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Tom Ellis

@proftomellis.bsky.social
3.3K followers 354 following 363 posts

Synthetic Biology & Synthetic Genomics @ Imperial College London and the Sanger Institute. Bilingual in English and DNA. Views are either my own or my microbes'

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Reposted by Tom Ellis
The Dark Matter Project @darkmatterproject.bsky.social · 22/08/2026
ZATELLITE: a toolkit to visualize and manipulate human centromeres in live cells using synthetic zinc fingers biorxiv.org/content/10.6... Congrats to Nestor Saiz et al. from the Center of Synthetic Regulatory Genomics!
biorxiv.org
ZATELLITE: a toolkit to visualize and manipulate human centromeres in live cells using synthetic zinc fingers
Changes in the number of chromosomes or their spatial organization within the nucleus have critical consequences for cell fate. Yet capturing the karyotype or three-dimensional architecture of chromat...
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Tom Ellis @proftomellis.bsky.social · 31/07/2026
Our lab’s latest on synthetic genomics “Synthetic Combinatorial Minimisation of Cell Cycle Control” is up now on BioRxiv - covering ambitious yeast #synbio cell cycle work led by Anastasiya Malyshava and co-supervised by Matteo Barberis.
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Tom Ellis @proftomellis.bsky.social · 02/07/2026
Îi i
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Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 30/06/2026
Off to @embl.org in Heidelberg for the 6th edition of the hands-on SynBio @embo.org Course share.google/Dg0qMdsNQl55... that I initiated in 2015. Glad to see that many of its earlier students now star senior PI positions in some the best research centers & universities 😀
share.google
Synthetic biology in action: maturing tools and their potential
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Olivier Borkowski @oborkowski.bsky.social · 29/06/2026
Our paper "Active-learning-guided optimization of cell-free systems for genome-wide transcriptomic profiling reveals progressive layers of regulation" is online in Nature Communications! Congrats Lea Wagner, very proud of this work! www.nature.com/articles/s41... #cellfree #AI #T7Phage #synbio
nature.com
Active-learning-guided optimization of cell-free systems for genome-wide transcriptomic profiling reveals progressive layers of regulation - Nature Communications
Cell-free is a powerful platform to unravel biological complexity. Here, the authors used active learning to optimize buffer composition, boosting mRNA 20-fold, enabling cell-free transcriptomics and ...
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Marco Fumasoni @marcofumasoni.bsky.social · 19/06/2026
Our paper on the evolution of cellular miniaturization is now out in PNAS! www.pnas.org/doi/10.1073/... A short recap 🧵
pnas.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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Tom Ellis @proftomellis.bsky.social · 11/06/2026
5 days left now to apply for the postdoc opportunity in my lab at Imperial in London 🇬🇧 - there’s a chance that we can hire 2 people into the team on this synthetic biology and materials theme. Application link is here - www.imperial.ac.uk/jobs/search-...
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Simon Bayly @simonbayly.bsky.social · 09/06/2026
LinkedIn founder Reid Hoffman has founded an AI drug discovery company with Siddhartha Mukherjee author of “The Emperor of All Maladies" #biotech thenextweb.com/news/reid-ho...
thenextweb.com
Reid Hoffman leaves Microsoft board to go 'founder mode' with AI drug startup Manus
LinkedIn co-founder Reid Hoffman is stepping down from Microsoft's board after nearly a decade to focus on Manus, his AI drug discovery startup.
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bioRxiv Synthetic Biology @biorxiv-synthbio.bsky.social · 07/06/2026
Catalytic Bacterial Nanocellulose Composite That Captures and Degrades PET Microplastics www.biorxiv.org/content/10.64898/20…
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Rahul K @theresearch.bsky.social · 11/11/2024
I’d like to invite everyone working on engineering living materials to share this starter pack. Please drop me a message or leave a comment if you like to join the #ELMs community. go.bsky.app/RinsDZh
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Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 07/06/2026
Off to Barcelona for the 2nd SynBYSS Conf www.jcvi.org/events/synbyss organized by the one and only @taeseokmoon.bsky.social along with Marc Güell of @upf.edu & other local SynBio colleagues. Ready to take the pulse of the field & learn from many of its luminaries 😀. I will honor Gaudí in my talk 👇
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Tom Ellis @proftomellis.bsky.social · 05/06/2026
CNS humblebrag joke.
