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Reposted by Michael VanInsberghe

EMBL Events @events.embl.org · 29/03/2025

🧬 'Measuring translational dynamics by ribosome profiling' wrapped up yesterday! Huge thanks to the organisers, speakers, and participants who made it a success. Looking forward to continuing the work and seeing you all again soon! 🙌🏼 #EMBORiboProf

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Reposted by Michael VanInsberghe

Jeroen van den Berg @jervdberg.bsky.social · 04/02/2025

Happy to share this concise review and outlook for single-cell sequencing methods to unravel cell biology of the nucleus! Big shoutout to my friend and former colleague Peter Zeller for sharing the work! www.sciencedirect.com/science/arti...

sciencedirect.com

Shining a light on cell biology of the nucleus with single-cell sequencing

From the preservation of genomic integrity to the regulation of RNA translation, nearly all cellular processes are regulated in a cell context-depende…

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Reposted by Michael VanInsberghe

Maximilian Madern @maxmadern.bsky.social · 03/02/2025

Our paper is out! We delevoped a method to follow individual translating ribosomes for hours in living cells, and discovered that ribosomes are great friends and help each other in problematic situations: www.cell.com/cell/fulltex...

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Reposted by Michael VanInsberghe

Marvin Tanenbaum @marvintanenbaum.bsky.social · 03/02/2025

Our paper on Stopless-ORF Circular RNAs (socRNAs) is now out in Cell. By high-res tracking and comparing translation by either single or multiple ribosomes, we find that ribosomes cooperate to overcome pausing to ensure fast and efficient translation www.cell.com/cell/fulltex...

cell.com

Long-term imaging of individual ribosomes reveals ribosome cooperativity in mRNA translation

Ribosomes cooperate through transient collisions to ensure efficient translation.

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Reposted by Michael VanInsberghe

Micha Müller @michamuller.bsky.social · 21/01/2025

Very happy to share our preprint on visualizing the life cycle of Influenza viruses using single-molecule imaging! 🥳 We developed two techniques to visualize infections of unmodified influenza viruses in live cells from endosomal release to budding of new viruses. For more details&videos see below ⬇️

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

In addition to these methods to profile translation in single cells, there are also several single-cell technologies to measure mRNA features that regulate translation. There wasn’t space to go into detail, but we also included a brief overview of these methods

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

Translation ultimately revolves around an mRNA template. Determining the amounts and states of these templates and how they interact with regulatory machinery is important to understand translational regulation

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

Translation machinery is spatially distributed to modulate expression patterns. RIBOmap from Xiao Wang’s group measures the spatial localization of mRNAs being translated in tissue slices. Signal is only generated when the rRNA-padlock splint, padlock, and RCA primer are colocalized

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

Ribo-STAMP from Gene Yeo’s group instead records ribosome association with RNA edits. Here, a RPS2-APOBEC1 fusion is transiently expressed that is localized to mRNAs by translating ribosomes. Highly translated transcripts will thus accumulate C-U mutations

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

T&T-seq by Kehkooi Kee’s group splits the lysate from a single oocyte, with part used for scRNA-seq, and the other part is used in a RiboLace pull down to select transcripts being actively translated. Highly translated transcripts will be more abundant in the pull down

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

Ribosome profiling isn’t the only way to measure ribosome-transcript interactions though! An alternative approach is to quantify changes in the degree to which ribosomes are associated with transcripts

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

These techniques are still in their infancy, but they’ve already made it possible to interrogate translation as a highly dynamic layer of gene regulation in previously inaccessible systems

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

These new technologies allowed translation and its regulation to be studied in dynamic systems such as dividing cells, limited samples from early embryos, and rare primary cells.

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

Modifications to this workflow by us (scRibo-seq), the Cenik lab (Ribo-ITP), and Wei Xie (Ribo-lite) increased the sensitivity of traditional ribosome profiling by using different footprint enrichment strategies and efficient library preparation chemistries

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

Ribosome profiling provides a high-resolution snapshot of active translation. By arresting ribosomes on transcripts and digesting away unprotected RNA, you create short ribosome-protected footprints. Sequencing these footprints gives the numbers and locations of ribosomes

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Michael VanInsberghe @mvanins.bsky.social · 23/01/2025

Several new technologies have enabled translation profiling in single cells. In our article in @natrevmcb.bsky.social, Alexander and I discuss these single-cell methods for measuring ribosome profiles, ribosome-associated transcripts, and spatial translation 🧵 www.nature.com/articles/s41...

nature.com

Sequencing technologies to measure translation in single cells - Nature Reviews Molecular Cell Biology

Recent sequencing-based methods, including novel ribosome profiling, ribosome affinity purification and spatial translation methods, have enabled the measurement of translation at single-cell resoluti...

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