Arvind Varsani
@viralnomad.bsky.social
📤 797
📥 638
📝 26
Nomadic 'viral' scientist
#virome
#virus
#virus_evolution
#virology
🇰🇪🇿🇦🇳🇿
reposted by
Arvind Varsani
Noah Whiteman
6 days ago
AMP thought of as one-off in Drosophila may have moved around a lot…much like genes encoding antiparasitoid proteins fand pore-forming toxins in insects (see
karger.com/jin/article/...
). Extremely cool. A challenge is that short peptides present a very hard problem—discerning convergence from HGT…
add a skeleton here at some point
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Waggoner Lab
5 days ago
Deltaviruses don’t just borrow a helper virus, they can travel inside it to infect news. A literal Trojan Horse “virus-in-a-virus”🤯@viroscope.bsky.social
@karimaj.bsky.social
www.cell.com/cell/fulltex...
@cellcellpress.bsky.social
add a skeleton here at some point
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Solid Evidence
5 days ago
Happy to report that we submitted a new manuscript this week. The manuscript is abour our work untargeting wastewater sequencing as a technique for monitoring viral pathogens from wastewater.
@lennijusten.bsky.social
1/
medrxiv.org/cgi/content/...
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Deep untargeted wastewater metagenomic sequencing from sewersheds across the United States
Wastewater monitoring enables non-invasive, population-scale tracking of community infections independent of healthcare-seeking behavior and clinical diagnosis. Metagenomic sequencing extends this cap...
https://medrxiv.org/cgi/content/short/2026.03.05.26345726v1
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Kieran Healy
7 days ago
Here’s a full draft of the upcoming second edition of my “Data Visualization: A Practical Introduction”:
socviz.co
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Data Visualization
A Practical Introduction
https://socviz.co
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Mart Krupovic
10 days ago
With Eugene Koonin, we propose a concept of “the selfish ribosome”, under which evolution of life is viewed as a ribosomal takeover, where the ribosome evolved to consume most of the cell’s resources, while other cellular componentry ensures the propagation of the ribosome.
arxiv.org/abs/2602.23268
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Kranzusch Lab
23 days ago
Congratulations to Sonomi Yamaguchi for her paper at
@nature.com
. Sonomi discovered Clover defense and explained how nucleotide signals control each step of viral sensing, immune regulation, and viral restriction – named for her beautiful "four-leaf" structures 🍀
www.nature.com/articles/s41...
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Joshua Weitz
22 days ago
Three postdoctoral fellowships in quantitative biology are available as part of a new Quantitative Biology Initiative in the Department of Biology at the University of Maryland. Best consideration date: 3/14 Job Ad:
umd.wd1.myworkdayjobs.com/en-US/UMCP/j...
Department:
biology.umd.edu/people
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Post-Doctoral Associate
Job Description Summary Organization's Summary Statement: The Department of Biology at the University of Maryland, College Park seeks applications for three quantitative biology postdoctoral fellow po...
https://umd.wd1.myworkdayjobs.com/en-US/UMCP/job/University-of-Maryland-College-Park/Post-Doctoral-Associate_JR103315
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David Bhella
27 days ago
I am excited to share our latest preprint - An evolutionarily divergent herpesvirus with a giant tail. Featuring symmetry breaking and genome annotation from structure using ModelAngelo.
doi.org/10.64898/202...
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Chris Sullivan
28 days ago
Polyomaviruses are masters of persistence and dissemination: we show there are two forms of long-term persistent PyVs in the kidney: the majority being cryptic (non-shedding) and a minority that actively shed, and these fates are determined shortly after infection.
www.biorxiv.org/content/10.6...
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Gitta Coaker
about 1 month ago
www.science.org/doi/10.1126/...