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Jonas Koeppel @jonaskoeppel.bsky.social · 04/06/2026
1/n What fraction of the human genome is essential for cells? Excited to share our preprint that explores this question by combining an unusual CRISPR system, phage promoters, and thousands of deletion launchpads. @sudpinglay.bsky.social @jshendure.bsky.social www.biorxiv.org/content/10.6...
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Sudarshan Pinglay @sudpinglay.bsky.social · 04/06/2026
How much of the human genome is essential? Two pieces out today from our lab: 1) a method to map essential genomic intervals at gigabase scale, and 2) an argument that it's time to consider synthesizing a minimal human genome. biorxiv.org/content/10.6... nature.com/articles/d41...
nature.com
Why a synthetic human genome is still worth building
A decade on from the launch of an ambitious project, it’s time to revisit the reasons for constructing a human genome from scratch.
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Tom Ellis @proftomellis.bsky.social · 03/06/2026
Where can my international postdocs go to attend good conferences? They don't want to go to USA (v.high prices & horror stories of ICE). Can't easily go to the EU as Schengen visa appointments are super hard to get in the UK right now. East Asia? Flights are $$$$ thanks to dumb wars. Sad times.
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Mo Khalil @mokhalil.bsky.social · 03/06/2026
🚨 An exciting frontier is bringing synthetic biology to MULTIcellular systems. To effectively engineer them, we need design principles. What are the benefits of group formation? What are the costs? See our new preprint led by @heidiklumpe.bsky.social to learn more!👇 www.biorxiv.org/content/10.6...
biorxiv.org
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Vivek Mutalik @vivekmutalik.bsky.social · 03/06/2026
www.nature.com/articles/s41... #microsky
nature.com
Engineered Bacteroides thetaiotaomicron sense gut inflammation and deliver therapeutic molecules to alleviate colitis in mice - Nature Microbiology
Engineered Bacteroides thetaiotaomicron, Btbots, use a genetic AND circuit to sense nitric oxide and deoxycholic acid as inflammatory signal in the gut to release therapeutic molecules, TFF3 and IL-35...
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Reposted by Tom Ellis
Richard Sever @richardsever.bsky.social · 30/05/2026
"Hypothesis generation: pretty good...data analysis: a super power...executing experiments: not so much" AI can help at every stage of the research cycle. Jonah Cool from @anthropic.com discuss the benefits of integrating frontier models and potential concerns youtu.be/sz1vQyBzSgw?...
youtu.be
Interview with: Jonah Cool
YouTube video by CSHL Leading Strand
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Mar Hicks @histoftech.bsky.social · 03/05/2026
Chinese researchers have created a bamboo-based plastic as strong as petroleum-based plastics, which can fully biodegrade in soil in just 2 months phys.org/news/2025-10...
phys.org
Bamboo-based plastic can be made to biodegrade quickly, but still holds up in tough conditions
A new method to produce strong, biodegradable plastic from bamboo is reported in Nature Communications this week. The bioplastic resembles oil-based plastics in strength, shapability, and thermal stab...
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Victor de Lorenzo (CNB, Madrid) @vdlorenzo.bsky.social · 01/05/2026
1/2 The regulatory labyrinth for commercialisation of GE bacteria for deliberate env release eg bioremediation, biofertilization or disease control in the EU. Note that each of the 27 member states must emit an opinion & a vote 😱. No wonder the field is altogether stagnant at this side of the pond ☹️
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Elisa Franco @francolab.bsky.social · 29/04/2026
RNA is more than genetic information: it can be a tool for cellular architects. In our new paper, we engineer RNA motifs to physically reorganize intracellular space in living mammalian cells. www.nature.com/articles/s41...
nature.com
Programmable artificial RNA condensates in mammalian cells - Nature Nanotechnology
Modular RNA nanostar motifs spontaneously assemble into programmable synthetic condensates in the nucleus and cytoplasm, with RNA design controlling localization, sequence-specific target recruitment ...
