Olivier Borkowski
@oborkowski.bsky.social
Tenured Scientist in Synthetic Biology
(INRAE, Paris Area, France)
#CellFree ⦁ #SynBio ⦁ #Bioengineering ⦁ #Microbiology
https://sites.google.com/view/olivierborkowski
(INRAE, Paris Area, France)
#CellFree ⦁ #SynBio ⦁ #Bioengineering ⦁ #Microbiology
https://sites.google.com/view/olivierborkowski
Pinned
New on @biorxiv!!!!!!
We’re excited to share our latest paper on combining cell-free systems and machine learning to express full genome in vitro.
Check it out now! 👉 www.biorxiv.org/content/10.1...
Catch us at SEED in Houston this June to discuss this work.
#CellFree
We’re excited to share our latest paper on combining cell-free systems and machine learning to express full genome in vitro.
Check it out now! 👉 www.biorxiv.org/content/10.1...
Catch us at SEED in Houston this June to discuss this work.
#CellFree
Reposted by Olivier Borkowski
See y’all there!
November 7, 2025 at 9:33 PM
See y’all there!
Reposted by Olivier Borkowski
Tom Fayle (www.tomfayle.com/index.htm) and I have a funded PhD project available on the NERC TREES programme to use synthetic microbial communities and agent-based modelling to explore anthropogenic impacts in ecosystems
www.trees-dla.ac.uk/projects/exp...
www.trees-dla.ac.uk/projects/exp...
Exploring the impacts of anthropogenic change on networks using microbial microcosms | TREES DLA
Humans are rapidly altering natural ecosystems, often resulting in fragmentation of remaining habitats. While consequent reductions in species richness and changes in composition are now well document...
www.trees-dla.ac.uk
October 21, 2025 at 10:38 AM
Tom Fayle (www.tomfayle.com/index.htm) and I have a funded PhD project available on the NERC TREES programme to use synthetic microbial communities and agent-based modelling to explore anthropogenic impacts in ecosystems
www.trees-dla.ac.uk/projects/exp...
www.trees-dla.ac.uk/projects/exp...
Reposted by Olivier Borkowski
Preprint alert!! Delighted to share Eve Nery's work exploring the evolutionary landscape of light-harvesting complexes. She found a new variant shifted to the red that allows purple bacteria to grow faster under high intensity light www.biorxiv.org/content/10.1...
Directed evolution and characterisation of light harvesting complexes with altered energy transfer dynamics in purple non-sulfur bacteria
Purple non-sulfur bacteria (PNSB) are metabolically versatile microorganisms that inhabit diverse environments taking advantage of a remarkably efficient photosynthetic machinery. In this work, we des...
www.biorxiv.org
October 3, 2025 at 7:07 AM
Preprint alert!! Delighted to share Eve Nery's work exploring the evolutionary landscape of light-harvesting complexes. She found a new variant shifted to the red that allows purple bacteria to grow faster under high intensity light www.biorxiv.org/content/10.1...
Negative design enables cell-free expression and folding of designed transmembrane β-Barrels
doi.org/10.1101/2025...
doi.org/10.1101/2025...
November 6, 2025 at 9:59 PM
Negative design enables cell-free expression and folding of designed transmembrane β-Barrels
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Reposted by Olivier Borkowski
I am happy to announce the launch of our seminar series “Microbial Biotechnology: Developing the Conceptual Framework of the DBTL Cycle.” We invite you to join us and engage in shaping the future of biomanufacturing! researchseminars.org/seminar/Micr...
researchseminars.org - View series
Welcome to researchseminars.org, a list of research seminars and conferences!
researchseminars.org
November 6, 2025 at 9:19 PM
I am happy to announce the launch of our seminar series “Microbial Biotechnology: Developing the Conceptual Framework of the DBTL Cycle.” We invite you to join us and engage in shaping the future of biomanufacturing! researchseminars.org/seminar/Micr...
Modeling and minimization of dCas9-induced competition in CRISPRi-based genetic circuits
doi.org/10.1101/2025...
doi.org/10.1101/2025...
November 6, 2025 at 5:14 PM
Modeling and minimization of dCas9-induced competition in CRISPRi-based genetic circuits
doi.org/10.1101/2025...
doi.org/10.1101/2025...
LDBT instead of DBTL: combining machine learning and rapid cell-free testing
doi.org/10.1038/s414...
doi.org/10.1038/s414...
LDBT instead of DBTL: combining machine learning and rapid cell-free testing - Nature Communications
Synthetic biology is defined by Design-Build-Test-Learn cycles. Recent advances in machine learning are changing the landscape; thus, we propose that “Learning” can precede “Design”. Moreover, adoptin...
doi.org
November 5, 2025 at 9:55 PM
LDBT instead of DBTL: combining machine learning and rapid cell-free testing
doi.org/10.1038/s414...
doi.org/10.1038/s414...
