A Ratiometric Sensor Based on Plant N-Terminal Degrons Able to Report Oxygen Dynamics in Saccharomyces cerevisiae

Puerta, Mikel Lavilla; Shukla, Vinay; Carbonare, Laura Dalle; Weits, Daan A.; Perata, Pierdomenico; Licausi, Francesco; Giuntoli, Beatrice

doi:10.1016/j.jmb.2019.05.023

Cited by 24 publications

(30 citation statements)

References 47 publications

(62 reference statements)

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“…Left panel: in yeast, ERF‐VII ODD served as effector domain incorporated in a ratiometric luminescent output module. Plant PCO was supplied as sensor (Puerta et al , 2019). Right panel: in human cells, ERF‐VII ODD‐containing output modules can work in a circuitry that provides an endogenous sensory function, thanks to human cysteine oxidases (COs) (Masson et al , 2019).…”

Section: In Vivo Biosensors For Plant Cellular Hypoxiamentioning

confidence: 99%

Synthetic biology of hypoxia

Licausi

Giuntoli

2020

New Phytologist

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Synthetic biology can greatly aid the investigation of fundamental regulatory mechanisms and enable their direct deployment in the host organisms of choice. In the field of plant hypoxia physiology, a synthetic biology approach has recently been exploited to infer general properties of the plant oxygen sensing mechanism, by expression of plant-specific components in yeast. Moreover, genetic sensors have been devised to report cellular oxygen levels or physiological parameters associated with hypoxia, and orthogonal switches have been introduced in plants to trigger oxygen-specific responses. Upcoming applications are expected, such as genetic tailoring of oxygen-responsive traits, engineering of plant hypoxic metabolism and oxygen delivery to hypoxic tissues, and expansion of the repertoire of genetically encoded oxygen sensors.

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Section: In Vivo Biosensors For Plant Cellular Hypoxiamentioning

confidence: 99%

Synthetic biology of hypoxia

Licausi

Giuntoli

2020

New Phytologist

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“…In both mammalian and plant systems nitric oxide (NO), in addition to oxygen, was shown to be absolutely required for degradation of Nt‐Cys substrates in vivo (Hu et al ; Gibbs et al ) and in a reconstituted in‐vitro system (Hu et al ) (Figure A). However, in vitro assessment of the activity of PCOs (Weits et al ; White et al ; White et al ), and analysis of a reconstituted plant PCO‐regulated system for Nt‐Cys degradation in yeast (Puerta et al ) demonstrated that oxidation leading to degradation is possible in the absence of NO ( Saccharomyces cerevisiae has not been shown to produce endogenous NO under standard growth conditions). It, therefore, remains to be discovered how NO exerts a positive influence on degradation of Nt‐Cys substrates in a cellular context, that may include an effect on the activities of enzymic components of the pathway (for example it was recently shown that PRT6 contains a putative NO‐binding domain (Zarban et al )) or indirectly through alterations of cellular energy balance (Greenway and Armstrong ).…”

Section: Enzymatic Components Of Plant N‐degron Pathwaysmentioning

confidence: 99%

“…This system was also used to direct conditional expression of the highly cytotoxic RNase barnase, providing a switchable mechanism to regulate cell fate (Faden et al ). Other synthetic biology approaches have been used to reconstitute the plant‐specific PCO‐dependent components of the PRT6 pathway in yeast (Puerta et al ) and to provide tools to assess in vivo Nt‐Arg and Nt‐Phe PRT6/PRT1 N‐degron pathway substrate half‐life with Tandem fluorescent protein timers (Zhang et al ). These advances indicate the potential use of N‐degron mediated regulation of protein stability for production and manipulation of proteins of biotechnological interest, or for metabolic engineering.…”

Section: Biotechnological and Classical Breeding Approaches To Addresmentioning

confidence: 99%

The plant N‐degron pathways of ubiquitin‐mediated proteolysis

Holdsworth

Vicente

Sharma

et al. 2019

JIPB

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The amino-terminal residue of a protein (or amino-terminus of a peptide following protease cleavage) can be an important determinant of its stability, through the Ubiquitin Proteasome System associated N-degron pathways. Plants contain a unique combination of N-degron pathways (previously called the N-end rule pathways) E3 ligases, PROTEOLYSIS (PRT)6 and PRT1, recognizing non-overlapping sets of amino-terminal residues, and others remain to be identified. Although only very few substrates of PRT1 or PRT6 have been identified, substrates of the oxygen and nitric oxide sensing branch of the PRT6 N-degron pathway include key nuclear-located transcription factors (ETHYLENE RESPONSE FACTOR VIIs and LITTLE ZIPPER 2) and the histone-modifying Polycomb Repressive Complex 2 component VERNALIZATION 2. In response to reduced oxygen or nitric oxide levels (and other mechanisms that reduce pathway activity) these stabilized substrates regulate diverse aspects of growth and development, including response to flooding, salinity, vernalization (cold-induced flowering) and shoot apical meristem function. The N-degron pathways show great promise for use in the improvement of crop performance and for biotechnological applications. Upstream proteases, components of the different pathways and associated substrates still remain to be identified and characterized to fully appreciate how regulation of protein stability through the amino-terminal residue impacts plant biology.

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“…To date, dioxygenases have been effectively exploited in phytoremediation processes ( Hernández-Vega et al., 2017 ) and development of biosensor ( Iacopino et al., 2019 ). Moreover, from a synthetic biology perspective, their dependency on common cellular substrates and cofactors allows the transfer of dioxygenases between unrelated organisms ( Iacopino et al., 2019 ; Masson et al., 2019 ; Puerta et al., 2019 ), opening possibilities towards the development of novel regulatory networks conferring new agronomical traits and improving fitness under challenging abiotic conditions.…”

Section: Introductionmentioning

confidence: 99%

The Contribution of Plant Dioxygenases to Hypoxia Signaling

Iacopino

Licausi

2020

Front. Plant Sci.

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Dioxygenases catalyze the incorporation of one or two oxygen atoms into target organic substrates. Besides their metabolic role, these enzymes are involved in plant signaling pathways as this reaction is in several instances required for hormone metabolism, to control proteostasis and regulate chromatin accessibility. For these reasons, alteration of dioxygenase expression or activity can affect plant growth, development, and adaptation to abiotic and biotic stresses. Moreover, the requirement of co-substrates and co-factors, such as oxygen, 2-oxoglutarate, and iron (Fe 2+), invests dioxygenases with a potential role as cellular sensors for these molecules. For example, inhibition of cysteine deoxygenation under hypoxia elicits adaptive responses to cope with oxygen shortage. However, biochemical and molecular evidence regarding the role of other dioxygenases under low oxygen stresses is still limited, and thus further investigation is needed to identify additional sensing roles for oxygen or other co-substrates and co-factors. Here, we summarize the main signaling roles of dioxygenases in plants and discuss how they control plant growth, development and metabolism, with a focus on the adaptive responses to low oxygen conditions.

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A Ratiometric Sensor Based on Plant N-Terminal Degrons Able to Report Oxygen Dynamics in Saccharomyces cerevisiae

Cited by 24 publications

References 47 publications

Synthetic biology of hypoxia

Synthetic biology of hypoxia

The plant N‐degron pathways of ubiquitin‐mediated proteolysis

The Contribution of Plant Dioxygenases to Hypoxia Signaling

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