Pablo Vinuesa

A pleasure and privilege to teach at the International #Bioinformatics Workshops #TIB2025 on #Pangenomics and #Phylogenomics at @ccg_unam with these motivated and talented participants from 🇵🇪, 🇨🇷, and 12 Mexican 🇲🇽 States. Find the course's contents available on #GitHub 👉 tinyurl.com/4um82sbn #UNAM👏👏👏

Journal of Virology Seminar Series Blocking the Competition: Superinfection Inhibition by Giant Viruses July 21, 2025 Isabella Aquino, Ph.D., M.S.Federal University of Minas Gerais Kristin Parent, Ph.D., Michigan State University Stacey Schultz-Cherry, Ph.D. (moderator), Co-Editor in Chief, Journal of Virology, St. Jude Children's Research Hospital journals.asm.org

🚨 Join us July 21 at 1 p.m. ET for the next Journal of Virology Seminar Series as we explore how giant viruses block competition by downregulating phagocytosis in amoebas.

📅 Save your spot: asm.social/2tA
📄 Read the paper: asm.social/2tz

Reposting this advert. Only a few days left to apply to this position. Come join us!!

📣 Don’t miss out — just a few days left to apply!

The abstract submission deadline for the @embo.org  #Workshop "Evolution and Origins of Multicellularity Across the Tree of Life" 🦠🧬 has been extended to July 1!

✍️ Apply now: https://meetings.embo.org/event/25-multicellularity

The human phageome: niche-specific distribution of bacteriophages and their clinical implications | Applied and Environmental Microbiology In recent years, there has been a tremendous increase in interest in human microbiome studies. The great part of this study area is covered by bacteria; however, bacteriophages (phages, viruses able to infect bacteria) also play a crucial role in this structure. Phages, as a significant part of the microbiome, have become the subject of increasing interest. Nevertheless, studies of the phageome remain challenging due to the great diversity of these viruses and lack of universal markers (unlike bacteria which have 16S rRNA for identification) (1). Traditional methods of phage identification based on bacterial host cultures have limited applicability for phage detection, mostly due to the significant contribution of laboratory unculturable or difficult-to-culture bacteria that are hosts for many phages constituting the phageome. These barriers have been overcome to some extent by the use of high-throughput DNA sequencing like next-generation sequencing (NGS). Application of this technology was a milestone in phageome studies (2). NGS has become the major tool for exploring and investigating phage presence in biological samples. Sequencing-based molecular methods have revealed that many human niches are inhabited by unique and place-specific microbiomes including phages (3). Due to the development of metagenomic profiling, comprehensive analysis of phages inhabiting different compartments of human bodies has become possible. These analyses demonstrated that phages are most abundant in the oral cavity, gastrointestinal tract, urinary tract, skin, and lungs (4).

#phage #phagesky

The human phageome: niche-specific distribution of bacteriophages and their clinical implications | Applied and Environmental Microbiology journals.asm.org/doi/10.1128/...

Prevalence and environmental abundance of the TSET complex in cosmopolitan algal groups Cell biology; Plant biology; Plant evolution; Aquatic biology; Plant development

Thrilled to announce this work on an under-appreciated molecular complex in marine algae! Congratulations to all co-authors: past, visiting, and long past (Richard😜)
*Longer thread on the big picture impact of 'Jotnarlogs' for cell biology forth-coming*
#protistsonsky

www.cell.com/iscience/ful...

Our structural core gene pipeline Unicode is now published at GBE
📄 doi.org/10.1093/gbe/...

Please also check out @dongwookkim.bsky.social’s
🧵 bsky.app/profile/dong...

URGENT: FlyBase has lost practically all its funding overnight; even user fees are tied up in denied grant funding. 🤬🤯

Any lab using @flybase.bsky.social please donate using the link in post below.

This incredible community, on whose backs our #Drosophila labs depend, can't be left out to dry.

A genomic catalog of Earth’s bacterial and archaeal symbionts Microbial symbiosis drives the functional and phylogenomic diversification of life on Earth, yet remains underexplored due to culturing challenges. This study employed machine learning (ML) to predict...