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Multiple protein structure alignment at scale with FoldMason
Protein structure is conserved beyond sequence, making multiple structural alignment (MSTA) essential for analyzing distantly related proteins. Computational prediction methods have vastly extended ou...
https://www.science.org/doi/10.1126/science.ads6733
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Arvind Varsani
European Virus Bioinformatics Center
about 1 month ago
New study uncovers extensive diversity of circulating and endogenous
#amphibian
#retroviruses,
identifying 20 retrovirus transcripts across 102 species, revealing deep evolutionary patterns in vertebrate hosts.🦎🧬
#VirusEvolution
📄
https://doi.org/10.1186/s12977-025-00669-y
👤 EVBC member: Emma Harding
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Transcriptome mining reveals diversity and evolution of circulating and endogenous amphibian retroviruses - Retrovirology
Background The evolutionary history of retroviruses and their impact on vertebrate evolution remains poorly understood, particularly in non-mammalian hosts. In this study, we explore retroviruses associated with Amphibia through analysis of 169 RNA sequencing datasets from 102 amphibian species. Using a BLAST-based approach, we identified retroviral transcripts from assembled transcriptomes and phylogenetically characterise both their pol and env regions to elucidate their evolutionary history. Results We identified the transcription of 18 novel and two previously described retroviruses with closest relatives in gammaretrovirus, epsilonretrovirus, betaretrovirus and spumaretrovirinae. Despite their differing pol phylogenies, we found that all amphibian retroviruses belong to the gamma-type envelope group (GTE). This suggests a common selection pressure for amphibian retroviruses to retain GTEs. Within these GTEs we also observed a new clade of alpharetrovirus-like envelopes in amphibians which form a sister clade to avian alpharetrovirus envelopes. Furthermore, we observe correlations between amphibian taxonomical order and retroviral diversity, with Gymnophiona (caecilians) harbouring the widest diversity of retroviruses whilst Anura (frogs and toads) harbour the fewest. Through mapping these transcribed retroviruses to their respective genomes (seven available) supplemented with observing ORF intactness, we determined that 14 of the 20 retroviruses are likely endogenous in origin yet are still transcribed in many amphibian tissues. These amphibian endogenous retroviruses (ERVs) have high genomic copy numbers: most (5/7) ERVs investigated have > 100 copies, and one of which has 9,219 integrations within the Ichthyophis bannanicus caecilian genome. This high retroviral load in amphibian genomes may suggest that these retroviruses have low pathogenicity, or may reflect a lack of transposon control mechanisms in amphibian cells. Conclusions Through the characterisation of metatranscriptomic and genomic data from retroviruses in this study, we provide insights into their evolution in amphibians and exemplify the diversity of Retroviridae in vertebrate genomes. The identification of novel retroviral clades, widespread transcription of endogenous retroviruses in amphibians and abundance of ERV copies suggests that Retroviridae have played a significant role in amphibian evolution.
https://doi.org/10.1186/s12977-025-00669-y
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Rob Edwards
about 2 months ago
New 2026 iVoM series coming up! Each session includes SCR and 3 ECRs, & plenty of opportunities to interact with the speakers and ask questions. Sign up for links/updates:
docs.google.com/forms/d/1hAB...
First up: Viral Biotechnologies Wed, 28 th January at 17:00 CET / 11:00 EST / 08:00 PST
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Registration form for iVoM4
After submitting this form, you will receive the instructions to join our webinars at the email address you provide.
https://docs.google.com/forms/d/1hABmyJirdMcyrHfWX_1y0vibB_iiQFN6CdeaVqyDlCs/viewform?edit_requested=true#settings
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Beronda L. Montgomery
about 2 months ago
Grateful to
@beaverdalebooks.bsky.social
& Des Moines Botanical Garden for an amazing launch event for When Trees Testify: Science Wisdom History and America's Black Botanical Legacy. Amazing group of friends, colleagues, and new acquaintances celebrating this week's launch
#WhenTreesTestify
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Spyros Lytras
3 months ago
New preprint led by our MSc student Wenye Li!! 🎉
@systemsvirology.bsky.social
What we find is a historic genetic interplay between sarbecoviruses and their horseshoe bat hosts' ACE2 receptor! 🦇 🧵...
www.biorxiv.org/content/10.1...
