Khalimat Murtazalieva
@khalimat.bsky.social
PhD student interested in molecular arms race and protein biology @cam.ac.uk.
MD, Russian National Research Medical University.
MD, Russian National Research Medical University.
Pinned
Elucidating the mechanisms of action and evolutionary history of phage anti-defence proteins
Phages and bacteria are locked in a molecular arms race, with phage anti-defence proteins (ADPs) enabling them to evade bacterial immune systems. To streamline access to information on ADPs, we develo...
www.biorxiv.org
Very excited to share our preprint on a new resource: the Encyclopaedia of Viral Anti-Defence Systems (EVADES)! This is the main result of my PhD at EMBL-EBI (@ebi.embl.org)
and the University of Cambridge (@cam.ac.uk)! 🔗 www.biorxiv.org/content/10.1... 🧵1/n"
and the University of Cambridge (@cam.ac.uk)! 🔗 www.biorxiv.org/content/10.1... 🧵1/n"
Reposted by Khalimat Murtazalieva
Thinking about your first steps to independent research? We'd love to hear from you. More details below, or contact me directly for details - reposts appreciated!
www.nature.com/naturecareer...
www.nature.com/naturecareer...
Biomolecular Science Fellowship Day - St Andrews, Fife (GB) job with UNIVERSITY OF ST ANDREWS | 12848597
The School of Biology at the University of St Andrews is inviting applications from outstanding visionary Research Fellow and Future Leader candida...
www.nature.com
November 10, 2025 at 4:44 PM
Thinking about your first steps to independent research? We'd love to hear from you. More details below, or contact me directly for details - reposts appreciated!
www.nature.com/naturecareer...
www.nature.com/naturecareer...
www.bbc.co.uk/news/live/cm...
Scary and sad news 📰.
Scary and sad news 📰.
Nine people with life-threatening injuries after mass stabbing on train in Cambridgeshire - latest
A total of 10 people are in hospital following the stabbings, as police declare a
www.bbc.co.uk
November 2, 2025 at 1:12 AM
www.bbc.co.uk/news/live/cm...
Scary and sad news 📰.
Scary and sad news 📰.
Reposted by Khalimat Murtazalieva
Reposted by Khalimat Murtazalieva
New article alert: Bacterial TIR-based immune systems sense phage capsids to initiate defense
Out now in Nature Microbiology by Cameron G. Roberts, Chloe B. Fishman, Zhiying Zhang, Dalton V. Banh, Dinshaw J. Patel & Luciano A. Marraffini
#microsky
www.nature.com/articles/s41...
Out now in Nature Microbiology by Cameron G. Roberts, Chloe B. Fishman, Zhiying Zhang, Dalton V. Banh, Dinshaw J. Patel & Luciano A. Marraffini
#microsky
www.nature.com/articles/s41...
Bacterial TIR-based immune systems sense phage capsids to initiate defense - Nature Microbiology
After sensing capsids, the Thoeris antiphage defense system triggers a cascade that leads to NAD+ cleavage and cell arrest, which are dynamics that are mirrored in some mammalian immune pathways.
www.nature.com
October 24, 2025 at 5:23 PM
New article alert: Bacterial TIR-based immune systems sense phage capsids to initiate defense
Out now in Nature Microbiology by Cameron G. Roberts, Chloe B. Fishman, Zhiying Zhang, Dalton V. Banh, Dinshaw J. Patel & Luciano A. Marraffini
#microsky
www.nature.com/articles/s41...
Out now in Nature Microbiology by Cameron G. Roberts, Chloe B. Fishman, Zhiying Zhang, Dalton V. Banh, Dinshaw J. Patel & Luciano A. Marraffini
#microsky
www.nature.com/articles/s41...
