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Data describing the use of retention ponds on commercial poultry facilities on Delmarva by wild waterfowl These data support a paired USGS publication and document the use of retention ponds on commercial poultry farms by wild waterfowl. Categories: Data; Tags: Chesapeake Bay, USGS Science Data Catalog (SDC), Wildlife Disease, avian influenza, biota, All tags... domestic poultry, wild waterfowl, Fewer tags Raw MinION FASTQ datafiles corresponding to the paper “A comparison of avian influenza virus whole genome sequencing approaches using nanopore technology” Raw sequencing data as generated by the five different methods used are provided for each of the three samples used in the comparison. The files are in FASTQ format as exported from the Oxford Nanopore’s MK1C using MinION flowcells. Files are labeled according to the method (as described in the paper) and the Sample ID). The MK1C exports data in blocks of 6000 reads per FASTQ file and all the FASTQ files from each method and sample are grouped in a common folder. Categories: Data; Tags: CONUS, Emerging Infectious Disease, Highly Pathogenic Avian Influenza Virus, Methods Comparison, Methods Development, All tags... MinION, Nanopore sequencing, Next Generation Sequencing, Pathogen Discovery, USGS Science Data Catalog (SDC), Wildlife Disease, avian influenza, biota, Fewer tags Avian Influenza Virus Test Results from Active Surveillance of North American Wild Birds Collected by Department of Interior from 2006-2011 Influenza A viruses are one of the most significant viral groups globally with substantial impacts on human, domestic animal and wildlife health. Wild birds are the natural reservoirs for these viruses, and active surveillance within wild bird populations provides critical information about viral evolution forming the basis of risk assessments and counter measure development. Unfortunately, active surveillance programs are often resource-intensive, and thus enhancing programs for increased efficiency is paramount. Machine learning, a branch of artificial intelligence applications, provides statistical learning procedures that can be used to gain novel insights into disease surveillance systems. We use a form of... Categories: Data; Tags: Influenza A virus, North America, North America, USGS Science Data Catalog (SDC), Wildlife Disease, All tags... active surveillance, avian influenza, wild birds, Fewer tags Discerning innate immunity in American kestrels, Falco sparverius, through 21 days post-hatch Data consist of flow cytometry files that were generated in the analysis of white blood cells from kestrel blood. Thus, data are in standard format that allows files created by one type of acquisition hardware and software to be analyzed by any other type. Categories: Data; Tags: Environmental Health, North America, South America, USGS Science Data Catalog (SDC), avian influenza, All tags... contamination and pollution, flow cytometry, health, immunology, Fewer tags Data showing similar movement ecology between mallards infected and not infected with highly pathogenic avian influenza H5N1 These data, which support a paired USGS publication, document the movement and infection status of mallards captured, marked, and tested at a wintering site in Tennessee. Data document differences in movement ecology between mallards infected and not infected with HPAI H5N1. Categories: Data; Tags: Mississippi Flyway, USGS Science Data Catalog (SDC), United States, Wildlife Disease, avian influenza, All tags... biota, movement ecology, Fewer tags Predicted H5 and H7 subtype Avian Influenza Prevalence for Wild Waterfowl Species Across the Continental United States This data release provides the predicted proportion of influenza-positive birds testing positive for H5 and H7 subtypes of IAV for each species at monthly intervals for each county centroid in the continental United States. This data supports a paired USGS publication. Categories: Data; Tags: USGS Science Data Catalog (SDC), United States, Wildlife Disease, avian influenza, biota Dataset: Surveillance for Avian Influenza Virus in Iceland, 2010 – 2018 From 2010-2018 we investigated the occurrence of avian influenza virus in wild birds in Iceland. A total of 6635 swabs samples were collected from wild birds or fecal material directly associated with wild birds. We screened all samples by a real time - polymerase chain reaction (RT-PCR) test with 381 testing positive. Further testing of all RT-PCR positive samples and all negative samples collected in 2012 by virus isolation yielded 120 positives, with 92 of those testing positive by RT-PCR for avian influenza virus. Categories: Data; Tags: Akureyri, Alftanes, Breidafjordur, Brimnes, East Atlantic Flyway, All