If you are a researcher whose lab uses FlyBase, consider a tax-deductible personal contribution. A lot of $100 contributions would help bridge the gap until we can set up a user fee system, and even $10 donations send the folks there the message we're behind them. Please share

COMPETITION TIME! I’m going to give away these two test prints. A3 Vader to 1st place, A5 U-wing to the second.

To win just RT and follow and I’ll pick 2 random winners on Sat 31st 6pm.

Please do visit my shop www.infinitebacon.com

thank you and good luck!

The entire NCBI and NIH websites are offline/gone!?!?

All the research papers, gone!!!!

www.ncbi.nlm.nih.gov

www.nih.gov

Lovely! A little bit earlier was Margaret Dayhoff’s Atlas of Protein Sequence and Structure. It has all the sequences printed together 😉 and some lovely structures, the definition of mutation data matrices and sequence databases. 1st edition was 1965

Out in NAR, AntiDefenseFinder & our "systematic" analysis of inhibitors of antiphage systems wt Bondy-Denomy lab led by @ftesson.bsky.social and E. Huiting.

Not so "systematic" as very few known, fun stuff on MGE, antidefense islands and cool phages exaptations!

academic.oup.com/nar/advance-...

"Towards the biogeography of prokaryotic genes", @luispedrocoelho.bsky.social (2021) presents a gene catalog of >300 million genes (clustered at 95% identity) from 13k metagenomes. It was a lot to process at the time, but, spoiler alter, we did collect even more samples.

www.nature.com/artic...

Viruses of Microbes, from #microLife

A new era of bacteriophage research has begun: Exciting discoveries on bacterial immunity mechanisms; the importance of phages; and their renaissance as tools for molecular biology:

#MicroSky #Microbiology

How to introduce a new bacteriophage on the block: a short guide to phage classification.

DOI: 10.1128/jvi.01821-23

https://pubmed.ncbi.nlm.nih.gov/39264154/

Evolutionary flexibility of ribosome biogenesis in bacteria https://www.biorxiv.org/content/10.1101/2024.11.29.625318v1

I just made a first release of TNA - new tool to compare 2 bacterial genomes. Is shamelessly inspired by ACT, but should be simpler to use. Drag-n-drop two genomes: it runs BLAST for you and then you can visualize. For Mac, Windows 11, Linux tna.readthedocs.io

A new and very important study on the global evolutionary patterns of Yersinia pestis and its spread into Africa
#MicroSky, #IDSky

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

Get ready to dance, our paper – Phage DisCo: targeted discovery of bacteriophages by co-culture – has been pre-printed! 🪩 This has been a really fun project to work on with @sianowen.bsky.social, @baym.lol, @nquinoneso.bsky.social, and our two talented undergrads Kesther and Carmen!

Very glad to see this properly out and open access from my time with @baym.lol We've learnt so much about antibiotic resistance evolution already, and yet so many outstanding and fascinating questions remain, at all levels of selection.
www.annualreviews.org/content/jour...

🦠🧬💻 Bakta v1.10 - largest update so far:

Highlights:
- user-provided HMMs: --hmms
- output file recovery from JSON files: bakta_io
- export of inference metrics: inference.tsv
- bypass overlap filters: --skip-filter
- improved genome plots

github.com/oschwengers/...

👇 (1/11)

Years ago, we wondered: What determines which bacteria live in a squid/cuttlefish's accessory nidamental gland? Is it where they are, or influenced more by evolutionary history?

Thanks to many people working together across the globe now we know!

Paper: journals.asm.org/doi/full/10....