Lightnews — Scholar-powered news

Simon Roux

@simrouxvirus.bsky.social

3.7K followers 1.7K following 170 posts

Virus-obsessed bioinformatician, DOE JGI Scientist, Enjoy exploring the viral world with #metagenomics and other cool #omics toys. He/him. Opinions my own.

Videos

Environmental science 40%

Biology 33%

Posts Media Videos Starter Packs

Reposted by Simon Roux, Mart Krupovìč

Frédérique Le Roux @fredoleroux.bsky.social · 14h

Phages evolve fast, or do they?
In oysters, some stay identical for years.
With >1,200 phages & 600 Vibrio genomes, we reveal long-term stability and new mobile elements.
Proud of this collaborative work across our teams (Roscoff-UdeM and @epcrocha.bsky.social www.biorxiv.org/cgi/content/...

Ecological constraints foster both extreme viral-host lineage stability and mobile element diversity in a marine community

Phages are typically viewed as very rapidly evolving biological entities. Little is known, however, about whether and how phages can establish long-term genetic stability. We addressed this eco-evolut...

www.biorxiv.org

31 47

Reposted by Peter Thorne, Simon Roux, John Mullahy , and 3 more Peter Thorne, Simon Roux, John Mullahy, Rebecca Tushnet, David R. Miller, Stacy D. VanDeveer

Kevin M. Kruse @kevinmkruse.bsky.social · 18h

In honor of spooky month, share a 4 word horror story that only someone in your profession would understand:

Archives banned making copies.

Natasha Simonova @philistella.bsky.social · 19h

In honor of spooky month, share a 4 word horror story that only someone in your profession would understand:

New library catalogue website.

🏰meg⚔️ @Birthright Audiobook! @impavid.us · 3d

In honor of spooky month, share a 4 word horror story that only someone in your profession would understand

I'll go first: Six page commercial lease.

300 38 560

Reposted by Simon Roux

Brett Collins @brettcollins.bsky.social · 1d

Open Group Leader Positions at the IMB, UQ. Interested in joining us in sunny Queensland?

Group Leader - Institute for Molecular Bioscience (IMB)

Institute for Molecular Bioscience Join a university ranked in the world’s top 50 Australia’s #1 research institute Based at St Lucia Campus About UQ What started as Queensland's first university in 1...

uq.wd3.myworkdayjobs.com

18 19

Reposted by Jonathan A. Eisen, Simon Roux, Mya Breitbart

Rob Edwards @linsalrob.bsky.social · 1d

🦠Join the legendary @viromegirl.bsky.social lab

Jobs in marine micro, virology & genomics
💻 Viral 'omics in seagrass
🧬 Marine microbial & bioinformatics
🧫 Vibrio phage + iron biogeochemistry
🎓 sea urchin–ciliate diseases

👉 www.marine.usf.edu/genomics/app...

#MarineVirology #Phagesky #Microbiome

Welcome to the Breitbart Lab - Genomics

We are modern virus hunters, using metagenomic sequencing to discover viruses in a wide range of environments and hosts. Have fun exploring the marvels of microbiology on this website!

marine.usf.edu

1 20 18

Reposted by Simon Roux, Wolfgang Huber, Larry W. Hunter , and 1 more Simon Roux, Wolfgang Huber, Larry W. Hunter, Alan McNally

Ewan Birney @ewanbirney.bsky.social · 3d

I am hiring! - looking for a Staff Scientist to co-run my research group with me. Staff Scientist is a senior professional scientist role at EMBL. Please forward to people you might know who could be interested! embl.wd103.myworkdayjobs.com/en-US/EMBL/j...

Staff Scientist

About EMBL-EBI EMBL’s European Bioinformatics Institute is a data powerhouse, utilised on a global scale to advance scientific discovery through bioinformatics and solutions to some of the world’s mos...

embl.wd103.myworkdayjobs.com

1 78 72

Reposted by Simon Roux

Oded Rechavi @odedrechavi.bsky.social · 3d

Post docs who bring their own funding

1 10 100

Reposted by Simon Roux, Alan McNally

The Lancet Microbe @lancetmicrobe.bsky.social · 3d

New research article

Evaluation of bacteriophages as a signature of #microbiome health: a systematic review and meta-analysis

www.thelancet.com/journals/lan...