Reposted by Khalimat Murtazalieva
We train machine learning models on millions of proteins. But when it comes to making predictions, do we need them to understand all proteins at once? Often, we need an accurate model for the specific protein we are studying or designing. We address this with ProteinTTT arxiv.org/abs/2411.02109 1/🧵
October 23, 2025 at 1:08 PM
We train machine learning models on millions of proteins. But when it comes to making predictions, do we need them to understand all proteins at once? Often, we need an accurate model for the specific protein we are studying or designing. We address this with ProteinTTT arxiv.org/abs/2411.02109 1/🧵
Reposted by Khalimat Murtazalieva
My lab is hiring postdocs! We combine AI, protein structure prediction and comparison, and high-throughput virology to study the virus-host conflict.
You can read more about my lab's research here: jasonnomburg.com/research/
Apply here to join us in lovely Vienna! aithyra.onlyfy.jobs/job/0khkxp82
You can read more about my lab's research here: jasonnomburg.com/research/
Apply here to join us in lovely Vienna! aithyra.onlyfy.jobs/job/0khkxp82
The Starting Principal Investigators at #AITHYRA the Research Institute for Biomedical Artificial Intelligence of the OeAW in Vienna invite outstanding candidates to apply for postdoctoral positions in the field of AI/ML & Life Sciences.
www.oeaw.ac.at/aithyra/post...
Please apply by 20 Nov 2025!
www.oeaw.ac.at/aithyra/post...
Please apply by 20 Nov 2025!
October 20, 2025 at 1:03 PM
My lab is hiring postdocs! We combine AI, protein structure prediction and comparison, and high-throughput virology to study the virus-host conflict.
You can read more about my lab's research here: jasonnomburg.com/research/
Apply here to join us in lovely Vienna! aithyra.onlyfy.jobs/job/0khkxp82
You can read more about my lab's research here: jasonnomburg.com/research/
Apply here to join us in lovely Vienna! aithyra.onlyfy.jobs/job/0khkxp82
Reposted by Khalimat Murtazalieva
Set to run for 25 years, the effort will produce multiomic maps not just for monkeys but for developing, adult, aging, and diseased human brains from diverse populations. https://scim.ag/4o44CDP
China launches ambitious collaboration to map primate brains—including ours
25-year plan will tap brain-mapping prowess in two dozen countries to visualize the organ in unprecedented detail
scim.ag
October 19, 2025 at 6:43 PM
Set to run for 25 years, the effort will produce multiomic maps not just for monkeys but for developing, adult, aging, and diseased human brains from diverse populations. https://scim.ag/4o44CDP
Reposted by Khalimat Murtazalieva
Now published: EnVhogDB, a large database of viral protein family HMM profiles to help functional annotation of new phage genomes - peercommunityjournal.org/articles/10....
EnVhogDB: an extended view of the viral protein families on Earth through a vast collection of HMM profiles
peercommunityjournal.org
October 18, 2025 at 7:58 AM
Now published: EnVhogDB, a large database of viral protein family HMM profiles to help functional annotation of new phage genomes - peercommunityjournal.org/articles/10....
Reposted by Khalimat Murtazalieva
🦠🐘 From bacteria to the elephant ... with a twist. Eukaryotic telomerases originate in antiphage reverse transcriptases 🤯.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Genome maintenance by telomerase is a fundamental process in nearly all eukaryotes. But where does it come from?
Today, we report the discovery of telomerase homologs in a family of antiviral reverse transcriptases, revealing an unexpected evolutionary origin in bacteria.
doi.org/10.1101/2025...
Today, we report the discovery of telomerase homologs in a family of antiviral reverse transcriptases, revealing an unexpected evolutionary origin in bacteria.
doi.org/10.1101/2025...
October 17, 2025 at 5:43 PM
🦠🐘 From bacteria to the elephant ... with a twist. Eukaryotic telomerases originate in antiphage reverse transcriptases 🤯.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Mindblowing discovery from @stephentang23.bsky.social @sternberglab.bsky.social.
Such an incredible exaptation event uncovered through molecular genetics and genomics.
Reposted by Khalimat Murtazalieva
Perfect timing in the field for a beautiful review on NAD+ in bacterial immunity by @hugovaysset.bsky.social and @audeber.bsky.social @cp-molcell.bsky.social
#MicroSky
www.cell.com/molecular-ce...
