Elisabeth Bobkova

Elisabeth Bobkova

@bobez.bsky.social

PostDoc at Erb Lab, science policy enthusiast, scientific illustrator, metalhead. Yay to using ML, physics and molecular biology to engineer new synbio systems

78 followers110 following14 posts

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Elisabeth Bobkova
@bobez.bsky.social

Overall, this establishes a modular nanopore engineering toolbox, including a “one-pot” modification and screening strategy for systematically tuning and probing diffusion in synthetic membrane systems. 6/7

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Elisabeth Bobkova
@bobez.bsky.social

We show a LUV-based nanoluc assay, providing a robust and unbiased readout of peptide diffusion. We directly visualize the large contribution that vesicle breakage has on measured diffusion signal in non-stabilized synthetic membranes — a critical factor that is often underestimated in studies. 4/7

Elisabeth Bobkova
@bobez.bsky.social

Using this setup, we show that chemical modification of of αHL post-insertion significantly changes peptide permeability and selectivity depending on modification site and reporter structure and charge. 5/7

Elisabeth Bobkova
@bobez.bsky.social

A key challenge in synbio is that selectively permeable synthetic membranes are difficult to build and difficult to measure reliably. Modified membrane protein insertion is often variable, and most diffusion assays suffer from low throughput, instability, or hidden biases from vesicle breakage. 2/7

Elisabeth Bobkova
@bobez.bsky.social

We use α-Hemolysin (αHL) as a self-inserting scaffold to reduce variability in membrane insertion. By employing site-specific cysteine mutations we enable controlled chemical modification pre- and post-insertion, helping decouple pore design from batch-to-batch and folding-related effects. 3/7

Elisabeth Bobkova
@bobez.bsky.social

Really enjoyed the 77th #MosbacherKolloquium ! Thanks to the organizers @gbmev.bsky.social for putting together such an amazing program and for giving me the chance to present my poster. To quote André Nadler: Membranes are great, science is great, and let's continue making discoveries! ;)

Elisabeth Bobkova reposted

René Inckemann
@reneinckemann.bsky.social

Very excited to finally share my PhD paper, about advancing #chloroplast #synbio through high-throughput plastome engineering of #Chlamydomonas. Huge thanks to the whole team! www.nature.com/articles/s41...

nature.comA modular high-throughput approach for advancing synthetic biology in the chloroplast of Chlamydomonas - Nature PlantsThis study reports a modular-cloning-based platform for high-throughput chloroplast engineering in Chlamydomonas reinhardtii that allows large-scale characterization of genetic parts and prototyping o...
Max Planck Institute for Terrestrial Microbiology@mpimicrobiomarburg.bsky.social

Turbo platform for plant research 🚀🪴 Extreme weather events due to #climatechange reduce crop yields. @reneinckemann.bsky.social & team led by Tobias Erb @synmikro.bsky.social has now developed a microalgae platform for fast and efficient tests of chloroplast gene variants s.gwdg.de/hznfNe

mpi-marburg.mpg.deTurbo Platform for Plant ResearchResearchers at the Max Planck Institute for Terrestrial Microbiology and the Center for Synthetic Microbiology (SYNMIKRO) have developed a new microalgae testing platform. Using the single-celled gree...

Elisabeth Bobkova reposted

Michael Jendrusch
@mjendrusch.bsky.social

With this, the last bit of my PhD at @embl.org is finally out! We developed salad (sparse all-atom denoising), a family of blazing fast protein structure diffusion models. Paper: nature.com/articles/s42256-… Code: github.com/mjendrusch/salad Data: zenodo.org/records/14711580 1/🧵

EMBL@embl.org

‘Salad’ – a new AI model from EMBL scientists – offers major improvements in synthetic protein design. Salad is significantly faster than comparable methods, and designing proteins that don't exist in nature can have applications in many scientific fields. www.nature.com/articles/s42...

Elisabeth Bobkova
@bobez.bsky.social

Thrilled to have been part of the 76th Mosbacher Kolloquium! Huge thanks to @gbmev.bsky.social for organizing such an engaging conference! @anastasiagtz.bsky.so and I were excited to share our insights on differential transport across membranes, and we're truly honored to receive the poster award!

Elisabeth Bobkova reposted

Helena Schulz-Mirbach
@helenasm.bsky.social

Really happy to share that our work on constructing six glyoxylate / glycolate sensors covering a three order of magnitude concentration range is out now in Nature Communications ! 🔥 Read below to see how we developed the sensors and what they are good for 🥳. www.nature.com/articles/s41...

nature.comComputation-aided designs enable developing auxotrophic metabolic sensors for wide-range glyoxylate and glycolate detection - Nature CommunicationsAuxotrophic 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 ...

Elisabeth Bobkova reposted

Beau Dronsella
@beaubd.bsky.social

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.

nature.comOne-carbon fixation via the synthetic reductive glycine pathway exceeds yield of the Calvin cycle - Nature MicrobiologyAn engineered one-carbon-fixation pathway increases biomass yields of Cupriavidus necator compared with the Calvin cycle and can support future, sustainable bio-based production.

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