Banoo Malik🇨🇦
@banoomalik.bsky.social
Origin of meiosis. (#meiosis4eva) Opinions are my own and not my employers.
Reposted by Banoo Malik🇨🇦
Nature research paper: Uncovering the role of LINE-1 in the evolution of lung adenocarcinoma
go.nature.com/4oUHIPb
go.nature.com/4oUHIPb
Uncovering the role of LINE-1 in the evolution of lung adenocarcinoma - Nature
Lung adenocarcinomas bearing the ID2 mutational signature display increased LINE-1 retrotransposon activity, which contributes to their fast evolutionary dynamics and aggressive phenotype.
go.nature.com
December 15, 2025 at 9:40 AM
Nature research paper: Uncovering the role of LINE-1 in the evolution of lung adenocarcinoma
go.nature.com/4oUHIPb
go.nature.com/4oUHIPb
Reposted by Banoo Malik🇨🇦
New preprint out! Using ~75k environmental OTUs + 77 fossil calibrations, we reconstructed a Proterozoic timeline of eukaryote evolution. Our results show crown eukaryotes were already diversifying >1.6 Ga, long before the first undisputed fossils (~1.05 Ga).
🔗 DOI: www.biorxiv.org/content/10.6...
🔗 DOI: www.biorxiv.org/content/10.6...
December 15, 2025 at 8:19 AM
New preprint out! Using ~75k environmental OTUs + 77 fossil calibrations, we reconstructed a Proterozoic timeline of eukaryote evolution. Our results show crown eukaryotes were already diversifying >1.6 Ga, long before the first undisputed fossils (~1.05 Ga).
🔗 DOI: www.biorxiv.org/content/10.6...
🔗 DOI: www.biorxiv.org/content/10.6...
Reposted by Banoo Malik🇨🇦
Happy Holidarchaeays 🎅🏼🦠!!! Want to get on the nice list this year?? Well then make sure to tune in to Archaea Power Hour this Wednesday, Dec. 17th, at 10 AM EST / 4 PM CET! See the two exciting talks we have planned for you below and keep an eye on your email for the Zoom link.
December 13, 2025 at 1:47 AM
Happy Holidarchaeays 🎅🏼🦠!!! Want to get on the nice list this year?? Well then make sure to tune in to Archaea Power Hour this Wednesday, Dec. 17th, at 10 AM EST / 4 PM CET! See the two exciting talks we have planned for you below and keep an eye on your email for the Zoom link.
Reposted by Banoo Malik🇨🇦
Microbial eukaryotes keep challenging assumptions about eukaryotic cell and genome biology.
Our upcoming workshop explores the frontier of protist genomics and how it shapes cell biology, ecology and evolution.
Please save the date! Talks, posters and ECR events
Websites and details coming soon
Our upcoming workshop explores the frontier of protist genomics and how it shapes cell biology, ecology and evolution.
Please save the date! Talks, posters and ECR events
Websites and details coming soon
December 13, 2025 at 10:19 AM
Microbial eukaryotes keep challenging assumptions about eukaryotic cell and genome biology.
Our upcoming workshop explores the frontier of protist genomics and how it shapes cell biology, ecology and evolution.
Please save the date! Talks, posters and ECR events
Websites and details coming soon
Our upcoming workshop explores the frontier of protist genomics and how it shapes cell biology, ecology and evolution.
Please save the date! Talks, posters and ECR events
Websites and details coming soon
Reposted by Banoo Malik🇨🇦
Extrusive and cohesive cohesin cooperate to repair double-strand breaks in DNA.
Learn more in a new #SciencePerspective: https://scim.ag/3XKbhb6
Learn more in a new #SciencePerspective: https://scim.ag/3XKbhb6
A tale of two forms of cohesin in DNA repair
Extrusive and cohesive cohesin cooperate to repair double-strand breaks in DNA
scim.ag
December 13, 2025 at 9:15 PM
Extrusive and cohesive cohesin cooperate to repair double-strand breaks in DNA.
Learn more in a new #SciencePerspective: https://scim.ag/3XKbhb6
Learn more in a new #SciencePerspective: https://scim.ag/3XKbhb6
Reposted by Banoo Malik🇨🇦
NSF
- Forced reorg
- POs down ~ 40% (DRP, most rotators not renewed, retirements)
- Forced move (and we have to pack and clean) to a building with no furniture, little to no conference space for panels, inadequate 🛜, …)
I personally love the boxes they gave us for packing.