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Will Ratcliff @wcratcliff.bsky.social · 07/04/2026
1/25 New paper out in PNAS! We show that the fitness costs of reproductive specialization, where somatic cells give up reproduction, scale inversely with organism size. Larger organisms can afford far more soma, removing a key barrier to multicellular complexity.
pnas.org
The fitness costs of reproductive specialization scale inversely with organismal size
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EngBio CDT @engbiocdt.bsky.social · 08/04/2026
🚨 New opportunity! 🚨 We’re looking to recruit a Lecturer in Engineering Biology at the University of Bristol Faculty of Science and Engineering. This is an exciting opportunity to join a vibrant, interdisciplinary research environment at a time of significant institutional investment and growth.
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Guim Aguadé-Gorgorió @guimaguade.bsky.social · 07/04/2026
Microbial communities can harbor many species that do not coexist in pairs, yet can coexist in the full community. Here we provide the mathematical foundations of emergent coexistence, and explain why it can't be predicted from pairwise tests journals.plos.org/ploscompbiol...
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Theo @earthowned.bsky.social · 01/04/2026
Cancer Research UK is fed up of paying too much for open access publishing so they are completely stopping funding this activity: news.cancerresearchuk.org/2026/04/01/w...
news.cancerresearchuk.org
Why we won’t be funding open access publishing any more - Cancer Research UK - Cancer News
The open access movement was bold and promising, but ultimately disappointing. Now is the time to stop and call for a new way to make publishing work…
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wverstraeten.bsky.social @wverstraeten.bsky.social · 01/04/2026
Recent highlights: Received seed funding from the SynGen Center to explore synthetic genomes in bottom-up synthetic biology. 🚀 The first work of my PhD is now published: onlinelibrary.wiley.com/doi/full/10.... Huge thanks to Franziska Gießler, Tobias Abele, Stefan Maurer, and @kgoepfrich.bsky.social
onlinelibrary.wiley.com
Growth, Dissolution and Segregation of Genetically Encoded RNA Droplets by Ribozyme Catalysis
Ribozymes enable sequence-encoded turnover of RNA droplet material, resulting in transiently active droplets that selectively segregate based on their genotype. This establishes a direct link between...
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Nature Biotechnology @natbiotech.nature.com · 18/03/2026
Sustained nitric oxide production by engineered E. coli remodels the tumor microenvironment and potentiates immunotherapy - @pku1898.bsky.social go.nature.com/4sk7MpB
go.nature.com
Sustained nitric oxide production by engineered E. coli remodels the tumor microenvironment and potentiates immunotherapy - Nature Biotechnology
Solid tumors are sensitized to anti‑PD‑L1 immunotherapy by engineered E. coli to produce nitric oxide.
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Tom Ellis @proftomellis.bsky.social · 19/03/2026
If I skip doing emails tomorrow to instead go watch a movie about a molecular biologist in space, does it count as work?
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Tominaga K. (tomiken) @pacyc184.bsky.social · 19/03/2026
Single-molecule peptide sequencing through reverse translation of peptides into DNA | Nature Biotechnology www.nature.com/articles/s41587-026-…
nature.com
Single-molecule peptide sequencing through reverse translation of peptides into DNA - Nature Biotechnology
Peptides are sequenced by converting each amino acid into amplifiable DNA barcodes.
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Nico Bruns @bruns-lab.bsky.social · 12/03/2026
Come and work with my research group on polymer-based synthetic cells. Apply now for these exciting postdoc positions!
