Shubham Kumar
@shubhamk.bsky.social
PhD student in Sean Munro's group at MRC LMB, Cambridge. Looking at Golgi in fly neurons. Otherwise, hiking somewhere.
Reposted by Shubham Kumar
✨ We are pleased to announce the conclusion of the final session of the 2025 @cambridgeflyclub.bsky.social talks series and are now preparing for next year’s sessions, which will be announced soon (check out our upcoming posts for more details).
November 10, 2025 at 7:25 PM
✨ We are pleased to announce the conclusion of the final session of the 2025 @cambridgeflyclub.bsky.social talks series and are now preparing for next year’s sessions, which will be announced soon (check out our upcoming posts for more details).
Reposted by Shubham Kumar
The Golgi vesicle tether p115/USO1 can bind directly to the ER exit site organiser Sec16A www.biorxiv.org/content/10.1...
The Golgi vesicle tether p115/USO1 can bind directly to the ER exit site organiser Sec16A
Newly-made secretory and membrane proteins exit the endoplasmic reticulum (ER) in COPII vesicles that form at specialised ER exit sites. These exit sites are typically near to the early Golgi compartm...
www.biorxiv.org
October 17, 2025 at 3:03 PM
The Golgi vesicle tether p115/USO1 can bind directly to the ER exit site organiser Sec16A www.biorxiv.org/content/10.1...
Reposted by Shubham Kumar
Fwd: Fwd: “I hope this email finds you well”
October 7, 2025 at 8:37 AM
Fwd: Fwd: “I hope this email finds you well”
Reposted by Shubham Kumar
New Online! The advent of confocal laser scanning microscopy in biological research
The advent of confocal laser scanning microscopy in biological research
Nature Reviews Molecular Cell Biology, Published online: 01 October 2025; doi:10.1038/s41580-025-00905-5The advent of laser-scanning confocal microscopy revolutionized cell biology, offering unprecedented resolution and depth and enabling scientists to visualize cellular structures in 3D.
bit.ly
October 1, 2025 at 12:03 PM
New Online! The advent of confocal laser scanning microscopy in biological research
Reposted by Shubham Kumar
ER exit sites are dynamic ER subdomains that integrate signals, reshape membranes and steer secretion. Twelve groups in the field came together to map their diversity, regulation, unanswered questions and future directions.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Towards a unified framework for the function of endoplasmic reticulum exit sites - Nature Reviews Molecular Cell Biology
Endoplasmic reticulum exit sites (ERES) are specialized ER subdomains that regulate the export of secreted cargo. This Roadmap explores how ERES integrate biochemical and mechanical signals to coordinate trafficking and proposes a multidisciplinary strategy to investigate their function, including in disease.
www.nature.com
September 30, 2025 at 5:50 AM
ER exit sites are dynamic ER subdomains that integrate signals, reshape membranes and steer secretion. Twelve groups in the field came together to map their diversity, regulation, unanswered questions and future directions.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Shubham Kumar
Membrane protein export in developing axons, via axonal ERES and Golgi bypass #ER_Literature
The axonal ER couples translation and secretion machineries for local delivery of axonal transmembrane proteins to promote axonal development https://www.biorxiv.org/content/10.1101/2025.09.09.674816v1
September 9, 2025 at 4:40 PM
Membrane protein export in developing axons, via axonal ERES and Golgi bypass #ER_Literature
Reposted by Shubham Kumar
A Genome-wide CRISPR Screen Reveals ZDHHC8-Dependent Gαq Palmitoylation as a Key Regulator of GPCR Signaling
Muhammad Ahmad, Norbert Perrimon, Raghuvir Viswanatha, Ah-Ram Kim
bioRxiv 2025.08.06.668953; doi: doi.org/10.1101/2025...
Muhammad Ahmad, Norbert Perrimon, Raghuvir Viswanatha, Ah-Ram Kim
bioRxiv 2025.08.06.668953; doi: doi.org/10.1101/2025...
