Fun time at #ISME20 with old and new friends

Deadline is April 20th! Let’s get those viruses

Ella Sieradzki@sieravirus.bsky.social · 7mo ago

I'm hiring my first postdoc! Apply by 20/4/26, position #20443. Seeking an environmental microbiologist with experience in metagenomics (preferably viromics) and molecular biology. Experience with targeted metabolomics is a plus. international.au.dk/about/profil...

RNA virus Journal Club is on! 🌳March 17th | Tuesday, 10 AM Berkeley time / 18 PM CET 🕰️ You've probably heard about the meta-virus resource? We will get to dive into metaVR database & huge viral diversity within thanks to @mattlabguy.bsky.social 🥳 All welcome! Details ⬇️ @rdrpsummit.bsky.social

I'm hiring my first postdoc! Apply by 20/4/26, position #20443. Seeking an environmental microbiologist with experience in metagenomics (preferably viromics) and molecular biology. Experience with targeted metabolomics is a plus. international.au.dk/about/profil...

Postdoc in Soil viral ecology - Vacancy at Aarhus University

Vacancy at Department of Agroecology - Plant Pathology and Microbiology, Aarhus University

international.au.dk

Soil viral ecology notice: having found myself rejecting paper after paper for the same reason, let me make this clear. If you're trying to draw conclusions about the drivers/effects of the viral community but your data is from bulk metagenomes, not viromes, that's an automatic no from me. 1/n

Provisionally accepted! Proceedings of the 2nd RdRp summit on RNA viruses out in Frontiers in virology. I attended the 1st RdRp summit, was an organizer of the 2nd but broke my leg and had to bail. Hoping to see more virus enthusiasts at the 3rd summit in 2027! www.frontiersin.org/journals/vir...

Frontiers | Editorial: "Proceedings of the RdRp Summit and Advances in RNA Virus Discovery"

Following the success of the first meeting, the second RdRp Summit was held on May 11-12, 2025, 40 in Lisbon, Portugal. Two years had passed since the first ...

frontiersin.org

Came to learn about polar microbiomes and found myself at the carnaval. Gotta love #PAM2026

Soil is hard to work with, polar areas are hard to work in and viruses are hard to work on, but Gary didn’t let any of these deter him. The full paper is now out in Nature Comms!

Gareth (Gary) Trubl@gtrubl.bsky.social · 9mo ago

I also wrote a Behind the Paper piece reflecting on the fieldwork, the challenges of soil viromics, & the long road from peat cores to viral genomes. communities.springernature.com/posts/uneart...

Opportunity! Anybody knows of young marine ecologists (within 7 years from earned PhD) that would like to come to Gothenburg, Sweden, for a nationally funded Assistant Professorship? It is highly competitive but well funded. (1) of (3)

Let's talk -80 freezers: Recommendations? Dis-recommendations? What do you suggest prioritising and why? Bonus points if you have input on buying one in Europe. * photo of Muffin for cat tax

Interested in RNA virus discovery? You can still register for the RdRp summit and attend remotely! We'll have some really nice talks and cutting edge discussions on best practices and new directions in the field. rdrp.io #phagesky #virosky #bioinformatics

rdrp.io

The official website of the RdRp Summit.

rdrp.io

EXCITING NEWS🥳! @isme-microbes.bsky.social is now sponsoring 3 travels grants worth EUR 500 each to support early career researchers presenting at the #RdRpSummit2025. Abstract submissions & registrations are still open!✍️ More info at RdRp.io

Calls for papers from FEMS Microbiology Ecology: Thematic Issue on Ecology of Soil Microorganisms Editors: @pbaldrian.bsky.social @jennihultman.bsky.social Petr Kohout Minna Männistö @tainapennanen.bsky.social academic.oup.com/femsec/pages... Submission deadline: 28 November 2025

Calls for papers from FEMS Microbiology Ecology

FEMS Microbiology Ecology, publishing leading research in the microbial ecology community, publishes a variety of thematic issues covering a diverse range of to

academic.oup.com

RNA phages are phosphate limited, and possibly as implicated as their DNA counterparts in soil microbiome dynamics following soil wetup (first rain after the dry season). Out today in SBB! doi.org/10.1016/j.so... @soilmicrobes.bsky.social 1/n

Our paper is out and is open access! Phosphate amendment drives bloom of RNA viruses after soil wet-up. www.sciencedirect.com/science/arti... @sieravirus.bsky.social @jeffinerca.bsky.social @graemenicol.bsky.social @christinahazard.bsky.social

Phosphate amendment drives bloom of RNA viruses after soil wet-up

Soil rewetting after a dry period results in a surge of activity and succession in both microbial and DNA virus communities. Less is known about the r…

sciencedirect.com

Marine nitrifies are incredibly important for the global nitrogen cycle. Tangentially, I met Sookie at #ISME2024 and we had lots of fun testing out South African food and cocktails. www.biorxiv.org/content/10.1...

