Michele Partipilo
@michelepartipilo.bsky.social
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reposted by
Michele Partipilo
TOLERATE EU Project
about 1 month ago
🧬 Can ancient Arctic genes help today’s crops survive climate extremes? In
#TOLERATE
, scientists engineer root-friendly microbes with resilience traits found in ancient soils, boosting water retention, nutrient uptake & heat/drought tolerance.
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Michele Partipilo
Nico Claassens
about 1 month ago
Newest preprint from our lab: a new family of promising synthetic CO2 fixation cycles that may outcompete the Calvin cycle and that Vittorio Rainaldi realized to a great extent in E. coli! Up to 11 heterologous enzymes in a cascade supporting CO2 fixation & growth!
www.biorxiv.org/content/10.1...
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Modular in vivo engineering of the reductive methylaspartate cycles for synthetic CO2 fixation
Biological carbon fixation is currently limited to seven naturally occurring pathways. Synthetic carbon fixation pathways have the potential to surpass aerobic natural pathways in efficiency, but none...
https://www.biorxiv.org/content/10.1101/2025.11.12.688011v1
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Michele Partipilo
about 2 months ago
How does Pseudomonas putida keep its redox balance steady across different metabolic states? Our new preprint shows that two transhydrogenases -membrane-bound PntAB and soluble SthA - act together as a flexible, reversible system to control NAD(H)/NADP(H) ratios.
www.biorxiv.org/content/10.1...
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Integrated control of redox and energy metabolism by the membrane-bound and soluble transhydrogenases of Pseudomonas putida across metabolic regimes
Redox homeostasis is central to microbial physiology and stress adaptation, yet the functional roles of transhydrogenases remain poorly understood beyond a few organisms. In this study, we systematica...
https://www.biorxiv.org/content/10.1101/2025.11.04.686620v1
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Michele Partipilo
Ian Fraser
3 months ago
250,000 people took part in the NO KINGS march in Chicago, with more than 7m marching in 2,700 locations US-wide, according to organisers
@indivisible.org
, as Americans increasingly resist Trump's authoritarianism.
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reposted by
Michele Partipilo
3 months ago
🚀 Thrilled to share our new Nature Communications article: “A blueprint for designing the next-generation of synthetic C1 microbes” We propose a framework to unlock sustainable, carbon-efficient biomanufacturing using non-canonical hosts. 🔗
www.nature.com/articles/s41...
A short 🧵1/4
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A blueprint for designing the next-generation of synthetic C1 microbes - Nature Communications
Synthetic one-carbon assimilation could contribute to a more sustainable and circular carbon economy, but much work in this field has focused on model microorganisms. Here the authors provide their perspective on the potential value of non-model microbes, and how that potential could be realised.
https://www.nature.com/articles/s41467-025-64483-y
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reposted by
Michele Partipilo
4 months ago
🚨 New paper in mBio! We established strict formatotrophic & methylotrophic growth in engineered Pseudomonas putida via the reductive glycine pathway (rGlyP).
journals.asm.org/doi/full/10....
Here’s a teaser of how we did it 🧵👇1/5
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Synthetic C1 metabolism in Pseudomonas putida enables strict formatotrophy and methylotrophy via the reductive glycine pathway | mBio
Soluble C1 feedstocks, such as formate and methanol, have gained attention as sustainable substrates for biotechnology, with the potential to reduce greenhouse gas emissions and reliance on sugar-based resources. Despite their promise, the metabolic ...
https://journals.asm.org/doi/full/10.1128/mbio.01976-25
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reposted by
Michele Partipilo
Stefano Donati
5 months ago
1/ 🚨 New preprint! We've developed a robust IDMS-based LC-MS/MS workflow for high-throughput intracellular metabolomics in diverse bacteria.
www.biorxiv.org/content/10.1...
#Metabolomics
#MassSpec
#SystemsBiology
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A Robust Isotope Ratio LC-MS/MS Workflow for High-Throughput Metabolic Profiling of Bacteria
Stable isotope dilution mass spectrometry (IDMS) has become a cornerstone of quantitative metabolomics, enabling accurate intracellular metabolite quantification across a range of biological systems. ...
https://www.biorxiv.org/content/10.1101/2025.08.08.669109
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reposted by
Michele Partipilo
Stefano Donati
5 months ago
Now published in Microbial Biotechnology!
enviromicro-journals.onlinelibrary.wiley.com/doi/epdf/10....