#MicroSky
www.cell.com/molecular-ce...
October 16, 2025 at 2:58 PM
Perfect timing in the field for a beautiful review on NAD+ in bacterial immunity by @hugovaysset.bsky.social and @audeber.bsky.social @cp-molcell.bsky.social
#MicroSky
www.cell.com/molecular-ce...
#MicroSky
www.cell.com/molecular-ce...
Reposted by Khalimat Murtazalieva
Absolutely mind-blowing, I can’t wait to read it! I have always considered the immune system the most powerful in the body, but it’s still surprising to see the interplay between the cGAS pathway and aging.
The secret to the naked mole-rats’ extraordinarily long life may lie in subtle changes to just four amino acids, researchers report in Science. https://scim.ag/3IUquTb
A cGAS-mediated mechanism in naked mole-rats potentiates DNA repair and delays aging
Efficient DNA repair might make possible the longevity of naked mole-rats. However, whether they have distinctive mechanisms to optimize functions of DNA repair suppressors is unclear. We find that na...
scim.ag
October 15, 2025 at 7:55 PM
Absolutely mind-blowing, I can’t wait to read it! I have always considered the immune system the most powerful in the body, but it’s still surprising to see the interplay between the cGAS pathway and aging.
Reposted by Khalimat Murtazalieva
Our latest work reveals that arbitrium phages cross-communicate across species! These tiny viruses “listen” to signals from others, coordinating lysis-lysogeny decisions across species.
Original idea from @albertomarina.bsky.social and, as usual, he was right.
www.biorxiv.org/content/10.1...
Original idea from @albertomarina.bsky.social and, as usual, he was right.
www.biorxiv.org/content/10.1...
Phages communicate across species to shape microbial ecosystems
Arbitrium is a communication system that helps bacteriophages decide between lysis and lysogeny via secreted peptides. In arbitrium, the AimP peptide binds its cognate AimR receptor to repress aimX ex...
www.biorxiv.org
October 14, 2025 at 1:36 PM
Our latest work reveals that arbitrium phages cross-communicate across species! These tiny viruses “listen” to signals from others, coordinating lysis-lysogeny decisions across species.
Original idea from @albertomarina.bsky.social and, as usual, he was right.
www.biorxiv.org/content/10.1...
Original idea from @albertomarina.bsky.social and, as usual, he was right.
www.biorxiv.org/content/10.1...
Reposted by Khalimat Murtazalieva
Crazy but true: This is a real image captured by the Cassini spacecraft.
Dione in front of Saturn, captured by Cassini 20 years ago today on October 11, 2005 🌖🪐
October 12, 2025 at 2:30 AM
Crazy but true: This is a real image captured by the Cassini spacecraft.
Reposted by Khalimat Murtazalieva
new preprint from our group & Antoine Hocher: www.biorxiv.org/content/10.1...
A fantastic collaboration with Antoine, with Jovana Kaljevic' initiated the collaboration and drives the project.
A fantastic collaboration with Antoine, with Jovana Kaljevic' initiated the collaboration and drives the project.
Versatile NTP recognition and domain fusions expand the functional repertoire of the ParB-CTPase fold beyond chromosome segregation
Nucleotide triphosphate (NTP)-dependent molecular switches regulate essential cellular processes by cycling between active and inactive states through nucleotide binding and hydrolysis. These mechanis...
www.biorxiv.org
October 11, 2025 at 11:36 AM
new preprint from our group & Antoine Hocher: www.biorxiv.org/content/10.1...
A fantastic collaboration with Antoine, with Jovana Kaljevic' initiated the collaboration and drives the project.
A fantastic collaboration with Antoine, with Jovana Kaljevic' initiated the collaboration and drives the project.
Reposted by Khalimat Murtazalieva
hosting.northumbria.ac.uk/nu-omics/vom...
