Krzysztof Mikołajczyk

RNA N-glycosylation enables immune evasion and homeostatic efferocytosis - Nature N-glycans on glycoRNAs prevent innate immune sensing of endogenous small RNAs, and the natural mechanism they use demonstrates how glycoRNAs exist on the cell surface and in the endosomal network with...

Another piece of the #glycoRNA puzzle revealed by @raflynn5.bsky.social and @vijayrathinam.bsky.social!! RNAs with modified base acp3U activate TLR3/7, but not when acp3U is N-glycosylated. This is how cell surface/secreted glycoRNAs avoid stimulating autoimmunity.

www.nature.com/articles/s41...

Glycoengineering of nematode antigens using insect cells: a promising approach for producing bioactive vaccine antigens of the barber’s pole worm Haemonchus contortus Abstract. The H11 antigens, located on the intestinal microvilli of Haemonchus contortus, comprise a group of homologous aminopeptidases essential for the

Using #Caenorhabditis genes to reengineer insect cells to better mimic nematode glycosylation

academic.oup.com/glycob/advan...

Cell's sugar coating mapped at below-nanometre resolution Nature - Super-resolution technique works with off-the-shelf optical microscopes.

Scientists have mapped individual sugar molecules on the surface of cells at a resolution once thought to be impossible for light microscopes

go.nature.com/40I9Ewv

Expression of a human Gb3/CD77 synthase in insect and human cells: comparison of activity and glycosylation https://www.biorxiv.org/content/10.1101/2025.06.09.658241v1

Extracellular exosomal RNAs are glyco-modified - Nature Cell Biology Sharma, Jiao and colleagues report glycosylation of small RNAs within exosomes and propose a glycosylation-dependent mechanism for RNA targeting into exosomes, which may influence intercellular commun...

More insights into #glycoRNA, this time found within exosomes!

www.nature.com/articles/s41...

Rachel Thomas, PhD - Deep learning gets the glory, deep fact checking gets ignored an AI researcher going back to school for immunology

A case study on the challenges of evaluating AI predictions in biology and the implications for published results.

1/2
rachel.fast.ai/posts/2025-0...

Marcin Czerwinski
Interesting review about glycoRNAs as immune regulators.
tinyurl.com/mvutz9ye

#glycotime

Unveiling the structural spectrum of SARS-CoV-2 fusion by in situ cryo-ET - Nature Communications This study delineates the full sequence of SARS-CoV-2 spike-mediated membrane fusion and shows how S2-targeting antibodies inhibit this process, using a near-native functional fusion system and cryo-e...

Membrane zoning by SARS-CoV-2
doi.org/10.1038/s414...

Proteomic and metabolomic profiling of extracellular vesicles produced by human gut archaea - Nature Communications The composition and potential roles of extracellular vesicles released by gut archaea are poorly understood. Here, Weinberger et al. show that extracellular vesicles produced by human gut-derived meth...

An interesting study on archaeal extracellular vesicles (AEVs) in the human gastrointestinal tract: opening new avenues for microbiome-host interaction research.
shorturl.at/dpn4v

Generating 3D Models of Carbohydrates with GLYCAM-Web The carbohydrate 3D structure-prediction tools (builders) at GLYCAM-Web ([glycam.org][1]) are widely used for generating experimentally-consistent 3D structures of oligosaccharides suitable for data i...

Yeyyyy!! The preprint for Glycam-Web is out! ⬇️ Super congrats @olivercgrant.bsky.social and all! Glycam-Web is a 🔝 complex carbohydrate builder, very accurate and intuitive while fast. We use it *ALL the time*, so I am delighted that now I can cite it properly 👍🤩 doi.org/10.1101/2025...

Spatial mapping of the brain metabolome lipidome and glycome - Nature Communications Clarke et al. presents a framework for spatial analysis of the metabolome, lipidome, and glycome from a single tissue section using mass spectrometry imaging. Applying this approach, they revealed reg...

MALDI imaging of lipids, metabolites and glycans all on the same section! From Ramon Sun and colleagues. www.nature.com/articles/s41...

Lipid-degrading small molecule kills cancer cells by ferroptosis A molecule designed to activate iron locked up in organelles called lysosomes and thereby induce cell death might offer a way to tackle treatment-resistant cancer.

Fantastic new study from Raphael Rodriguez' lab shows that induced proximity concepts can be used to induce Ferroptosis! Inducing proximity of lysosomal iron and lipids induces lipid peroxidation! What a cool concept! Have a look at our News/Views with @olzmannlab.bsky.social shorturl.at/cbc8D

Thank you! :) @carolynbertozzi.bskyverified.social

Treatment of acute myeloid leukemia models by targeting a cell surface RNA-binding protein - Nature Biotechnology An RNA-binding protein on leukemia cells provides an effective target in mouse models.

Check it out - amazing new work by @raflynn5.bsky.social and Kostas Tzelepis labs, discovery of a cell surface RNA/glycoRNA binding protein that is also a cancer antigen, new target for antibody therapy!

www.nature.com/articles/s41...

Structural basis of lipid transfer by a bridge-like lipid-transfer protein - Nature The LPD-3 complex structure reveals protein–lipid interactions that suggest a model for how the native LPD-3 complex mediates bulk lipid transport and provides a foundation for mechanistic studies of ...

"Our LPD-3 complex structural data reveal protein–lipid interactions that suggest a model for how the native LPD-3 complex mediates bulk lipid transport and provides a foundation for mechanistic studies of bridge-like lipid transport proteins (BLTPs)." 🤯🤯😍

www.nature.com/articles/s41...

