Check out our newest preprint which unveils new mechanisms of action of Asparagopsis. And catch me present it at the International Gut Microbiology Symposium in Clermont-Ferrand this Wednesday!

DIAMOND v2.1.12 provides support for the new NCBI taxonomic ranks and various other fixes. github.com/bbuchfink/diam…

What a busy (but sunny) May in Crete!🔆 Ziheng & Sandra Álvarez enjoyed teaching & meeting the participants at the Computational Molecular Evolution course! Ziheng then joined the satellite workshop on Biodiversity Genomics🌍🧬Thanks to everyone who made these great meetings possible!!

Registration is OPEN! Secure your tickets for the Microbiology Society Annual Meeting in Ireland 2025 now - microb.io/IrelandMeeting… 👈 #MicrobioIrish25

Preprint on "Improving spliced alignment by modeling splice sites with deep learning". It describes minisplice for modeling splice signals. Minimap2 and miniprot now optionally use the predicted scores to improve spliced alignment. arxiv.org/abs/2506.12986

Spread the news!! I am organizing a new #Microbiome conference organized by Microbiology Society in Miami, FL 18-20 Feb, 2026. 'Microbes in Microbiomes' will merge the classic microbiology from the last century and modern microbiome science. Spread the word!! microbiologysociety.org/event/full-eve…

I am grateful for this opportunity to highlight some of the innovative #phage research we are conducting at QUB Pharmacy School. We are focused on investigating bacteriophages for medical, pharmaceutical, cosmetic, and biotechnological applications.

Preprint on "Finding easy regions for short-read variant calling from pangenome data": arxiv.org/abs/2507.03718

I really enjoyed working on this piece about #AI in #microbiology research with @Thomacillin. We are exploring how the data and the user affect the performance of AI, discuss reasoning, and outline 5 key principles of working with AI. QUB Pharmacy School

Back in 1962 microscopy was used to pen a hypothesis about eukaryote-microbe relationships. ~65 years later we have coupled the latest advancements in long read MetaG, MetaP and EUK SAGs to help explain what this means for wider rumen microbiome function nature.com/articles/s4146…

Uh oh: deep learning models in genomics lose badly to very simple linear models. Could they have been over-hyped? (new paper by Simon Anders Constantin Ahlmann-Eltze (@const-ae.bsky.social) and Wolfgang Huber) nature.com/articles/s4159…

We often talk about pangenome reference but what does "reference" mean? If it means the whole graph, what is a variant? My collaborators Pouria and Luke give a clean answer: the reference is a spanning tree including GRCh38 and variants are leftover edges. See preprint for more.

Happy to be coauthor on not 1 but 2 new papers this summer (so far!) from the thehuwslab 🐄🐏🦠 A must read for all microbiome and sustainability enthusiasts! Reducing crude protein: doi.org/10.1186/s40104… Willow as an alternative feed source: doi.org/10.1186/s42523…

Paper 1. Zeleke et al., Cutting crude protein (CP) in dairy cow diets can make milk production more sustainable- without hurting performance. ✅ Improved nitrogen-use-efficiency (NUE) ✅ Reduced urinary N excretion ❌ No negative effects on rumen microbiome

Why it matters? Lower N excretion = less ammonia, acidification, and water pollution. Better for cows. Better for farmers. Better for the planet. 🌍

Download BLAST+ 2.17.0 now for faster BLAST protein searches! This release includes a new CSV output format with headers for easier data handling. Learn more: blast.ncbi.nlm.nih.gov/doc/blast-news…

We recently published our paper detailing Parapipe: a pipeline developed for analysing NGS data from Cryptosporidium and other diploid protozoans! microbiologyresearch.org/content/journa…

Our new preprint is live! We look at the influence of struvite fertilisers on the soil resistome