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Indra Roux @indraroux.bsky.social · 10/03/2026
One of the biggest challenges in microbial biotechnology? Unlocking the potential of non-model microbes and synthetic communities! Glad to share our review @sonjablasche.bsky.social @simonemozzachiodi.bsky.social @kiranrpatil.bsky.social @cambridgebiosci.bsky.social🧵(1/7) doi.org/10.1016/j.co...
Framework for microbiome-inspired functional synthetic communities
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Tom Ellis @proftomellis.bsky.social · 10/03/2026
Excited to have Volker Sieber from TU Munich and others join me in Thailand for the 2026 SynBio/Biocatalysis Symposium at Vidyasirimedhi Institute of Science and Technology (VISTEC) 🇹🇭 Thanks to Pimchai Chaiyen and her team for organising these two days of cutting edge science and good food.
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Rahul K @theresearch.bsky.social · 09/03/2026
Latest issue of curated #engineeredlivingmaterials feed: biomed.news/bims-enlima/... via @biomednews.bsky.social | #livingmaterials #ELMs includes research on: cell remodeling in synthetic matrices, designing self-healing, printable, and tough conductive hydrogels, matter and microbes & more 🧪
cell.com
Ultrafast-relaxing and photopolymerizable PEG hydrogels enable viscoelasticity-mediated cell remodeling in synthetic matrices
Photopolymerizable BELA hydrogels combine dynamic boronate ester and elastic dithiolane-ene crosslinks to achieve ultrafast stress relaxation and tunable viscoelasticity. By adjusting formulation and ...
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Max Haase @maxhaase.bsky.social · 18/02/2026
Our paper is now out in Nature: “Ancient co-option of LTR retrotransposons as yeast centromeres” www.nature.com/articles/s41... A short thread on how retrotransposons helped give rise to yeast point centromeres. 1/14
nature.com
Ancient co-option of LTR retrotransposons as yeast centromeres - Nature
Evolutionarily related ‘proto-point’ centromeres providing resolution to the evolutionary origins of point centromeres are identified in yeast, and comparison shows they evolved in an ancestor with re...
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Koray Malcı @kmalci.bsky.social · 12/02/2026
🤖 Announcement for Opentrons users - OT-2 & Flex 🤖 We developed Slowpoke, an open-source, automated Golden Gate cloning tool with Fankang Meng & @proftomellis.bsky.social at @imperialcollegeldn.bsky.social Flex-optimisation by @gregorybatt.bsky.social at @pasteur.fr 👉 pubs.acs.org/doi/10.1021/...
pubs.acs.org
Slowpoke: An Automated Golden Gate Cloning Workflow for Opentrons OT-2 and Flex
In synthetic biology, DNA assembly is a routine process where increasing demands for standardization, high-throughput capacity, and error-free execution are driving the development of accessible, auto...
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bioRxiv Synthetic Biology @biorxiv-synthbio.bsky.social · 12/02/2026
A toolkit for programmable transcriptional engineering across eukaryotic kingdoms www.biorxiv.org/content/10.64898/20…
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The Onion @theonion.com · 05/02/2026
“Everything we know about skin has been learned from so-called scientific studies funded by large corporations who have a financial stake in keeping our musculature covered in an unnecessary layer of man-made flesh,” said Health and Human Services Secretary Robert F. Kennedy Jr.
theonion.com
RFK Jr. Questions Efficacy Of Skin
WASHINGTON—In a firm dismissal of decades of scientific research and real-world data on the organ’s benefits and safety, Health and Human Services Secretary Robert F. Kennedy Jr. publicly questioned t...