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Genetic diversity in horseshoe bat ACE2 and sarbecovirus spike proteins mutually shape one another
Angiotensin-converting enzyme 2 (ACE2) serves as the entry receptor for a wide diversity of sarbecoviruses naturally harboured by horseshoe bats (genus Rhinolophus ). Despite the extensive circulation...
https://www.biorxiv.org/content/10.1101/2025.10.26.684670v1
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Pathoplexus
3 months ago
1/ 🚀 Pathoplexus now supports Marburg virus (MARV) and Ravn virus (RAVN) (sister viruses in the same genus). MARV has two main clades and causes severe disease with reported fatality rates of 24–88%. You can read more detail about adding Marburg here:
pathoplexus.org/news/2025-11...
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Arvind Varsani
The Banfield Lab
3 months ago
Out now in Nature Communications: Convergent evolution of viral-like Borg archaeal extrachromosomal elements and giant eukaryotic viruses
www.nature.com/articles/s41...
@luisvalentin.bsky.social
@lingdong-shi.bsky.social
@martianmicrobe.bsky.social
@mschoelmerich.bsky.social
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Convergent evolution of viral-like Borg archaeal extrachromosomal elements and giant eukaryotic viruses - Nature Communications
Borgs are large extrachromosomal elements of anaerobic methane-oxidizing archaea. Here, via in silico protein structure prediction of ~10,000 Borg proteins, the authors reveal that Borgs share numerou...
https://www.nature.com/articles/s41467-025-65646-7
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Mart Krupovic
3 months ago
Check out our latest paper on mirusviruses, one of the most remarkable new groups of protist viruses - extremely diverse, carry lots of spliceosomal introns (including new homing introns) and are at the evolutionary crossroads between tailed phages and herpesviruses!
www.nature.com/articles/s41...
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Widespread and intron-rich mirusviruses are predicted to reproduce in nuclei of unicellular eukaryotes - Nature Microbiology
Environmental metagenomic explorations show that Mirusviricota lineages lack essential replication and transcription genes and contain spliceosomal introns, suggesting nuclear reproduction.
https://www.nature.com/articles/s41564-025-02190-6
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Luke Hillary
4 months ago
📢 New preprint is out on bioRxiv 📢: How much does virome prep influence our view of the human gut virome? Short answer: a lot. Long answer:
doi.org/10.1101/2025...
Different methods lead to distinct community structures, richness, and major virus-host abundance patterns. 🧵 1/5
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Sam J Wilson
4 months ago
How does fever work? Our new Science paper shows how elevated body temperature can protect against severe influenza and that avian-origin viruses escape this defence. This is likely one reason why bird flus and some pandemic influenzas can be so severe.🧵
www.science.org/doi/10.1126/...
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Avian-origin influenza A viruses tolerate elevated pyrexic temperatures in mammals
Host body temperature can define a virus’s replicative profile—influenza A viruses (IAVs) adapted to 40° to 42°C in birds are less temperature sensitive in vitro compared with human isolates adapted t...
https://www.science.org/doi/10.1126/science.adq4691
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Quanta Magazine
4 months ago
According to the microbial ecologist Puri López-García, pictured here at a salt flat in the Chilean Andes, some 25% to 50% of all bacterial cells may be parasites of other cells.
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A Cell So Minimal That It Challenges Definitions of Life | Quanta Magazine
The newly described microbe represents a world of parasitic, intercellular biodiversity only beginning to be revealed by genome sequencing.
https://www.quantamagazine.org/a-cell-so-minimal-that-it-challenges-definitions-of-life-20251124/
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Robert J. Gifford
4 months ago
"The hyperreal bat: more vivid, more coherent, and more narratively satisfying than any bat in nature." Why does the idea of bats as special viral reservoirs endure? New Substack post:
robertjgifford.substack.com/p/bats-and-v...
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Bats and Viruses: Rumour, Intrigue, Deception, and Spectacle
Bats as Hyperreal Reservoirs of Viral Disease
https://robertjgifford.substack.com/p/bats-and-viruses-rumour-intrigue
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Arvind Varsani
Tominaga K. (tomiken)
4 months ago
Biogeography and host interactions of CPR and DPANN viruses in acid mine drainage sediments | Nature Communications
https://www.nature.com/articles/s41467-025-65461-0
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Biogeography and host interactions of CPR and DPANN viruses in acid mine drainage sediments - Nature Communications
The ecological role of viruses for CPR bacteria and DPANN archaea remains understudied. Here, the authors apply metagenomic approaches to study the biogeographic distribution of CPR and DPANN viruses in acid mine drainage sediments and elucidate their complex interplays.
https://www.nature.com/articles/s41467-025-65461-0
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Diversity of polyomaviruses and papillomaviruses in penguins from eastern and western Antarctica -
www.microbiologyresearch.org/content/jour...
