Sullivan Lab at OSU
@sullivan-lab.bsky.social
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We develop new ways to “see” and understand viruses in the laboratory and in nature.
reposted by
Sullivan Lab at OSU
Joshua Weitz
4 days ago
Viruses transform microbes, populations, & ecosystems. In new work jointly led w/@tn-marine-micro.bsky.social + more, we find a link between enhanced viral infection and productivity 50 meters below the surface in the otherwise nutrient limited Sargasso Sea. a 🧵
www.nature.com/articles/s41...
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Critical review for integrating viruses into ocean modelling now in Frontiers:
www.frontiersin.org/journals/mar...
Bringing viruses into Earth system models will sharpen predictions of carbon sequestration, nutrient retention, and climate sensitivity in the ocean.
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Frontiers | Viruses in multi-scale ocean models: challenges and opportunities
While viruses affect the flow of elements and energy at a planet-wide scale through lysis, gene transfer, and metabolic reprogramming, they are yet to be inc...
https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2025.1717845/full
4 days ago
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🚨vConTACT3 now in Nature Biotechnology: - >95% agreement with ICTV for known viruses - Classifies both prokaryotic and eukaryotic viruses - Extends beyond genus → subfamily, family & order - Systematically assigns taxonomy to tens of thousands of previously unclassified viruses
4 days ago
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🚨NEW paper: Benchmarking Hi-C for virus–host inference
journals.plos.org/plosbiology/...
A clear baseline for anyone mapping virus–host interactions that establishes robust, benchmarked thresholds for Hi-C linkages. Key results: 👇
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Benchmarking with synthetic communities provides a baseline for virus-host inferences from Hi-C proximity linking
Virus discovery has accelerated but linking viruses to hosts remains challenging. This study uses synthetic microbiomes to optimize and benchmark Hi-C for virus-host linkage inference, and applies thi...
https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3003510
about 2 months ago
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🚨vConTACT3 preprint live!🚨(Peer Review soon...!) vConTACT3 delivers a unified, scalable, and transparent framework for genome-based virus taxonomy — helping translate big viral data into systematic classification. 🔗 Read the preprint:
doi.org/10.1101/2025...
Improvements details below 👇
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Scalable and systematic hierarchical virus taxonomy with vConTACT3
Viruses are key players in diverse ecosystems, but studying their impacts is technically and taxonomically challenging. Taxonomic complexities derive from undersampling, diverse DNA and RNA genomes wi...
https://doi.org/10.1101/2025.11.06.686974
2 months ago
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The ocean’s got rhythm — and so do its viruses. With the Bermuda Atlantic Time-Series (BATS), we dove deep — every 4 to 12 hours — to see how viral populations swing through day and night.
2 months ago
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🚨 New tool for viral genomics! Meet CLAE: a high-fidelity Nanopore sequencing strategy that pushes accuracy to Q30, boosts throughput >800 Mb/100 pores, and recovers full-length viral genomes from complex samples 🌊🦠 👉 [https://doi.org/10.1002/advs.202505978]
#viromics
#nanopore
#genomics
4 months ago
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🚨NEW VIROCELL PAPER🚨 from Cristina Howard-Varona et al: "Virocell resource manipulation under nutrient limitation".
@howard-varona.bsky.social
How do virocells use resources during nutrient limitation to build phages and alter the ecosystem? Check out the link!
journals.asm.org/doi/10.1128/...
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Virocell resource manipulation under nutrient limitation | mSystems
This study addresses a knowledge gap in understanding how nutrient limitation shapes virus-infected bacterial cell (virocell) metabolism and its ecosystem footprints. Using multi-omics approaches, we ...
https://journals.asm.org/doi/10.1128/msystems.00521-25?url_ver=Z39.88-2003&rfr_id=ori:rid:crossref.org&rfr_dat=cr_pub%20%200pubmed
7 months ago
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Microbiome researchers! Join Dr. Shareef Dabdoub (U of Iowa) for a free webinar on multi-omics microbiome data analysis. Learn to integrate DNA, RNA, proteins, & metabolite data. April 1st, 10 am EST.
go.osu.edu/2025_microbi...
#microbiome
#workshop
10 months ago
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Time's ticking, microbiome researchers! ⏰ Submit your abstract for the Midwest Microbiome Symposium at Ohio State by March 31st. Submit here:
coms.osu.edu/midwest-micr...
#microbiome
#research
#science
#OhioState
#CoMS
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Midwest Microbiome Symposium Abstract Guidelines | Center of Microbiome Science
We are excited to invite you to submit your abstract to the Midwest Microbiome Symposium, Tiny architects: The microbiomes shaping our world. This year's symposium will be held May 12-14 at the Nation...
https://coms.osu.edu/midwest-microbiome-symposium-abstract-guidelines
10 months ago
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🚨 Microbiome researchers! The deadline to submit your abstract for the Midwest Microbiome Symposium at Ohio State is March 31st! 🚨 Don't miss this chance to share your work with leading experts. Submit here:
coms.osu.edu/midwest-micr...