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Xuebing Wu @xuebingwu.bsky.social · 31/01/2026
Does the noncoding genome actually carry more genetic information than coding seqs? Motivated by this question we mutated every bp in the 10kb MYC locus. Results are even more exciting: Decoding the MYC locus reveals a druggable ultraconserved RNA element www.biorxiv.org/content/10.6...
biorxiv.org
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Leibniz INM @leibnizinm.bsky.social · 31/01/2026
POV: Your cells died again! 😅 Occupational safety office, please close your eyes 🫣 #lablaughs #memesky #academicsky
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Patrick Boyle @patrickboyle.bsky.social · 27/01/2026
Any bio artists out here? I’m interested in commissioning 1-2 pieces, leaning more towards the art side but love stuff that is science-inspired... DM me if you're interested!
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Tom Ellis @proftomellis.bsky.social · 28/01/2026
Enjoyed listening to @adrianwoolfson.bsky.social on BBC 4 this week talking about synthetic biology at genome scale and what kind of step-change in capabilities are happening this decade. Interesting debate on the value of full redesign of genomes, versus iterative work. www.bbc.com/audio/play/m...
bbc.com
BBC Audio | Start the Week | Biology, technology and the future
Adam Rutherford asks what it might mean if we can build human bodies and minds.
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LondonSynbioNetwork @londonsynbio.bsky.social · 26/01/2026
Excited for the first LSN of 2026✨ See you there! events.humanitix.com/london-synbi...
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Nozomu Yachie @nzmyachie.bsky.social · 26/01/2026
Please 🔁 My group at UBC received an allocation from the school to apply for the Canada Impact+ Training Awards (postdoc). Everything is moving fast but please email me in 48 hours with a CV if you are outside Canada and interested😎 Yachie lab: yachie-lab.org sshrc-crsh.canada.ca/en/funding/o...
sshrc-crsh.canada.ca
Canada Impact+ Research Training Awards
The Canada Impact+ Research Training Awards are a one-time initiative designed to recruit international or returning Canadian students and postdoctoral researchers to Canada. These awards support the recruitment of doctoral students and postdoctoral researchers in priority areas, helping build capacity, strengthen the research ecosystem and enhance Canada’s global competitiveness.
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Carl de Boer @carldeboer.bsky.social · 09/12/2025
I wrote a guide on constructive peer review. This is a polished version of an internal guide I had for my group. Of course, constructive feedback is welcome, peers! deboer.bme.ubc.ca/2025/12/09/g...
deboer.bme.ubc.ca
Guide for constructive peer review – de Boer Lab
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Tom Ellis @proftomellis.bsky.social · 21/01/2026
Which is worse - believing everything online is fake or believing everything online is real?
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Tom Ellis @proftomellis.bsky.social · 16/01/2026
So cool - someone finally hacked 'the vault'. www.science.org/doi/10.1126/...
science.org
A genetically encoded device for transcriptome storage in mammalian cells
Understanding how cells make decisions over time requires the ability to link past molecular states to future phenotypic outcomes. We present TimeVault, a genetically encoded system that records and s...
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The Onion @theonion.com · 14/01/2026
Disney Geneticists Debut New Child Stars
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Tom Ellis @proftomellis.bsky.social · 14/01/2026
New Engineered Living Materials #ELMs preprint up on BioRxiv #SynBio from our group in collaboration with the Hub for Biotechnology in the Built Environment at Northumbria University and with some help from CSIC, Madrid.
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Current Biology @currentbiology.bsky.social · 19/12/2025
HAPPY HOLIDAYS TO ALL OF YOU!🎄✨
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Yolanda Schaerli @yschaerli.bsky.social · 17/12/2025
New preprint! 🐝 We engineered a bacterial biosensor to reveal micron-scale arabinose gradients in the honeybee gut. Congratulations to Audam and all co-authors. Great collaboration with @pengellab.bsky.social as part of the NCCR Microbiomes at @fbm-unil.bsky.social www.biorxiv.org/content/10.1...
biorxiv.org
Engineered symbiont biosensor maps micron-scale sugar gradients in the honeybee gut
The honeybee gut microbiota plays a key role in shaping host health and susceptibility to disease. Yet, the nutrient environment it experiences within the gut remains poorly characterized. In particul...
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