A Genome-wide CRISPR Screen Reveals ZDHHC8-Dependent Gαq Palmitoylation as a Key Regulator of GPCR Signaling
G protein-coupled receptors (GPCRs) that couple to the Gαq signaling pathway control diverse physiological processes, yet the full complement of cellular regulators for this pathway remains unknown. H...
doi.org
August 8, 2025 at 8:50 PM
A Genome-wide CRISPR Screen Reveals ZDHHC8-Dependent Gαq Palmitoylation as a Key Regulator of GPCR Signaling
Muhammad Ahmad, Norbert Perrimon, Raghuvir Viswanatha, Ah-Ram Kim
bioRxiv 2025.08.06.668953; doi: doi.org/10.1101/2025...
Muhammad Ahmad, Norbert Perrimon, Raghuvir Viswanatha, Ah-Ram Kim
bioRxiv 2025.08.06.668953; doi: doi.org/10.1101/2025...
Reposted by Shubham Kumar
New paper: Multi-omic mapping of Drosophila protein secretomes reveals tissue-specific origins and inter-organ trafficking
Bosch et al.
doi: doi.org/10.1101/2025...
Bosch et al.
doi: doi.org/10.1101/2025...
Multi-omic mapping of Drosophila protein secretomes reveals tissue-specific origins and inter-organ trafficking
Secreted proteins regulate many aspects of animal biology and are attractive targets for biomarkers and therapeutics. However, comprehensively identifying the "secretome", along with their tissues of ...
doi.org
July 12, 2025 at 5:40 AM
New paper: Multi-omic mapping of Drosophila protein secretomes reveals tissue-specific origins and inter-organ trafficking
Bosch et al.
doi: doi.org/10.1101/2025...
Bosch et al.
doi: doi.org/10.1101/2025...
Reposted by Shubham Kumar
A new genetic toolkit lets researchers target most neuronal lineages in the #Drosophila ventral nerve cord across development and into adulthood, opening the door to mapping structure, chemistry, and behaviour.
buff.ly/zHQK9dC
buff.ly/zHQK9dC
July 5, 2025 at 4:28 PM
A new genetic toolkit lets researchers target most neuronal lineages in the #Drosophila ventral nerve cord across development and into adulthood, opening the door to mapping structure, chemistry, and behaviour.
buff.ly/zHQK9dC
buff.ly/zHQK9dC
Reposted by Shubham Kumar
🗓️#CambridgeFlyClub 2nd meeting this year on July 16th (Weds) 4pm at @gurdoninstitute.bsky.social. Our speakers are Carmina Santa-Cruz Mateos from Sarah Bray's lab @pdncambridge.bsky.social and Jimena Berni from University of Sussex.
It's not the Dmel on our poster, guess what species is it?
It's not the Dmel on our poster, guess what species is it?
June 13, 2025 at 9:27 AM
🗓️#CambridgeFlyClub 2nd meeting this year on July 16th (Weds) 4pm at @gurdoninstitute.bsky.social. Our speakers are Carmina Santa-Cruz Mateos from Sarah Bray's lab @pdncambridge.bsky.social and Jimena Berni from University of Sussex.
It's not the Dmel on our poster, guess what species is it?
It's not the Dmel on our poster, guess what species is it?
Reposted by Shubham Kumar
The mechanistic basis of cargo selection during Golgi maturation www.biorxiv.org/content/10.1...
The mechanistic basis of cargo selection during Golgi maturation
The multiple cisternae of the Golgi apparatus contain resident membrane proteins crucial for lipid and protein glycosylation. How Golgi residents remain in their designated compartments despite a cons...
www.biorxiv.org
June 27, 2025 at 5:53 PM
The mechanistic basis of cargo selection during Golgi maturation www.biorxiv.org/content/10.1...
Reposted by Shubham Kumar
Registration is now open for NeuroBioUK 2025!