#microbiome
#microbiology
#symposium
#OhioState
#microbiome
10 months ago
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🚨Multiple positions open in Bas Duthil's group (Viral Ecology and Omics Group, Jena, Germany): - Postdoc experimental:
lnkd.in/dJZ2GRUX
- PhD experimental:
lnkd.in/ddqQmvA9
- PhD bioinformatics:
lnkd.in/d-nTJfAh
Group:
www.bio.uni-jena.de/en/2245/team
10 months ago
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New week, new microbiome webinar topic: learn the DRAM tool for annotation and curation of function for microbial and viral genomes, presented by Dr. Garrett Smith. 📅 Date: March 11, 2025 🕒 Time: 10am EST 📍 Link:
go.osu.edu/2025_microbi...
More details on full course:
coms.osu.edu/webinars/mic...
10 months ago
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🚨New paper from NSF EMERGE BII: A framework for integrating genomics, microbial traits, and ecosystem biogeochemistry. Read here:
www.nature.com/articles/s41...
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A framework for integrating genomics, microbial traits, and ecosystem biogeochemistry - Nature Communications
Microbes drive the Earth’s biogeochemical cycles. Here, Li et al. present a framework for integrating genome-inferred microbial kinetic traits into ecosystem mechanistic models, and use it to benchmar...
https://www.nature.com/articles/s41467-025-57386-5
11 months ago
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The Microbiome Informatics Webinar continues tomorrow with Dr. Dylan Cronin, teaching how to go from metagenomic data MAGs. March 4, 2025 at 10am EST Virtual Event zoom link:
go.osu.edu/2025_microbi...
🔗 More details on the SP25 Microbiome Informatics series schedule:
coms.osu.edu/webinars/mic...
11 months ago
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Summer School on Quantitative Phage-Bacteria Dynamics Across Scales -> Application date: March 21, 2025. Open to MS + PhD students + postdocs Application site:
bit.ly/phageschool2...
11 months ago
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🚨Spring 2025 Updated Microbiome Informatics Webinar Series starts tomorrow Feb. 25!🚨 Free to attend, join us to learn with leaders in the field. More info and registration:
coms.osu.edu/webinars/mic...
11 months ago
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New paper from our PhD student Marissa Gittrich! In-depth characterization of 24 phages of rhizobacterium Klebsiella sp. M5al at PLOS One. Congrats Marissa and team!
journals.plos.org/plosone/arti...
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Isolation and characterization of 24 phages infecting the plant growth-promoting rhizobacterium Klebsiella sp. M5al
Bacteriophages largely impact bacterial communities via lysis, gene transfer, and metabolic reprogramming and thus are increasingly thought to alter nutrient and energy cycling across many of Earth’s ...
https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0313947&?utm_id=plos111&utm_source=internal&utm_medium=email&utm_campaign=author
11 months ago
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Watch our latest research as a Video Byte about global ocean AMG function and distribution:
www.researchsquare.com/article/rs-6...
! From our lab's work in Microbiome (Tian & Wainana et al., 2024:https://doi.org/10.1186/s40168-024-01876-z)
11 months ago
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Upcoming wastewater virome webinar from Dr. Mike Tisza, Feb. 12! Free for everyone. More:
coms.osu.edu/events/early...
#virus
#virome
#viromics
#pathogen
#sequencing
#microbiome
#microbe
#bacteria
#science
#microbiology
#webinar
11 months ago
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Our 'global ocean AMGs in marine viruses' paper featured in @OhioStateNews! Congrats to Funing Tian and James Wainaina et al: "Identifying the genes that viruses ‘steal’ from ocean microbes"
news.osu.edu/identifying-...
#virus
#phage
#ecology
#biogeochemistry
#viromics
#oceans
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Identifying the genes that viruses ‘steal’ from ocean microbes
The microbes that cycle nutrients in the ocean don’t do the work on their own – the viruses that infect them also influence the process. It’s a vital job for the rest of the planet, enabling oceans to...
https://news.osu.edu/identifying-the-genes-that-viruses-steal-from-ocean-microbes/
about 1 year ago
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🚨VIROMICS WORKSHOP 2024🚨 Happy to announce the 7th International Viromics Workshop will take place Oct. 23-25, 2024 at Ohio State. Stay tuned for registration details. Enter our mailing list for updates:
forms.gle/wAvZmRibq8rN...
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#viromics
#viruses
#ecology
#workshop
over 1 year ago
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