Jozef I. Nissimov

The paper characterizes the seasonal dynamics of cell-associated viral communities in Big Turkey Lake, identifies their functional roles through auxiliary metabolic genes, and reconstructs viral genomes.

The paper shows gas-vacuolate Microcystis aeruginosa develops virus resistance under low nitrogen, with a mutation in a nitrogen transporter linked to this adaptation.

The paper reannotates the genome of the jumbo cyanophage PhiMa05, revealing it encodes multiple ribosomal proteins and related genes, suggesting horizontal gene transfer to host bacteria.

This paper develops and implements wastewater-based surveillance methods to monitor Influenza A H3N2 and respiratory syncytial virus A in Ontario, Canada, enabling real-time tracking of viral lineages and informing public health decisions.

The paper reports the complete genome sequence of CpV-BQ1, a phycodnavirus infecting Chrysochromulina parva, and shows its phylogenetic relationship to other viruses in the Megaviricetes phylum.

The paper uses AlphaFold 3 and DALI to predict structures and functions of viral genes in cyanophages, identifying 28 new structural homologs including cyanobacteriochrome.

The paper uses structural modeling to show that the viral NblA protein from cyanophage Ma-LMM01 binds more strongly to host phycocyanin than the host's own NblA.

The paper evaluates nine computational tools for identifying SARS-CoV-2 lineages in wastewater sequencing data using simulated samples, finding most tools reliably detect lineages above 5% frequency.

The paper develops a tiled-amplicon sequencing assay to detect and track ToBRFV in municipal wastewater, revealing its widespread distribution in Ontario, Canada.