Mikel Lavilla-Puerta
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mikellavi.bsky.social
Mikel Lavilla-Puerta
@mikellavi.bsky.social
Oxygen, yeast, SynBio and sometimes, plants. Postdoc at Oxford Biology, PhD at Scuola Superiore Sant'Anna.
I also sing and am very fond of my village.
Reposted by Mikel Lavilla-Puerta
We finish this #ISPLORE2025JP session with exceptional talks by @mikellavi.bsky.social, Daai Zhang, @vinayshukla.bsky.social and Lina Zhou 🌱🌊 Check out @beagiuntoli.bsky.social's recent preprint #plantscience

www.biorxiv.org/content/10.1...
September 23, 2025 at 8:57 AM
Yep! it's been a few years in the making, but after some upgrades, now it seems definitely worth the wait. See you in Japan indeed! Can't wait.
September 5, 2025 at 4:53 PM
A synthetic ERFVII-dependent circuit in yeast sheds light on the regulation of early hypoxic responses of plants
Plants face hypoxic conditions either chronically, as particular tissues are characterized by fluctuating or stable low oxygen levels, or acutely, when flooded. In vascular plants, transcriptional adaptive responses to hypoxia are rapidly mounted by Ethylene Response Factors VII (ERFVIIs), regulated by Plant Cysteine Oxidases (PCOs) through the cysteine branch of the N-degron pathway (Cys-NDP) for oxygen sensing. However, this relatively simple regulatory circuit, consisting of both constitutively expressed as well as hypoxia-inducible ERFVIIs and PCOs, interacts with diverse signalling cues and pathways invoked by hypoxia. To understand the share of the PCO-mediated oxygen sensing mechanism in the production of hypoxia responses, we insulated the PCO/ERFVII circuit from Arabidopsis thaliana and adapted it to Saccharomyces cerevisiae . Using a reporter gene to monitor the output of the circuit allowed us to compare the speed and amplitude of response to hypoxia in the engineered yeast and the source organism. Hypoxia triggered ERFVII stabilization both in Arabidopsis and yeast, leading to a similarly fast transcriptional response that was however larger in plants. A simple hypoxia-inducible feedback loop improved the amplitude of response in yeast, demonstrating the importance of this regulation in the endogenous PCO/ERFVII circuit. Finally, computational modelling of the yeast circuit enabled us to identify promoter competition and presence of hypoxia-inducible PCOs as key parameters that shape early hypoxia responses in plant cells. ### Competing Interest Statement The authors have declared no competing interest. UK Research and Innovation, CBR00770
www.biorxiv.org
September 5, 2025 at 4:46 PM
Thanks for the shoutout Sjon! Here's the updated link: www.biorxiv.org/content/10.1...
Hope you like it!
A synthetic ERFVII-dependent circuit in yeast sheds light on the regulation of early hypoxic responses of plants
Plants face hypoxic conditions either chronically, as particular tissues are characterized by fluctuating or stable low oxygen levels, or acutely, when flooded. In vascular plants, transcriptional adaptive responses to hypoxia are rapidly mounted by Ethylene Response Factors VII (ERFVIIs), regulated by Plant Cysteine Oxidases (PCOs) through the cysteine branch of the N-degron pathway (Cys-NDP) for oxygen sensing. However, this relatively simple regulatory circuit, consisting of both constitutively expressed as well as hypoxia-inducible ERFVIIs and PCOs, interacts with diverse signalling cues and pathways invoked by hypoxia. To understand the share of the PCO-mediated oxygen sensing mechanism in the production of hypoxia responses, we insulated the PCO/ERFVII circuit from Arabidopsis thaliana and adapted it to Saccharomyces cerevisiae . Using a reporter gene to monitor the output of the circuit allowed us to compare the speed and amplitude of response to hypoxia in the engineered yeast and the source organism. Hypoxia triggered ERFVII stabilization both in Arabidopsis and yeast, leading to a similarly fast transcriptional response that was however larger in plants. A simple hypoxia-inducible feedback loop improved the amplitude of response in yeast, demonstrating the importance of this regulation in the endogenous PCO/ERFVII circuit. Finally, computational modelling of the yeast circuit enabled us to identify promoter competition and presence of hypoxia-inducible PCOs as key parameters that shape early hypoxia responses in plant cells. ### Competing Interest Statement The authors have declared no competing interest. UK Research and Innovation, CBR00770
www.biorxiv.org
September 5, 2025 at 4:45 PM
A synthetic ERFVII-dependent circuit in yeast sheds light on the regulation of early hypoxic responses of plants
Plants face hypoxic conditions either chronically, as particular tissues are characterized by fluctuating or stable low oxygen levels, or acutely, when flooded. In vascular plants, transcriptional adaptive responses to hypoxia are rapidly mounted by Ethylene Response Factors VII (ERFVIIs), regulated by Plant Cysteine Oxidases (PCOs) through the cysteine branch of the N-degron pathway (Cys-NDP) for oxygen sensing. However, this relatively simple regulatory circuit, consisting of both constitutively expressed as well as hypoxia-inducible ERFVIIs and PCOs, interacts with diverse signalling cues and pathways invoked by hypoxia. To understand the share of the PCO-mediated oxygen sensing mechanism in the production of hypoxia responses, we insulated the PCO/ERFVII circuit from Arabidopsis thaliana and adapted it to Saccharomyces cerevisiae . Using a reporter gene to monitor the output of the circuit allowed us to compare the speed and amplitude of response to hypoxia in the engineered yeast and the source organism. Hypoxia triggered ERFVII stabilization both in Arabidopsis and yeast, leading to a similarly fast transcriptional response that was however larger in plants. A simple hypoxia-inducible feedback loop improved the amplitude of response in yeast, demonstrating the importance of this regulation in the endogenous PCO/ERFVII circuit. Finally, computational modelling of the yeast circuit enabled us to identify promoter competition and presence of hypoxia-inducible PCOs as key parameters that shape early hypoxia responses in plant cells. ### Competing Interest Statement The authors have declared no competing interest. UK Research and Innovation, CBR00770
www.biorxiv.org
September 5, 2025 at 4:44 PM
Big thanks to everyone involved! @yuminghe.bsky.social @beagiuntoli.bsky.social @syno2xis.bsky.social et al.!
Several years in the making and a lot of people met, but finally out as a preprint!
September 5, 2025 at 4:32 PM
3] The role of hypoxia-inducible PCOs: why make more of an enzyme in hypoxia, where it has negligible activity..? Well, they actually do something! And they may be the key to engineer faster hypoxic responses
September 5, 2025 at 4:32 PM
Thanks to this yeast system we understood:
1] The Cys-NDP is responsible for these responses in plants happening in only 5-10min.
2] HRPE elements (in hypoxic promoters) compete for ERFVII TFs when these are limited. The more HRPEs, the faster the response!
September 5, 2025 at 4:32 PM
The Cys N-Degron Pathway (which controls plant responses to hypoxia) works in coordination with many, many other processes that finely tune low O2 responses.
We took it.
Put it in yeast, where no such regulation exists.
And it still works! So the Cys-NDP is self-sufficient...
September 5, 2025 at 4:32 PM
Congrats Vinay!! So exciting! Very happy for you
September 4, 2025 at 2:51 PM
Reposted by Mikel Lavilla-Puerta
Added many more ISPLORE researchers to our starter pack, including @theplantlab.bsky.social, @mikellavi.bsky.social @freddietheodoulou.bsky.social, @gunjansharma88.bsky.social. Welcome to BlueSky!
December 13, 2024 at 10:51 AM