This year we're looking forward to hearing from our plenary speaker @cathyabbott.bsky.social. As ever, all other talks chosen from submitted abstracts so get submitting - we can't wait to see you there!
neurobiouk.sites.sheffield.ac.uk/registration
This year we're looking forward to hearing from our plenary speaker @cathyabbott.bsky.social. As ever, all other talks chosen from submitted abstracts so get submitting - we can't wait to see you there!
neurobiouk.sites.sheffield.ac.uk/registration
June 6, 2025 at 3:17 PM
Registration is now open for NeuroBioUK 2025!
This year we're looking forward to hearing from our plenary speaker @cathyabbott.bsky.social. As ever, all other talks chosen from submitted abstracts so get submitting - we can't wait to see you there!
neurobiouk.sites.sheffield.ac.uk/registration
This year we're looking forward to hearing from our plenary speaker @cathyabbott.bsky.social. As ever, all other talks chosen from submitted abstracts so get submitting - we can't wait to see you there!
neurobiouk.sites.sheffield.ac.uk/registration
Reposted by Shubham Kumar
We currently have a call for support that has gone out to European labs, to support FlyBase-UK. We are asking our colleagues from labs in the US and other countries to wait for a similar call to them that will go out in the near future, to support the US sites. We thank you for your patience.
URGENT: FlyBase has lost practically all its funding overnight; even user fees are tied up in denied grant funding. 🤬🤯
Any lab using @flybase.bsky.social please donate using the link in post below.
This incredible community, on whose backs our #Drosophila labs depend, can't be left out to dry.
Any lab using @flybase.bsky.social please donate using the link in post below.
This incredible community, on whose backs our #Drosophila labs depend, can't be left out to dry.
My lab studies bacterial infections. We spend a lot of time looking at (or for) species-specific genetic and genomic databases for hosts and microbes. FlyBase is the best of all—there is literally no comparison. Its existence is under threat. Please donate.
www.philanthropy.cam.ac.uk/give-to-camb...
www.philanthropy.cam.ac.uk/give-to-camb...
June 3, 2025 at 9:17 PM
We currently have a call for support that has gone out to European labs, to support FlyBase-UK. We are asking our colleagues from labs in the US and other countries to wait for a similar call to them that will go out in the near future, to support the US sites. We thank you for your patience.
Reposted by Shubham Kumar
Oxr1 and Ncoa7 regulate V-ATPase to achieve optimal pH for glycosylation within the Golgi apparatus and trans-Golgi network | PNAS www.pnas.org/doi/10.1073/...
Oxr1 and Ncoa7 regulate V-ATPase to achieve optimal pH for glycosylation within the Golgi apparatus and trans-Golgi network | PNAS
Maintenance of pH within membranous organelles is crucial for cellular processes such
as posttranslational modifications, ligand–receptor interacti...
www.pnas.org
May 31, 2025 at 11:51 AM
Oxr1 and Ncoa7 regulate V-ATPase to achieve optimal pH for glycosylation within the Golgi apparatus and trans-Golgi network | PNAS www.pnas.org/doi/10.1073/...
Reposted by Shubham Kumar
Welcome to the new serie of Cambridge Fly Club meetings. We organise several events every year to foster collaboration and maintain a positive dynamic between Drosophila groups in Cambridge.
May 23, 2025 at 2:43 PM
Welcome to the new serie of Cambridge Fly Club meetings. We organise several events every year to foster collaboration and maintain a positive dynamic between Drosophila groups in Cambridge.
Reposted by Shubham Kumar
After the success of our 2023 Imaging Cell Dynamics conference, we’ll be hosting a second #JCSImaging meeting in 2026, organised by @franbottanelli.bsky.social, @guijacquemet.bsky.social, @drmichaelway.bsky.social & Giulia Zanetti.
To register your interest: www.biologists.com/meetings/jcs...
To register your interest: www.biologists.com/meetings/jcs...
May 19, 2025 at 1:01 PM
After the success of our 2023 Imaging Cell Dynamics conference, we’ll be hosting a second #JCSImaging meeting in 2026, organised by @franbottanelli.bsky.social, @guijacquemet.bsky.social, @drmichaelway.bsky.social & Giulia Zanetti.