#phagesky #phage #microsky
Come and join us for Viruses of Microbes UK 2026 at @northumbriauni.bsky.social ! Fantastic chance for ECRs to showcase their work 🙂
#phagesky #phage #microsky
Come and join us for Viruses of Microbes UK 2026 at @northumbriauni.bsky.social ! Fantastic chance for ECRs to showcase their work 🙂
VOM-UK Conferences - NU-OMICS
Viruses of Microbes UK (VoM-UK) Conference The Virus of Microbes UK (VoM-UK) Conference is hosted by Microbiome Excellence Peak of Excellence at Northumbria University. This two-day conference takes place annually at the end of January/beginning of February and is a chance for researchers to gather and share their knowledge. The VoM-UK conference is designed to […]
hosting.northumbria.ac.uk
October 9, 2025 at 9:21 AM
hosting.northumbria.ac.uk/nu-omics/vom...
#phagesky #phage #microsky
Come and join us for Viruses of Microbes UK 2026 at @northumbriauni.bsky.social ! Fantastic chance for ECRs to showcase their work 🙂
#phagesky #phage #microsky
Come and join us for Viruses of Microbes UK 2026 at @northumbriauni.bsky.social ! Fantastic chance for ECRs to showcase their work 🙂
Reposted by Khalimat Murtazalieva
Today in @nature.com , we highlight how a cousin of CRISPR-Cas10, mCpol, establishes an evolutionary trap in anti-phage immune systems.
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
A miniature CRISPR–Cas10 enzyme confers immunity by inhibitory signalling - Nature
Panoptes, an anti-phage defence system against virus-mediated immune suppression, is revealed.
www.nature.com
October 1, 2025 at 5:57 PM
Today in @nature.com , we highlight how a cousin of CRISPR-Cas10, mCpol, establishes an evolutionary trap in anti-phage immune systems.
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
Check out @erinedoherty.bsky.social and my work from @doudna-lab.bsky.social lab here:
www.nature.com/articles/s41...
Reposted by Khalimat Murtazalieva
Our story describing the Panoptes bacterial immune defense system is now finally peer-reviewed and published today! www.nature.com/articles/s41...
The Panoptes system uses decoy cyclic nucleotides to defend against phage - Nature
The Panoptes antiphage system defends bacteria by detecting phage-encoded counter-defences that sequester cyclic nucleotide signals, triggering membrane disruption and highlighting a broader strategy of sensing immune evasion through second-messenger surveillance.
www.nature.com
October 1, 2025 at 4:05 PM
Our story describing the Panoptes bacterial immune defense system is now finally peer-reviewed and published today! www.nature.com/articles/s41...
Reposted by Khalimat Murtazalieva
>18,000 new genomes of giant DNA viruses! An incredible trove of new genes and insights into evolution of host-virus interactions from @fmschu.bsky.social and @jgi.doe.gov
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
September 29, 2025 at 7:10 PM
>18,000 new genomes of giant DNA viruses! An incredible trove of new genes and insights into evolution of host-virus interactions from @fmschu.bsky.social and @jgi.doe.gov
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Khalimat Murtazalieva
Viro3D paper is out! We predicted 85,000 protein structures from human & animal viruses. 1/5 🧵
📑 Paper doi.org/10.1038/s443...
🔭 Explore virosphere viro3d.cvr.gla.ac.uk
📑 Paper doi.org/10.1038/s443...
🔭 Explore virosphere viro3d.cvr.gla.ac.uk
Viro3D: a comprehensive database of virus protein structure predictions | Molecular Systems Biology
imageimageViro3D provides proteome-level, high confidence AI-protein structure predictions for
>4,400 viruses, allowing mapping of form and function across the human and animal
virosphere. Viro3D i...
doi.org
September 26, 2025 at 2:06 PM
Viro3D paper is out! We predicted 85,000 protein structures from human & animal viruses. 1/5 🧵
📑 Paper doi.org/10.1038/s443...
🔭 Explore virosphere viro3d.cvr.gla.ac.uk
📑 Paper doi.org/10.1038/s443...
🔭 Explore virosphere viro3d.cvr.gla.ac.uk
Reposted by Khalimat Murtazalieva
Antimicrobial resistance (AMR) causes over a million deaths each year, and is rising.
