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E. Rodríguez-Robles

@emirodrob.bsky.social
118 followers 233 following 7 posts

Postdoc in Steven Benner's Lab (@ffame.org) | 🧬 Genetic alphabet expansion in bacteria 🧫

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Reposted by E. Rodríguez-Robles
Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 10/06/2026
Back to Segovia for the last retreat of my Lab, along with friends and colleagues from ETH, Univ Sevilla, DTU and Univ Valencia. Great science & amazing discussions in the unique venue of the historical Dominican Convent of Santa Cruz la Real, now @ieuniversity.bsky.social
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Maerkl Lab @maerkl-lab.bsky.social · 26/05/2026
Saeed's paper is now published: "PURE makes PURE: reconstitution of the PURE cell-free system from self-synthesized proteins" www.nature.com/articles/s41...
nature.com
PURE makes PURE: reconstitution of the PURE cell-free system from self-synthesized proteins - Nature Communications
Building a self-replicating biochemical system remains a challenge in synthetic biology. Here the authors demonstrate that the cell-free protein synthesis PURE system can be reconstituted from protein...
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Reposted by E. Rodríguez-Robles
Vivek Mutalik @vivekmutalik.bsky.social · 03/04/2026
📣Huge preprint 🔔 Today we share something our group has been working toward for a long time, led by @lucasmoriniere.bsky.social We asked can we predict which receptor a phage targets from its genome sequence alone? For most phages, we couldn’t. So Lucas set out to do something I had only dreamed of.
Phage receptor prediction from genome sequencing alone. Bacterial receptor (blue) interacting with phage proteins (purple) is shown here
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Edoardo Gianni @edogia.bsky.social · 13/02/2026
How could a simple self-replicating system emerge at the origins of life? RNA polymerase ribozymes can replicate RNA, but existing ones are so large that their self-replication seems impossible. Could they be smaller? Excited to share our latest work in @science.org on a new small polymerase. 1/n
science.org
A small polymerase ribozyme that can synthesize itself and its complementary strand
The emergence of a chemical system capable of self-replication and evolution is a critical event in the origin of life. RNA polymerase ribozymes can replicate RNA, but their large size and structural ...
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bioRxiv Biochemistry @biorxiv-biochem.bsky.social · 01/02/2026
Xeno amino acid alphabets form peptides with familiar secondary structure www.biorxiv.org/content/10.64898/20…
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Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 06/02/2026
Feel like doing a SynBio PhD in Spain? Check this offer, many fellowships available 👉🏻 lifehub.csic.es/synbio-cofund/
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Kranzusch Lab @kranzuschlab.bsky.social · 28/01/2026
Great new story from Sophie Helaine and Molly Sargen! www.helainelab.com
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Clemens @mayerlab.bsky.social · 28/01/2026
🥳🥳🥳 Our study on engineering enzymes to break C–F bonds is out in @angewandtechemie.bsky.social. Congrats to the brilliant & dedicated @suzannejansen.bsky.social for taking this step toward the remediation of #PFAS & other contaminating organofluorides! onlinelibrary.wiley.com/doi/10.1002/...
onlinelibrary.wiley.com
Engineering Fluoroacetate Dehalogenase by Growth‐Based Selections on Non‐Natural Organofluorides
We present a high-throughput selection system to engineer fluoroacetate dehalogenases (FAcDs). By challenging E. coli populations that produce diverse FAcD libraries to grow on non-natural organofluo....
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Foundation for Applied Molecular Evolution @ffame.org · 16/12/2025
Fresh off the lab press! 📰 Scientists from FfAME, Tohoku Univ., and JAMSTEC report a prebiotic route to form long RNA from compounds containing 1-3 carbon, 0-4 hydrogen and 1-3 nitrogen atoms, in geological environments that occurred on early Earth ~4.3 billion years ago. 🔗 doi.org/10.1073/pnas...
doi.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
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EMBL Events @events.embl.org · 05/12/2025
Apply for #EMBOSynBio! 🥼🧪 The course offers hands-on experience with cutting-edge SynBio tools, supported by lectures covering the whole engineering cycle and its convergence toward a deeper understanding of biology. 30 Jun – 6 Jul 2026 EMBL Heidelberg s.embl.org/syn26-01-bl
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John Pearson @jmxpearson.bsky.social · 04/12/2025
The future is not in the training set.