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reposted by
Michele Partipilo
6 months ago
The 5th edition of the
#Pseudomonas
grass roots meeting will take place on the 27th/28th of October 2025 in Denmark. This year, our group at DTU Biosustain will host 2 exciting days of networking, exchanging ideas and learning for early career-stage scientists working with Pseudomonas. 👇
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Great work by
@oscarpuiggene.bsky.social
from our
@labnikel.bsky.social
showing methanol assimilation in P. Putida via enhanced serine–threonine cycle, do not miss this read!
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6 months ago
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reposted by
Michele Partipilo
6 months ago
Back from an inspiring week at
#ME16
in our home
#Copenhagen
! 🌍 Engaging talks, exciting science, and amazing connections — we’re full of new ideas! 🎉 Big congrats to
@giusifav.bsky.social
for winning a poster award 🏆 🙌 And proud to have our PI
@pabnik.bsky.social
as co-chair of the event!
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Michele Partipilo
Ákos T Kovács
7 months ago
A promiscuous Bcd amino acid dehydrogenase promotes biofilm development in Bacillus subtilis -in NPJ Biofilms and Microbiomes by David Ranava et al from Northwestern University / Mee-Ngan Yap, Arthur Prindle
www.nature.com/articles/s41...
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reposted by
Michele Partipilo
TOLERATE EU Project
7 months ago
The TOLERATE team met at DTU (Denmark) for a productive General Assembly. New coordinator Pablo Ivan Nikel opened the meeting, presenting the transition and confirming that the project continues full speed ahead. More info 👉
tolerate-eu-project.com
Subscribe 👉
eepurl.com/i6uufM
#EUProjects
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reposted by
Michele Partipilo
Enrico Orsi
7 months ago
www.sciencenews.dk/en/designed-...
Piece from
ScienceNews.dk
on our glyoxylate and glycolate sensor strains
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Designed bacteria can detect specific molecules
Researchers have developed a computer-guided method for designing and engineering bacteria that can detect the presence of specific molecules in the environment. This method will advance the use...
https://www.sciencenews.dk/en/designed-bacteria-can-detect-specific-molecules
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Michele Partipilo
Membrane Enzymology
8 months ago
Solène’s 4.5 years of postdoctoral work in our lab (she started just before the corona pandemic) has now been published. A heroic effort that revealed -at the single molecule level- that ATP drives the dissociation of an ECF transporter complex under turnover conditions. See
rdcu.be/elTKc
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Single-molecule visualization of ATP-induced dynamics of the subunit composition of an ECF transporter complex under turnover conditions
Nature Communications - The association and dissociation dynamics of the ECF transporter complex for vitamin B12 are visualized by single-molecule FRET, highlighting the original transport...
https://rdcu.be/elTKc
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reposted by
Michele Partipilo
9 months ago
Interested in engineering bacteria to turn
#C1feedstocks
into high-value chemicals for
#bioproduction
? Here is a thread summarizing our latest review on the roadblocks and how we might bio-hack our way past them 🧵 1/n
academic.oup.com/femsre/advan...
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Seven Critical Challenges in Synthetic One-Carbon Assimilation and Their Potential Solutions
Abstract. Synthetic C1 assimilation holds the promise of facilitating carbon capture while mitigating greenhouse gas emissions, yet practical implementatio
https://academic.oup.com/femsre/advance-article/doi/10.1093/femsre/fuaf011/8104276
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Michele Partipilo
Kasia Tych
10 months ago
Out now! Our latest paper where we show a "one-pot" labelling technique which allows for simultaneous mechanical and fluorescent readouts from a protein (Hsp90):
onlinelibrary.wiley.com/doi/10.1002/...
Congratulations to everyone who worked on this, especially Laura!
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One‐pot dual protein labeling for simultaneous mechanical and fluorescent readouts in optical tweezers
Optical tweezers are widely used in the study of biological macromolecules but are limited by their one-directional probing capability, potentially missing critical conformational changes. Combining ...
https://onlinelibrary.wiley.com/doi/10.1002/pro.70098
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reposted by
Michele Partipilo
10 months ago
Microbes like Cupriavidus necator naturally grow on
#renewable
feedstocks ♻️🧫 (CO₂, formate, hydrogen), yet their potential remains untapped due to the lack of efficient genetic tools... 1/2
www.cell.com/trends/biote...
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Michele Partipilo
Enrico Orsi
10 months ago
Our brand new CRISPR/Cas toolkit for genome editing of Cupriavidus necator is out🦠🧬 A joint effort w/
@dellavallesimo.bsky.social
and Costas (and many more!) Check 🧵 our long journey for developing a new state-of-the-art for the manipulation of this promising bug 1/n
www.cell.com/trends/biote...