Build-a-Cell seminar presented by Ryan Duncombe
Mirror life: the path forward
youtu.be/lYLIywiVwXE?...
Mirror life: the path forward
youtu.be/lYLIywiVwXE?...
Build-a-Cell seminar Ryan Duncombe: Mirror life: the path forward
YouTube video by Build-a-Cell
youtu.be
November 5, 2025 at 6:44 AM
Build-a-Cell seminar presented by Ryan Duncombe
Mirror life: the path forward
youtu.be/lYLIywiVwXE?...
Mirror life: the path forward
youtu.be/lYLIywiVwXE?...
The stringent response does not influence ribosome pausing in Bacillus subtilis
doi.org/10.1093/nar/...
doi.org/10.1093/nar/...
The stringent response does not influence ribosome pausing in Bacillus subtilis
Abstract. The stringent response represses translation and is activated when cells enter the stationary phase and intracellular amino acid levels drop. Bac
doi.org
November 4, 2025 at 9:16 PM
The stringent response does not influence ribosome pausing in Bacillus subtilis
doi.org/10.1093/nar/...
doi.org/10.1093/nar/...
Bacteria as living biosensors for DNA
doi.org/10.1038/s442...
doi.org/10.1038/s442...
Bacteria as living biosensors for DNA - Nature Reviews Bioengineering
Bacteria can be engineered as biosensors for the detection and analysis of DNA in unpurified samples. This Review examines the engineering of bacterial DNA biosensors, highlighting performance metrics...
doi.org
November 2, 2025 at 7:43 AM
Bacteria as living biosensors for DNA
doi.org/10.1038/s442...
doi.org/10.1038/s442...
Engineered orthogonal translation systems from metagenomic libraries expand the genetic code
doi.org/10.1101/2025...
doi.org/10.1101/2025...
October 31, 2025 at 9:18 AM
Engineered orthogonal translation systems from metagenomic libraries expand the genetic code
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Synthetic Cells By The Numbers
doi.org/10.1016/j.is...
doi.org/10.1016/j.is...
October 31, 2025 at 8:25 AM
Synthetic Cells By The Numbers
doi.org/10.1016/j.is...
doi.org/10.1016/j.is...
Reposted by Olivier Borkowski
SB 8.0 is starting !!!
October 30, 2025 at 8:36 AM
SB 8.0 is starting !!!
Reposted by Olivier Borkowski
How can we design complex computational systems using synthetic biology? Check our paper, where we use space as a computational element, dramatically reducing communication requirements while allowing modularity, reusability, scalability & minimal cell engineering.
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
October 26, 2025 at 8:08 PM
How can we design complex computational systems using synthetic biology? Check our paper, where we use space as a computational element, dramatically reducing communication requirements while allowing modularity, reusability, scalability & minimal cell engineering.
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Reposted by Olivier Borkowski
A new review paper from our lab courtesy of @jazzsynbio.bsky.social is published in Trends in Biotechnology
In this review, we look at the many opportunities for synthetic biology to be used in the research and applications of Holobionts.
In this review, we look at the many opportunities for synthetic biology to be used in the research and applications of Holobionts.
October 23, 2025 at 10:09 AM
A new review paper from our lab courtesy of @jazzsynbio.bsky.social is published in Trends in Biotechnology
In this review, we look at the many opportunities for synthetic biology to be used in the research and applications of Holobionts.
In this review, we look at the many opportunities for synthetic biology to be used in the research and applications of Holobionts.
Reposted by Olivier Borkowski
Delighted to share my first first author paper, where we realized multi-μm membrane-like shells made entirely of DNA! Huge thanks to co-first author Christoph without whom this wouldn't be possible. This was born from his side-project involving Dipids, stay tuned for the soon-to-be-published paper!
Vesicle-templated self-assembly of freestanding multi-μm DNA shells https://www.biorxiv.org/content/10.1101/2025.10.21.683722v1
October 22, 2025 at 6:47 PM
Delighted to share my first first author paper, where we realized multi-μm membrane-like shells made entirely of DNA! Huge thanks to co-first author Christoph without whom this wouldn't be possible. This was born from his side-project involving Dipids, stay tuned for the soon-to-be-published paper!
Rewiring holobiont systems with synthetic biology
www.cell.com/trends/biote...
www.cell.com/trends/biote...
Rewiring holobiont systems with synthetic biology
Holobionts are complex communities comprising a host and its diverse microbiota. Their
intricate relationships are crucial for biological processes like nutrient uptake,
immune function, and environme...
www.cell.com
October 22, 2025 at 7:10 AM
Rewiring holobiont systems with synthetic biology
www.cell.com/trends/biote...
www.cell.com/trends/biote...
Reposted by Olivier Borkowski
I’m excited to announce the launch of my lab at EPFL in Jan 2026 🎉. We’ll combine evolution & synthetic biology to study and (re)engineer bacterial communication.
I’m recruiting PhD students to start in the first semester of 2026.