tags... Egilsstadir, Eyjafjordur, Faxafloi, Fljotsdalur, Garður, Grimsey, Grindavik, Grundarfjordur, Grundarhverfi, Hafnarfjordur, Hofn, Husavik, Hvalnes, Hveragerdi, Iceland, Kollafjordur, Lon, Madison, Wisconsin, Myrar, Njardvik, Reydarfjordur, Reykjanes, Rif, Sandgerdi, Seljalandsfoss, Seltjarnarnes, Skagafjordur, Snaefellsness, Sudursveit, Thveit, USGS Science Data Catalog (SDC), USGS-EMA-LOW-SB SMC: Migratory birds, Vogar, Wildlife Disease, avian influenza, biota, viruses, Fewer tags Estimates of avian influenza transmission risk across the wild waterfowl - domestic poultry interface These data describe the creation, execution, and results of an effort to model the risk of avian influenza transmission across the wild waterfowl - domestic poultry interface at weekly intervals for the contiguous United States. Tags: USGS Science Data Catalog (SDC), Wildlife Biology, Wildlife Disease, avian influenza, contiguous United States, All tags... poultry, wild waterfowl, Fewer tags Molecular detection of avian influenza virus from sediment samples in waterfowl habitats on the Delmarva Peninsula, USA Data were collected as part of an investigation developed by Leetown Science Center to investigate the comparative detection of avian influenza viruses from waterfowl and potential environmental reservoirs such as aquatic sediment from waterfowl habitat. This dataset identifies positive or negative test results for qRT-PCR (quantitative reverse transcriptase polymerase chain reaction) for avian influenza virus through identification of the Type A influenza virus matrix gene from aquatic sediment samples. Sediment samples were collected from waterfowl habitat so as to determine if temporal and spatial differences in virus detection by qRT-PCR were evident among test sites. Categories: Data; Tags: Delmarva Peninsula, Dorchester County, Maryland, USGS Science Data Catalog (SDC), avian influenza, molecular biology, All tags... virology, Fewer tags Predicted Avian Influenza Prevalence for Wild Waterfowl Species Across the Continental United States This data release provides the predicted proportion of birds testing positive for IAV for each species at weekly intervals for each county centroid in the continental United States. This data supports a paired USGS publication. Categories: Data; Tags: USGS Science Data Catalog (SDC), United States, avian influenza, biota Locations of Pacific Flyway Ducks in and near Commercial Livestock Facilities of the Western USA (2015-2021) Zoonotic diseases are of considerable concern to the human population and viruses such as avian influenza (AIV) threaten food security, wildlife conservation and human health. Wild waterfowl and the natural wetlands they use, are known AIV reservoirs, with birds capable of virus transmission to domestic poultry populations. While infection risk models have linked migration routes and AIV outbreaks, there is a limited understanding of wild waterfowl presence on commercial livestock facilities, and movement patterns linked to natural wetlands. In this dataset, records (rows) represent all analyzed locations of individual waterfowl relative to locations of commercial livestock facilities and habitats. Each row has... Categories: Data; Tags: California, Grizzly Bay, Grizzly Island, Suisun Bay, USGS Science Data Catalog (SDC), All tags... Washington, Wildlife Biology, animal tracking, avian influenza, biota, birds, habitats, telemetry, zoonotic diseases, Fewer tags Telemetry data of a Lesser Scaup (Aythya affinis) positive for 2.3.4.4 Highly Pathogenic H5N1 Wild lesser scaup from the Chesapeake Bay, captured and implanted with satellite transmitters for a separate ecology study, were opportunistically sampled for avian influenza. These data detail the virological sampling results, obtained post release, which include a single positive for clade 2.3.4.4 H5N1 virus of the A/goose/Guangdong/1/1996 (Gs/GD) H5N1 lineage of highly pathogenic IAV. These data also include the movements of the infected bird from release until death as well as four conspecifics marked and released concurrent with the HPAI positive bird. These data support a paired publication. Categories: Data; Tags: Chesapeake Bay, Ecology, USGS Science Data Catalog (SDC), Wildlife Disease, avian influenza, All tags... biota, lesser scaup, telemetry, Fewer tags Laboratory analysis assessing immune response after flame retardant exposure in American kestrels, Falco sparverius, through 21 days post-hatch Laboratory analysis of innate American kestrel, Falco sparverius, immune response after exposure to flame retardant, isopropylphenyl phosphate (ITP) through 21 days post hatch. Data consist of flow cytometry files that were generated in the analysis of white blood cells from kestrel blood. Thus, data are in standard format that allows files created by one type of acquisition hardware and software to be analyzed by any other type. Tags: Environmental Health, North America, South America, USGS Science Data Catalog (SDC), Wildlife Biology, All tags... Wildlife Biology, Wildlife Disease, Wildlife Disease, avian influenza, contamination and pollution, flame retardant, flow cytometry, health, immunology, Fewer tags Database collating previous laboratory investigations into the pathogenesis of avian influenza viruses in wild avifauna of North America A compilation of previously published results exploring the pathogenesis of avian influenza viruses in wild avian species in North America. Categories: Data; Tags: North America, USGS Science Data Catalog (SDC), avian influenza, biota, none Spatial models indicating avian influenza transmission risk at the interface of domestic poultry and wild birds in China Emergence of avian influenza viruses with high lethality to humans, such as the currently circulating highly pathogenic A(H5N1) and A(H7N9) cause serious concern for the global economic and public health sectors. To improve our understanding of the spatial and temporal trends in transmission risk we developed a model that predicts hotspots of novel virus emergence between domestic and wild birds and incorporates H5N1 risk factors. Models were produced at 30 km spatial resolution across two temporal seasons. Files are named using a TransmisisonDirection_Season_DataType format such that Transmission direction can end in a (poultry to waterfowl) or b (waterfowl to poultry), Season can be breeding (br) or wintering... Tags: China, USGS Science Data Catalog (SDC), Wildlife Disease, avian influenza, farming Data concerning maintenance and dissemination of avian-origin influenza A virus within the Northern Atlantic Flyway of North America This data release details the results of avian influenza sampling of dabbling ducks in Maine and Maryland. These data support an associated USGS publication. Tags: Atlantic Flyway, Ecology, USGS Science Data Catalog (SDC), Wildlife Disease, Wildlife Disease, All tags... avian influenza, biota, Fewer tags Spatial Models of Wild Bird Risk Factors for Highly Pathogenic A(H5N1) Avian Influenza Virus Transmission Wild waterfowl (family Anatidae) are reported as secondary transmitters of HPAIV and primary reservoirs for low-pathogenic avian influenza viruses, yet spatial inputs for disease risk modeling for this group have been lacking. Using geographic information software and Monte Carlo simulations, we developed geospatial indices of waterfowl abundance at 1 km resolutions for the breeding and wintering seasons for China, the epicenter of H5N1. Two types of spatial layers were developed: cumulative waterfowl abundance (WAB), a measure of predicted abundance by species, and cumulative abundance weighted by H5N1 prevalence (WPR), whereby abundance for each species was adjusted based on species specific prevalence values.... Tags: Avian Influenza, China, Computational Methods, Ecology, Geospatial Analysis, All tags... Health and Disease, Risk Assessment, Spatial Analysis, USGS Science Data Catalog (SDC), Wildlife Biology, Wildlife Biology, Wildlife Disease, Wildlife Disease, Wildlife Disease, Wildlife Disease, Wildlife Disease, birds, Fewer tags Weekly estimates of the risk of avian influenza transmission from wild waterfowl to domestic poultry - Initial phase models This data layer depicts the weekly estimates of the relative risk of avian influenza transmission from wild waterfowl to domestic poultry. These data represent an early phase of ongoing model development and the inclusion of additional parameters is upcoming. Tags: USGS Science Data Catalog (SDC), United States, Wildlife Disease, avian influenza, biota Influenza A virus detected from bivalves in waterfowl habitat of the Delmarva Peninsula This data set includes information pertaining to 300 bivalve mollusk tissue samples collected from mollusk specimens from waters in eastern Maryland on the Delmarva Peninsula. Data includes source location, species, morphometric data, and IAV matrix gene detection status for the bivalve samples collected and analyzed in the associated study. Categories: Data; Types: Map Service, OGC WFS Layer, OGC WMS Layer, OGC WMS Service; Tags: Chesapeake Bay, Delmarva Peninsula, Environmental Health, USGS Science Data Catalog (SDC), Wildlife Biology, All tags... Wildlife Disease, avian influenza, mollusks, Fewer tags Waterfowl occurrence and residence time as indicators of H5 and H7 avian influenza in North American Poultry This data release contains model outputs depicting the probability of an H5 or H7 avian influenza outbreak at any given point in the continental United States for each week of the year. Categories: Data; Tags: Avian Influenza, USGS Science Data Catalog (SDC), United States of America, Waterfowl, Wildlife Biology, All tags... Wildlife Disease, Wildlife Disease, avian influenza, Fewer tags 1 2 »