“Details matter” 🙃
- Forced reorg
- POs down ~ 40% (DRP, most rotators not renewed, retirements)
- Forced move (and we have to pack and clean) to a building with no furniture, little to no conference space for panels, inadequate 🛜, …)
I personally love the boxes they gave us for packing.
“Details matter” 🙃
December 11, 2025 at 11:16 AM
NSF
- Forced reorg
- POs down ~ 40% (DRP, most rotators not renewed, retirements)
- Forced move (and we have to pack and clean) to a building with no furniture, little to no conference space for panels, inadequate 🛜, …)
I personally love the boxes they gave us for packing.
“Details matter” 🙃
- Forced reorg
- POs down ~ 40% (DRP, most rotators not renewed, retirements)
- Forced move (and we have to pack and clean) to a building with no furniture, little to no conference space for panels, inadequate 🛜, …)
I personally love the boxes they gave us for packing.
“Details matter” 🙃
Reposted by Banoo Malik🇨🇦
Those interested in performing maximum likelihood phylogenomic analysis on data sets made up of eukaryotic nuclear genes using site heterogeneous mixture models like C60, I suggest you use the ELM model in IQ-TREE instead of the LG model /1
December 9, 2025 at 6:30 PM
Those interested in performing maximum likelihood phylogenomic analysis on data sets made up of eukaryotic nuclear genes using site heterogeneous mixture models like C60, I suggest you use the ELM model in IQ-TREE instead of the LG model /1
Reposted by Banoo Malik🇨🇦
Reposted by Banoo Malik🇨🇦
Extrusive and cohesive cohesin cooperate to repair double-strand breaks in DNA @science.org @albertomarin.bsky.social @gerlichlab.bsky.social @imbavienna.bsky.social
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
December 5, 2025 at 3:28 AM
Extrusive and cohesive cohesin cooperate to repair double-strand breaks in DNA @science.org @albertomarin.bsky.social @gerlichlab.bsky.social @imbavienna.bsky.social
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Banoo Malik🇨🇦
Sequence alignments are notoriously prone to error. Our latest preprint offers a new tool for filtering errors out, assesses it and other filtering tools, and recommends new best practice. www.biorxiv.org/content/10.6... @phylowheeler.bsky.social 1/10
Improved gene tree inference from removing alignment errors both from focal genes and when training substitution models
Multiple Sequence Alignment (MSA) is a key step in phylogenetic analysis, and is prone to error. Unfortunately, algorithms that remove likely alignment errors from MSAs sometimes also remove informati...
www.biorxiv.org
December 4, 2025 at 11:42 PM
Sequence alignments are notoriously prone to error. Our latest preprint offers a new tool for filtering errors out, assesses it and other filtering tools, and recommends new best practice. www.biorxiv.org/content/10.6... @phylowheeler.bsky.social 1/10
Reposted by Banoo Malik🇨🇦
#Diplonemids are among the most diverse & abundant #protists in the deep #ocean. This study localises >5,000 proteins of #Paradiplonema papillatum, revealing #organelle compartmentalisation, including a membrane coated with carbohydrate-degrading enzymes @plosbiology.org 🧪 plos.io/3XvmpIO
December 4, 2025 at 5:30 PM
#Diplonemids are among the most diverse & abundant #protists in the deep #ocean. This study localises >5,000 proteins of #Paradiplonema papillatum, revealing #organelle compartmentalisation, including a membrane coated with carbohydrate-degrading enzymes @plosbiology.org 🧪 plos.io/3XvmpIO
Reposted by Banoo Malik🇨🇦
Nature research paper: Dated gene duplications elucidate the evolutionary assembly of eukaryotes
go.nature.com/4azJDF8
go.nature.com/4azJDF8
Dated gene duplications elucidate the evolutionary assembly of eukaryotes - Nature
Analysis of eukaryotic gene sequences using a relaxed molecular clock methodology indicate that eukaryotes emerged 3.0–2.25 billion years ago as a result of mitochondrial endosymbiosis with complex archaea that already possessed an elaborated cytoskeleton, membrane trafficking, endomembrane, phagocytotic machinery and a nucleus.