Biallelic loss of SEC24C proteins (elements of COP IIcoat protein complex II which participate in intracellular trafficking) causes i.a. primary microcephaly, brain anomalies, epilepsy and hearing loss, but also deregulation of N-glycosylation. New type of CDG?
tinyurl.com/3cyfyhua

#glycotime

Great review about gene therapy for hemophilia – from basic science to first approvals of “One-and-Done” therapies. Must-read!

tinyurl.com/52jnjzcp

Glycocalyx dysregulation impairs blood–brain barrier in ageing and disease - Nature Disruption of mucin-domain glycoprotein expression and function in the endothelial glycocalyx are associated with ageing and Alzheimer’s disease, leading to dysregulated blood–brain barrier function.

Shi et al show ⬇️ that mucin-domain glycoproteins in the brain endothelial glycocalyx are highly dysregulated during ageing and neurodegenerative disease, leading to severe perturbations of the BBB function

#glycotime at its best! 💥🧠🍬🎉

doi.org/10.1038/s415...

Check out our web tool for searching for interactors of your favorite cell surface protein, developed by undergrad Pinyu Liao and postdoc postdoc Brendan Floyd @stanford-chemh.bsky.social

cellsurfacemap.org

Multiplexed Lectin-PAINT super-resolution microscopy enables cell glycotyping - Communications Biology A super-resolution method for single-molecule detection and tracking of glycans on the surface of living cells is developed. Glycan’s abundance and mobility are used to explore differences in glycosyl...

Our Lectin-PAINT work is out! A super-resolution approach to study membrane-exposed glycans with nm resolution and in live cells. Multiplexed 8-colors imaging mapping heterogeneity in "glycotype" with single molecule resolution. Fantastic work of our Marrit! #Glycotime www.nature.com/articles/s42...

Swift Universal Glycan Acquisition (SUGA) Enables Quantitative Glycan Profiling across Diverse Sample Types The ability to rapidly analyze complex mixtures of glycans derived from glycoproteins is important, but techniques are often laborious and require multiple glycan derivatization steps. Here, we descri...

Our new paper in print describes a new approach: release and analysis of N-glycans in less than 24 hours. A perfect approach for those that are glycan-curious as it does not require changing any of your proteomics buffers! 1/5
#glycotime #teammassspec
pubs.acs.org/doi/10.1021/...

Imaging of cellular dynamics from a whole organism to subcellular scale with self-driving, multiscale microscopy Nature Methods - A self-driving multiresolution light-sheet microscope enables the simultaneous observation and quantification of cellular and subcellular dynamics in the context of intact and...

The self-driving multiscale microscope from @daetwylerstephan.bsky.social is out.

It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.

We used it to study cancer-immune cell interactions.

www.nature.com/articles/s41...

ÅNGSTRÖM-RESOLUTION IMAGING OF CELL-SURFACE GLYCANS 🍬🍭🔬

For the first time, we’re able to study the molecular architecture of the glycocalyx at single-sugar resolution—a longstanding challenge in glycobiology! #glycotime

Preprint and #bluetorial below!!

Angstrom-resolution imaging of cell-surface glycans Glycobiology is rooted in the study of monosaccharides, Angstrom-sized molecules that are the building blocks of intricate glycosylation patterns. Glycosylated biomolecules form the glycocalyx, a dens...

This is an amazing achievement - angstrom scale imagine of glycan molecules, what a great time for #glycotime. Congrats Leonhard Möckl!

www.biorxiv.org/content/10.1...

Protein codes promote selective subcellular compartmentalization Cells have evolved mechanisms to distribute ~10 billion protein molecules to subcellular compartments where diverse proteins involved in shared functions must assemble. Here, we demonstrate that prote...

🧬🧪Protein codes promote selective subcellular compartmentalization | Science www.science.org/doi/10.1126/...
Henry Kilgore @itamarchinn.bsky.social @pgmikhael.bsky.social Ilan Mitnikov, et al. @aihealthmit.bsky.social @whiteheadinstitute.bsky.social @mitofficial.bsky.social

We are very happy to present our work on N-glycoproteomics!🍬 Our method enables the selective enrichment and precise quantification of intact N-glycopeptides to explore the dynamics of glycosylation microheterogeneity.
www.nature.com/articles/s41...

2′-Fucosyllactose inhibits human norovirus replication in human intestinal enteroids but not in infant jejunal enteroids that have significantly lower expression of α1–2-fucosylated glycans @sashi-ramani.bsky.social bit.ly/4h45vsG

#glycotime

Understanding the Glycosylation Pathways Involved in the Biosynthesis of the Sulfated Glycan Ligands for Siglecs Carbohydrate sulfation plays a pivotal role in modulating the strength of Siglec–glycan interactions. Recently, new aspects of Siglec binding to sulfated cell surface carbohydrates have been discovere...

Our latest work on Siglec binding to sulfated glycans. Great help: @khookh.bsky.social, @pengwu.bsky.social ,@raflynn5.bsky.social. Fom 1st PhD graduate of the lab (Jaesoo Jung) and help from Edward, Zeinab, Jhon, Kelli, @tayloregray.bsky.social, and Chris from my lab.
pubs.acs.org/doi/10.1021/...

New year, new paper from my group! Ribosomes translocation into the spore of Bacillus subtilis is highly organised and requires peptidoglycan rearrangements
Funded by @FNP_org_pl @EMBO_YIP performed at @IBBPAS #subtiwiki
www.nature.com/articles/s41...

Synthesis of the hard-to-obtain 0-series of ganglioside glycans: introduction of sialic acid overcomes the limitation of substrate specificity of Campylobacter jejuni β1–4-N acetylgalactosaminyltransferase.
tinyurl.com/yvc8w93b

#glycotime