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gregoryannc.bsky.social
Ann Gregory, PhD
@gregoryannc.bsky.social
530 followers 260 following 11 posts
Asst. Prof. at the Uni of Calgary in the Dept. of Biological Sciences | Viromics & One Health | www.integrativeviromicslab.com
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Reposted by Ann Gregory, PhD
evolvedbiofilm.bsky.social
Ákos T Kovács @evolvedbiofilm.bsky.social · 11d
Microbes without borders: uniting societies for climate action

@femsjournals.bsky.social Microbiol Ecol by @jaytlennon.bsky.social et al @leonorabit.bsky.social @vscooper.micropopbio.org @gilbertjacka.bsky.social

academic.oup.com/femsec/artic...
Microbes without borders: uniting societies for climate action
The climate crisis is one of the most urgent and complex challenges of our time. Although often overlooked in models and policy, microorganisms play a crit
academic.oup.com
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Reposted by Ann Gregory, PhD
natureportfolio.nature.com
Nature Portfolio @natureportfolio.nature.com · 22d
Why are some species widespread while others are found only in small, isolated areas? A study in Nature Communications shows that species with narrow ranges, and thus higher extinction risk, are often island-restricted, poor dispersers, and have evolved relatively recently. #evosky 🧪
Evolutionary age correlates with range size across plants and animals - Nature Communications
Why are some species widespread while others are found only in small, isolated areas? This study shows that species with narrow ranges, and thus higher extinction risk, are often island-restricted, poor dispersers, and have evolved relatively recently.
go.nature.com
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gregoryannc.bsky.social
Ann Gregory, PhD @gregoryannc.bsky.social · 22d
🚨 We’re hiring! 🚨

The Integrative Viromics Lab @UCalgary 🇨🇦 is looking for a Lab Technician!

🔬 Phage isolation & culture
🧫 Anaerobic chamber work
📦 Lab management & student mentoring

Apply now & help us explore the virosphere!

You must have work authorization to work in Canada already.
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Reposted by Ann Gregory, PhD
jrpenades.bsky.social
José R Penadés @jrpenades.bsky.social · 29d
Thrilled to share our two latest papers with the @tcostalab.bsky.social
lab! In the first, we uncover a new mechanism of satellite transfer: cf-PICIs hijack tails from diverse phages to spread across species.
@imperialcollegeldn.bsky.social
www.cell.com/cell/fulltex...
Chimeric infective particles expand species boundaries in phage-inducible chromosomal island mobilization
Capsid-forming PICIs (cf-PICIs) produce their own capsids and exploit phage tails from unrelated species to transfer their DNA across bacterial hosts. This tail piracy enables broad dissemination and ...
www.cell.com
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Reposted by Ann Gregory, PhD
nitzantal.bsky.social
Nitzan Tal @nitzantal.bsky.social · Jul 13
📢Preprint out!
Excited to share my final work from the @soreklab.bsky.social!

We mined phage dark matter using structural features shared by anti-defense proteins (viral tools that help phages bypass bacterial immunity) to guide discovery.

Found 3 new families targeting immune signaling!
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Reposted by Ann Gregory, PhD
vivekmutalik.bsky.social
Vivek Mutalik @vivekmutalik.bsky.social · Apr 30
#phage #phagesky
kaminskimed.bsky.social
KaminskiMed @kaminskimed.bsky.social · Apr 30
A phage therapy using naturally occurring bacteryophages that not only kill but also selects for less resistant bacteria, shows promise in Cystic Fibrosis patients infected with drug resistant Pseudomonas. Kudos Dr. Chen, Stanley, Turner and Koff!!!
#ScienceMatters
www.nature.com/articles/s41...
Personalized inhaled bacteriophage therapy for treatment of multidrug-resistant Pseudomonas aeruginosa in cystic fibrosis - Nature Medicine
A novel personalized phage therapy strategy that selects phages for a predicted evolutionary trade-off may represent a viable alternative approach for the treatment of antimicrobial-resistant bacteria...
www.nature.com
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Reposted by Ann Gregory, PhD
eunbelivable.bsky.social
Rachel Seongeun Kim @eunbelivable.bsky.social · Mar 31
Big Fantastic Virus Database (BFVD) version 2 improves 31% of predictions through 12 ColabFold recycles. PAEs and MSAs now also available for download and in the webserver.
🌐https://bfvd.foldseek.com
💾https://bfvd.steineggerlab.workers.dev/
1/3
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gregoryannc.bsky.social
Ann Gregory, PhD @gregoryannc.bsky.social · Mar 8
Last day back at home in the USA #internationalwomensday #tucson #arizona #womensrightsarehumanrights #notmypresident
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Reposted by Ann Gregory, PhD
wcratcliff.bsky.social
Will Ratcliff @wcratcliff.bsky.social · Mar 5
1/46 Hey folks, we have a new paper out on the MuLTEE. Strap in and I’ll tell you the story of how this “little paper on polyploidy” turned into the most data rich paper our lab has produced, largely thanks to the leadership and work ethic of @kaitong25.bsky.social.