go.nature.com
December 5, 2025 at 9:18 AM
Nature research paper: Dated gene duplications elucidate the evolutionary assembly of eukaryotes
go.nature.com/4azJDF8
go.nature.com/4azJDF8
Reposted by Banoo Malik🇨🇦
An Asgard Archaeon (Lokiarchaeum ossiferum) growing and retracting its arms
December 3, 2025 at 8:32 PM
An Asgard Archaeon (Lokiarchaeum ossiferum) growing and retracting its arms
Reposted by Banoo Malik🇨🇦
Crawling motility of Lokiarchaeum ossiferum, our favorite Asgard Archaeon.
December 3, 2025 at 8:35 PM
Crawling motility of Lokiarchaeum ossiferum, our favorite Asgard Archaeon.
Reposted by Banoo Malik🇨🇦
Wow! Radler et al. doi.org/10.1101/2025... These are #asgardarchaea with what? Pseudopodia? Should we call them archaepodia analogously to archaellum? Mindblowing anyway!
December 3, 2025 at 8:08 AM
Wow! Radler et al. doi.org/10.1101/2025... These are #asgardarchaea with what? Pseudopodia? Should we call them archaepodia analogously to archaellum? Mindblowing anyway!
Reposted by Banoo Malik🇨🇦
Eukaryogenesis was a billion year spree, but the acquisition of mitochondria happened when the party was winding down www.nature.com/articles/s41...
Dated gene duplications elucidate the evolutionary assembly of eukaryotes - Nature
Analysis of eukaryotic gene sequences using a relaxed molecular clock methodology indicate that eukaryotes emerged 3.0–2.25 billion years ago as a result of mitochondrial endosymbiosis with complex ar...
www.nature.com
December 3, 2025 at 7:55 PM
Eukaryogenesis was a billion year spree, but the acquisition of mitochondria happened when the party was winding down www.nature.com/articles/s41...
Reposted by Banoo Malik🇨🇦
New update for the gbdraw web app!🚀
You can now display gene labels ONLY on the first genome in the linear diagram. Just select "First" in the "Label layout" option.
Try it out here👉: gbdraw.streamlit.app
#gbdraw #bioinformatics #genomics #visualization #virology #microbiology #streamlit
You can now display gene labels ONLY on the first genome in the linear diagram. Just select "First" in the "Label layout" option.
Try it out here👉: gbdraw.streamlit.app
#gbdraw #bioinformatics #genomics #visualization #virology #microbiology #streamlit
November 24, 2025 at 2:06 PM
New update for the gbdraw web app!🚀
You can now display gene labels ONLY on the first genome in the linear diagram. Just select "First" in the "Label layout" option.
Try it out here👉: gbdraw.streamlit.app
#gbdraw #bioinformatics #genomics #visualization #virology #microbiology #streamlit
You can now display gene labels ONLY on the first genome in the linear diagram. Just select "First" in the "Label layout" option.
Try it out here👉: gbdraw.streamlit.app
#gbdraw #bioinformatics #genomics #visualization #virology #microbiology #streamlit
Reposted by Banoo Malik🇨🇦
Reposted by Banoo Malik🇨🇦
In a potentially dramatic change to how it chooses what science to fund, NIH is ending a long-running practice at many of its institutes of establishing, and making public, a threshold peer-review score needed for a grant application’s approval. https://scim.ag/48ck2zu
NIH shake-up to grant decision-making draws concerns of political meddling
Policy drops “paylines” based on peer-review scores and requires geography and other factors to guide approvals
scim.ag
November 25, 2025 at 3:18 PM
In a potentially dramatic change to how it chooses what science to fund, NIH is ending a long-running practice at many of its institutes of establishing, and making public, a threshold peer-review score needed for a grant application’s approval. https://scim.ag/48ck2zu
Reposted by Banoo Malik🇨🇦
Science People: We at NSF are still recovering/catching up/getting our lives together. But the agency posted these FAQs about post-shutdown resumption of operations which might answer a lot of Qs for you: www.nsf.gov/resumption-o...