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Diversity of polyomaviruses and papillomaviruses in penguins from eastern and western Antarctica
Polyomaviruses and papillomaviruses are icosahedral viruses with small circular dsDNA genomes. Limited information on their diversity and evolution in avian hosts is available, with even less known re...
https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.001580
4 months ago
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Arvind Varsani
Polar Observer
4 months ago
Studying penguin virology in
#Antarctica
:
@arizonastateuni.bsky.social
researchers lead in discovery of new viruses in Antarctic penguins, expanding knowledge of polar ecosystems
@viralnomad.bsky.social
news.asu.edu/b/20251124-s...
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Arvind Varsani
Dr Michelle LaRue
4 months ago
Oh no! 🧪🌎🦑🦉🦊
add a skeleton here at some point
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Gemma Langridge
5 months ago
🚨 Another funded PhD alert🚨 We are recruiting again! For a PhD student to start with us in the
@langridgelab.bsky.social
October 2026 - please share 👀 If you are interested in foodborne pathogens, public health and phage, look no further 🦠🏥🧬 ➡️
tinyurl.com/3zvavp2t
⬅️ Apply by 6 Jan 2026 🗓️
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Elin Videvall
5 months ago
📢 We have an open position for a postdoc to join my lab. It's a great position
@animecol-uu.bsky.social
, fully salaried for 2.5 years with all benefits.
www.uu.se/en/about-uu/...
The project is about transmission patterns of bacteria and antimicrobial resistance (AMR) in aquatic insects. 🧬🦠 (1/3)
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Postdoctoral researcher in molecular ecology - Uppsala University
Postdoctoral researcher in molecular ecology, Department of Ecology and Genetics, Uppsala University
https://www.uu.se/en/about-uu/join-us/jobs-and-vacancies/job-details?query=867654
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Jeremy Keown
5 months ago
warwick.ac.uk/fac/cross_fa...
I am advertising for a PhD position in my group. We'll be investigating how pathogenic RNA viruses replicate in the nucleus. The project will teach cryoEM/ET, virus culture, and in vitro assays. If you're interested reach out and I'd be happy to have a chat.
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Dr Jeremy Keown
Dr Jeremy Keown
https://warwick.ac.uk/fac/cross_fac/mibtp/phd/supervisors/JKeown/#pathogenic_RNA
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Arvind Varsani
Crystal Rogers, PhD
5 months ago
Our department
@ucdavisvetmed.bsky.social
@ucdavis.bsky.social
is hiring! We welcome research that diversifies or complements existing strengths in gastrointestinal, neuroimmune, musculoskeletal, cardiorespiratory systems and/or developmental biology.
@socdevbio.bsky.social
@ascbiology.bsky.social
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Arvind Varsani
ace-gtdb.bsky.social
5 months ago
Our
@narjournal.bsky.social
manuscript is out! It explores the growth of the GTDB (
gtdb.ecogenomic.org
) since its inception, as well as updates to the website, methodology, policies, and major taxonomic and nomenclatural changes over the past three years.
academic.oup.com/nar/advance-...
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GTDB release 10: a complete and systematic taxonomy for 715 230 bacterial and 17 245 archaeal genomes
Abstract. The Genome Taxonomy Database (GTDB; https://gtdb.ecogenomic.org) provides a phylogenetically consistent and rank normalized genome-based taxonomy
https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkaf1040/8296754
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Simon Roux
5 months ago
Now published: EnVhogDB, a large database of viral protein family HMM profiles to help functional annotation of new phage genomes -
peercommunityjournal.org/articles/10....