To register your interest: www.biologists.com/meetings/jcs...
To register your interest: www.biologists.com/meetings/jcs...
Following the annual tradition, the student symposium of MRC LMB is happening on July 10th and 11th this year.
This year we are collaborating with Institut Pasteur!
Details 👇
This year we are collaborating with Institut Pasteur!
Details 👇
Save the Date
📍 Where: MRC-LMB, Cambridge or Online (Zoom)
🗓️ When: 10th and 11th of July
🧪 Themes: Cell Biology, Structural Biology, Immunology, Nucleic Acids and Neuroscience.
🤝 In collaboration with students at Institut Pasteur
📍 Where: MRC-LMB, Cambridge or Online (Zoom)
🗓️ When: 10th and 11th of July
🧪 Themes: Cell Biology, Structural Biology, Immunology, Nucleic Acids and Neuroscience.
🤝 In collaboration with students at Institut Pasteur
May 22, 2025 at 11:31 AM
Following the annual tradition, the student symposium of MRC LMB is happening on July 10th and 11th this year.
This year we are collaborating with Institut Pasteur!
Details 👇
This year we are collaborating with Institut Pasteur!
Details 👇
Reposted by Shubham Kumar
Proud to share my main postdoc work! 🧠 I asked: How to build a #brain that lead to #individuality? We show that adult brain wiring isn't fully predictable from genes or environment alone— the #stochastic nature of #development is a key third factor. #NatureNeuroscience
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Sequential and independent probabilistic events regulate differential axon targeting during development in Drosophila melanogaster - Nature Neuroscience
The developmental origin of behavioral individuality is unclear. The authors show that a temporal sequence of genetically encoded stochastic mechanisms explains variation in stereotyped neuronal circu...
www.nature.com
May 7, 2025 at 10:44 AM
Proud to share my main postdoc work! 🧠 I asked: How to build a #brain that lead to #individuality? We show that adult brain wiring isn't fully predictable from genes or environment alone— the #stochastic nature of #development is a key third factor. #NatureNeuroscience
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Shubham Kumar
Neuronal processes contain the essential components for the late steps of ribosome biogenesis www.biorxiv.org/content/10.1...
Neuronal processes contain the essential components for the late steps of ribosome biogenesis
Neurons rely on spatial and temporal control of protein synthesis to respond rapidly and locally to external stimuli, a process facilitated by the dynamic localization and modification of ribosomes. W...
www.biorxiv.org
April 29, 2025 at 3:52 PM
Neuronal processes contain the essential components for the late steps of ribosome biogenesis www.biorxiv.org/content/10.1...
Reposted by Shubham Kumar
Mouse egg cells stash endosomes, lysosomes, and autophagy regulators in giant structures called ELYSAs. After fertilisation, they break down, timing the embryo’s cleanup and recycling systems for early development.
buff.ly/aM5oMxt
buff.ly/aM5oMxt
April 20, 2025 at 1:59 PM
Mouse egg cells stash endosomes, lysosomes, and autophagy regulators in giant structures called ELYSAs. After fertilisation, they break down, timing the embryo’s cleanup and recycling systems for early development.