Resumption of Operations at NSF
Information for NSF staff and the research community regarding the agency's resumption of operations after a lapse in appropriations.
www.nsf.gov
November 18, 2025 at 6:08 PM
Science People: We at NSF are still recovering/catching up/getting our lives together. But the agency posted these FAQs about post-shutdown resumption of operations which might answer a lot of Qs for you: www.nsf.gov/resumption-o...
Reposted by Banoo Malik🇨🇦
In AIR-BORNE, I wrote about the reluctance many scientists had to acknowledge Covid can float to new hosts. Now it looks like something similar may be happening with bird flu, which may be blowing from farm to farm. Story in @propublica.org www.propublica.org/article/bird...
What the U.S. Government Is Dismissing That Could Seed a Bird Flu Pandemic
Egg producers suspect bird flu is traveling through the air. After a disastrous Midwestern outbreak early this year, we tested that theory and found that where the wind blew, the virus followed. Vacci...
www.propublica.org
November 19, 2025 at 1:00 AM
In AIR-BORNE, I wrote about the reluctance many scientists had to acknowledge Covid can float to new hosts. Now it looks like something similar may be happening with bird flu, which may be blowing from farm to farm. Story in @propublica.org www.propublica.org/article/bird...
Reposted by Banoo Malik🇨🇦
I will never forget having to edit Jamal’s final, posthumous piece for the Washington Post, after he was murdered.
He was calling for free expression in the Arab world. You can read it here :
www.washingtonpost.com/opinions/glo...
He was calling for free expression in the Arab world. You can read it here :
www.washingtonpost.com/opinions/glo...
Opinion | Jamal Khashoggi: What the Arab world needs most is free expression
The Arab world needs a modern version of the old transnational media so citizens can be informed about global events.
www.washingtonpost.com
November 18, 2025 at 6:48 PM
I will never forget having to edit Jamal’s final, posthumous piece for the Washington Post, after he was murdered.
He was calling for free expression in the Arab world. You can read it here :
www.washingtonpost.com/opinions/glo...
He was calling for free expression in the Arab world. You can read it here :
www.washingtonpost.com/opinions/glo...
Reposted by Banoo Malik🇨🇦
I’ve released a tool to sketch and edit phylogenetic trees!
yawak.jp/PhyloWeaver/
Load a Newick file and intuitively add/remove/resize branches.
Useful for quick conceptual trees, extracting subtrees, or turning ideas into Newick.
yawak.jp/PhyloWeaver/
Load a Newick file and intuitively add/remove/resize branches.
Useful for quick conceptual trees, extracting subtrees, or turning ideas into Newick.
PhyloWeaver – Interactive phylogenetic tree editor
Edit and visualize phylogenetic trees directly in your browser. PhyloWeaver lets you interactively rearrange tree topologies and export high-quality figures for publications and presentations.
yawak.jp
November 18, 2025 at 1:59 AM
I’ve released a tool to sketch and edit phylogenetic trees!
yawak.jp/PhyloWeaver/
Load a Newick file and intuitively add/remove/resize branches.
Useful for quick conceptual trees, extracting subtrees, or turning ideas into Newick.
yawak.jp/PhyloWeaver/
Load a Newick file and intuitively add/remove/resize branches.
Useful for quick conceptual trees, extracting subtrees, or turning ideas into Newick.
Reposted by Banoo Malik🇨🇦
Join Drs. Carlos del Rio & D. Jane Hata on Dec. 11, 3 p.m. ET to discuss diagnosing fever in a returning traveler. Includes cases + insights on diagnostics & lab workflows. CE credits available! Sponsor: @biomerieux.com.
Register for free: asm.social/2GS
#ASMClinMicro
Register for free: asm.social/2GS
#ASMClinMicro
Diagnosing Fever in Returning Travelers
Explore best practices for diagnosing fever in returning travelers: standard tests, new tools and laboratory workflow tips in this webinar.
asm.social
November 17, 2025 at 7:16 PM
Join Drs. Carlos del Rio & D. Jane Hata on Dec. 11, 3 p.m. ET to discuss diagnosing fever in a returning traveler. Includes cases + insights on diagnostics & lab workflows. CE credits available! Sponsor: @biomerieux.com.
Register for free: asm.social/2GS
#ASMClinMicro
Register for free: asm.social/2GS
#ASMClinMicro