Apply via EPFL PhD programs by Nov 1
drive.google.com/file/d/1cm-t...
I’m recruiting PhD students to start in the first semester of 2026.
Apply via EPFL PhD programs by Nov 1
drive.google.com/file/d/1cm-t...
October 20, 2025 at 6:14 PM
I’m excited to announce the launch of my lab at EPFL in Jan 2026 🎉. We’ll combine evolution & synthetic biology to study and (re)engineer bacterial communication.
I’m recruiting PhD students to start in the first semester of 2026.
Apply via EPFL PhD programs by Nov 1
drive.google.com/file/d/1cm-t...
I’m recruiting PhD students to start in the first semester of 2026.
Apply via EPFL PhD programs by Nov 1
drive.google.com/file/d/1cm-t...
Emergence of population-level feedback control by transposon-plasmid coevolution
doi.org/10.1101/2025...
doi.org/10.1101/2025...
October 21, 2025 at 7:03 AM
Emergence of population-level feedback control by transposon-plasmid coevolution
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Cell-Free-Based Thermophilic Biocatalyst for the Synthesis of Amino Acids from One-Carbon Feedstocks
doi.org/10.1021/acss...
doi.org/10.1021/acss...
Cell-Free-Based Thermophilic Biocatalyst for the Synthesis of Amino Acids from One-Carbon Feedstocks
Bioproduction from one-carbon compounds, such as formate, is an attractive prospect due to reduced energy requirements and the possibility for using CO2 as a sustainable feedstock. Formate-fixing path...
doi.org
October 20, 2025 at 11:36 AM
Cell-Free-Based Thermophilic Biocatalyst for the Synthesis of Amino Acids from One-Carbon Feedstocks
doi.org/10.1021/acss...
doi.org/10.1021/acss...
Predicting sequence-specific amplification efficiency in multi-template PCR with deep learning
doi.org/10.1038/s414...
doi.org/10.1038/s414...
Predicting sequence-specific amplification efficiency in multi-template PCR with deep learning - Nature Communications
Multi-template PCR enables parallel DNA amplification but suffers from sequence-specific biases. Here, the authors develop a 1D-CNN model predicting amplification efficiency directly from the DNA sequ...
doi.org
October 16, 2025 at 7:34 PM
Predicting sequence-specific amplification efficiency in multi-template PCR with deep learning
doi.org/10.1038/s414...
doi.org/10.1038/s414...
Global constraint principle for microbial growth laws
doi.org/10.1073/pnas...
doi.org/10.1073/pnas...
October 13, 2025 at 10:55 AM
Global constraint principle for microbial growth laws
doi.org/10.1073/pnas...
doi.org/10.1073/pnas...
Reposted by Olivier Borkowski
The @crick.ac.uk is recruiting Early Career Group Leaders
- Lab set-up, research costs, salaries for up to 5 researchers
- Support for up to 12 years
- Access to our core facilities
- Competitive salary
- Fantastic colleagues
- All areas of biology
Deadline 27 Nov
www.crick.ac.uk/careers-stud...
- Lab set-up, research costs, salaries for up to 5 researchers
- Support for up to 12 years
- Access to our core facilities
- Competitive salary
- Fantastic colleagues
- All areas of biology
Deadline 27 Nov
www.crick.ac.uk/careers-stud...
Early career group leaders
We appoint researchers from across biology and biomedicine to set up their first groups at the Crick.
www.crick.ac.uk
October 10, 2025 at 8:20 AM
The @crick.ac.uk is recruiting Early Career Group Leaders
- Lab set-up, research costs, salaries for up to 5 researchers
- Support for up to 12 years
- Access to our core facilities
- Competitive salary
- Fantastic colleagues
- All areas of biology
Deadline 27 Nov
www.crick.ac.uk/careers-stud...
- Lab set-up, research costs, salaries for up to 5 researchers
- Support for up to 12 years
- Access to our core facilities
- Competitive salary
- Fantastic colleagues
- All areas of biology
Deadline 27 Nov
www.crick.ac.uk/careers-stud...
Reposted by Olivier Borkowski
From sequencing to lab automation, meet the companies shaping the future of SynBio at the 2025 iGEM Grand Jamboree.
@nanopore – Booth X18
LinkZill – Booth X19
@opentrons – Booth X20
See the full program and grab your ticket: jamboree.igem.org
@nanopore – Booth X18
LinkZill – Booth X19
@opentrons – Booth X20
See the full program and grab your ticket: jamboree.igem.org
October 10, 2025 at 9:17 AM
From sequencing to lab automation, meet the companies shaping the future of SynBio at the 2025 iGEM Grand Jamboree.
@nanopore – Booth X18
LinkZill – Booth X19
@opentrons – Booth X20
See the full program and grab your ticket: jamboree.igem.org
@nanopore – Booth X18
LinkZill – Booth X19
@opentrons – Booth X20
See the full program and grab your ticket: jamboree.igem.org