Stephanie N. Seifert
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View article: Discovery and characterization of Sager Creek virus, a new orthohantavirus in prairie voles (Microtus ochrogaster)
Discovery and characterization of Sager Creek virus, a new orthohantavirus in prairie voles (Microtus ochrogaster) Open
We report the discovery and characterization of a new orthohantavirus species in prairie voles (Microtus ochrogaster) named Sager Creek virus (SACRV). We performed molecular and ecological characterization of SACRV, including genome sequen…
View article: First Sin Nombre virus (Orthohantavirus sinnombreense) genome sequences from the Northwestern United States
First Sin Nombre virus (Orthohantavirus sinnombreense) genome sequences from the Northwestern United States Open
We report the first Sin Nombre virus (SNV) genome sequences from the Northwestern United States and the first SNV sequences recovered from voles. Analysis of samples collected from 189 individual rodents revealed high SNV prevalence in the…
View article: Machine Learning Enables Viral Genome-Agnostic Classification of RNA Virus Infections from Host Transcriptomes
Machine Learning Enables Viral Genome-Agnostic Classification of RNA Virus Infections from Host Transcriptomes Open
Targeted PCR diagnosis of RNA viruses is sequence dependent, meaning that the accuracy of the assay depends on the identity of the viral sequence. However, sequence-targeted assays can miss novel or divergent viruses. We test whether the h…
View article: Aminopeptidase N is a receptor for hedgehog merbecoviruses
Aminopeptidase N is a receptor for hedgehog merbecoviruses Open
Merbecoviruses, closely related to the highly pathogenetic Middle East Respiratory Syndrome Coronavirus (MERS-CoV), circulate in hedgehogs throughout Europe and Asia, raising concerns about zoonotic transmission to humans and domestic anim…
View article: Protocol to produce a systematic Arenavirus and Hantavirus host-pathogen database: Project ArHa.
Protocol to produce a systematic Arenavirus and Hantavirus host-pathogen database: Project ArHa. Open
Arenaviruses and Hantaviruses, primarily hosted by rodents and shrews, represent significant public health threats due to their potential for zoonotic spillover into human populations. Despite their global distribution, the full impact of …
View article: Summary of taxonomy changes ratified by the International Committee on Taxonomy of Viruses (ICTV) from the Animal dsRNA and ssRNA(−) Viruses Subcommittee, 2025
Summary of taxonomy changes ratified by the International Committee on Taxonomy of Viruses (ICTV) from the Animal dsRNA and ssRNA(−) Viruses Subcommittee, 2025 Open
RNA viruses are ubiquitous in the environment and are important pathogens of humans, animals and plants. In 2024, the International Committee on Taxonomy of Viruses Animal dsRNA and ssRNA(−) Viruses Subcommittee submitted 18 taxonomic prop…
View article: 229E- and NL63-like coronaviruses in phyllostomid bats, Belize
229E- and NL63-like coronaviruses in phyllostomid bats, Belize Open
Coronaviruses (CoVs) are a diverse group of RNA viruses that infect a broad range of hosts, including many bat species. The emergence of several CoVs, specifically α-CoVs and β-coVs causing significant human and domestic animal diseases, h…
View article: TATAT: a containerized software for generating annotated coding transcriptomes from raw RNA-seq data
TATAT: a containerized software for generating annotated coding transcriptomes from raw RNA-seq data Open
Motivation Many transcriptome creation workflows are not standardized, are difficult to install or share, prone to breaking as dependencies update or cease to be maintained and are resource intensive. Due to a lack of authoritative literat…
View article: A minimum data standard for wildlife disease research and surveillance
A minimum data standard for wildlife disease research and surveillance Open
View article: Protocol to produce a systematic Arenavirus and Hantavirus host-pathogen database: Project ArHa.
Protocol to produce a systematic Arenavirus and Hantavirus host-pathogen database: Project ArHa. Open
Arenaviruses and Hantaviruses, primarily hosted by rodents and shrews, represent significant public health threats due to their potential for zoonotic spillover into human populations. Despite their global distribution, the full impact of …
View article: Expanding the bat toolbox: Carollia perspicillata bat cell lines and reagents enable the characterization of viral susceptibility and innate immune responses
Expanding the bat toolbox: Carollia perspicillata bat cell lines and reagents enable the characterization of viral susceptibility and innate immune responses Open
Multiple viruses that are highly pathogenic in humans are known to have evolved in bats. How bats tolerate infection with these viruses, however, is poorly understood. As viruses engage in a wide range of interactions with their hosts, it …
View article: Comparative susceptibility of Old World and New World bat cell lines to Zika virus: Insights into viral replication and inflammatory responses
Comparative susceptibility of Old World and New World bat cell lines to Zika virus: Insights into viral replication and inflammatory responses Open
Background From the first isolation of Zika virus (ZIKV) in Uganda in 1947, ZIKV had primarily been associated with sporadic human cases in Africa and Asia until ZIKV emerged as an epidemic in the Americas in 2015. As ZIKV spread into new …
View article: Viral genomic features predict Orthopoxvirus reservoir hosts
Viral genomic features predict Orthopoxvirus reservoir hosts Open
View article: Protocol for the production of an Arenavirus and Hantavirus host-pathogen database: Project ArHa
Protocol for the production of an Arenavirus and Hantavirus host-pathogen database: Project ArHa Open
1 Abstract Arenaviruses and Hantaviruses, primarily hosted by rodents and shrews, represent significant public health threats due to their potential for zoonotic spillover into human populations. Despite their global distribution, the full…
View article: Mapping hotspots of zoonotic pathogen emergence: an integrated model-based and participatory-based approach
Mapping hotspots of zoonotic pathogen emergence: an integrated model-based and participatory-based approach Open
US Agency for International Development.