#IDSky #ClinMicro #ViroSky #Phage #OpenAccess #OA

2 6 9

Reposted by Simon Roux, Eric Thompson, Larry W. Hunter , and 1 more Simon Roux, Eric Thompson, Larry W. Hunter, Marc A. Martı́-Renom

The Francis Crick Institute @crick.ac.uk · 3d

We're now recruiting early career group leaders at the Crick to lead ambitious research programmes and explore bold scientific questions.

Hear our Director, Edith Heard, explain why the Crick is a unique place for curiosity-driven research.

Apply now ➡️ www.crick.ac.uk/careers-stud...

110 130

Reposted by Simon Roux

Antti Karkman @anttikarkman.bsky.social · 3d

Why not visit Helsinki next winter? There might be snow.

Abstract submission is open for the Nordic AMR Research Centre Conference 2026.

www.helsinki.fi/en/conferenc...

Nordic AMR Research Centre Conference 2026 | University of Helsinki

4-6 March 2026, Helsinki, Finland

www.helsinki.fi

1 1

Reposted by Simon Roux

Tom Williams @tweethinking.bsky.social · 4d

There's a PhD position now available with me in Bath, on the evolution of symbiosis. www.findaphd.com/phds/project.... The supervisory team also includes @anja1.bsky.social @phil-donoghue.bsky.social and others. NB, this is open both to UK-based students *and* to international students :)

The genomic basis of symbiotic integration at University of Bath on FindAPhD.com

PhD Project - The genomic basis of symbiotic integration at University of Bath, listed on FindAPhD.com

www.findaphd.com

28 22

Reposted by Simon Roux

Eduardo Gigante @edgigante.bsky.social · 4d

There are amazing, once-in-a-generation people working at CDC and I am just so lucky to be married to one of them.

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

Patterns of genomic deletions in monkeypox virus during the 2022 outbreak in the United States - Nature Communications

Genomic deletions in poxviruses are not well understood, the authors found large deletions in >2% of Mpox virus genomes during routine surveillance, highlighting their role in poxvirus evolution and potential impact on diagnostics and therapeutics.

www.nature.com

2 6

Reposted by Simon Roux, Jason Stajich

Rob Patro @robp.bsky.social · 4d

And it's posted! If you're interested and eligible, please consider applying through the UMD portal: umd.wd1.myworkdayjobs.com/en-US/UMCP/j....

If you're a PI working in algorithmic genomics (& you can recommend my lab to your top graduating students ;P), please let them know!

18 18

Reposted by Simon Roux, Stephen D. Murphy

Cathy Hernandez @cathyhernandez.bsky.social · 4d

Very happy to share that I will be starting as an Assistant Professor in the department of Biological Sciences at the University of South Carolina in January! My group will be working on environmental phage ecology and evolution, and I am recruiting for the upcoming year (more info below).

A graphic advertising phage ecology and evolution research at the University of South Carolina, showing a central image of a tide pool flanked by a photo of an agar plate containing diverse microbes and a TEM image of a virus particle.

6 26 71

Reposted by Simon Roux, Marc Strous

Cameron Thrash @jcamthrash.bsky.social · 4d

Direct single-molecule detection and super-resolution imaging with a low-cost portable smartphone-based microscope www.nature.com/articles/s41... #jcampubs

Direct single-molecule detection and super-resolution imaging with a low-cost portable smartphone-based microscope - Nature Communications

Loretan and colleagues present a low-cost smartphone-based microscope capable of detecting single-molecule fluorescence. This approach opens doors to personalised and widely distributed applications in diagnostics, biosensing, and science education.

www.nature.com

18 38

Reposted by Simon Roux

SciLifeLab @scilifelab.se · 4d

We’re launching a major #recruitment call for staff scientists in #ComputationalBiology, #DataScience, and #AI to strengthen Sweden’s life science research. 🧪🖥️

Positions are based at SciLifeLab sites across Sweden’s leading universities.

Learn more and apply ↓
www.scilifelab.se/news/scilife...