A genomic catalog of Earth’s bacterial and archaeal symbionts, by @astrogenomics and colleagues, is now on bioRxiv👉 www.biorxiv.org/content/10.1... #Symbiosis #Evolution #Phylogenomics #Metagenomics

#Science Bluesky, do your thing:
We're organising the International Symposium on Mechanobiology (ISMB) 2026 in #Glasgow & we're looking for research groups in Latin America & Africa who are doing great work in #Mechanobiology or adjacent areas.
Can you indicate some names to me?

¡Hola, plancton! Unas criaturas acuáticas fascinantes Este libro ilustrado explora el impacto del plancton en el planeta y su papel en el equilibrio de los océanos. Sin él no podríamos respirar.

Thanks @dingemanselab.bsky.social @desiaguilas.bsky.social Stefan &others

@ibe-barcelona.bsky.social @prbb.org
@erc.europa.eu @csic.es

#scicomm #protists #animalorigins

👉the book: takatuka.cat/libros/hola-...

quote on a dark blue and purple background from Sudip S. Parikh, CEO of the American Association for the Advancement of Science (AAAS), criticizing proposed cuts to science funding in the FY26 U.S. federal budget. The quote reads: “If enacted, the FY26 budget request would end America’s global scientific leadership. The cuts to science would imperil our nation’s future health, security and prosperity. This budget proposal stands in stark contrast to the President’s call for a renewed commitment to American scientific leadership. Congress has demonstrated a bipartisan commitment to investment in research and must do so again to answer the President’s call.” The quote is attributed to Sudip S. Parikh, CEO of AAAS and Executive Publisher of the Science family of journals. The AAAS logo appears at the bottom right.

I don't think anyone outside of universities, pharma and biotech, independent research institutions have any idea of what is happening right now. If you haven't sounded the alarm among your friends, family and colleagues, now is the time to do it.

RFK Jr celebrated the release of the MAHA report by downing raw milk shooters in the White House with influencer Paul Saladino. Hazards of raw milk include Listeria, Salmonella, Campylobacter, Yersinia, E. coli O157:H7, and now-- avian flu.

YouTube video by Protistologists ISOP member spotlight Adl 2025

Do #protistsonsky know that there is a protistology YouTube out there? And almost no subscribers. Meahwile Sina Adl is describing how he wrote a Protistology Book! Which is amazing! youtu.be/QfMxq1Pygcw?...

Graphs showing 25 years of budgets for the National Institute of Health, NASA, and the NSF. In all cases, the proposed budget for next year is far, far below any year of the previous quarter century.

There are 2 previous historical cases of countries destroying their science and universities, crippling them for decades: Lysenkoism in the USSR and Nazi Germany. The Trump administration will be the 3rd.
It's not just budgets but research, institutions, expertise, and training the next generation.

Terminal Genome Viewer (tgv), written in Rust github.com/zeqianli/tgv

Functional biogeography of marine microbial heterotrophs Heterotrophic bacteria and archaea (“heteroprokaryotes”) drive global carbon cycling, but how to quantitatively organize their functional complexity remains unclear. We generated a global-scale unders...

Out in Science! Zakem et al. mechanistically modeled global marine prokaryotic functional diversity, grounded with field data. Shifts in community composition drive respiration and thus biological C storage. This facilitates C cycle projections in a warming ocean
www.science.org/doi/10.1126/...

The natural history of the emergence of sexually transmissible shigellosis Shigellosis is a gastrointestinal illness caused by bacteria belonging to one of four species of Shigella . Sexually transmissible shigellosis was first reported in 1974, but recently there has been a...

Sexually transmissible shigellosis has gone from an obscure cause of sporadic outbreaks to a sustained endemic AMR priority in only two decades! 🧫💊 Check out our latest preprint to understand how this happened 1/11
www.medrxiv.org/content/10.1...

To be clear: The virtual event is free for anyone in a low or middle income country.