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Streamlined and efficient genome editing in Cupriavidus necator H16 using an optimised SIBR-Cas system
This study developed two simple, efficient, and rapid genome editing tools termed Self-splicing Intron-Based Riboswitch-Cas9 (SIBR-Cas9) and SIBR2.0-Cas12a, for editing the genome of the industrially ...
https://www.cell.com/trends/biotechnology/fulltext/S0167-7799(25)00043-5
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reposted by
Michele Partipilo
10 months ago
The utilization of
#C1-feedstocks
, such as methanol, by non-model bacteria demands an in-depth analysis of design alternatives, a modular strategy to identify bottlenecks and efficient solutions within the host
#metabolism
of the chosen host...
www.biorxiv.org/content/10.1...
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Systematic engineering of synthetic serine cycles in Pseudomonas putida uncovers emergent topologies for methanol assimilation
The urgent need for a circular carbon economy has driven research into sustainable substrates, including one-carbon (C1) compounds. The non-pathogenic soil bacterium Pseudomonas putida is a promising ...
https://www.biorxiv.org/content/10.1101/2025.02.17.638773v1
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With great collaborations come great outcomes! A fine example from
@eorsi.bsky.social
from
@pabnik.bsky.social
's lab et collaborators of how to design, build and develop cell biosensors for value-added chemicals (related to synthetic C1 assimilation, of course)! 🧪
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10 months ago
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reposted by
Michele Partipilo
Pablo Ivan Nikel
10 months ago
Computation-aided designs enable developing auxotrophic
#metabolic
#sensors
for wide-range glyoxylate and glycolate detection—spearheaded by Enrico Orsi w/a choral assembly of cool collaborators
@naturecomms.bsky.social
#SynBio
#OpenAccess
www.nature.com/articles/s41...
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Computation-aided designs enable developing auxotrophic metabolic sensors for wide-range glyoxylate and glycolate detection - Nature Communications
Auxotrophic metabolic sensors (AMS) are vital for bioengineering but are often time-consuming to develop. Here, the authors present a workflow for designing versatile AMS, demonstrating their use for ...
https://www.nature.com/articles/s41467-025-57407-3
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reposted by
Michele Partipilo
Pablo Ivan Nikel
11 months ago
Preprint alert🚨Systematic
#engineering
of synthetic serine cycles in
#Pseudomonas
putida uncovers emergent topologies for
#methanol
assimilation ·
@biorxivpreprint.bsky.social
led by Òscar Puiggené
#SynBio
#Methylotrophy
#CircularEconomy
www.biorxiv.org/content/10.1...
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reposted by
Michele Partipilo
Beau Dronsella
10 months ago
Super excited to see my main PhD project finally out in
@naturemicrobiol.bsky.social
www.nature.com/articles/s41...
. We show for the first time that a synthetic and engineered pathway can indeed exceed nature at one-carbon fixation.
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One-carbon fixation via the synthetic reductive glycine pathway exceeds yield of the Calvin cycle - Nature Microbiology
An engineered one-carbon-fixation pathway increases biomass yields of Cupriavidus necator compared with the Calvin cycle and can support future, sustainable bio-based production.
https://www.nature.com/articles/s41564-025-01941-9
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One-carbon fixation at the next level! A piece of work that opens up new scenarios for engineering bacteria for sustainable biomanufacturing! ⚗️🦠♻️
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10 months ago
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Michele Partipilo
Journal of Cell Biology
11 months ago
New: Using F-tractin to visualize
#actin
in living cells? Dmitry Shatskiy, Athul Sivan, Roland Wedlich-Söldner, and Alexander Belyy
@alexanderbelyy.bsky.social
determined the F-tractin-F-actin structure and showed that this probe is nearly identical to
#Lifeact
.
https://buff.ly/3EIqAur
#cytoskeleton
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reposted by
Michele Partipilo
Levental Lab
about 1 year ago
great title!! And the paper is cool too.
www.nature.com/articles/s41...
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A tuneable minimal cell membrane reveals that two lipid species suffice for life - Nature Communications
All cells are encapsulated by a membrane of complex lipidic composition, and understanding the roles of different lipids in membrane function is experimentally challenging to address. Here, Justice et...
https://www.nature.com/articles/s41467-024-53975-y
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reposted by
Michele Partipilo
Pablo Ivan Nikel
11 months ago
#Microbes
Saving Lives & Reducing Suffering—led by KenTimmis, this is a call to action for understanding and exploiting microbes & their role in helping humans at the face of current challenges as a global society
@microbiotech.bsky.social
enviromicro-journals.onlinelibrary.wiley.com/doi/full/10....
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Microbes Saving Lives and Reducing Suffering
Click on the article title to read more.
https://enviromicro-journals.onlinelibrary.wiley.com/doi/full/10.1111/1751-7915.70068
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