Diffusive spreading across dynamic mitochondrial network architectures | PNAS In eukaryotic cells, mitochondria form networks that range from highly fused interconnected structures to fragmented populations of individual orga...

Excited to share a new collaborative paper with Lena Koslover's team, fueled by @chanzuckerberg.bsky.social Metabolism Across Scales Program 🧪 1/
www.pnas.org/doi/10.1073/...

Mitochondrial translation elongation controls OXPHOS biogenesis by coordinating synthesis and folding of mitochondrially encoded proteins Xie et al. show that mitochondrial translation elongation rate influences OXPHOS biogenesis. In the filamentous fungus Neurospora crassa, MRM1 slows elongation speed independently of its methyltransferase activity by simultaneously binding mitoribosomes and mRNAs, thereby coordinating synthesis with folding and membrane insertion of mitochondrially encoded OXPHOS subunits.

Mitochondrial translation elongation controls OXPHOS biogenesis by coordinating synthesis and folding of mitochondrially encoded proteins

It looks like there will be an open postdoc position in my lab soon. I'll be looking for someone with substantial wet-lab experience in microbiology / microbial ecology / evolution / physiology. If everything goes well, an ad will be coming. But if you know someone, ask them to reach out already.

U2AF regulates the translation and localization of nuclear-encoded mitochondrial mRNAs Garcia et al. identify a non-canonical function of the splicing factor U2AF1 in translation and localization of nuclear-encoded mitochondrial RNAs. An oncogenic missense mutation leads to pervasive ch...

U2AF regulates the translation and localization of nuclear-encoded mitochondrial mRNAs.

www.cell.com/molecular-ce...

Pearling drives mitochondrial DNA nucleoid distribution The distribution of mitochondrial DNA–containing nucleoids is essential for mitochondrial function and genome inheritance; however, no known mechanisms can explain nucleoid segregation or their regula...

Pearling drives mitochondrial DNA nucleoid distribution | Science www.science.org/doi/10.1126/...

APEX-seq maps transcriptome-wide subcellular RNA localization in living cells Nature Protocols - This Protocol describes the transcriptome-wide labeling of RNAs in a particular subcellular compartment using proximity biotinylation by localized APEX2 enzyme and subsequent...

Excited to share our @natprot.nature.com paper on using RNA proximity labeling to map subcellular RNA transcriptomes. We’ve been working in this area for a while and wanted to create a resource paper to guide the uninitiated reader. rdcu.be/fblvI

Our newest paper is out online!

An Open-Source Code to Analyze Mitochondrial Intracellular Distribution from Fluorescence Microscopy Images

Congrats @giologia.bsky.social!

portlandpress.com/bioscirep/ar...

lots of jarring statistics and heartbreaking stories I could share from this story, but this particular anecdote made me tear up when @jonathanwosen.bsky.social first shared this story with me

For more details from our survey of ~1000 nih-funded researchers, read the report below

The Osman Lab | LMU Munich Mitochondrial research and genome maintenance at Ludwig-Maximilians-University.

We have officially launched our new lab website. 🥳

The site includes the automated literature curation on #mtDNA quality control and copy number regulation, which will appear on Mondays and Thursdays. Listen to the latest #NotebookLM generated podcast.

🧬 Explore the new site: osman-lab.de

Some molecular machines, like ribosomes, can persist for long periods of time in cells.

Could molecular aging of ribosomes shape how proteins are made?

In our new preprint we track ribosomes as they age in cells and uncover unexpected effects on translation (1/10)

www.biorxiv.org/content/10.6...

Excited to share this preprint that describes my latest work on using GPUs to accelerate processing of RNA-seq data.

The title says it all: "RNA-seq analysis in seconds using GPUs" now on biorxiv www.biorxiv.org/content/10.6... and github github.com/pachterlab/k...

Figure 1 shows they key result

“I’m grateful to be included in a journal with such a strong legacy in defining and advancing the field of cell biology.”— Dr. Danielle Grotjahn (@nanigrotjahn.bsky.social). JCB is where the world meets your research. Learn more. hubs.la/Q0442hKP0

RNA-specific local translation is patterned by condensates for multinucleate cell growth - Nature Cell Biology Geisterfer, Jalihal et al. show spatially distinct effects of Whi3 condensates on target translation in Ashbya syncytia. In vitro, translation is enriched at condensate–solute interfaces but repressed...

RNA-specific local translation is patterned by condensates for multinucleate cell growth
www.nature.com/articles/s41...

