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Consensus_Sequences.txt (351.44 kB)

Data from: Aerosol transmission from infected swine to ferrets of an H3N2 virus collected from an agricultural fair and associated with human variant infections

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posted on 2024-02-15, 21:59 authored by Bryan KaplanBryan Kaplan, James B. Kimble, Jennifer Chang, Tavis K. Anderson, Phillip C. Gauger, Alicia Janas-Martindale, Mary L. Killian, Andrew S. Bowman, Amy L. Vincent

A controlled influenza A virus transmission experiment was conducted in biosafety level 2 containment from January 23, 2018- February 13, 2018 assessing the respiratory droplet transmission efficiency of A(H3N2)/swine/Ohio/A01354299/2017 from experimentally inoculated pigs to naïve, contact ferrets. This experimental setting models the human-swine interface at agricultural fairs, where human infection with influenza viruses of swine origin has been well documented. Five pigs were housed in a standard enclosure and four ferrets were housed in isolators placed 7.5cm from the pig enclosure. Nasal swab samples from pigs were collected on 0, 1, 3, and 5 days post infection and nasal wash samples from ferrets were collected 0, 2, 4, 6, 8, and 15 days post contact. The whole genome sequences of 15 swine and 12 ferret virus isolates were obtained from respiratory samples cultured on Madin-Darby Canine Kidney cells. Sequencing was performed on an Illumina MiSeq platform and consensus sequences for each gene segment were generated using in-house software at the USDA-APHIS National Veterinary Services Laboratory.


Resources in this dataset:

  • Resource Title: Swine and Ferret Consensus Sequences.

    File Name: Consensus_Sequences.txt

    Resource Description: WGS consensus sequences of influenza virus from "Aerosol transmission from infected swine to ferrets of an H3N2 virus collected from an agricultural fair and associated with human variant infections".

Funding

USDA-ARS: 5030-32000-120-00-D

National Institute of Allergy and Infectious Diseases: HHSN272201400008C

National Institute of Allergy and Infectious Diseases: HHSN272201400006C

USDA-ARS: 0500-00093-001-00-D

Oak Ridge Institute for Science and Education: DE-AC05-06OR23100

History

Data contact name

Vincent, Amy

Data contact email

amy.vincent@usda.gov

Publisher

Ag Data Commons

Intended use

This data may be used to study the transmission and evolution of influenza A virus in swine and ferrets and additional data in support of publication.

Temporal Extent Start Date

2018-01-23

Temporal Extent End Date

2018-02-13

Theme

  • Not specified

ISO Topic Category

  • biota

National Agricultural Library Thesaurus terms

genome; nose; swine; ferrets; aerosols; Influenza A virus; agricultural exhibitions; humans; airborne transmission; Orthomyxoviridae; virus transmission; nucleotide sequences

OMB Bureau Code

  • 005:18 - Agricultural Research Service

OMB Program Code

  • 005:040 - National Research

ARS National Program Number

  • 103

Primary article PubAg Handle

Pending citation

  • No

Public Access Level

  • Public

Preferred dataset citation

Kaplan, Bryan S.; Kimble, James B.; Chang, Jennifer; Anderson, Tavis K.; Gauger, Phillip C.; Janas-Martindale, Alicia; Killian, Mary L.; Bowman, Andrew S.; Vincent, Amy L. (2020). Data from: Aerosol transmission from infected swine to ferrets of an H3N2 virus collected from an agricultural fair and associated with human variant infections. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1518735

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