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 19/11/2025
Active learning guides automated discovery of DNA delivery via electroporation for non-model microbes www.biorxiv.org/content/10.1101/202…
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E. Rodríguez-Robles @emirodrob.bsky.social · 08/10/2025
Really cool study from Katrin Lang lab
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BejaLabTechnion @bejalab.bsky.social · 25/05/2025
When less is more: Counterintuitive stoichiometriesand cellular abundances are essential for ABC transporters’ function www.science.org/doi/10.1126/...
science.org
When less is more: Counterintuitive stoichiometriesand cellular abundances are essential for ABC transporters’ function
Unexpected stoichiometries in E. coli ABC importers reveal design principles linking protein abundance to transporter function.
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E. Rodríguez-Robles @emirodrob.bsky.social · 16/09/2025
Directed evolution of a plant Rubisco chaperone with altered client recognition | PNAS www.pnas.org/doi/abs/10.1...
pnas.org
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Jerónimo Rodríguez-Beltrán @jerorb.bsky.social · 02/07/2025
🚨🚨New paper out in @natcomms.nature.com!! Come for the first large-scale analysis of plasmid copy number across species, stay for one of the most intriguing results of my lab: universal scaling laws in plasmid biology! 📈🧬 👉 www.nature.com/articles/s41...
nature.com
Universal rules govern plasmid copy number - Nature Communications
Plasmids exhibit a broad range of sizes and copies per cell, and these two parameters appear to be negatively correlated. Here, Ramiro-Martínez et al. analyse the copy number of thousands of diverse b...
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Timothy Fuqua 🏳️‍🌈 @timothyfuqua.bsky.social · 28/08/2025
Excited / nervous to share the “magnum opus” of my postdoc in Andreas Wagner’s lab! "De-novo promoters emerge more readily from random DNA than from genomic DNA" This project is the accumulation of 4 years of work, and lays the foundation for my future group. In short, we… (1/4)
biorxiv.org
De-novo promoters emerge more readily from random DNA than from genomic DNA
Promoters are DNA sequences that help to initiate transcription. Point mutations can create de-novo promoters, which can consequently transcribe inactive genes or create novel transcripts. We know lit...
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Zeynep Baharoglu @zeynepbaharoglu.bsky.social · 27/08/2025
E. Coli with linear growth 🦠🤯 #micdosky "linear proliferation for a finite number of generations" where only one daughter cell continues to divide, with split cyaA making cAMP only in one daughter cell. www.biorxiv.org/content/10.1...
biorxiv.org
Engineering non-exponential proliferation in Escherichia coli using functionalized protein aggregates
Uncurbed exponential proliferation might not always be required for genetically modified microorganisms, and might even cause unpredictable liabilities in their behavior and impact. We therefore const...
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Nature Microbiology @natmicrobiol.nature.com · 08/08/2025
#NatMicroPicks Synthetic evolution overdrive 🦠🔧🚅 A highly mutagenic DNA replication system speeds up evolution in Escherichia coli, without harming the host, opening a new way to accelerate protein engineering. #SynBio #MicroSky www.science.org/doi/10.1126/...
science.org
An orthogonal T7 replisome for continuous hypermutation and accelerated evolution in E. coli
Systems that perform continuous hypermutation of designated genes without compromising the integrity of the host genome can substantially accelerate the evolution of new or enhanced protein functions....
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Didier Mazel @amazeld.bsky.social · 28/07/2025
A 2-year postdoc position in my lab, under the supervision of P-Alex Kaminski, on Z-DNA phages and the benefit given by ZTGC DNA and the replication machinery, with attempt to create a Z based minireplicon research.pasteur.fr/en/job/a-two...
research.pasteur.fr
A two year post-doctoral position at the BacterialGenome Plasticity Unit starting October 1st - Research
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Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 24/07/2025
A 2 yr postdoc position at the Bacterial Genome Plasticity Unit of the Institut Pasteur (Paris) led by @amazeld.bsky.social in collaboration with Pierre-Alexandre Kaminski, funded by the French National Research Agency 👇
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Chandrima Majumdar @c-majumdar.bsky.social · 09/05/2025
Check out our latest preprint describing two structures of ribosomes complexed with the two enantiomers of a β2-hydroxy acid. Our structures show that despite stereochemical differences, both are ultimately well positioned for bond formation within the ribosome! chemrxiv.org/engage/chemr...
chemrxiv.org
Escherichia coli ribosomes support translation of (R) and (S) β2-hydroxyacids in vitro: a structural and biochemical study
The ribosomal incorporation of backbone-modified amino acid analogs into peptides and proteins enables the programmed synthesis of sequence-defined biopolymers with tunable properties. However, the su...
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Eric Columbus @ericcolumbus.bsky.social · 06/05/2025
🚨🚨 Deranged letter from Education Secretary Linda McMahon to Harvard’s president, cutting off federal funding for any new grants. Worth reading in full. It is NUTS.
