Marion Koopmans

This study shows Rift Valley fever virus lineage C circulates persistently in Rwanda through local transmission, not repeated introductions, based on whole-genome sequencing of livestock samples from 2022-2025.

The paper quantifies antibody cross-reactivity between Usutu and West Nile viruses in blackbirds using serological data and a Bayesian model to improve serosurveillance interpretation.

The paper uses Approximate Bayesian Computation to analyze USUTU virus transmission in wildlife, showing that multiple bird species, not just blackbirds, contribute to its spread.

The paper detects Usutu virus RNA in feathers of migratory birds in Nigeria and finds antibodies to WNV and USUV, suggesting active circulation and multi-arbovirus exposure in resident and migratory birds.

The paper documents the emergence and dynamics of Usutu and West Nile viruses in the Netherlands from 2016 to 2022, showing USUV's enzootic maintenance and WNV's early establishment with no bird mortality.

This study identifies 209 H5Nx reassortant strains of avian influenza viruses from 2020-2024, showing that reassortants from Europe had greater host range and persistence than those from Asia.

The paper uses machine learning to predict antigenic properties of influenza A(H3) virus from genomic data, finding that deep learning models outperform classical methods in fine-grained antigenic analysis.

This study examines how saliva from different mosquito species affects human endothelial cell permeability and West Nile virus pathogenesis in mice, finding that certain salivary proteases enhance virus transmission.

Reanalysis of public environmental metatranscriptomes from the Huanan market links SARS-CoV-2 positivity to one wildlife stall containing raccoon dog, civet and bamboo rat genetic material.

This study uses sewage metagenomics to distinguish seasonal, human-derived, and environmental microbial communities, offering potential for improved AMR surveillance.

The paper describes open data sharing, analysis tools, and lessons learned from the European COVID-19 Data Platform's SARS-CoV-2 data collection and analysis efforts.

The paper investigates SARS-CoV-2 transmission on mink farms, finding initial human-to-mink transmission, mink evolution of the virus, and ongoing mink-to-mink transmission despite biosecurity measures.

The paper describes the early response to the SARS-CoV-2 outbreak in the Netherlands, focusing on whole genome sequencing and its role in public health decision making.

The paper describes an informatics platform for structured data storage and pre-publication sharing of pathogen sequencing data with stakeholders.