Rob Edwards

Day 7, Share. Inoviruses are filamentous single stranded DNA phages that can be produced continuously and exported by their host without lysis and killing their host. They have a single repeating major coat protein that covers their length and specialised spike proteins. #Drawtober #SciArt #Phagesky

Autocycler: long-read consensus assembly for bacterial genomes AbstractMotivation. Long-read sequencing enables complete bacterial genome assemblies, but individual assemblers are imperfect and often produce sequence-l

Happy to share that the paper describing Autocycler is now 100% up:
doi.org/10.1093/bioi...
(1/3)

Really pleased to announce that registrations are open for the two-day series of workshops, immediately following the ABACBS conference in Adelaide this year. Workshops are presented as a combined event between BiocAsia and ABACBS. www.abacbs.org/abacbs-2025-...

#Bioconductor #rstats #ABACBS

This is a fantastic thread, can't wait to read the paper. Great work

GPU-accelerated homology search with MMseqs2 - Nature Methods Graphics processing unit-accelerated MMseqs2 offers tremendous speedups for homology retrieval from metagenomic databases, query-centered multiple sequence alignment generation for structure predictio...

MMseqs2-GPU sets new standards in single query search speed, allows near instant search of big databases, scales to multiple GPUs and is fast beyond VRAM. It enables ColabFold MSA generation in seconds and sub-second Foldseek search against AFDB50. 1/n
📄 www.nature.com/articles/s41...
💿 mmseqs.com

agtools: a software framework to manipulate assembly graphs Assembly graphs are a fundamental data structure used by genome and metagenome assemblers to represent sequences and their overlap information, facilitating the assembler to construct longer genomic f...

Excited to share our latest preprint on agtools, an open-source Python framework for analysing and manipulating assembly graphs. (1/n)

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

#Bioinformatics #genomics #assembly #assemblygraphs #software

@motherofphage.bsky.social getting ready to tell us about the rise of amr in warzones

Terrific talk from @motherofphage.bsky.social about the impact of conflicts on the rise of #AMR and how they are using #phage to help save lives in war zones

#BSVOM @bsvom.bsky.social

@surtlab.bsky.social getting ready to talk tailocins

Excited to hear from @surtlab.bsky.social about his work on #phage tailocins

ISVM leadership at the Phage Protein Meeting in Ghent 2025

The @isvm-society.bsky.social is at the #phage protein meeting in Ghent.

Fantastic meeting, beautiful city, wonderful colleagues

I wish I didn't have to tempt anyone with the idea of abandoning a sinking ship, but Australia is ramping up their own CDC, and there might soon be some opportunities to go work where science still retains respect, and neither you, nor your children, are shot at ....
www.cdc.gov.au/newsroom/new...

Great talk from Rob Edwards. Lots of new #phage tools to play with. Scan the QR codes.

Also he has 5 year #postdoc positions below. Seems like a sufficient amount to get some good work done.

The 16th Ebola Virus Disease Outbreak in Bulape Health Zone, Kasai, Democratic Republic of the Congo: A new spillover event from an unknown reservoir host Background The Democratic Republic of the Congo (DRC) is currently facing concurrent outbreaks including mpox, cholera and malaria (1-4). The Ministry of Public Health, DRC has declared the 16th Ebola...

In under 24h following the newly identified outbreak of #Ebola in the DRC, the virus has been isolated, sequenced and the virus sequence data made publicly available.
virological.org/t/the-16th-e...

Research Associate in Phage Gene Regulation Position Details Fixed Term for 5-years I Full Time Academic Level A | $86,423 - $104,734 p.a. Location: Bedford Park / Kaurna Country / Australia View Position Description About the Role The Flinders...

Position 3:

Research Associate in Phage Gene Regulation
Conduct molecular biology and protein-DNA interaction experiments (e.g. EMSA, protein purification, functional screens)
flinders.wd3.myworkdayjobs.com/en-US/flinde...

Research Associate in Computational Genomics Position Details Fixed Term for five years I Full Time Academic Level A | $88,842 - $107,666 pa plus 17% Super Location: Bedford Park / Kaurna Country / Australia View Position Description About the R...

Position 2:

Research Associate in Computational Genomics
Design and implement high-performance workflows integrating GPU programming, deep learning, and large-scale data integration
flinders.wd3.myworkdayjobs.com/en-US/flinde...

Research Associate in Synthetic Biology of Phages Position Details Fixed Term for five years I Full Time Academic Level A | $88,842 - $107,666 pa plus 17% Super Location: Bedford Park / Kaurna Country / Australia View Position Description About the P...

Position 1:

Research Associate in Synthetic Biology of Phages
Apply advanced molecular biology techniques (e.g., Gibson assembly, Golden Gate cloning, CRISPR-Cas) to engineer and manipulate bacteriophages.
flinders.wd3.myworkdayjobs.com/en-US/flinde...

Five years of funding, newly refurbished labs, and a great team of colleagues to work with.

Three postdoc positions are now open for applications! Live and work on Kaurna land (Adelaide) in sunny South Australia. We have beach views, wineries, kangaroos, and koalas.