THE SECRETARY OF EDUCATION
WASHINGTON, DC 20202
May 5, 2025
Dr. Alan Garber
Office of the President
Harvard University
Massachusetts Hall
Cambridge, MA 02138
Dr. Garber,
The Federal Government has a sacred responsibility to be a wise and important steward of American taxpayer dollars. Harvard University, despite amassing a largely tax-free $53.2 billion dollar endowment (larger than the GDP of 100 countries), receives billions of dollars of taxpayer largess each year. Receiving such taxpayer funds is a privilege, not a right. Yet instead of using these funds to advance the education of its students, Harvard is engaging in a systemic pattern of violating federal law. Where do many of these "students" come from, who are they, how do they get into Harvard, or even into our country—and why is there so much HATE? These are questions that must be answered, among many more, but the biggest question of all is, why will Harvard not give straightforward answers to the American public?
Harvard University has made a mockery of this country's higher education system. It has invited foreign students, who engage in violent behavior and show contempt for the United States of America, to its campus. In every way, Harvard has failed to abide by its legal obligations, its ethical and fiduciary duties, its transparency responsibilities, and any semblance of academic rigor. It had scrapped standardized testing requirements and a normalized grading system. This year Harvard was forced to adopt an embarrassing "remedial math" program for undergraduates.
Why is it, we ask, that Harvard has to teach simple and basic mathematics, when it is supposedly so hard to get into this "acclaimed university"? Who is getting in under such a low standard when others, with fabulous grades and a great understanding of the highest levels of mathematics, are being rejected?
Harvard has even been embroiled in humiliating plagiarism scandals, exposed clearly and plainly in the media, with respect to your then…running the institution in a totally chaotic way. Harvard alumnus and highly successful hedge fund manager Bill Ackman noted that, under her leadership, Harvard has become "a political advocacy organization for one party."
Ackman has called for the resignation of Pritzker, concluding that the "[t)he mismanagement here is Penny Pritzker" and noting that any serious corporation would have removed her after a litany of recent failings and the fact that, incredibly, "Harvard is not in a good financial position." According to Ackman, one of the world's foremost finance experts, Harvard's so-called S53 billion endowment is "massively overstated as far as what it's really worth," and Harvard has irresponsibly taken out $8 billion in debt.
If this is true, it is concerning evidence of Harvard's disastrous mismanagement, indicating an urgent need for massive reform-not continued taxpayer investment. If Harvard prefers not to change, then Harvard should have no problem using its overflowing endowment to fund its bloated bureaucracy.
At its best, a university should fulfill the highest ideals of our Nation, and enlighten the thousands of hopeful students who walk through its magnificent gates. But Harvard has betrayed this ideal.
Perhaps most alarmingly, Harvard has failed to abide by the United States Supreme Court's ruling demanding that it end its racial preferencing, and continues to engage in ugly racism in its undergraduate and graduate schools, and even within the Harvard Law Review itself. Our universities should be bastions of merit that reward and celebrate excellence and achievement.
They should not be incubators of discrimination that encourage resentment and instill grievance and racism into our wonderful young Americans.
The above concerns are only a fraction of the long list of Harvard's consistent violations of its own legal duties. Given these and other concerning allegations, this letter is to inform you that Harvard should no longer seek GRANTS from the fede…Federal Agencies. The Administration's priorities have not changed and today's letter marks the end of new grants for the University.
These requests will advance the best interests of Harvard University, so it can reclaim its status as a respected educational institution for the future leaders of America. Thank you for your attention to this matter!
Sincerely,
Linda E. McMahon
Secretary of Education
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Chris Greening @greening.bsky.social · 20/03/2025
Energy from air? No problem! In our new preprint, we reconstitute the machinery that allows microbes to endure starvation. By using the trace amounts of hydrogen in air alone, they produce plenty of chemical energy (2 ATP) to get by. The only byproduct? Water. www.biorxiv.org/content/10.1...
biorxiv.org
Hydrogenase-driven ATP synthesis from air
All cells require a continuous supply of the universal energy currency, adenosine triphosphate (ATP), to drive countless cellular reactions. The universally conserved F1Fo-ATP synthase regenerates ATP...
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Olivier Borkowski @oborkowski.bsky.social · 05/04/2025
Sustainable regeneration of 20 aminoacyl-tRNA synthetases in a reconstituted system toward self-synthesizing artificial systems www.science.org/doi/10.1126/...
science.org
Sustainable regeneration of 20 aminoacyl-tRNA synthetases in a reconstituted system toward self-synthesizing artificial systems
An in vitro system is capable of sustainably regenerating 20 aminoacyl-tRNA synthetases toward artificial cells.
