Kathryn Kauffman

Assistant Prof in Dept Oral Biology, School of Dental Medicine @UBuffalo | #phages marine2mouths oceans2oral seas2saliva | @MIT @WHOI alum

[Kathryn Kauffman @k6logc]

Almost 30yrs after Sandmeier's first look for Pg #phages in the oral microbiome, we've found there are plenty! Congrats 🎉 to @colematrishin on his beautiful first 1st-author work & to great team incl @JMarkWelch @Fabisilla & others #notontwitter - data: https://t.co/m50ECy97cD

[bioRxiv Microbiology @biorxiv_micrbio]

Phages are important unrecognized players in the ecology of the oral pathogen Porphyromonas gingivalis https://t.co/x1CmRs3C6g #biorxiv_micrbio

[Siân Owen @implosian]

My lab is up and running and just needs enthusiastic phage biologists to populate it! Contact me or apply in the link if you are interested in a postdoc exploring plasmid-dependent phage biology in beautiful (and super affordable!) upstate New York🍎https://t.co/nYWsBgNih4 1/3

[Simon Roux @simroux_virus]

If you work with metagenomes (or metatranscriptomes), would like to explore what viruses/phages are in your datasets, but don't know where to start, we have (an) MVP for you now \o/
Really happy to see this one published, and also welcoming feedback/suggestion of improvement!

[Clément Coclet @ClementCoclet]

🎉 Exciting news! We've just published MVP: a Modular Viromics Pipeline 🦠✨
https://t.co/K4H5FA61Ll

[Ruoshi Zhang @Rosy_Zh]

Spacedust: de novo discovery of conserved gene clusters. Combining sensitive Foldseek structure search and conserved neighborhood detection to discover functionally-associated gene clusters in prokaryotic & viral genomes.
🚀https://t.co/SkFl2Cn8GM
📄https://t.co/TnS4uAPc3a 1/6🧵

[Siân Owen @implosian]

It's true, cleaned up my bench today after a memorable 6.5 years in the @baym lab! Very excited to start my own lab next month at the @HealthNYGov Wadsworth Center doing public health adjacent basic research exploring "exotic" bacteriophages!! #newpi

[Anna Lopatina @AnnaLopatina5]

New preprint alert!🚀
Excited to share our latest preprint, where we discover a vast arsenal of phage anti-defense proteins using an interpretable machine-learning approach. Big thanks to @MartinPolz, @ShaulPollak, Mariusz Ferenc, and all collaborators!
https://t.co/jqw0Z0EiDL

[Zachary Flamholz @zflam94]

Current MD/PhD with research in metagenomics and phage genomics looking to do basic and translational work in the space. All leads welcome for research residency or post-doc opportunities

[Martin Polz @MartinPolz]

Check out the new preprint by Annie Yu @seaweedomics and colleagues on how genome wide selective sweeps structure the human microbiome: https://t.co/OnxefWTyKV

[Simon Roux @simroux_virus]

🚨🚨 Conference announcement: VEGA 2024 is officially *on* \o/ Will be Nov. 12 - 13, 2024, in Berkeley, in collaboration with NIST. More info to come soon re: speakers, etc, but in the meantime you can already check the provisional agenda and register at https://t.co/K3AuqQLKuW

[Xuesong He @he_xuesong]

Three’s a crowd: Saccharibacteria episymbiosis modulates phage predation of host bacteria | PNAS https://t.co/Vls68TAbPH commentary by Richard Lamont on our recent collabarative work @BatbilegBor @JMcLean_UW @putingdong @LujiaC @ForsythResearch

[Xuesong He @he_xuesong]

Excited to share our work: Episymbiotic Saccharibacteria TM7x modulates the susceptibility of its host bacteria to phage infection and promotes their coexistence @JMcLean_UW @BatbilegBor @putingdong @ForsythResearch @JunLiuLab | PNAS https://t.co/5INzlRXugm

[Siân Owen @implosian]

Woohoo, our paper on the discovery of 65 new phages dependent on conjugative plasmids is published in it's final form today in @NatureComms ! Here follows a thread (1/ ) https://t.co/8e7gXpAqsv

[Pardis Sabeti @PardisSabeti]

Congrats to @ac_stanton @sabeti_lab @harvard Virology PhD graduate successfully defending a tour de force thesis “Massively Parallel Approaches to Functional Characterization of Natural and Engineered VIruses” 🎓🧪 🦠 1/10 🧵

[Dr. Michael D. L. Johnson @blacksciblog]

NSURP CALLS FOR AID! Sign up as a mentor at https://t.co/WOcrVt5MIF. Please share (but also sign up 😀)
#nsurp2024
#nolabnoproblem

[CJohnstonLab @CJohnstonLab1]

New research from @BullmanLab /@CJohnstonLab1, with superstar 1st author @mzepedar, out now in
@Nature pinpoints “high-risk” subtype of Fusobacterium nucleatum that dominates the colorectal
cancer (CRC) niche in human patient's
Link : https://t.co/v4iQZmkqDA
Tweet🧵below:

[Zachary Flamholz @zflam94]

Check out some of my thesis work, using protein language models to improve prokaryotic viral protein function prediction, now out in @NatureMicrobiol under the guidance of my amazing advisor @microbegrrl and in collaboration with @steve_biller. https://t.co/TvkTelZas2 1/9

[Libusha Kelly @microbegrrl]

ChatGPT, but make it help me annotate viruses! Our work "Large language models improve annotation of prokaryotic viral proteins" by @einstein_mstp @EinsteinMed grad student extraordinaire @zflam94, and @steve_biller @Wellesley in @NatureMicrobiol
https://t.co/oUO4AiMlwa (1/11)

[MDMLab @MDMlab_Paris]

👋DefenseFinder news !

Thinking of how we can better help the community, we provide a new website that includes a wiki on defense systems, a structure database and precomputed DefenseFinder results on >22k genomes.
https://t.co/WTdCaAMdnE

Preprint: https://t.co/OarOZTvEW7

[Xiaoqian(Annie) Yu @seaweedomics]

A ten year journey from Boston to Vienna! Thanks to everyone who inspired and helped me along the way and never gave up on me🥹 🍺 to my coauthors @ocean_craig_ @CCorzett @LizKuj @ejalm @MartinPolz

[Martin Polz @MartinPolz]

Congrats to Xiaoqian(Annie) Yu @seaweedomics and coauthors for a powerful study that elucidates mechanisms of coexistence of functionally redundant bacteria:
https://t.co/nvLH1jyqcJ