Scientists analysed 40,000 bacterial plasmids across 100 years and six continents, to reveal that a few plasmids evolved after antibiotic use to drive most multi-drug resistance.
www.ebi.ac.uk/about/news/r...
🧬💻
Scientists analysed 40,000 bacterial plasmids across 100 years and six continents, to reveal that a few plasmids evolved after antibiotic use to drive most multi-drug resistance.
www.ebi.ac.uk/about/news/r...
🧬💻
September 26, 2025 at 12:04 PM
Antimicrobial resistance (AMR) causes over a million deaths each year, and is rising.
Scientists analysed 40,000 bacterial plasmids across 100 years and six continents, to reveal that a few plasmids evolved after antibiotic use to drive most multi-drug resistance.
www.ebi.ac.uk/about/news/r...
🧬💻
Scientists analysed 40,000 bacterial plasmids across 100 years and six continents, to reveal that a few plasmids evolved after antibiotic use to drive most multi-drug resistance.
www.ebi.ac.uk/about/news/r...
🧬💻
Reposted by Khalimat Murtazalieva
With this, the last bit of my PhD at @embl.org is finally out!
We developed salad (sparse all-atom denoising), a family of blazing fast protein structure diffusion models.
Paper: nature.com/articles/s42256-…
Code: github.com/mjendrusch/salad
Data: zenodo.org/records/14711580
1/🧵
We developed salad (sparse all-atom denoising), a family of blazing fast protein structure diffusion models.
Paper: nature.com/articles/s42256-…
Code: github.com/mjendrusch/salad
Data: zenodo.org/records/14711580
1/🧵
‘Salad’ – a new AI model from EMBL scientists – offers major improvements in synthetic protein design.
Salad is significantly faster than comparable methods, and designing proteins that don't exist in nature can have applications in many scientific fields.
www.nature.com/articles/s42...
Salad is significantly faster than comparable methods, and designing proteins that don't exist in nature can have applications in many scientific fields.
www.nature.com/articles/s42...
September 24, 2025 at 12:27 PM
With this, the last bit of my PhD at @embl.org is finally out!
We developed salad (sparse all-atom denoising), a family of blazing fast protein structure diffusion models.
Paper: nature.com/articles/s42256-…
Code: github.com/mjendrusch/salad
Data: zenodo.org/records/14711580
1/🧵
We developed salad (sparse all-atom denoising), a family of blazing fast protein structure diffusion models.
Paper: nature.com/articles/s42256-…
Code: github.com/mjendrusch/salad
Data: zenodo.org/records/14711580
1/🧵
Reposted by Khalimat Murtazalieva
The co-localizing Zorya II, Druantia III, and ARMADA II defense systems on O-island 172 confer synergistic anti-phage defense in enterohemorrhagic Escherichia coli https://www.biorxiv.org/content/10.1101/2025.09.22.677730v1
September 24, 2025 at 4:17 PM
The co-localizing Zorya II, Druantia III, and ARMADA II defense systems on O-island 172 confer synergistic anti-phage defense in enterohemorrhagic Escherichia coli https://www.biorxiv.org/content/10.1101/2025.09.22.677730v1
Reposted by Khalimat Murtazalieva
Excited to annouce the latest research published by our lab, which is led by Dinesh Subedi and is out today in Nature Microbiology.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Rational design of a hospital-specific phage cocktail to treat Enterobacter cloacae complex infections - Nature Microbiology
The Entelli-02 phage product containing five phages has frontline potential to address infections caused by the multidrug-resistant Enterobacter cloacae complex.
www.nature.com
September 24, 2025 at 12:20 PM
Excited to annouce the latest research published by our lab, which is led by Dinesh Subedi and is out today in Nature Microbiology.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Drafted the thesis 💃🎉, so hopefully 🤞 I’ll have time to clean the apartment and go to the gym 😅.
September 22, 2025 at 5:07 PM
Drafted the thesis 💃🎉, so hopefully 🤞 I’ll have time to clean the apartment and go to the gym 😅.