Alexey Markin

This paper develops a multivalent mRNA-LNP vaccine with eight swine IAV HA antigens, showing broad neutralizing antibodies and protection against viral challenge.

This study shows that influenza viruses use different evolutionary strategies in avian versus mammalian hosts, with reassortment dominating in birds and adaptation in mammals.

The paper introduces normalized asymmetric phylogenetic costs to quantify coevolutionary dynamics, showing they capture complex relationships in virus-host systems and detect novel gene pairings in viral genomes.

The paper defines a new correct tagging criterion for gene trees under the DLCoal model and evaluates ASTRAL-pro's tagging accuracy in simulations.

Splicer performs phylogenetic placement in sub-linear time, enabling efficient classification of large-scale genetic sequences with high accuracy.

The paper conducts active surveillance of influenza A virus in swine farms and nurseries, revealing within-farm reassortment, cocirculation of subtypes, and human-to-swine transmission events.

TreeSort detects influenza A reassortment in thousands of genomes via clock-based tests; avian H7 reassorts most, and HA, NA, MP rarely reassort in human and H5N1.

Phylo-rs provides a fast, extensible Rust library for phylogenetic analysis with WebAssembly support and open-source availability.

This study identifies a reassortment event in wild birds leading to HPAI A(H5N1) infection in cattle and highlights the risk of virus spread through asymptomatic cattle to humans.

This study experimentally reproduces HPAI H5N1 infection in dairy calves and cows, confirming clinical disease and viral transmission through respiratory and mammary routes.