It's also rather inexpensive even if you're not. ($10/$20/$30 for student/postdoc/professional members of the societies; +$10 if a non member)

A horizontal bar chart comparing various AI models' performance on R coding tasks. The chart shows percentages of correct (blue), partially correct (beige), and incorrect (orange) answers. Gemini 2.5 Flash demonstrates performance somewhere between 2.5 Pro and o4-mini, with thinking resulting in a 10% increase in the proportion of correct answers. Claude 3.7 Sonnet and o4-mini remain the top performers.

New on my blog: Google's Gemini 2.5 Pro release really made a splash last month. They've just announced an update to 2.5 Flash, a faster and cheaper model; I put it through its paces on challenging #rstats coding problems.

www.simonpcouch.com/blog/2025-05...

The planktonic microbiome of the Great Barrier Reef Large genome databases have markedly improved our understanding of marine microorganisms. Although these resources have focused on prokaryotes, genomes from many dominant marine lineages, such as Pela...

Very excited to present the Great Barrier Reef Microbial Genomes Database (GBR-MGD), a comprehensive DB of 1000s of high-quality prokaryote, virus, plasmid, and chromosome-level eukaryote MAGs using Nanopore long reads. Subthreads incoming. Please share widely. 🙂

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

Autocycler: long-read consensus assembly for bacterial genomes www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/rrwick/Autoc...

Complex archaea that bridge the gap between prokaryotes and eukaryotes - Nature This study identifies a clade of archaea that is the immediate sister group of eukaryotes in phylogenetic analyses, and that also has a repertoire of proteins otherwise characteristic of eukaryotes—pr...

On this day, 10 years ago, my lab published the @nature.com paper reporting the discovery of the Asgard archaea (Lokiarchaeota at the time), revealing the archaeal nature of eukaryotic cells, and reshaping the Tree of Life. What a ride it has been since then... www.nature.com/articles/nat...

Week 16 Figuring out what to focus on now & next in science and higher ed

Every week @lizneeley.bsky.social’s newsletter manages to pull coherence & moral clarity out of the wreckage of the news around science and higher ed. This week it feels particularly impressive (and more critical than ever!) to have pulled off.

buttondown.com/liminalcreat...

📣 La @sesbe.bsky.social ha convocado 20 bolsas de viaje para asistir al congreso #ESEB2025 en Barcelona (eseb2025.com), no te las pierdas!

👇
sesbe.org/solicita-tu-...

Why are prior and concurrent #TB such huge risk factors for M. abscessus infection? #zebrafish preprint lead by our research officer Denise Wee discovers tuberculous granulomas (yellow blob) act as a safe haven for opportunistic mycobacterial pathogens (magenta blobs).

With the move to a permanent cover for @jeukmicro.bsky.social, we've not forgotten the thrill of an article 'getting the journal cover"! We're happy to introduce Highlight Images, one per issue. This is our stunning choice for the March/April Issue!

Congrats to @mixotrophe.bsky.social and team:)

Tweeps, please spread the word. We're still looking at recruiting a structural biologist (any level) to study plant-pathogen protein complexes especially in the context of coevolution. Direct inquiries welcome.

Please include a cover letter.

Applicant from US welcome? medium.com/@kamounlab/2...

YouTube video by Data Science Learning Community Videos R for Data Science: Quarto (r4ds09 28)

From the DSLC.io aRchives:

🔵 R for Data Science: Quarto youtu.be/DbeCQp0K6-I

🔵 Advanced R: Rewriting R code in C++ youtu.be/2JDeacWl1DM

Visit dslc.video for hours of new #DataScience videos every week!

#dataBS #RStats

Postdoctoral Researcher – Infectious Disease Dynamics: Mathematical Modelling

Postdoc opportunity alert!

The group where I did my PhD is looking for independent postdocs. Great environment - can only recommend!

1) Mathematical modeling of infectious disease dynamics
jobs.ethz.ch/job/view/JOP...
2) Experimental microbial population biology
jobs.ethz.ch/job/view/JOP...