Sullivan Lab at OSU
@sullivan-lab.bsky.social
We develop new ways to “see” and understand viruses in the laboratory and in nature.
📊 Machine-learning–optimized thresholds benchmarked across 6 realms
🧩 Identifies taxonomic inconsistencies and areas for ICTV revision
#ViralTaxonomy #Metagenomics #ViralEcology #Bioinformatics #ICTV #PhageResearch #MachineLearning #VirusDiscovery #BioRxiv #vConTACT3
🧩 Identifies taxonomic inconsistencies and areas for ICTV revision
#ViralTaxonomy #Metagenomics #ViralEcology #Bioinformatics #ICTV #PhageResearch #MachineLearning #VirusDiscovery #BioRxiv #vConTACT3
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...
doi.org
November 7, 2025 at 4:36 PM
📊 Machine-learning–optimized thresholds benchmarked across 6 realms
🧩 Identifies taxonomic inconsistencies and areas for ICTV revision
#ViralTaxonomy #Metagenomics #ViralEcology #Bioinformatics #ICTV #PhageResearch #MachineLearning #VirusDiscovery #BioRxiv #vConTACT3
🧩 Identifies taxonomic inconsistencies and areas for ICTV revision
#ViralTaxonomy #Metagenomics #ViralEcology #Bioinformatics #ICTV #PhageResearch #MachineLearning #VirusDiscovery #BioRxiv #vConTACT3
With vConTACT3, we rebuilt the system from the ground up:
🎯 Multi-rank hierarchical classification (genus → order)
⚙️ Scales to tens of thousands of genomes
🧬 Expands beyond dsDNA phages to include eukaryotic and RNA viruses
👇
🎯 Multi-rank hierarchical classification (genus → order)
⚙️ Scales to tens of thousands of genomes
🧬 Expands beyond dsDNA phages to include eukaryotic and RNA viruses
👇
November 7, 2025 at 4:36 PM
With vConTACT3, we rebuilt the system from the ground up:
🎯 Multi-rank hierarchical classification (genus → order)
⚙️ Scales to tens of thousands of genomes
🧬 Expands beyond dsDNA phages to include eukaryotic and RNA viruses
👇
🎯 Multi-rank hierarchical classification (genus → order)
⚙️ Scales to tens of thousands of genomes
🧬 Expands beyond dsDNA phages to include eukaryotic and RNA viruses
👇
We found that overall virus-community diversity remains stable, but individual populations show clear diel and depth-linked shifts, with distinct viral archetypes peaking at day or night.
Read the full story on BioRxiv: doi.org/10.1101/2025...
Lead author: Alfonso Carrillo
Read the full story on BioRxiv: doi.org/10.1101/2025...
Lead author: Alfonso Carrillo
Sub-daily Bermuda Atlantic Time Series virus sampling reveals taxonomy, host, and functional differences at the population, but not community level
Ocean microbes contribute to biogeochemical cycles and ecosystem function, but they do so under top-down pressure imposed by viruses. While viruses are increasingly understood spatially and beginning ...
doi.org
November 5, 2025 at 3:01 PM
We found that overall virus-community diversity remains stable, but individual populations show clear diel and depth-linked shifts, with distinct viral archetypes peaking at day or night.
Read the full story on BioRxiv: doi.org/10.1101/2025...
Lead author: Alfonso Carrillo
Read the full story on BioRxiv: doi.org/10.1101/2025...
Lead author: Alfonso Carrillo
Using high-frequency metagenomics, we tracked 48,000+ viral populations and their hosts, from Prochlorococcus to SAR11.
November 5, 2025 at 3:01 PM
Using high-frequency metagenomics, we tracked 48,000+ viral populations and their hosts, from Prochlorococcus to SAR11.
From tracking SARS-CoV-2 in wastewater to discovering hidden marine RNA viruses, CLAE unlocks read-level viral variant detection and fixes short-read misassemblies.
⚡ Portable, field-ready
🧬 A game-changer for epidemiology & environmental surveillance.
#RNAvirus #metagenomics
⚡ Portable, field-ready
🧬 A game-changer for epidemiology & environmental surveillance.
#RNAvirus #metagenomics
September 12, 2025 at 3:34 PM
From tracking SARS-CoV-2 in wastewater to discovering hidden marine RNA viruses, CLAE unlocks read-level viral variant detection and fixes short-read misassemblies.
⚡ Portable, field-ready
🧬 A game-changer for epidemiology & environmental surveillance.
#RNAvirus #metagenomics
⚡ Portable, field-ready
🧬 A game-changer for epidemiology & environmental surveillance.
#RNAvirus #metagenomics