have been identified as a novel class of plant-specific regulatory factors playing a role in plant-virus interactions. NtDBP1 from tobacco (Nicotiana tabacum) was shown to participate in transcriptional regulation of gene expression in response to virus infection in compatible interactions, and AtDBP1, its closest relative in the model plant Arabidopsis (Arabidopsis thaliana), has recently been found to mediate susceptibility to potyvirus, one of the most speciose taxa of plant viruses. Here, we report on the identification of a novel family of highly conserved small polypeptides that interact with DBP1 proteins both in tobacco and Arabidopsis, which we have designated DBP-interacting protein 2 (DIP2). The interaction of AtDIP2 with AtDBP1 was demonstrated in vivo by bimolecular fluorescence complementation, and AtDIP2 was shown to functionally interfere with AtDBP1 in yeast. Furthermore, reducing AtDIP2 gene expression leads to increased susceptibility to the potyvirus Plum pox virus and to a lesser extent also to Turnip mosaic virus, whereas overexpression results in enhanced resistance. Therefore, we describe a novel family of conserved small polypeptides in plants and identify AtDIP2 as a novel host factor contributing to resistance to potyvirus in Arabidopsis.

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Section: Fitness-based Interferential Genetics Reveals a Functional Isupporting

confidence: 65%

A Plant Small Polypeptide Is a Novel Component of DNA-Binding Protein Phosphatase 1-Mediated Resistance to Plum pox virus in Arabidopsis

Castelló

Carrasco²,

Navarrete-Gómez³

et al. 2011

Plant Physiology

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“…Moreover, dyskerin was negatively correlated with DFS in cholangiocarcinoma patients [24]. Located in chromosome X, MRPL27 gene codes for 146 amino acids, YmL27 protein, and involves the large subunit of the mitochondrial ribosome [25][26][27]. In addition, MRPL27 is involved in mitochondrial translation as well as organelle biogenesis and maintenance [28], in which in line with our results from bioinformatic analysis.…”

Section: Discussionsupporting

confidence: 84%

MRPL27 contributes to unfavorable overall survival and disease-free survival from cholangiocarcinoma patients

Zhuang¹,

Meng²,

Yang³

2021

Int. J. Med. Sci.

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“…Fitness-based interferential genetics (FIG) has been shown to be an eYcient approach for in-vivo exploration of the largely unknown domain of functional macromolecular networks in cells (Daniel 1993(Daniel , 1996a(Daniel , b, 2005(Daniel , 2007. Basically, FIG relies on the general observation that genes overexpressed in yeast cells lead to some cell toxicity, i.e., negatively aVect the cell's Wtness, even though the extent of this eVect varies from gene to gene.…”

Section: Introductionmentioning

confidence: 98%

A fitness-based interferential genetics approach using hypertoxic/inactive gene alleles as references

Daniel

2009

Mol Genet Genomics

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Genetics, genomics, and biochemistry have all been of immense help in characterizing macromolecular cell entities and their interactions. Still, obtaining an overall picture of the functioning of even a simple unicellular species has remained a challenging task. One possible way to obtain a comprehensive picture has been described: by capitalizing on the observation that the overexpression on a multicopy plasmid of apparently any wild-type gene in yeast can lead to some negative effect on cell fitness (referring to the concept of "gene toxicity"), the FIG (fitness-based interferential genetics) approach was devised for selecting normal genes that are in antagonistic (and potentially also agonistic) relationship with a particular gene used as a reference. Herein, we take a complementary approach to FIG, by first selecting a "hypertoxic" allele of the reference gene--which easily provides the general possibility of obtaining gene products with the remarkable property of being inactive without altering their macromolecular interactivity--and then looking for the genes that interact functionally with this reference. Thus, FIG and the present approach (Trap-FIG), both taking advantage of the negative effects on cell fitness induced by various quantitative modulations in cellular networks, could potentially pave the way for the emergence of efficient in situ biochemistry.

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Direct in vivo access to potential gene targets of the RPD3 histone deactylase using fitness‐based interferential genetics

Cited by 5 publications

References 71 publications

A Plant Small Polypeptide Is a Novel Component of DNA-Binding Protein Phosphatase 1-Mediated Resistance to Plum pox virus in Arabidopsis

A Plant Small Polypeptide Is a Novel Component of DNA-Binding Protein Phosphatase 1-Mediated Resistance to Plum pox virus in Arabidopsis

MRPL27 contributes to unfavorable overall survival and disease-free survival from cholangiocarcinoma patients

A fitness-based interferential genetics approach using hypertoxic/inactive gene alleles as references

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