SciLifeLab launches major recruitment call for staff scientists in computational biology, data science and AI

Computational methods and artificial intelligence on large-scale molecular data are transforming the study of biological systems and processes, ranging from molecular structures and cellular processes...

www.scilifelab.se

11 13

Reposted by Simon Roux

Steven Cook @dumpyunc.bsky.social · 5d

Our group at the Allen Institute is recruiting a technician and postdoc to work on light microscopy-based connectomics. Please DM me or share with anyone you think may be interested in this NIH BRAIN CONNECTS funded project.

1 27 23

Reposted by Simon Roux

Claus Wilke @clauswilke.com · 5d

Biology is much more complicated than most non-biologists can imagine. And AI is not going to change this anytime soon.
blog.genesmindsmachines.com/p/we-still-c...

We still can’t predict much of anything in biology

Biology is hard. Yes, even for AI.

blog.genesmindsmachines.com

5 60 160

Reposted by Simon Roux

Dr. Kat Napaaqtuk❄️ @napaaqtuk.bsky.social · 6d

I have a fabulous undergrad who has a lot of experience with QIIME2 & using R to analyze microbiome data. She is looking for a job starting in January. Would love to learn more bench and field skills (will be getting some in her last 2 months). Open to academic, industry, government jobs in the US.

1 28 29

Reposted by Ben Bond‐Lamberty, Simon Roux

Oliver Bossdorf @bossdorf.bsky.social · 6d

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!

Stellenangebote: Universität Hohenheim

Aktuelle Stellenangebote der Universität Hohenheim.

www.uni-hohenheim.de

1 40 27

Reposted by Simon Roux, Joshua S. Weitz

David Demory @d2mory.bsky.social · 6d

Happy to share our new work on Temperature-driven biogeography of marine viruses infecting Micromonas:
academic.oup.com/ismecommun/a...

Temperature-driven biogeography of marine giant viruses infecting picoeukaryotes Micromonas

Abstract. Climate shapes the biogeography of microbial and viral communities in the ocean. Among abiotic factors, temperature is one of the main drivers of

academic.oup.com

1 4 9

Reposted by Simon Roux, Mart Krupovìč

The Daum Lab @daumlab.bsky.social · 6d

Out in Science Advances: Our #cryoEM structure of HFTV1, a virus infecting the halophile #archaea. *First full atomic structure (containing all structural proteins) of any tailed virus!* Congrats and thanks to all co-authors and our fantastic collaborators! www.science.org/doi/10.1126/...

Cryo-EM resolves the structure of the archaeal dsDNA virus HFTV1 from head to tail

This structure of an archaeal tailed virus (arTV) provides detailed insights into arTV assembly and infection mechanisms.

www.science.org

52 130

Reposted by Jesse M. Shapiro, Simon Roux, José R. Penadés , and 1 more Jesse M. Shapiro, Simon Roux, José R. Penadés, Alan McNally

Michael Brockhurst @brockhurstlab.bsky.social · 7d

New preprint!

Ever wondered why only a fraction of genomes encode CRISPR immunity? 🧬 🦠

Turns out CRISPR is rarely beneficial against virulent phages, being most beneficial against those for which resistance mutations are rare!

An epic effort by Rosanna Wright

www.biorxiv.org/content/10.1...

Resistance mutation supply modulates the benefit of CRISPR immunity against virulent phages

Only a fraction of bacterial genomes encode CRISPR-Cas systems but the selective causes of this variation are unexplained. How naturally virulent bacteriophages (phages) select for CRISPR immunity has...

www.biorxiv.org

3 46 92

Reposted by Simon Roux, Elena Litchman, Jennifer Pett‐Ridge , and 2 more Simon Roux, Elena Litchman, Jennifer Pett‐Ridge, Chris Marshall, Larry W. Hunter

Erin Green @erinrgreen.bsky.social · 8d

Job alert ‼️ UChicago Micro is hiring! Open to tenured/tenure track faculty at all levels in any area of microbiology. Come join our amazing and growing department. apply.interfolio.com/174404