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Tom Ellis @proftomellis.bsky.social · 06/02/2025
Amazing work from Farren Isaacs team at Yale - reducing E.coli's genetic code down to only using a single stop codon. A 62 codon GRO with lots of potential for applications. www.nature.com/articles/s41...
nature.com
Engineering a genomically recoded organism with one stop codon - Nature
Ochre, a strain of Escherichia coli engineered to have a single stop codon, enables reassignment of four codons for non-degenerate functions, such as incorporation of non-standard amino acids into pro...
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bioRxiv Synthetic Biology @biorxiv-synthbio.bsky.social · 07/03/2025
Hijacking a bacterial membrane transporter for efficient genetic code expansion www.biorxiv.org/content/10.1101/202…
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Erik van Nimwegen @erikvannimwegen.bsky.social · 15/01/2025
What do bacterial cells do when they run out of nutrients? Although most bacterial studies focus on cells in exponentially growing states, in the wild bacteria likely spend most of their time slowly starving to death. 1/n www.biorxiv.org/content/10.1...
biorxiv.org
E. coli prepares for starvation by dramatically remodeling its proteome in the first hours after loss of nutrients
It is widely believed that due to nutrient limitations in natural environments, bacteria spend most of their life in non-growing states. However, very little is known about how bacteria change their p...
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bioRxiv Synthetic Biology @biorxiv-synthbio.bsky.social · 16/02/2025
Simultaneous in vitro expression of minimal 21 transfer RNAs by tRNA array method www.biorxiv.org/content/10.1101/202…
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Addgene @addgene.bsky.social · 14/02/2025
Switching an C to a T in your DNA? Sounds like you need a cytosine base editor! Learn about them in our updated CRISPR 101 blog post "Cytosine and Adenine Base Editors"! blog.addgene.org/sin...
blog.addgene.org
CRISPR 101: Cytosine and Adenine Base Editors
An overview of cytosine and adenine base transition editors, which make precise changes in DNA bases without causing double-strand breaks.
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Eric Topol @erictopol.bsky.social · 11/02/2025
A Direct Hit, by @holdenthorp.bsky.social @science.org www.science.org/doi/full/10.... "This is a moment to unite."
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E. Rodríguez-Robles @emirodrob.bsky.social · 30/01/2025
Cys-tRNAj as a Second Translation Initiator for Priming Proteins with Cysteine in Bacteria in ACS Omega!
pubs.acs.org
Cys-tRNAj as a Second Translation Initiator for Priming Proteins with Cysteine in Bacteria
We report the construction of an alternative protein priming system to recode genetic translation in Escherichia coli by designing, through trial and error, a chimeric initiator whose sequence identit...
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Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 29/01/2025
Leveraging AI for Systems & Synthetic Biology 🤔? Learn about the latest developments in the upcoming annual Colloquium of our Sys Bio Department this Feb 14. Starring @hsalis.bsky.social as opening speaker and featuring @alfonsovalencia.bsky.social along with other luminaries in the field 😱!
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Holden Thorp @holdenthorp.bsky.social · 22/01/2025
All - @science.org now has a @bsky.app share button! Enjoy!
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E. Rodríguez-Robles @emirodrob.bsky.social · 19/01/2025
Growth in Low Carbon Conditions Reveals Amino-Acid-Coupled Iron Uptake via @biorxiv-microbiol.bsky.social
biorxiv.org
Growth in Low Carbon Conditions Reveals Amino-Acid-Coupled Iron Uptake
Bacteria in nature encounter substrates at widely varying concentrations, yet studies of bacterial physiology have focused more on nutrient type than concentration, partly due to challenges in maintai...
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Aditya Kunjapur @kunjapur.bsky.social · 06/01/2025
Genetic code expansion - meet synthetic ecology! We can design an exclusive reliance of one engineered bacterial strain on another mediated by a non-standard AA Such exclusive reliances between free-living organisms aren't known in nature Tremendous work led by NSF GRFP recipient Amanda Forti
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bioRxiv Synthetic Biology @biorxiv-synthbio.bsky.social · 07/01/2025
High-throughput protein binder discovery by rapid in vivo selection www.biorxiv.org/content/10.1101/202…
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E. Rodríguez-Robles @emirodrob.bsky.social · 06/01/2025
As EcoCyc's biggest fan, I'm stupidly happy to see some of my PhD work included in the SsuABC entry!