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EnVhogDB: an extended view of the viral protein families on Earth through a vast collection of HMM profiles
https://peercommunityjournal.org/articles/10.24072/pcjournal.627/
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Arvind Varsani
Carl Zimmer
5 months ago
Pandas, snow leopards...and bacteria. A newly formed team of scientists is setting out to conserve the world's diversity of microbes. Here's my story:
nyti.ms/47vEfRC
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Rob Klose
5 months ago
We are recuiting two new Associate Professors here in Oxford Biochemistry. Come join us! Reach out to me if you have any questions. Please repost!
tinyurl.com/mr3m7bd3
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Stefan Rothenburg
5 months ago
Now with the correct link: We reviewed the "Molecular Mechanisms of Poxvirus Evolution" We show that poxviruses have highly adaptable genomes, and are not sluggishly evolving, as often described.
journals.asm.org/doi/10.1128/...
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Arvind Varsani
Mart Krupovic
5 months ago
Check out our paper on intricate nested interactions between viruses and virus satellites of haloarchaea and their nanosized DPANN symbionts. Excellent collaboration with
@deemteam.bsky.social
,
@anagtz.bsky.social
and Michail Yakimov Free access link:
rdcu.be/eLtCH
🧵 by
@yifanzhou.bsky.social
👇
add a skeleton here at some point
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Nanami Kubota
5 months ago
Excited to see our recent paper get covered by Pitt media!
add a skeleton here at some point
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Arvind Varsani
Louise H. Moncla
5 months ago
Our lab's first paper is out! Led by Jordan Ort, we developed NextClade datasets that enable rapid H5 clade assignment via NextClade. We deployed these during the start of the H5 cattle outbreak, and we finally published the paper in Virus Evolution
academic.oup.com/ve/article/1...
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Development of avian influenza A(H5) virus datasets for Nextclade enables rapid and accurate clade assignment
Abstract. The 2022 panzootic of highly pathogenic avian influenza (HPAI) A(H5) viruses has led to unprecedented transmission to multiple mammalian species.
https://academic.oup.com/ve/article/11/1/veaf058/8221740
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Jeremy Barr
5 months ago
Very excited to share the latest work from our lab, which was published today in Nature!
nature.com/articles/s41...
PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
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Isolation, engineering and ecology of temperate phages from the human gut - Nature
Human host-associated cellular products may act as induction agents for bacteriophages.
https://nature.com/articles/s41586-025-09614-7
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Frances Separovic
5 months ago
Maud Menten was born in Canada in 1879 and completed her UG and MD education at University of Toronto. As a research assistant with Leonor Michaelis in 1912, they wrote the classic paper describing the “Michaelis-Menten” model of enzyme kinetics..
#WomenInScience
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Christian Kost
5 months ago
Check out this great opportunity to metabolically model microbial communities 👇
add a skeleton here at some point
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Jörg Vogel
5 months ago
Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.
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Asher Leeks
5 months ago
I gave a talk last year at TEDxNewEngland aimed at introducing the idea of viral sociality to a general audience, including implications for evolution & virology. Video now available online below.
#socialviruses
#evosky
#virosky
🧪
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The social lives of viruses | Asher Leeks | TEDxNewEngland
YouTube video by TEDx Talks
https://www.youtube.com/watch?v=t3hjnRL5y7E
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RCSB Protein Data Bank
5 months ago
The genome of ebola virus contains instructions for building seven proteins, which assemble with the genomic RNA to form one of the deadliest viruses.
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PDB101: Molecule of the Month: Ebola Virus Proteins
Structures of ebola virus proteins are giving new hope for fighting this deadly virus
https://pdb101.rcsb.org/motm/178
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Jessica Metcalf
5 months ago
Benny and Estelle about talking about malaria and cyclones on Wednesday 8th at 12:00 EST:
duke.zoom.us/meeting/regi...
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Welcome! You are invited to join a meeting: Club EvMed - Extreme Weather and Malaria Control. After registering, you will receive a confirmation email about joining the meeting.