buff.ly/aM5oMxt
buff.ly/aM5oMxt
Reposted by Shubham Kumar
How are specific cargos targeted to apical & basolateral domains within #EpithelialCells? This study uses a novel #vesicle tracking software "MSP-tracker" to show that the secretory pathway in #Drosophila follicle cells is unexpectedly spatially organized @plosbiology.org 🧪 plos.io/3EfJsBp
April 14, 2025 at 11:58 AM
How are specific cargos targeted to apical & basolateral domains within #EpithelialCells? This study uses a novel #vesicle tracking software "MSP-tracker" to show that the secretory pathway in #Drosophila follicle cells is unexpectedly spatially organized @plosbiology.org 🧪 plos.io/3EfJsBp
Reposted by Shubham Kumar
Amazing microscopy from Bewersdorf/Rothman groups shows golgins in a striking four-layered structure at the Golgi rim. Biochemical reconstitution shows long filaments. Does a Golgi stack form due to golgin filament properties rather than dedicated stacking proteins?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
March 29, 2025 at 9:02 PM
Amazing microscopy from Bewersdorf/Rothman groups shows golgins in a striking four-layered structure at the Golgi rim. Biochemical reconstitution shows long filaments. Does a Golgi stack form due to golgin filament properties rather than dedicated stacking proteins?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Shubham Kumar
1/ Transposable elements are often called "jumping genes" because they mobilize within genomes. 🧬
But did you know they can also jump 𝘣𝘦𝘵𝘸𝘦𝘦𝘯 cells? 🤯
Our new study reveals how retrotransposons invade the germline directly from somatic cells.
www.biorxiv.org/content/10.1...
A short thread 🧵👇
But did you know they can also jump 𝘣𝘦𝘵𝘸𝘦𝘦𝘯 cells? 🤯
Our new study reveals how retrotransposons invade the germline directly from somatic cells.
www.biorxiv.org/content/10.1...
A short thread 🧵👇
March 17, 2025 at 11:56 AM
1/ Transposable elements are often called "jumping genes" because they mobilize within genomes. 🧬
But did you know they can also jump 𝘣𝘦𝘵𝘸𝘦𝘦𝘯 cells? 🤯
Our new study reveals how retrotransposons invade the germline directly from somatic cells.
www.biorxiv.org/content/10.1...
A short thread 🧵👇
But did you know they can also jump 𝘣𝘦𝘵𝘸𝘦𝘦𝘯 cells? 🤯
Our new study reveals how retrotransposons invade the germline directly from somatic cells.
www.biorxiv.org/content/10.1...
A short thread 🧵👇
Reposted by Shubham Kumar
Long in the making but our protocol for gene editing is online! FAB CRISPR is super easy and allows the generation of N and C terminal fusions with TurboID, SNAP, Halo and mStayGold. A single cloninf step to generate HDR templates! arxiv.org/abs/2502.12675 1/n
Fast Antibiotic resistance-Based gene editing of mammalian cells with CRISPR-Cas9 (FAB-CRISPR)
Protein tagging with CRISPR-Cas9 enables the investigation of protein function in its native environment but is limited by low homology-directed repair (HDR) efficiency causing low knock-in rates. We ...
arxiv.org
February 19, 2025 at 8:43 AM
Long in the making but our protocol for gene editing is online! FAB CRISPR is super easy and allows the generation of N and C terminal fusions with TurboID, SNAP, Halo and mStayGold. A single cloninf step to generate HDR templates! arxiv.org/abs/2502.12675 1/n
Reposted by Shubham Kumar
ÅNGSTRÖM-RESOLUTION IMAGING OF CELL-SURFACE GLYCANS 🧬🎨🍬
The glycocalyx, our cells' sugar coat, holds secrets in immunology, cancer, viral infections, and more. Visualizing its molecular architecture was impossible… until now. #glycotime #microscopy
www.biorxiv.org/content/10.1...
The glycocalyx, our cells' sugar coat, holds secrets in immunology, cancer, viral infections, and more. Visualizing its molecular architecture was impossible… until now. #glycotime #microscopy
www.biorxiv.org/content/10.1...
February 10, 2025 at 8:21 AM
ÅNGSTRÖM-RESOLUTION IMAGING OF CELL-SURFACE GLYCANS 🧬🎨🍬
The glycocalyx, our cells' sugar coat, holds secrets in immunology, cancer, viral infections, and more. Visualizing its molecular architecture was impossible… until now. #glycotime #microscopy
www.biorxiv.org/content/10.1...
The glycocalyx, our cells' sugar coat, holds secrets in immunology, cancer, viral infections, and more. Visualizing its molecular architecture was impossible… until now. #glycotime #microscopy
www.biorxiv.org/content/10.1...