www.nature.com/articles/s41...
Genome duplication in a long-term multicellularity evolution experiment - Nature
In the Multicellularity Long Term Evolution Experiment, diploid yeast evolve to be tetraploid under selection for larger multicellular size, revealing how whole-genome duplication can arise due to its...
www.nature.com
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Reposted by Ann Gregory, PhD
cdiener.com
Christian Diener @cdiener.com · Feb 18
Happy to announce that MEDI, our method to quantify dietary intake through metagenomics is out now. 🧬 🧪🧫🦠 www.nature.com/articles/s42...

#metagenomics #microbiome #microbiomesky

So what is MEDI? A combination of two things:
Metagenomic estimation of dietary intake from human stool - Nature Metabolism
Diener et al. present a method that allows the estimation of dietary intake from human stool by detecting food-derived DNA in faecal metagenomes.
www.nature.com
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Reposted by Ann Gregory, PhD
joshuasweitz.bsky.social
Joshua Weitz @joshuasweitz.bsky.social · Dec 2
Delighted to share this paper out via Virus Evolution:

academic.oup.com/ve/advance-a...

in which we develop and assess a quantitative method to infer phage and bacterial mutations driving changes in infection phenotypes arising in coevolutionary dynamics.

a 🧵 about people (and some science)
Predicted infections with phage/host mutation models
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Reposted by Ann Gregory, PhD
miketisza.bsky.social
Mike Tisza @miketisza.bsky.social · Feb 4
We interrupt your regularly-scheduled chaos to bring you some cool microbiome science. 🦠 🖥️ 🧬
"Longitudinal phage–bacteria dynamics in the early life gut microbiome" now out in Nature Microbiology.

We wanted a way to measure bacteria and phage in metagenomes 1/

www.nature.com/articles/s41...
Longitudinal phage–bacteria dynamics in the early life gut microbiome - Nature Microbiology
Reanalysis of 12,262 longitudinal infant gut microbiome samples using the Marker-MAGu pipeline revealed phage–bacteria dynamics over the first year of life.
www.nature.com
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Reposted by Ann Gregory, PhD
jcamthrash.bsky.social
Cameron Thrash @jcamthrash.bsky.social · Jan 28
Characteristics of Phages and Their Interactions With Hosts in Anaerobic Reactors enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #jcampubs
Characteristics of Phages and Their Interactions With Hosts in Anaerobic Reactors
Diverse and novel phages were recovered from anaerobic fatty acid–fed reactors. Phages linked to hosts in all three functional groups primarily consisted of generalists and temperate species, especia...
enviromicro-journals.onlinelibrary.wiley.com
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Reposted by Ann Gregory, PhD
blekhman.bsky.social
Ran Blekhman @blekhman.bsky.social · Jan 22
Today we report a new compendium of human gut microbiomes with >168,000 samples

By analyzing this massive dataset, we discovered distinct microbiome patterns across the globe, and show we can predict where a person lives just from their gut bacteria

Now out in Cell:

www.cell.com/cell/fulltex...
Integration of 168,000 samples reveals global patterns of the human gut microbiome
The Human Microbiome Compendium is a unified database of publicly available human gut microbiome 16S samples, built with the integrated data from hundreds of independent projects. The compendium is us...
www.cell.com
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Reposted by Ann Gregory, PhD
aroneys.bsky.social
Samuel Aroney @aroneys.bsky.social · Jan 22
Excited to introduce the preprint for CoverM: the Swiss Army knife of coverage calculators for metagenomics! 🧬🖥️ DOI: doi.org/10.48550/arX...
@benjwoodcroft.bsky.social @viralinstruction.bsky.social @apcamargo.bsky.social
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Reposted by Ann Gregory, PhD
labwaggoner.bsky.social
Waggoner Lab @labwaggoner.bsky.social · Jan 8
RNA control of reverse transcription in a diversity-generating retroelement
www.nature.com/articles/s41...
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Reposted by Ann Gregory, PhD
ryancook94.bsky.social
Ryan Cook @ryancook94.bsky.social · Jan 3
And I finally got round to updating the GitHub links...