Develop new synthetic biology to engineer and understand #phage, and computational tools for #phage and #microbiome analysis

Finally, huge thanks to my awesome collaborators who helped make Phold possible (those with bsky: @susiegriggo.bsky.social @vijinim.bsky.social @npbhavya.bsky.social @eunbelivable.bsky.social @milot.bsky.social @martinsteinegger.bsky.social @linsalrob.bsky.social )

Synteny-aware functional annotation of bacteriophage genomes with Phynteny Accurate genome annotation is fundamental to decoding viral diversity and understanding bacteriophage biology; yet, the majority of bacteriophage genes remain functionally uncharacterised. Bacteriopha...

The notebook uses Pharokka, Phold and @susiegriggo.bsky.social's Phynteny to comprehensively annotate your phage - please also check out the related very recent preprint for Phynteny

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

Protein Structure Informed Bacteriophage Genome Annotation with Phold Bacteriophage (phage) genome annotation is essential for understanding their functional potential and suitability for use as therapeutic agents. Here we introduce Phold, an annotation framework utilis...

Stoked to finally have a preprint out for Phold, our tool that uses protein structural information to enhance phage genome annotation #phagesky 1/n

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

The ISVM logo for the International Society for the Viruses of Microorganisms

Welcome @isvm-society.bsky.social to bsky, the International Society for the Viruses of Microorganisms. Check the new look website isvm.org and become a member for free!

#phagesky #microsky

Examples of protein annotations across functional classification schemes. Yellow: hierarchical classification schemes, red: orthologous/homologous groups, and blue: methods using protein domain information. Protein structures were generated using the ColabFold Alphafold MMseqs2 interactive notebook (version 1.5.2) (57) and visualized using ChimeraX (58). (A) Functional labels associated with the glycogen synthase protein in Escherichia coli (UniprotKB P0A6U8). (B) Functional labels associated with Kehishuvirus sp. tikala major capsid protein (NCBI WEU69752.1).

New in @asm.org #MMBR Computational function prediction of bacteria and phage proteins. How to annotate your #phage and #bacteria genomes

by @susiegriggo.bsky.social @bedutilh.bsky.social @gbouras13.bsky.social and Bob

#phagesky #microsky

journals.asm.org/doi/epub/10....

Computational function prediction of bacteria and phage proteins | Microbiology and Molecular Biology Reviews SUMMARYUnderstanding protein functions is crucial for interpreting microbial life; however, reliable function annotation remains a major challenge in computational biology. Despite significant advance...

Thrilled to share our new review just published in Microbiology and Molecular Biology Reviews (@asm.org #MMBR):
“Computational Function Prediction of Bacteria and Phage Proteins”
with @gbouras13.bsky.social @linsalrob.bsky.social @bedutilh.bsky.social
🔗 journals.asm.org/doi/10.1128/...

#phagesky

Highly stable bacteriophages PIN1 and PIN2 have hallmarks of flagellotropic phages but infect immotile bacteria npj Viruses - Bacteriophages (phages) are viruses that kill bacteria, with potential as antibacterial agents in industrial settings, agriculture, and human health. Here, we identified two phages,...

We have been working on ways to find #phage with long shelf-life and this one is a winner. 12 months freeze-thawing as much as you like, no loss of viability
#phageSky #microSky

rdcu.be/ewnzT

A two year post-doctoral position at the BacterialGenome Plasticity Unit starting October 1st - Research

Postdoc position to work at the Institut Pasteur with Alex Kaminski and Didier Mazel on Z-DNA phages ! research.pasteur.fr/en/job/a-two...

Excited 🥳 to share our latest work on gut phages!
Big thanks to @epcrocha.bsky.social, Erick D, Camille d'H, @fplazaonate.bsky.social, Quentin LB, and all others involved for support and contributions! 🙌
Out in Cell Reports @cp-cellreports.bsky.social
doi.org/10.1016/j.ce...
Here's what we found 🤓

#PhageSky #ProtistsOnSky

endosymbionts have "their" phages, too. cyanos of sponges (below), 𝘞𝘰𝘭𝘣𝘢𝘤𝘩𝘪𝘢 of insects, and then we have the piñata 👇

schaechter.asmblog.org/schaechter/2...

Kiwa is a membrane-embedded defense supercomplex activated at phage attachment sites Zhang, Todeschini, and Wu et al. show that the bacterial defense system Kiwa senses phage attachment at the membrane and assembles a transmembrane complex that halts infection by blocking phage DNA re...

Thrilled to see our Kiwa story out today! A membrane-associated supercomplex that senses infection and blocks replication and transcription.

www.cell.com/cell/fulltex...

Huge congratulations to Yi and Zhiying for bringing it home, to Thomas for starting us off, and to all the collaborators.

Postdoctoral Research Positions in Adelaide, Australia | Rob Edwards Postdoctoral Research Positions in Adelaide, Australia We will be recruiting three new postdoctoral researchers to Flinders University, Adelaide, Australia, starting early 2026. These are amazing opp...

EOIs are open already and we are just waiting for the paperwork to be completed to post the job ads. Email me to get on the notification list.

More details:

www.linkedin.com/feed/update/...