Welcome! You are invited to join a meeting: Club EvMed - Extreme Weather and Malaria Control. After registering, you will receive a confirmation email about joining the meeting.
https://duke.zoom.us/meeting/register/ambgeFXlQWuiZoAtyHpHzw#/registration
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Tominaga K. (tomiken)
5 months ago
A functional cyanophage thioredoxin increases competitive phage fitness | bioRxiv
https://www.biorxiv.org/content/10.1101/2025.10.05.680603v1
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A functional cyanophage thioredoxin increases competitive phage fitness
Thioredoxins are ubiquitous redox proteins that are found in all domains of life. These conserved proteins are also found in many phages, including marine cyanophages that infect the ecologically important marine cyanobacteria. However, their role in phage infection is not known. Cyanophages also carry many small genes lacking homology to known functional domains. Whether these have a functional role or not remains unknown. Here, we explore the distribution and role of a cyanophage thioredoxin (trxA), and that of a small gene directly downstream of it (g26), in phage infection. For this we used the T7-like cyanophage, Syn5, which infects an open-ocean marine Synechococcus strain, WH8109. We found that thioredoxin genes are common in phage genomes, including in cyanophages. The g26 gene, however, is restricted in it distribution to the cyanophages. The cyanophage thioredoxin is catalytically active and it increases phage DNA replication, progeny production and competitive fitness. It also negatively impacts host growth. The g26 gene product is translationally coupled to, and thus dependent on, translation of the thioredoxin gene. This gene itself significantly increases phage virulence and fitness, yet reduces burst size. Our findings demonstrate that cyanophage thioredoxins impact phage fitness and infection physiology and that small viral genes with no homology to known genes can play an important role in the infection process. These findings provide insights into the importance of unusual genes in phage genomes and show that they are likely to play an important role in the interactions between abundant cyanobacteria and cyanophages in ocean ecosystems. ### Competing Interest Statement The authors have declared no competing interest.
https://www.biorxiv.org/content/10.1101/2025.10.05.680603v1
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Oliver Bossdorf
5 months ago
JOB ALERT! Do you also love large ecological experiments? Become coordinator of our big new geo-biosphere experiment in
@terra-cluster.org
. 7-year position! Follow link for details.
@gfoesoc.bsky.social
@britishecologicalsociety.org
@ecologicalsociety.bsky.social
@uslter.bsky.social
Please repost!
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Stellenangebote: Universität Hohenheim
Aktuelle Stellenangebote der Universität Hohenheim.
https://www.uni-hohenheim.de/stellenangebote?tx_unijobs_joboffers%5Bjoboffer%5D=4313&tx_unijobs_joboffers%5Baction%5D=show&tx_unijobs_joboffers%5Bcontroller%5D=Joboffer&cHash=e7ae7a82d04f0d7f01b79edb41ac2534
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Dr Michelle LaRue
5 months ago
When I was on the ice w Nat Geo, we visited the emperor penguins at Atka Bay which is a colony that hops up onto the ice shelf rather than staying only on sea ice. This means that when chicks fledge they have a high-dive of a jump to reach the water. Which they do. With spectacular inelegance. 🧪🌍🦑🦉
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Greg Copenhaver
5 months ago
The
@uncchapelhill.bsky.social
Department of Biology is searching for tenure-track Assistant Professor in Plant Molecular Biology. Chapel Hill is a wonderful place and Biology is an amazing group of people. To apply, see:
unc.peopleadmin.com/postings/307...
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Kerry J. Laing, PhD
5 months ago
Our little herpes vaccine study got published. Thanks to coauthors and study sites and volunteers. Also, thanks to the reviewers for appreciating the scientific contributions despite the limitations of a small trial. 🧪💉https://www.sciencedirect.com/science/article/pii/S0264410X25011181
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Safety and immunogenicity of investigational herpes simplex virus-2 vaccines in adults with recurrent genital infection
HSV529 and G103 are investigational therapeutic vaccines for genital herpes. HSV529 is a replication-defective HSV-2. G103 contains three recombinant …
https://www.sciencedirect.com/science/article/pii/S0264410X25011181
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Spyros Lytras
6 months ago
New exciting resource published!! The Viro3D paper is out, describing our comprehensive database of predicted virus protein structures! 💻🧬 Work with
@ulad-litvin.bsky.social
,
@grovearmada.bsky.social
, Alex Jack,
@bljog.bsky.social
,
@davidlrobertson.bsky.social
www.embopress.org/doi/full/10....
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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...
https://www.embopress.org/doi/full/10.1038/s44320-025-00147-9
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