ecocyc.org
Escherichia coli K-12 substr. MG1655 aliphatic sulfonate ABC transporter
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Marc Somssich @somssich.bsky.social · 20/05/2024
Do you know who Douglas Prasher is? Many don't, even though he is the person who cloned the original #GFP gene in the late 1980s. In my short history of plant light #microscopy I also cover a bit of his story - & why he is relatively unknown today, despite the importance of his work. See this 🧵👇
A profile picture of Douglas Prasher from Martin Chalfie's Nobel Lecture
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Mark Davison @bigexperiment.bsky.social · 23/12/2024
Bacteriophage T4 infecting E. coli. Beautiful illustration by by David S. Goodsell, RCSB Protein Data Bank and Scripps Research. doi: 10.2210/rcsb_pdb/goodsell-gallery-048
Bacteriophage T4 infects E. coli cells
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Sorek Lab @soreklab.bsky.social · 21/12/2024
50 years after its discovery, the role of the T7 kinase is finally revealed - shielding the phage against a wide variety of bacterial immune systems. Very interesting work from the Savitski & Typas labs
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Ricard Solé @ricardsole.bsky.social · 13/12/2024
How did the genetic code originate? New evidence suggests its origin may differ from previous theories. Check this @pnas.org paper, which has implications for our search for life elsewhere in the universe: doi.org/g8vf6m
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Alvaro Sanchez @asanchezlab.bsky.social · 16/12/2024
Nora finished her paper with a sentence I like a lot "Our results show that even under extremely restrictive, competitive conditions, the simplest biological entities on Earth can still find paths to coexistence." There is a curious dichotomy in her experiments... 1/3 www.science.org/doi/10.1126/...
science.org
Diverse phage communities are maintained stably on a clonal bacterial host
Bacteriophages are the most abundant and phylogenetically diverse biological entities on Earth, yet the ecological mechanisms that sustain this extraordinary diversity remain unclear. In this study, w...
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Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 12/12/2024
Suppressing basal transcription levels is often the key for performance of SynBio devices. Elena Velazquez walked extra miles to tackle this recurrent problem of sliding base editors—eg CdA-T7RNAP fusions— pubs.acs.org/doi/full/10.... by engineering AND logic in the expression system
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Claudia Bonfio @claudiabonfio.bsky.social · 10/12/2024
PhD alert! I have two ERC-funded PhD positions to uncover the chemical origins of life (Oct 2025). *UK fees only*. Projects described here: www.lclu.cam.ac.uk/studentship-... Email me if interested - deadline (PhD in Biochemistry, Uni of Cambridge): Jan 7th! Please share within your networks!
lclu.cam.ac.uk
LCLU PhD Studentships | Leverhulme Centre for Life in the Universe
Applications are now open. The Leverhulme Centre for Life in the Universe and the University of Cambridge are committed to widening participation in postgraduate students at the University of Cambridg...
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Pioneer Labs @pioneerlabs.bsky.social · 10/12/2024
Check out 🏆A Biologist’s Guide to Mars Dirt, where we present a receipt for soluble Mars Regolith Media (sMRM) that best simulates what you’d get if you added water to Mars dirt. Will anything grow in this media? Stay tuned! 💧+ 🪨 → 🌱 ? open.substack.com/pub/pioneerl...
open.substack.com
🏆 A Biologist’s Guide to Mars Dirt
Just add water
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Olivier Borkowski @oborkowski.bsky.social · 02/12/2024
Engineered Stop and Go T7 RNA Polymerases doi.org/10.1021/acss...
doi.org
Engineered Stop and Go T7 RNA Polymerases
Precise, stringent, post-translational activation of enzymes is essential for many synthetic biology applications. For example, even a few intracellular molecules of unregulated T7 RNA polymerase can ...
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E. Rodríguez-Robles @emirodrob.bsky.social · 02/12/2024
qué esperpento…
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Tiffany Lowe-Power stands with Minnesota @tlowepower.bsky.social · 25/11/2024
As I tell my students/trainees: "No one cares about your jargon. People only like their own jargon." Number 1 rule of grants is "Don't piss off the reviewer"
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Paul Jaschke @pauljaschke.bsky.social · 18/11/2024
New paper out! We created a biocontainment system for phage using the amber suppressor initiator tRNA. Based on our prior work (pubs.acs.org/doi/abs/10.1...). Infecting hosts with engineered phage causes lysis but requires much higher MOIs b/c no replication. #synbio doi.org/10.1007/s007...
doi.org
Designing a simple and efficient phage biocontainment system using the amber suppressor initiator tRNA - Archives of Virology
Multidrug-resistant infections are becoming increasingly prevalent worldwide. One of the fastest-emerging alternative and adjuvant therapies being proposed is phage therapy. Naturally isolated phages ...
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