Cells come in many shapes and sizes, with diverse physiological functions. But how do #organelles and their interaction networks remodel during #differentiation of stem cells into different cell types? Here’s what we discovered about neuronal differentiation: 1/13

I am excited to share the main piece of work from my PhD! In this paper, we investigated the propensities of distinct transcripts in associating with biomolecular condensates, mainly focusing on how heat-induced mRNAs escape condensation and are properly translated.

www.biorxiv.org/content/10.6...

Mechanisms linking cytoplasmic decay of translation-defective mRNA to transcriptional adaptation Transcriptional adaptation (TA) is a genetic robustness mechanism through which mutant messenger RNA (mRNA) decay induces sequence-dependent up-regulation of so-called adapting genes. How cytoplasmica...

@science.org Mechanisms linking cytoplasmic decay of translation-defective mRNA to transcriptional adaptation | Science www.science.org/doi/10.1126/...

From MBoC… A systematic comparison of auxin-inducible degradation tools in yeast identifies optimal component combinations for fast, efficient protein depletion with low basal effects. https://www.molbiolcell.org/doi/10.1091/mbc.E25-12-0571

Construction of complex and diverse DNA sequences using DNA three-way junctions - Nature Sidewinder enables high-fidelity DNA assembly by separating the information that guides assembly from the final assembled sequence.

If you are looking for a distraction, this seems cool. Sticky ends++. If it works as advertised, seems like it could be a game-changer.
www.nature.com/articles/s41...

Our newest paper is out where we investigate how exogenous RNA triggers innate immune responses, such as PKR activation and stress granule assembly. rnajournal.cshlp.org/content/earl...

The Murphy Lab did our annual retreat this week. This year's theme was using AI (what it's good and bad for). I wanted to be open-minded to make sure we are not missing something we should be using it for, so we did a few exercises to test, and had presentations.

Mitochondrial hitch-hiking of Mapt mRNA maintains Tau levels in axons Hitch-hiking of transcripts on organelles, including mitochondria, has emerged as a common pathway to transport mRNAs into the axon to enable their local translation. However, the extent of mitochondr...

New preprint from my lab!!!
We took advantage of the MitoTag mouse line to study what mRNAs associate with mitochondria in axons in vivo, and we were in for a surprise! Other than our favorite Pink1, mainly cytoskeletal mRNAs hitch a ride and pave the way for axon growth. shorturl.at/rYe1U

Local mitochondrial physiology defined by mtDNA quality guides purifying selection Author summary Mitochondria are essential organelles in our cells that convert nutrients into usable cellular energy. They contain their own DNA, and mutations in this DNA can compromise mitochondrial...

How do cells assess mtDNA quality?

Local ATP and membrane-potential gradients reflect mtDNA integrity and drive intracellular purifying selection.

We introduce FAST, a scalable mtDNA QC assay in S. cerevisiae.

Great collaboration with the Schmoller Lab.

journals.plos.org/plosgenetics...
🧬⚡

Happy to share that the our manuscript "Cyclin CLB2 mRNA localization and protein synthesis link cell cycle progression to bud growth" is now finally out in its final form @natcomms.nature.com
www.nature.com/articles/s41...
Below a short🧵 with the key findings!

Really thrilled to have our work on mitochondrial presequence strength out today @jcb.org. We establish quantitative parameters to better define "strong" and "weak" presequences both in vitro and in vivo. This work was spearheaded by the ever talented Youmian Yan, a BBSB graduate student in my lab.

Mitochondrial position responds to glucose stimulation in a model of the pancreatic beta cell The compartmentalization of eukaryotic cells into membrane-bound organelles with specific subcellular positioning enables precise spatial and temporal control of cellular functions. Although functiona...

From the mukherjilab.com Mitochondrial position responds to glucose stimulation in a model of the pancreatic beta cell: Biophysical Journal www.cell.com/biophysj/ful...

Self-renewal of neuronal mitochondria through asymmetric division Mitochondrial ATP production is essential for life. Mitochondrial function depends on the spatio-temporal coordination of nuclear and mitochondrial genome expression, yet how this coordination occurs ...

⚡️Mitochondria make ATP, the energy that powers life. But in neurons, with axons up to a meter long, how do these tiny power plants stay functional in the right places? We went looking. 1/n www.biorxiv.org/content/10.6...

Organelles do NOT have a single uniform pH.
And if you think they must, because “protons diffuse fast,” this paper is for you.
A thread on why that assumption is wrong; and what we found instead. 🧵 1/n

New paper from @zhixingchen2.bsky.social's lab!

It turns out that, in addition to its very low phototoxicity, PKmito Deep Red (PKMDR) directly reports on mitochondrial membrane potential (MMP) in live cells through its lifetime!

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

Excited to share that this work is now published in its final form!

link.springer.com/article/10.1...