View article: Viral susceptibility and innate immune competency of<i>Carollia perspicillata</i>bat cells produced for virological studies
Viral susceptibility and innate immune competency of<i>Carollia perspicillata</i>bat cells produced for virological studies Open
Multiple viruses that are highly pathogenic in humans are known to have evolved in bats. How bats tolerate infection with these viruses, however, is poorly understood. As viruses engage in a wide range of interactions with their hosts, it …
View article: Exploring the genomic basis of Mpox virus-host transmission and pathogenesis
Exploring the genomic basis of Mpox virus-host transmission and pathogenesis Open
Mpox disease, caused by the monkeypox virus (MPXV), was recently classified as a public health emergency of international concern due to its high lethality and pandemic potential. MPXV is a zoonotic disease that emerged and is primarily sp…
View article: Studying bats using a One Health lens: bridging the gap between bat virology and disease ecology
Studying bats using a One Health lens: bridging the gap between bat virology and disease ecology Open
Accumulating data suggest that some bat species host emerging viruses that are highly pathogenic in humans and agricultural animals. Laboratory-based studies have highlighted important adaptations in bat immune systems that allow them to b…
View article: The anthropogenic fingerprint on emerging infectious diseases
The anthropogenic fingerprint on emerging infectious diseases Open
Emerging infectious diseases are increasingly understood as a hallmark of the Anthropocene 1–3 . Most experts agree that anthropogenic ecosystem change and high-risk contact among people, livestock, and wildlife have contributed to the rec…
View article: A minimum data standard for wildlife disease studies
A minimum data standard for wildlife disease studies Open
Thousands of scientists and practitioners conduct research on infectious diseases of wildlife. Rapid and comprehensive data sharing is vital to the transparency and actionability of their work, but unfortunately, most efforts designed to p…
View article: Save lives in the next pandemic: ensure vaccine equity now
Save lives in the next pandemic: ensure vaccine equity now Open
View article: Using serosurveys to optimize surveillance for zoonotic pathogens
Using serosurveys to optimize surveillance for zoonotic pathogens Open
Zoonotic pathogens pose a significant risk to human health, with spillover into human populations contributing to chronic disease, sporadic epidemics, and occasional pandemics. Despite the widely recognized burden of zoonotic spillover, ou…
View article: The coevolutionary mosaic of bat betacoronavirus emergence risk
The coevolutionary mosaic of bat betacoronavirus emergence risk Open
Pathogen evolution is one of the least predictable components of disease emergence, particularly in nature. Here, building on principles established by the geographic mosaic theory of coevolution, we develop a quantitative, spatially expli…
View article: Human movement and transmission dynamics early in Ebola outbreaks
Human movement and transmission dynamics early in Ebola outbreaks Open
Human movement drives the transmission and spread of communicable pathogens. It is especially influential for emerging pathogens when population immunity is low and spillover events are rare. We digitized serial printed maps to measure tra…
View article: Viral genomic features predict<i>orthopoxvirus</i>reservoir hosts
Viral genomic features predict<i>orthopoxvirus</i>reservoir hosts Open
Orthopoxviruses (OPVs), including the causative agents of smallpox and mpox have led to devastating outbreaks in human populations worldwide. However, the discontinuation of smallpox vaccination, which also provides cross-protection agains…
View article: Network embedding unveils the hidden interactions in the mammalian virome
Network embedding unveils the hidden interactions in the mammalian virome Open
Predicting host-virus interactions is fundamentally a network science problem. We develop a method for bipartite network prediction that combines a recommender system (linear filtering) with an imputation algorithm based on low-rank graph …
View article: Severe acute respiratory disease in American mink experimentally infected with SARS-CoV-2
Severe acute respiratory disease in American mink experimentally infected with SARS-CoV-2 Open
An animal model that fully recapitulates severe COVID-19 presentation in humans has been a top priority since the discovery of SARS-CoV-2 in 2019. Although multiple animal models are available for mild to moderate clinical disease, models …
View article: An ACE2-dependent Sarbecovirus in Russian bats is resistant to SARS-CoV-2 vaccines
An ACE2-dependent Sarbecovirus in Russian bats is resistant to SARS-CoV-2 vaccines Open
Spillover of sarbecoviruses from animals to humans has resulted in outbreaks of severe acute respiratory syndrome SARS-CoVs and the ongoing COVID-19 pandemic. Efforts to identify the origins of SARS-CoV-1 and -2 has resulted in the discove…
View article: The coevolutionary mosaic of bat betacoronavirus emergence risk
The coevolutionary mosaic of bat betacoronavirus emergence risk Open
Pathogen evolution is one of the least predictable components of disease emergence, particularly in nature. Here, building on principles established by the geographic mosaic theory of coevolution, we develop a quantitative, spatially-expli…
View article: Zaire ebolavirus surveillance near the Bikoro region of the Democratic Republic of the Congo during the 2018 outbreak reveals presence of seropositive bats
Zaire ebolavirus surveillance near the Bikoro region of the Democratic Republic of the Congo during the 2018 outbreak reveals presence of seropositive bats Open
On the 8 th of May, 2018, an outbreak of Ebola virus disease (EVD) was declared, originating in the Bikoro region of the Democratic Republic of the Congo (DRC) near the border with neighboring Republic of the Congo (ROC). Frequent trade an…