github.com/RyanCook94/i...
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Reposted by Ann Gregory, PhD
Thelonevirologist @thelonevirologist.bsky.social · Jan 3
Blood DNA virome associates with autoimmune diseases and COVID-19

www.nature.com/articles/s41...
Blood DNA virome associates with autoimmune diseases and COVID-19 - Nature Genetics
Analysis of the blood DNA virome in patients with COVID-19 and autoimmune disease associates endogenous HHV-6 (eHHV-6) and high anellovirus load with increased disease risk, most notably for systemic ...
www.nature.com
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Reposted by Ann Gregory, PhD
natmicrobiol.nature.com
Nature Microbiology @natmicrobiol.nature.com · Jan 2
OUT NOW: Metagenomic immunoglobulin sequencing (MIg-seq) reveals IgA coating of microbial strains in the healthy human gut

by Justin Sonnenburg, Matt Olm, Sean Spencer & co

#microsky

www.nature.com/articles/s41...
Metagenomic immunoglobulin sequencing reveals IgA coating of microbial strains in the healthy human gut - Nature Microbiology
Metagenomic immunoglobulin sequencing (MIg-seq) uncovered patterns of IgA antibody binding of bacterial strains in the healthy human gut microbiome.
www.nature.com
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Reposted by Ann Gregory, PhD
martinsteinegger.bsky.social
Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · Dec 23
Unicore identifies single-copy protein structures across genomes using Foldseek, bypassing slow structure predictions by utilizing 3Di predictions from ProstT5, enabling rapid phylogenetic inference at the tree-of-life scale. 1/n
📄 www.biorxiv.org/content/10.1...
💾 github.com/steineggerla...
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Reposted by Ann Gregory, PhD
nkwhiteman.bsky.social
Noah Whiteman @nkwhiteman.bsky.social · Dec 20
Delighted that @tarnopol.bsky.social’s paper (dissertation ch.) is online @currentbiology.bsky.social! “Experimental horizontal transfer of phage-derived genes to Drosophila confers innate immunity to parasitoids.” Phage toxin genes became a feature of insect immune systems millions of years ago…👇🏼
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Reposted by Ann Gregory, PhD
emilykibby.bsky.social
Emily Kibby @emilykibby.bsky.social · Dec 18
I’m so excited to share that some of my grad work in the @aaronwhiteley lab is now available on bioRxiv! We used an AlphaFold-multimer screen to uncover how a bacterial NLR-related proteins senses multiple phage-encoded proteins to confer phage protection. Link: www.biorxiv.org/content/10.1...
A bacterial NLR-related protein recognizes multiple unrelated phage triggers to sense infection
Immune systems must rapidly sense viral infections to initiate antiviral signaling and protect the host. Bacteria encode >100 distinct viral (phage) defense systems and each has evolved to sense cruci...
www.biorxiv.org
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Reposted by Ann Gregory, PhD
norapyenson.bsky.social
Nora Pyenson @norapyenson.bsky.social · Dec 12
Is it “winner-takes all” when the simplest living things compete? Check out my fresh publication on phage coexistence in Science and a thread below🧵 www.science.org/doi/10.1126/...
Diverse phage communities are maintained stably on a clonal bacterial host
Bacteriophages are the most abundant and phylogenetically diverse biological entities on Earth, yet the ecological mechanisms that sustain this extraordinary diversity remain unclear. In this study, w...
www.science.org
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gregoryannc.bsky.social
Ann Gregory, PhD @gregoryannc.bsky.social · Dec 10
It’s hard to believe the Integrative Viromics Lab is close to wrapping up its first year! This December has been full of celebrations—three birthdays, a festive winter holiday party, and so many milestones to reflect on and be proud of. Here’s to an even more exciting 2025! 🎉✨
Reposted by Ann Gregory, PhD
evbc.bsky.social
European Virus Bioinformatics Center @evbc.bsky.social · Dec 3
EvoMIL uses protein language models & deep learning to predict virus-host associations with improved accuracy & highlights critical viral proteins.
#VirusHostInteractions #DeepLearning #Bioinformatics

📄 doi.org/10.1371/jour...
EVBC👤: @davidlrobertson.bsky.social
Prediction of virus-host associations using protein language models and multiple instance learning
Author summary Being able to predict which viruses can infect which host species, and identifying the specific proteins that are involved in these interactions, are fundamental tasks in virology. Trad...
doi.org
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