Basin-scale dynamics and enrichment-enabled genomics of marine nitrifiers: seasonality, niches, interactions, and genomic uniqueness

Nitrification occurs widely from the deep sea to animal holobionts, but the eco-evolutionary forces shaping the niches and dynamics of the lineages of the chemoautotrophic bacteria and archaea respons...

biorxiv.org

A beautiful initiative: crowdfunding to purchase and protect biodiversity hotspots worldwide via local NGOs. I'm so in! this-is-my-earth.org

TiME · This is My Earth

We buy lands rich in biodiversity and hand them over to local communities and NGOs to protect. You can vote and decide which land to save.

this-is-my-earth.org

Going to #ViBioM2025 ? Interested in discovery of RNA viruses? Consider joining us 2 days early (May 11-12) in Lisbon for the 2025 RdRp summit @rdrpsummit.bsky.social ! Program and abstract submission will be available soon. We'll talk advances in methodology from isolation to bioinformatics.

Using stable isotope probing in the lab and wondering how it compares to reality in the field? Look no further. Bottom line: microcosms are more prone to opportunists, but aren't a horrible approximation. Considering labor/price differences I'd say they're acceptable journals.asm.org/doi/pdf/10.1...

Definitely saw this in mediterranean grassland via metatranscriptomics www.biorxiv.org/node/4329066...

Distribution of alternative routes for completing denitrification in microbial genomes and metagenomes of global biomes

Diverse microorganisms can execute one or more steps in denitrification, during which nitrate or nitrite is successively reduced into nitric oxide, nitrous oxide, and ultimately dinitrogen. Many of th...

biorxiv.org

Wetting dry soil rapidly stimulates microbial activity and has important consequences for biogeochemical cycling. In our paper out today, we show that part of that response can be explained by how bacterial genomes are written (i.e. codon usage, nucleotide freq., genome size) doi.org/10.1073/pnas...

👋 Hi antiphage defense community, we are soon releasing an update of DefenseFinder. We are doing our best to include all the great discoveries from the community, but with so much going on we might miss things. Please answer wt preprints/papers with new systems or mail/git them to us. 🙏

Fungi and isotopes alert! Great paper to start off the new year. www.nature.com/articles/s41...

Soil fungi remain active and invest in storage compounds during drought independent of future climate conditions - Nature Communications

How climate change will impact microbial community growth is unclear. Here, the authors use a field experiment with varying global change factors, finding fungal growth more drought-resistant than mic...

nature.com

#PhD #position #phage please repost! Recruiting a PhD student!

Ella Sieradzki@sieravirus.bsky.social · 2y ago

Interested in discovering new viruses from soil that may be affecting global carbon sequestration? Apply for a PhD position with me at Aarhus University in Flakkebjerg! Our group is very international, supportive and friendly. Applications due by February 1st 2025. phd.tech.au.dk/for-applican...

Cool! SAR11 phylogenomics and so many new (almost) complete genomes! Wish I could see the sup info for how 16S compares between them. Guess I'll have to be patient... www.biorxiv.org/content/10.1...

New isolate genomes and global marine metagenomes resolve ecologically relevant units of SAR11

The bacterial order Pelagibacterales (SAR11) is among the most abundant and widely distributed microbial lineages across the global surface ocean, where it forms an integral component of the marine ca...

biorxiv.org

#PhD #position #alert 2 bioinfo PhD positions @ProbstLab @RESIST_CRC #1 on microbial & epigenetic stress response in rivers tinyurl.com/bdf8eu5a #2 on virus-host stress response in rivers tinyurl.com/43cjd6es (supervision Moraru) Please share!

Really, ISME journal? On Dec 22nd you sent me an invitation to review and I haven't replied by Christmas Eve? Shocker.

a man with a beard is talking on his cell phone

ALT: a man with a beard is talking on his cell phone

media.tenor.com

In addition to applied statistics, I have another repository on #DataVisualization: "quick data vis" (github.com/cxli233/Quic...). It used to be under "Online_R_learning" but now it has its own repository on GitHub. I have used this content to teach 1st year grad students for 3 years.

Chenxin Li, PhD@chenxinli2.bsky.social · 2y ago

Huh, my Online R learning GitHub repo hit 500 stars! github.com/cxli233/Onli...

SIP friends: does anyone have experience with Eppendorf (formerly Koki) himac ultracentrifuges? I'm considering buying the CP80NX but only have personal experience with Beckman and Sorval. *Biscuit and Muffin pic provided for increased traffic

Interested in discovering new viruses from soil that may be affecting global carbon sequestration? Apply for a PhD position with me at Aarhus University in Flakkebjerg! Our group is very international, supportive and friendly. Applications due by February 1st 2025. phd.tech.au.dk/for-applican...