4 130 130

Reposted by Simon Roux

Andressa M. Venturini @aventurini.bsky.social · 9d

Assembling MAGs from Amazonian soils is a challenge, but it has become one of our most useful tools to understand these complex communities. Check out our new paper at MRA @asm.org doi.org/10.1128/mra.... in collaboration with @louberrios.bsky.social @jubgontijo.bsky.social @mykophile.bsky.social

A catalog of metagenome-assembled genomes from Amazonian forest and pasture soils | Microbiology Resource Announcements

Our group previously recovered 64 bacterial and 5 archaeal metagenome-assembled genomes (MAGs) from Amazonian forest and pasture soils and evaluated their genomic traits (1). Here, we formally announc...

doi.org

3 7

Reposted by Simon Roux

John Innes Centre @johninnescentre.bsky.social · 9d

Shortlisted candidates will be invited to give a seminar at the Fellows Conference, which will be held on 10 March 2026.

Candidates who win Fellowships will be offered a Tenure Track Group Leader position from the outset, initially for 5 years.

Find out more: www.jic.ac.uk/training-car...

Independent Research Fellowships Leading to Tenured Faculty Positions | John Innes Centre

The John Innes Centre (JIC), is a world leading centre of excellence in plant and microbial sciences based on the Norwich Research Park, UK. We are inviting applications from outstanding researchers…

www.jic.ac.uk

23 20

Reposted by Simon Roux

Pedro Dorado-Morales @doradomoralesp.bsky.social · 9d

A plasmid and an ICE teaming up... 🤯😱

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

The assembly of a hybrid type IV secretion system by a Crohn’s disease-associated Escherichia coli strain - Nature Communications

Adherent-invasive strains of E. coli are commonly isolated from patients with Crohn’s disease. Here, the authors show that an AIEC harbours a hybrid Type IV secretion system (T4SS) that mediates pilin polymerization and biofilm formation in vivo.

www.nature.com

5 11

Reposted by Simon Roux

Ed Rybicki 🇿🇲🇿🇦🍷🚀 @edrybicki.bsky.social · 9d

And, I might add, an easily engineerable solution, given our (sadly now abandoned) patent detailing our discovery that you could get efficient transformation of microalgae with Agrobacterium tumefaciens if you immobilise them in a Celite matrix 😁
patents.google.com/patent/AU201...

AU2019389307A1 - Matrix-mediated cell culture system - Google Patents

The invention relates to a matrix-mediated algal cell culture system comprising a porous matrix, a microalgal cell culture comprising cells immobilised on the porous matrix, and a vector including a n...

patents.google.com

1 2

Reposted by Simon Roux

Harvard Med Cell Biology @harvardcellbio.bsky.social · 10d

Historically, viruses were thought to primarily use host cell's translational machinery. New work from @harvardcellbio.bsky.social faculty Amy Lee reveals that a giant DNA virus encodes its own IF4F initiation complex, suggesting an unexpected evolutionary innovation. www.biorxiv.org/content/10.1...

Giant DNA viruses encode a hallmark translation initiation complex of eukaryotic life

In contrast to living organisms, viruses were long thought to lack protein synthesis machinery and instead depend on host factors to translate viral transcripts. Here, we discover that giant DNA virus...

www.biorxiv.org

39 93

Reposted by Simon Roux

Vaughn Cooper @vscooper.micropopbio.org · 10d

DYK most P. aeruginosa carry filamentous phage(s) that don't need to kill the cell to reproduce?

We 👉🏻@nanamikubota.bsky.social show that these Pf phages can go ROGUE.

"Filamentous cheater phages drive bacterial and phage populations to lower fitness"

🔗 authors.elsevier.com/c/1lt5I3QW8S...

6 32 75

Reposted by Simon Roux, Alan Richardson, Jon Agar , and 1 more Simon Roux, Alan Richardson, Jon Agar, Evan Roberts

Elaine Ayers @eayers0.bsky.social · 12d

Job at UC-Berkeley: Asst. Prof. in Global History of Technology, apps due 10/10 (so soon). #history #histSTM #histsci #histphilsci

aprecruit.berkeley.edu/JPF05065

Assistant Professor – Global History of Technology - Department of History

University of California, Berkeley is hiring. Apply now!

aprecruit.berkeley.edu

14 12